Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004228.1 Hibiscus syriacus cultivar Beakdansim tig00009257_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: 118163
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Found at i:9088 original size:18 final size:17
Alignment explanation
Indices: 9049--9091 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
9039 ATTATATGGA
9049 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
9065 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
9083 TATTATTAT
1 TATTATTAT
9092 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:9759 original size:19 final size:19
Alignment explanation
Indices: 9698--9767 Score: 60
Period size: 19 Copynumber: 3.9 Consensus size: 19
9688 ATTTTTTTCC
9698 TTATC-TTA-TTTA-TTTA
1 TTATCTTTATTTTATTTTA
*
9714 TT-TATTTATTTTATTTT-
1 TTATCTTTATTTTATTTTA
**
9731 TTCCCTTTTATTTTATTTTA
1 TTATC-TTTATTTTATTTTA
*
9751 TTATCTTTATCTTATTT
1 TTATCTTTATTTTATTT
9768 GTTTTCTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
15 1 0.02
16 5 0.12
17 6 0.14
18 3 0.07
19 24 0.57
20 3 0.07
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.73
Consensus pattern (19 bp):
TTATCTTTATTTTATTTTA
Found at i:14199 original size:16 final size:16
Alignment explanation
Indices: 14178--14237 Score: 66
Period size: 16 Copynumber: 3.5 Consensus size: 16
14168 TTCAATCAAG
14178 AACAAAAAAGAAAAGA
1 AACAAAAAAGAAAAGA
*
14194 AACAAAAAAGAAAAAACAA
1 AACAAAAAAG--AAAA-GA
14213 GAACAAAAAAGAAAAGA
1 -AACAAAAAAGAAAAGA
*
14230 ATCAAAAA
1 AACAAAAA
14238 TCAAAAGGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 17 0.46
17 1 0.03
18 8 0.22
19 1 0.03
20 10 0.27
ACGTcount: A:0.80, C:0.08, G:0.10, T:0.02
Consensus pattern (16 bp):
AACAAAAAAGAAAAGA
Found at i:14201 original size:10 final size:11
Alignment explanation
Indices: 14188--14226 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
14178 AACAAAAAAG
14188 AAAAGAAACAA
1 AAAAGAAACAA
14199 AAAAGAAA-AA
1 AAAAGAAACAA
*
14209 ACAAG-AACAA
1 AAAAGAAACAA
14219 AAAAGAAA
1 AAAAGAAA
14227 AGAATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 2 0.08
10 12 0.50
11 10 0.42
ACGTcount: A:0.82, C:0.08, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAGAAACAA
Found at i:14219 original size:20 final size:20
Alignment explanation
Indices: 14174--14227 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
14164 AAGATTCAAT
14174 CAAGAACAAAAAAG--AAAA
1 CAAGAACAAAAAAGAAAAAA
*
14192 -GA-AACAAAAAAGAAAAAA
1 CAAGAACAAAAAAGAAAAAA
14210 CAAGAACAAAAAAGAAAA
1 CAAGAACAAAAAAGAAAA
14228 GAATCAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 10 0.33
17 1 0.03
18 4 0.13
19 1 0.03
20 14 0.47
ACGTcount: A:0.80, C:0.09, G:0.11, T:0.00
Consensus pattern (20 bp):
CAAGAACAAAAAAGAAAAAA
Found at i:14243 original size:16 final size:15
Alignment explanation
Indices: 14183--14244 Score: 51
Period size: 16 Copynumber: 4.3 Consensus size: 15
14173 TCAAGAACAA
*
14183 AAAAGAA-AAGAAAC
1 AAAAGAACAAAAAAC
*
14197 AAAA-AAGAAAAAAC
1 AAAAGAACAAAAAAC
*
14211 --AAGAACAAAAAAG
1 AAAAGAACAAAAAAC
*
14224 AAAAGAATCAAAAATC
1 AAAAGAA-CAAAAAAC
14240 AAAAG
1 AAAAG
14245 GAAAAGGAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
12 2 0.05
13 10 0.26
14 10 0.26
15 5 0.13
16 11 0.29
ACGTcount: A:0.77, C:0.08, G:0.11, T:0.03
Consensus pattern (15 bp):
AAAAGAACAAAAAAC
Found at i:14243 original size:22 final size:21
Alignment explanation
Indices: 14183--14259 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 21
14173 TCAAGAACAA
14183 AAAAGAA-AAGAAACAAAAAAG
1 AAAAGAACAA-AAACAAAAAAG
*
14204 AAAA-AACAAGAACAAAAAAG
1 AAAAGAACAAAAACAAAAAAG
*
14224 AAAAGAATCAAAAATC-AAAAGG
1 AAAAGAA-CAAAAA-CAAAAAAG
14246 AAAAGGAACAAAAA
1 AAAA-GAACAAAAA
14260 GCACATGCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
20 16 0.33
21 8 0.17
22 20 0.42
23 4 0.08
ACGTcount: A:0.77, C:0.08, G:0.13, T:0.03
Consensus pattern (21 bp):
AAAAGAACAAAAACAAAAAAG
Found at i:15851 original size:36 final size:36
Alignment explanation
Indices: 15804--15878 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
15794 ATGCTCACCA
*
15804 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA-CT
1 TTGTCTCTCTTGAGACAGTTTCCCTT-AAAAAAACCT
15840 TTGTCTCTCTTGAGACAGTTTCCCTTAAAAAAACCT
1 TTGTCTCTCTTGAGACAGTTTCCCTTAAAAAAACCT
15876 TTG
1 TTG
15879 AAATTGTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
35 6 0.16
36 31 0.84
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.37
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTAAAAAAACCT
Found at i:16927 original size:106 final size:106
Alignment explanation
Indices: 16742--17167 Score: 649
Period size: 106 Copynumber: 4.0 Consensus size: 106
16732 TCGCGCCACC
* * *
16742 CGAGACAACACAAGTTCAACTTCACAATGAAGGGACGACTGGTTGTCAACAAATAATTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
*
16807 TTCAGAGA-CAATTTCAACTTCACAGCAAAGGGCATTGGACT
66 TTCAGA-ACCAATTTCAACTTCACAGCGAAGGGCATTGGACT
* *
16848 CGAGACAATACAAGTTCAACTTCACAACGAAGAGACGGCTGGTTGTCAACAAACAATTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
*
16913 TTCAGAGCCAATTTCAACTTCACAGCGAAGGGCATTGGACT
66 TTCAGAACCAATTTCAACTTCACAGCGAAGGGCATTGGACT
* *
16954 CGAGACAGCACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
**
17019 TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
66 TTCAGAACCAATTTCAACTTCACAGCGAAGGGCATTGGACT
* * *
17060 AGAGACAACACAAGTTCAACTTCA-AAGCGAAGGGATGGCTGGTTGTCAACAAACAATTTCCCAG
1 CGAGACAACACAAGTTCAACTTCACAA-CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAA
* * * **
17124 TTCCAGAACCAATTTCAACTTCACGGCGGAGGATATTGGACT
65 TTTCAGAACCAATTTCAACTTCACAGCGAAGGGCATTGGACT
17166 CG
1 CG
17168 GAACACTACT
Statistics
Matches: 295, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
105 2 0.01
106 293 0.99
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.22
Consensus pattern (106 bp):
CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
TTCAGAACCAATTTCAACTTCACAGCGAAGGGCATTGGACT
Found at i:18461 original size:18 final size:17
Alignment explanation
Indices: 18422--18464 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
18412 ATTATATGGA
18422 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
18438 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
18456 TATTATTAT
1 TATTATTAT
18465 ACGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:18989 original size:38 final size:40
Alignment explanation
Indices: 18938--19016 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
18928 AGTGAGAGGG
*
18938 TAGCTTTTCTATTTT-TAAATA-TTTGTTGTATATATATA
1 TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
*
18976 TAGCTTATT-TATTTTATTAATACTTTGATGTATATATATA
1 TAGCTT-TTCTATTTTATAAATACTTTGATGTATATATATA
19016 T
1 T
19017 TTTTTCATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
38 12 0.33
39 7 0.19
40 17 0.47
ACGTcount: A:0.30, C:0.05, G:0.08, T:0.57
Consensus pattern (40 bp):
TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
Found at i:19107 original size:19 final size:19
Alignment explanation
Indices: 19083--19132 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
19073 ATCTTATTTA
19083 TTTATTTTATTTT-TTCCC
1 TTTATTTTATTTTATTCCC
*
19101 TTTTATTTTATTTTATTCTC
1 -TTTATTTTATTTTATTCCC
19121 TTTATTTTATTT
1 TTTATTTTATTT
19133 GTTTTCTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 25 0.86
20 4 0.14
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATTTTATTTTATTCCC
Found at i:30719 original size:124 final size:124
Alignment explanation
Indices: 30539--31087 Score: 791
Period size: 124 Copynumber: 4.4 Consensus size: 124
30529 ATCACGAAGA
* ** * *
30539 AGCAGTGTCAT-CC-CGACCAGATCTCCTCATTATATAGGAGCCGTTTCAACCCTGGATAACCAA
1 AGCAGTGTCATCCCTCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCTTGGATAACCAA
*
30602 GATTCATCATAGTATGAACAGAGTTATCATCCTTAGATGGTCAAGACTCATCGCATATG
66 GATTCATCATAGTATGAACAGAGTTATCACCCTTAGATGGTCAAGACTCATCGCATATG
* * *
30661 AGCAGTGTCATCCCTCAACCAAATATCCTCATCACGTAGGAGCCGTGTCAACCTTGGATAACCAA
1 AGCAGTGTCATCCCTCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCTTGGATAACCAA
* * *
30726 GATTCATCATAGTATGAATAGAGTTATCACCCTTAGATGGTCAAAACTAATCGCATATG
66 GATTCATCATAGTATGAACAGAGTTATCACCCTTAGATGGTCAAGACTCATCGCATATG
* *
30785 AGCAGTGTCATCCCTTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCCTGGATAACCAA
1 AGCAGTGTCATCCCTCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCTTGGATAACCAA
* * *
30850 GATTCATCGTAGTATGAACAGAGTTATCACTCTTAGATGGTCAAGACTCATCGCATATT
66 GATTCATCATAGTATGAACAGAGTTATCACCCTTAGATGGTCAAGACTCATCGCATATG
*
30909 AGCAGTGTCATCCATCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCCTT-GATAACCA
1 AGCAGTGTCATCCCTCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAA-CCTTGGATAACCA
* * * * * * * *
30973 AGATTCATCGTATTATGAGCAGTGTCATCACCCTTAGATGGCCAAGATTCATCGAATATG
65 AGATTCATCATAGTATGAACAGAGTTATCACCCTTAGATGGTCAAGACTCATCGCATATG
* * *
31033 AGCAGTGTCATCCC-CTGACCAAATCTCCTCATCACGTAGGAGCTGTGTCACCCTT
1 AGCAGTGTCATCCCTC-GACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCTT
31088 AGACGACCAG
Statistics
Matches: 384, Mismatches: 39, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
122 11 0.03
123 7 0.02
124 363 0.95
125 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (124 bp):
AGCAGTGTCATCCCTCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCTTGGATAACCAA
GATTCATCATAGTATGAACAGAGTTATCACCCTTAGATGGTCAAGACTCATCGCATATG
Found at i:30998 original size:41 final size:42
Alignment explanation
Indices: 30948--31042 Score: 122
Period size: 43 Copynumber: 2.3 Consensus size: 42
30938 CATCACGTAG
* *
30948 GAGCCGTGTCA-ACCCTT-GATAACCAAGATTCATCGTATTAT
1 GAGCAGTGTCACACCCTTAGATAACCAAGATTCATCG-AATAT
**
30989 GAGCAGTGTCATCACCCTTAGATGGCCAAGATTCATCGAATAT
1 GAGCAGTGTCA-CACCCTTAGATAACCAAGATTCATCGAATAT
31032 GAGCAGTGTCA
1 GAGCAGTGTCA
31043 TCCCCTGACC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 10 0.21
43 21 0.45
44 16 0.34
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (42 bp):
GAGCAGTGTCACACCCTTAGATAACCAAGATTCATCGAATAT
Found at i:31007 original size:43 final size:43
Alignment explanation
Indices: 30959--31048 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
30949 AGCCGTGTCA
*
30959 ACCCTT-GATAACCAAGATTCATCGTATTATGAGCAGTGTCATC
1 ACCCTTAGATAACCAAGATTCATCG-AATATGAGCAGTGTCATC
**
31002 ACCCTTAGATGGCCAAGATTCATCGAATATGAGCAGTGTCATC
1 ACCCTTAGATAACCAAGATTCATCGAATATGAGCAGTGTCATC
31045 -CCCT
1 ACCCT
31049 GACCAAATCT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 4 0.09
43 23 0.53
44 16 0.37
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
ACCCTTAGATAACCAAGATTCATCGAATATGAGCAGTGTCATC
Found at i:31305 original size:16 final size:16
Alignment explanation
Indices: 31284--31321 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
31274 AAACTATATA
31284 TATTATTAATTA-TTAT
1 TATTATTAATTAGTT-T
*
31300 TATTATTATTTAGTTT
1 TATTATTAATTAGTTT
31316 TATTAT
1 TATTAT
31322 ATATGTTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
TATTATTAATTAGTTT
Found at i:31877 original size:32 final size:32
Alignment explanation
Indices: 31807--31903 Score: 108
Period size: 32 Copynumber: 3.1 Consensus size: 32
31797 AATATTTGGT
* * *
31807 AACCCTACCA-CACCATAACTCATCAATCG-G
1 AACCCTACCACCACCATATCTCATCATTCGAC
* * * *
31837 TACCCTACCACCATCGTATTTCATCATTCGAC
1 AACCCTACCACCACCATATCTCATCATTCGAC
*
31869 AACCCTACCACCACCATATCTCATCATTCGGC
1 AACCCTACCACCACCATATCTCATCATTCGAC
31901 AAC
1 AAC
31904 TGAATGAAGC
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
30 9 0.17
31 14 0.26
32 30 0.57
ACGTcount: A:0.31, C:0.40, G:0.06, T:0.23
Consensus pattern (32 bp):
AACCCTACCACCACCATATCTCATCATTCGAC
Found at i:34227 original size:10 final size:10
Alignment explanation
Indices: 34218--34251 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
34208 CGACCACGAT
*
34218 CCGATCCGAT
1 CCGATCCGAC
34228 CCGATCCGAC
1 CCGATCCGAC
*
34238 CCGACCCGAC
1 CCGATCCGAC
34248 CCGA
1 CCGA
34252 GACGAGACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.21, C:0.50, G:0.21, T:0.09
Consensus pattern (10 bp):
CCGATCCGAC
Found at i:34234 original size:15 final size:15
Alignment explanation
Indices: 34208--34251 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
34198 CGTATTACCA
*
34208 CGACCACGATCCGATC
1 CGACC-CGATCCGACC
*
34224 CGATCCGATCCGACC
1 CGACCCGATCCGACC
*
34239 CGACCCGACCCGA
1 CGACCCGATCCGA
34252 GACGAGACGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.23, C:0.48, G:0.20, T:0.09
Consensus pattern (15 bp):
CGACCCGATCCGACC
Found at i:36178 original size:16 final size:16
Alignment explanation
Indices: 36157--36187 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36147 AGAGTTTTAT
*
36157 TATAATATTTATAATA
1 TATAATATATATAATA
36173 TATAATATATATAAT
1 TATAATATATATAAT
36188 TTTGTTTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATAATATATATAATA
Found at i:36296 original size:28 final size:27
Alignment explanation
Indices: 36212--36359 Score: 103
Period size: 28 Copynumber: 6.0 Consensus size: 27
36202 TATATGGTAT
36212 ATATGTA-ATATATAATTTTTGAAAAC
1 ATATGTATATATATAATTTTTGAAAAC
*
36238 --A--TAT-TACATAA-TTTT-AAAA-
1 ATATGTATATATATAATTTTTGAAAAC
*
36257 ATATATACTATATATAATTTTTGAAAAC
1 ATATGTA-TATATATAATTTTTGAAAAC
*
36285 ATATGTAATATATATTATTTTTGAAAA-
1 ATATGT-ATATATATAATTTTTGAAAAC
*
36312 A-A--T-T-CATATAATTTTTGAAAAC
1 ATATGTATATATATAATTTTTGAAAAC
* *
36334 ATA-ATATATTATATAATTTTTAAAAA
1 ATATGTATA-TATATAATTTTTGAAAA
36360 GTAAATATAG
Statistics
Matches: 97, Mismatches: 8, Indels: 33
0.70 0.06 0.24
Matches are distributed among these distances:
20 4 0.04
21 20 0.21
22 10 0.10
23 3 0.03
24 4 0.04
25 7 0.07
26 5 0.05
27 20 0.21
28 23 0.24
29 1 0.01
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (27 bp):
ATATGTATATATATAATTTTTGAAAAC
Found at i:36340 original size:20 final size:21
Alignment explanation
Indices: 36296--36341 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
36286 TATGTAATAT
* *
36296 ATATTATTTTTGAAAAAATTC
1 ATATAATTTTTGAAAAAATTA
*
36317 ATATAATTTTTGAAAACA-TA
1 ATATAATTTTTGAAAAAATTA
36337 ATATA
1 ATATA
36342 TTATATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (21 bp):
ATATAATTTTTGAAAAAATTA
Found at i:36368 original size:27 final size:27
Alignment explanation
Indices: 36220--36359 Score: 87
Period size: 27 Copynumber: 5.6 Consensus size: 27
36210 ATATATGTAA
36220 TATATAATTTTTGAAAAC-----ATAT
1 TATATAATTTTTGAAAACATAATATAT
*
36242 TACATAA-TTTT-AAAA-AT-ATATACT
1 TATATAATTTTTGAAAACATAATATA-T
*
36266 ATATATAATTTTTGAAAACAT-ATGTAAT
1 -TATATAATTTTTGAAAACATAATAT-AT
*
36294 ATATATTATTTTTG--AA-A-AA-AT-T
1 -TATATAATTTTTGAAAACATAATATAT
*
36316 CATATAATTTTTGAAAACATAATATAT
1 TATATAATTTTTGAAAACATAATATAT
*
36343 TATATAATTTTTAAAAA
1 TATATAATTTTTGAAAA
36360 GTAAATATAG
Statistics
Matches: 92, Mismatches: 9, Indels: 29
0.71 0.07 0.22
Matches are distributed among these distances:
20 4 0.04
21 15 0.16
22 7 0.08
23 5 0.05
24 3 0.03
25 10 0.11
26 8 0.09
27 20 0.22
28 19 0.21
29 1 0.01
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (27 bp):
TATATAATTTTTGAAAACATAATATAT
Found at i:38263 original size:13 final size:14
Alignment explanation
Indices: 38245--38274 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
38235 TCGAATCGGA
38245 TTTAAATTTA-AAT
1 TTTAAATTTATAAT
38258 TTTAAATTTATAAT
1 TTTAAATTTATAAT
38272 TTT
1 TTT
38275 TGTAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTAAATTTATAAT
Found at i:39271 original size:21 final size:20
Alignment explanation
Indices: 39234--39273 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
39224 TACTAATTTG
*
39234 TTTCTTTTTCCTTTTCTTTC
1 TTTCTTTTTCCTCTTCTTTC
39254 TTTCTTTTTCTCTCTTCTTT
1 TTTCTTTTTC-CTCTTCTTT
39274 GCATCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTCTTTTTCCTCTTCTTTC
Found at i:49042 original size:11 final size:11
Alignment explanation
Indices: 49026--49050 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
49016 CAACTTGTAG
49026 GAAGTATAGAA
1 GAAGTATAGAA
49037 GAAGTATAGAA
1 GAAGTATAGAA
49048 GAA
1 GAA
49051 ATTAAGGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.16
Consensus pattern (11 bp):
GAAGTATAGAA
Found at i:49540 original size:13 final size:13
Alignment explanation
Indices: 49522--49559 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
49512 GTAATGTCTA
49522 AATGTTTGATTAG
1 AATGTTTGATTAG
49535 AATGTTTGATTAG
1 AATGTTTGATTAG
*
49548 AATGCTTGATTA
1 AATGTTTGATTA
49560 TATTTTTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.45
Consensus pattern (13 bp):
AATGTTTGATTAG
Found at i:51585 original size:21 final size:21
Alignment explanation
Indices: 51559--51611 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
51549 CATTCTTTAA
*
51559 ATATTCTTTGTGTATATGCTT
1 ATATTCTTTGTGTATATGCCT
51580 ATATTCTTTGTGTATATGCCT
1 ATATTCTTTGTGTATATGCCT
*
51601 ATATTATTTGT
1 ATATTCTTTGT
51612 TTCTATTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.09, G:0.13, T:0.57
Consensus pattern (21 bp):
ATATTCTTTGTGTATATGCCT
Found at i:54518 original size:23 final size:24
Alignment explanation
Indices: 54472--54518 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
54462 CGATTCCCTC
*
54472 AAGGAGGGAATCAGTTCCTATTCA
1 AAGGAGGGAATCAGTTCCCATTCA
* *
54496 AAGG-GGGAATCGGTTCCCCTTCA
1 AAGGAGGGAATCAGTTCCCATTCA
54519 TTGGGGTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (24 bp):
AAGGAGGGAATCAGTTCCCATTCA
Found at i:65726 original size:113 final size:110
Alignment explanation
Indices: 65609--65955 Score: 251
Period size: 113 Copynumber: 3.1 Consensus size: 110
65599 GGGAGTCATC
*
65609 TTCCAGTCAAATCTCTTCAAAGTCAATCTTAACTCCATGACGGAGGATATTGGGTTTGAAAACCA
1 TTCCAGTCAAATCTCTTCAAAGTCAATC-TAACTCCACGACGGAGGATATTGGGTTTGAAAACCA
65674 ATCCGAAATTAGTTGCAGTCTAGCTTAACTCAGCGACGAGGAGCTAGT
65 ATCC-AAATT-GTTGCAGTCTAGCTTAACTCAGCGACGAGGAGCTAGT
* * * * * ******
65722 TTCCAATCGAAGT-T-TTAGGCTAAGTC-A-C-AACTTCACAACGGAGGAT-TCT-TAACCCAAA
1 TTCCAGTC-AAATCTCTT---CAAAGTCAATCTAACTCCACGACGGAGGATAT-TGGGTTTGAAA
* * * * * * * *
65780 AACACATCCAAGTTGACTGCATTTTGGCTTAACTCAGCGACGAGAAGCCA-T
61 ACCA-ATCCAAATTG-TTGCAGTCTAGCTTAACTCAGCGACGAGGAGCTAGT
* * *
65831 CTTTCAGTCAAATCTCTTCAAAGTCAATATCAACTCCACGACGAAGGATATTGGGTTTGAAAACC
1 -TTCCAGTCAAATCTCTTCAAAGTCAATCT-AACTCCACGACGGAGGATATTGGGTTTGAAAACC
* * * *
65896 AATCCAAAATTGGTTGCAGTCTAGCTTAACGCGGCGACGATGAACTAGT
64 AATCC-AAATT-GTTGCAGTCTAGCTTAACTCAGCGACGAGGAGCTAGT
**
65945 TTATAGTCAAA
1 TTCCAGTCAAA
65956 GTTTTCAGTG
Statistics
Matches: 167, Mismatches: 48, Indels: 38
0.66 0.19 0.15
Matches are distributed among these distances:
108 6 0.04
109 6 0.04
110 46 0.28
111 22 0.13
112 22 0.13
113 53 0.32
114 6 0.04
115 6 0.04
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (110 bp):
TTCCAGTCAAATCTCTTCAAAGTCAATCTAACTCCACGACGGAGGATATTGGGTTTGAAAACCAA
TCCAAATTGTTGCAGTCTAGCTTAACTCAGCGACGAGGAGCTAGT
Found at i:65889 original size:223 final size:222
Alignment explanation
Indices: 65346--66320 Score: 885
Period size: 223 Copynumber: 4.4 Consensus size: 222
65336 ATCCAGTACC
* * * * * * * *
65346 GACTGCATTTTAGCTTAACTCAGTGGCGATG-AGGCATCTTCCATTCAAATCTCTTTGAAA-CCA
1 GACTGCATTTTGGCTTAACTCAGCGACGA-GAAGCCATCTTTCAGTCAAATCTC-TTCAAAGTCA
* * * * * * *
65409 ATCTCAAATGCACGACAAAGGATTTTGGGTTCGAAAACCAATCCAGAATCGGGTGTAGTCTAGCT
64 ATCTCAACTCCACGACGAAGGATATTGGGTTCGAAAACCAATCCA-AATTGGTTGCAGTCTAGCT
* * *
65474 TAACTCAGCGACGAGGAGCTAGTTTTCAATCGAAGTTTTTAGGTCAAGTATTAACTTCACGACGG
128 TAACTCAGCGACGAGGAGCTAG-TTTCAATCAAAGTTTTCAGGT-AAGTATCAACTTCACGACGG
* * *
65539 AGGATTATTGACCCAAAAACGCATCCATAACTT
191 AGGATTCTTGACCCAAAAACACATCCA-AAATT
* * * * * * * *
65572 -ACTGTATTTTGGTTTAACTCAGTGGCGGGGAGTCATCTTCCAGTCAAATCTCTTCAAAGTCAAT
1 GACTGCATTTTGGCTTAACTCAGCGACGAGAAGCCATCTTTCAGTCAAATCTCTTCAAAGTCAAT
* * * * *
65636 CTTAACTCCATGACGGAGGATATTGGGTTTGAAAACCAATCCGAAATTAGTTGCAGTCTAGCTTA
66 CTCAACTCCACGACGAAGGATATTGGGTTCGAAAACCAATCC-AAATTGGTTGCAGTCTAGCTTA
* *
65701 ACTCAGCGACGAGGAGCTAGTTTCCAATCGAAGTTTT-AGGCTAAGTCA-CAACTTCACAACGGA
130 ACTCAGCGACGAGGAGCTAGTTT-CAATCAAAGTTTTCAGG-TAAGT-ATCAACTTCACGACGGA
* *
65764 GGATTCTTAACCCAAAAACACATCC-AAGTT
192 GGATTCTTGACCCAAAAACACATCCAAAATT
65794 GACTGCATTTTGGCTTAACTCAGCGACGAGAAGCCATCTTTCAGTCAAATCTCTTCAAAGTCAAT
1 GACTGCATTTTGGCTTAACTCAGCGACGAGAAGCCATCTTTCAGTCAAATCTCTTCAAAGTCAAT
* *
65859 ATCAACTCCACGACGAAGGATATTGGGTTTGAAAACCAATCCAAAATTGGTTGCAGTCTAGCTTA
66 CTCAACTCCACGACGAAGGATATTGGGTTCGAAAACCAATCC-AAATTGGTTGCAGTCTAGCTTA
* * * *
65924 ACGCGGCGACGATGAACTAGTTT-ATAGTCAAAGTTTTCAGTGTAAGTATCAACTTCACGACGGA
130 ACTCAGCGACGAGGAGCTAGTTTCA-A-TCAAAGTTTTCAG-GTAAGTATCAACTTCACGACGGA
* ** ** * * **
65988 GGA-TCTTGATCCGTAAATGCATCTAGAACC
192 GGATTCTTGACCCAAAAACACATCCAAAATT
* * * * * * * *
66018 GACTTCATTTTGACTTAACTTAAG-G-CGGGAAGCCATCTTTTAGTCAAATTTCTTCGAATTCAA
1 GACTGCATTTTGGCTTAAC-TCAGCGACGAGAAGCCATCTTTCAGTCAAATCTCTTCAAAGTCAA
* * * * * * *
66081 TCTCAACTCCACGACGGAGGATATTGGGTTCAAAAACTAATCCAAAATCGATTACAATCTAGCTT
65 TCTCAACTCCACGACGAAGGATATTGGGTTCGAAAACCAATCC-AAATTGGTTGCAGTCTAGCTT
* * * * *
66146 AACTCAGTGGCGAGGAGCTAGTTTCAAGTCAAAGTTTTCAGGCCAAGTCTTAACTTCACGACGGA
129 AACTCAGCGACGAGGAGCTAGTTTCAA-TCAAAGTTTTCAGG-TAAGTATCAACTTCACGACGGA
** * *
66211 GGATTCTTTTCACGAAAACACATCCAAAAATT
192 GGATTCTTGACCCAAAAACACATCC-AAAATT
* * * * * * * * * *
66243 GATTGTAATTTGCCTTTACTCAGCAAC-AAAGAGCCATCTTTCAGTCAGATCT-TCCAAAGTAAG
1 GACTGCATTTTGGCTTAACTCAGCGACGAGA-AGCCATCTTTCAGTCAAATCTCTTCAAAGTCA-
*
66306 ATTTCAACTCCACGA
64 ATCTCAACTCCACGA
66321 TAGAGGATAT
Statistics
Matches: 615, Mismatches: 112, Indels: 44
0.80 0.15 0.06
Matches are distributed among these distances:
221 1 0.00
222 6 0.01
223 302 0.49
224 111 0.18
225 161 0.26
226 34 0.06
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (222 bp):
GACTGCATTTTGGCTTAACTCAGCGACGAGAAGCCATCTTTCAGTCAAATCTCTTCAAAGTCAAT
CTCAACTCCACGACGAAGGATATTGGGTTCGAAAACCAATCCAAATTGGTTGCAGTCTAGCTTAA
CTCAGCGACGAGGAGCTAGTTTCAATCAAAGTTTTCAGGTAAGTATCAACTTCACGACGGAGGAT
TCTTGACCCAAAAACACATCCAAAATT
Found at i:66645 original size:22 final size:22
Alignment explanation
Indices: 66619--66749 Score: 97
Period size: 22 Copynumber: 5.5 Consensus size: 22
66609 TTTAGCATAT
66619 ATATAATATATAGTTTTTGAAA
1 ATATAATATATAGTTTTTGAAA
66641 GTATATAATATA-A-TTTTTGAAAA
1 --ATATAATATATAGTTTTTG-AAA
66664 CATATGCAATATATAGTTTTTGAGAA
1 -ATAT--AATATATAGTTTTTGA-AA
**
66690 CATATGTAACATATATAACTTTTGAAA
1 -ATA--T-A-ATATATAGTTTTTGAAA
*
66717 ACAT-ATCATATAGTTTTTGAAA
1 ATATAAT-ATATAGTTTTTGAAA
66739 ATATAATATAT
1 ATATAATATAT
66750 TATATAGTTT
Statistics
Matches: 88, Mismatches: 8, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
21 2 0.02
22 30 0.34
23 6 0.07
24 17 0.19
25 2 0.02
26 14 0.16
27 3 0.03
28 14 0.16
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.41
Consensus pattern (22 bp):
ATATAATATATAGTTTTTGAAA
Found at i:66712 original size:28 final size:26
Alignment explanation
Indices: 66648--66722 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 26
66638 AAAGTATATA
*
66648 ATATAATTTTTGAAAACATATGCAAT
1 ATATAATTTTTGAAAACATATGAAAT
* *
66674 ATATAGTTTTTGAGAACATATGTAACAT
1 ATATAATTTTTGAAAACATATG-AA-AT
*
66702 ATATAACTTTTGAAAACATAT
1 ATATAATTTTTGAAAACATAT
66723 CATATAGTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 20 0.49
27 1 0.02
28 20 0.49
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.39
Consensus pattern (26 bp):
ATATAATTTTTGAAAACATATGAAAT
Found at i:66747 original size:20 final size:22
Alignment explanation
Indices: 66626--66748 Score: 81
Period size: 26 Copynumber: 5.2 Consensus size: 22
66616 TATATATAAT
**
66626 ATATAGTTTTTGAAAGTATATA
1 ATATAGTTTTTGAAAACATATA
*
66648 ATATAATTTTTGAAAACATATGCAA
1 ATATAGTTTTTGAAAACATAT---A
*
66673 TATATAGTTTTTGAGAACATATGTAA
1 -ATATAGTTTTTGAAAACATA--T-A
*
66699 CATATA-TAACTTTTGAAAACATATC
1 -ATATAGT---TTTTGAAAACATATA
66724 ATATAGTTTTTG-AAA-ATATA
1 ATATAGTTTTTGAAAACATATA
66744 ATATA
1 ATATA
66749 TTATATAGTT
Statistics
Matches: 82, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
20 9 0.11
21 3 0.04
22 23 0.28
24 5 0.06
25 3 0.04
26 26 0.32
28 13 0.16
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.41
Consensus pattern (22 bp):
ATATAGTTTTTGAAAACATATA
Found at i:69452 original size:22 final size:22
Alignment explanation
Indices: 69427--69486 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 22
69417 TCTTTCAATG
*
69427 AAAGGATTTAACCTTTTGATTA
1 AAAGGATTTAACCTTTTGATGA
** *
69449 AAA-GACCTAACCCTTTTTATGA
1 AAAGGATTTAA-CCTTTTGATGA
*
69471 AAAGG-TTTAACATTTT
1 AAAGGATTTAACCTTTT
69487 TTTCATGAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
21 10 0.34
22 18 0.62
23 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (22 bp):
AAAGGATTTAACCTTTTGATGA
Found at i:69529 original size:25 final size:23
Alignment explanation
Indices: 69462--69535 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 23
69452 GACCTAACCC
69462 TTTT-TATGAAAAGGTTTAACAT
1 TTTTGTATGAAAAGGTTTAACAT
* * *
69484 TTTTTTCATGAAAAGGCTTAACCT
1 TTTTGT-ATGAAAAGGTTTAACAT
* *
69508 TTAATTGTATGAAAGGGTTTAACGT
1 TT--TTGTATGAAAAGGTTTAACAT
69533 TTT
1 TTT
69536 CATAAAAGGG
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
22 4 0.10
23 2 0.05
24 17 0.40
25 16 0.38
26 3 0.07
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (23 bp):
TTTTGTATGAAAAGGTTTAACAT
Found at i:71156 original size:30 final size:29
Alignment explanation
Indices: 71112--71169 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
71102 TGACAAAAAT
* * *
71112 ATAAATTTTGAAAGTTTAGTAGCCAAAGG
1 ATAAATTTTAAAAGTTTAGGAACCAAAGG
71141 ATAAACTTTTAAAAGTTTAGGAACCAAAG
1 ATAAA-TTTTAAAAGTTTAGGAACCAAAG
71170 TTTAATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.29
Consensus pattern (29 bp):
ATAAATTTTAAAAGTTTAGGAACCAAAGG
Found at i:74061 original size:48 final size:48
Alignment explanation
Indices: 73965--74107 Score: 252
Period size: 48 Copynumber: 3.0 Consensus size: 48
73955 ATACAAGGAC
73965 TTAACTTTTCCATGAAGAATATTGTTTAAA-TGGACATGATTGAATAATA
1 TTAACTTTTCCATGAAGAATATTG-TTAAATTGG-CATGATTGAATAATA
74014 TTAACTTTTCCATGAAGAATATTGTTAAATTGGCATGATTGAATAATA
1 TTAACTTTTCCATGAAGAATATTGTTAAATTGGCATGATTGAATAATA
*
74062 TTAACTTTTTCATGAAGAATATTGTTAAATTGGCATGATTGAATAA
1 TTAACTTTTCCATGAAGAATATTGTTAAATTGGCATGATTGAATAA
74108 CATCGATTAA
Statistics
Matches: 92, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
48 65 0.71
49 27 0.29
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (48 bp):
TTAACTTTTCCATGAAGAATATTGTTAAATTGGCATGATTGAATAATA
Found at i:74089 original size:24 final size:24
Alignment explanation
Indices: 73965--74089 Score: 83
Period size: 24 Copynumber: 5.2 Consensus size: 24
73955 ATACAAGGAC
73965 TTAACTTTTCCATGAAGAATATTG
1 TTAACTTTTCCATGAAGAATATTG
* *** * * *
73989 TTTAA-ATGGACATGATTGAATAATA
1 -TTAACTTTTCCATGA-AGAATATTG
74014 TTAACTTTTCCATGAAGAATATTG
1 TTAACTTTTCCATGAAGAATATTG
* ** * * *
74038 TTAA-ATTGGCATGATTGAATAATA
1 TTAACTTTTCCATGA-AGAATATTG
*
74062 TTAACTTTTTCATGAAGAATATTG
1 TTAACTTTTCCATGAAGAATATTG
74086 TTAA
1 TTAA
74090 ATTGGCATGA
Statistics
Matches: 70, Mismatches: 26, Indels: 9
0.67 0.25 0.09
Matches are distributed among these distances:
23 7 0.10
24 40 0.57
25 23 0.33
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.41
Consensus pattern (24 bp):
TTAACTTTTCCATGAAGAATATTG
Found at i:74105 original size:24 final size:24
Alignment explanation
Indices: 73981--74106 Score: 87
Period size: 24 Copynumber: 5.2 Consensus size: 24
73971 TTTCCATGAA
73981 GAATATTGTTTAAA-TGGACATGATT
1 GAATATTG-TTAAATTGG-CATGATT
* * * ** *
74006 GAATAATATTAACTTTTCCATGA-A
1 GAATATTGTTAA-ATTGGCATGATT
74030 GAATATTGTTAAATTGGCATGATT
1 GAATATTGTTAAATTGGCATGATT
* * * ** *
74054 GAATAATATTAACTTTTTCATGA-A
1 GAATATTGTTAA-ATTGGCATGATT
74078 GAATATTGTTAAATTGGCATGATT
1 GAATATTGTTAAATTGGCATGATT
74102 GAATA
1 GAATA
74107 ACATCGATTA
Statistics
Matches: 72, Mismatches: 24, Indels: 11
0.67 0.22 0.10
Matches are distributed among these distances:
23 14 0.19
24 39 0.54
25 18 0.25
26 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (24 bp):
GAATATTGTTAAATTGGCATGATT
Found at i:76380 original size:17 final size:17
Alignment explanation
Indices: 76358--76390 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
76348 AAAATAATAT
*
76358 AATTTTTTATTTTTATA
1 AATTTTTTATATTTATA
76375 AATTTTTTATATTTAT
1 AATTTTTTATATTTAT
76391 GATGAGTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
AATTTTTTATATTTATA
Found at i:76752 original size:28 final size:27
Alignment explanation
Indices: 76636--76767 Score: 95
Period size: 28 Copynumber: 4.7 Consensus size: 27
76626 CTTATATAAC
* *
76636 AAATAAATACATAAAGTATTTTTTTC-
1 AAATAAATACTTAAAGTATTTTTGTCA
** * * *
76662 ATTTAAATACTTAAAATATTTTTTATTA
1 AAATAAATACTTAAAGTA-TTTTTGTCA
* * *
76690 AAAGAAATATTTAAAGTTATCTTTTAGTCC
1 AAATAAATACTTAAAG-TAT-TTTT-GTCA
*
76720 AAATAAATACCTAAAGTATTTTTGGTCA
1 AAATAAATACTTAAAGTATTTTT-GTCA
**
76748 AAATAGGTACTTAAAGTATT
1 AAATAAATACTTAAAGTATT
76768 CAACTTTTTC
Statistics
Matches: 79, Mismatches: 22, Indels: 8
0.72 0.20 0.07
Matches are distributed among these distances:
26 14 0.18
27 6 0.08
28 36 0.46
29 9 0.11
30 14 0.18
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (27 bp):
AAATAAATACTTAAAGTATTTTTGTCA
Found at i:77770 original size:10 final size:10
Alignment explanation
Indices: 77755--77829 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
77745 GGGTCTCCAA
77755 CGTTTATGTT
1 CGTTTATGTT
77765 CGTTTATGTT
1 CGTTTATGTT
77775 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
77786 ATGTTCGTGTT
1 -CGTTTATGTT
77797 CGTTTATGTT
1 CGTTTATGTT
77807 CG----TGTT
1 CGTTTATGTT
77813 CGTTTATGTT
1 CGTTTATGTT
77823 CGTTTAT
1 CGTTTAT
77830 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:77786 original size:16 final size:16
Alignment explanation
Indices: 77761--77825 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
77751 CCAACGTTTA
77761 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
77777 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
77793 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
77809 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
77825 T
1 T
77826 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:79397 original size:25 final size:26
Alignment explanation
Indices: 79360--79411 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
79350 TTAGTATTTG
79360 ATATGTTTAATATCTAAATAATTGTTT
1 ATATGTTTAATATCTAAATAATT-TTT
*
79387 ATAT-TTT-ATATTTAAATAATTTTT
1 ATATGTTTAATATCTAAATAATTTTT
79411 A
1 A
79412 AAATTTTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 13 0.54
26 3 0.12
27 4 0.17
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (26 bp):
ATATGTTTAATATCTAAATAATTTTT
Found at i:79417 original size:25 final size:25
Alignment explanation
Indices: 79369--79418 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
79359 GATATGTTTA
*
79369 ATATCTAAATAATTGTTTATATTTT
1 ATATCTAAATAATTGTTTAAATTTT
*
79394 ATATTTAAATAATT-TTTAAAATTTT
1 ATATCTAAATAATTGTTT-AAATTTT
79419 CTAAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (25 bp):
ATATCTAAATAATTGTTTAAATTTT
Found at i:80395 original size:23 final size:24
Alignment explanation
Indices: 80364--80413 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
80354 ATATTTTAGG
*
80364 AAAATTATA-TGA-AATAATTATAA
1 AAAAGTATATTGATAAT-ATTATAA
*
80387 AAAAGTATATTTATAATATTATAA
1 AAAAGTATATTGATAATATTATAA
80411 AAA
1 AAA
80414 TATTTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 12 0.52
25 3 0.13
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (24 bp):
AAAAGTATATTGATAATATTATAA
Found at i:80611 original size:23 final size:23
Alignment explanation
Indices: 80585--80641 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
80575 AATTTAAAAA
80585 TAATATTATTTCAAATAAATAAT
1 TAATATTATTTCAAATAAATAAT
*
80608 TAATATTATTTGAAATAAATAAT
1 TAATATTATTTCAAATAAATAAT
*
80631 TAATATAATTT
1 TAATATTATTT
80642 TAAAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
TAATATTATTTCAAATAAATAAT
Found at i:80645 original size:19 final size:20
Alignment explanation
Indices: 80599--80688 Score: 60
Period size: 23 Copynumber: 4.3 Consensus size: 20
80589 ATTATTTCAA
*
80599 ATAAATAATTAATATTATTT
1 ATAAATAATTAATATAATTT
80619 GAAATAAATAATTAATATAATTTT
1 ---ATAAATAATTAATATAA-TTT
* * *
80643 AAAAATAAAATAA-ATATTTT
1 ATAAAT-AATTAATATAATTT
*
80663 A-AAATAATT-TTATAATATT
1 ATAAATAATTAATATAAT-TT
80682 ATAAATA
1 ATAAATA
80689 TACTTTTAGA
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
18 7 0.13
19 7 0.13
20 9 0.16
21 8 0.15
22 5 0.09
23 16 0.29
24 3 0.05
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (20 bp):
ATAAATAATTAATATAATTT
Found at i:80695 original size:22 final size:21
Alignment explanation
Indices: 80655--80701 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
80645 AAATAAAATA
* *
80655 AATATTTTAAAATAATTTTAT
1 AATATTATAAAATAATTTTAG
*
80676 AATATTATAAATATACTTTTAG
1 AATATTATAAA-ATAATTTTAG
80698 AATA
1 AATA
80702 ATAATATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
AATATTATAAAATAATTTTAG
Found at i:80702 original size:33 final size:34
Alignment explanation
Indices: 80659--80724 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
80649 AAAATAAATA
**
80659 TTTTAAAATAATTTTAT-AATATTATAAATATAC
1 TTTTAAAATAATAATATAAATATTATAAATATAC
* *
80692 TTTTAGAATAATAATATAAATTTTATAAATATA
1 TTTTAAAATAATAATATAAATATTATAAATATA
80725 TATGAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 14 0.50
34 14 0.50
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (34 bp):
TTTTAAAATAATAATATAAATATTATAAATATAC
Found at i:83337 original size:23 final size:23
Alignment explanation
Indices: 83307--83398 Score: 94
Period size: 23 Copynumber: 4.0 Consensus size: 23
83297 TTCTACGTAA
* *
83307 TCCTTCGGGACAATTTTATGTGG
1 TCCTTCGGGACAAATCTATGTGG
* *
83330 TCCTTCGGGACAATTCTAAGTGG
1 TCCTTCGGGACAAATCTATGTGG
* * * * *
83353 TCATCCTGAACAAATTTATGTGG
1 TCCTTCGGGACAAATCTATGTGG
*
83376 TCCTTCGAGACAAATCTATGTGG
1 TCCTTCGGGACAAATCTATGTGG
83399 CATTTCAGTG
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.34
Consensus pattern (23 bp):
TCCTTCGGGACAAATCTATGTGG
Found at i:89235 original size:706 final size:704
Alignment explanation
Indices: 87884--89995 Score: 3632
Period size: 706 Copynumber: 3.0 Consensus size: 704
87874 TATATCAAGG
87884 AGATTGTTCGACTTCATGGAGTTTCGAGTTCAATAGTATCTGACAGAGATCCAAGGTTTACGTCA
1 AGATTGTTCGACTTCATGGAGTTTCGAGTTCAATAGTATCTGACAGAGATCCAAGGTTTACGTCA
87949 ATGTTTTGGAAGTCTTTACATGAAGCCTTAGGTTCTCGATTGAACTTTAGCACATCCTCTCACCC
66 ATGTTTTGGAAGTCTTTACATGAAGCCTTAGGTTCTCGATTGAACTTTAGCACATCCT-TCA-CC
*
88014 CACAGACAGATGGTTAATTTGAGCGGACTATCTAGGTTTTGGAAGATATGTTAAGGGCGTGTGTG
129 CACAGACAGATGGTCAATTTGAGCGGACTATCTAGGTTTTGGAAGATATGTTAAGGGCGTGTGTG
* *
88079 ATTGATTTCAATAGATCTTGGGAGAAGTATATGCTGCTCTCAGAGTTTGCGTACAATAACAGTTA
194 ATTGATTTCAATGGATCTTGGGAGAAGTATATGCTGCTCGCAGAGTTTGCGTACAATAACAGTTA
*
88144 TCAATCCAGCTTTAAAATAGTACCGTATGAGGCATTGTATGGAAGAAAATGTAGAACACTGCTTA
259 TCAATCCAACTTTAAAATAGTACCGTATGAGGCATTGTATGGAAGAAAATGTAGAACACTGCTTA
*
88209 ATTGGTACGAATTAAAGGATTGGGACGTTCTTGGTCCTGATTTGATTAAAGAAGTAGAAGAAAAG
324 ATTGGTACGAATTAAAAGATTGGGACGTTCTTGGTCCTGATTTGATTAAAGAAGTAGAAGAAAAG
* **
88274 GTCCAGGTGATCCAACATAACCTTAAAGTGGCATCAGACAAACAAAAGTCCTATACGGATTTAAA
389 GTCAAGGTGATCCAACATAACCTTAAAGTGGCATCAGACAAACAAAAGTCCTACGCGGATTTAAA
*
88339 AAGAAAAGAGATTGAGTATCAAGTAGGAGATAAAGTGTTTTTGAAAGTCTCTTATTGGAATAAAG
454 AAGAAAAGAGATTGAGTATCAAGTAGGAGATAAAGTGTTTTTGAAAGTCTCTCATTGGAATAAAG
* *
88404 TGTTTTATTTTGGTTGAAAGGAAAATCTCAGTCCTAGATTCATTAGCCCGTATGAGATTATAAAG
519 TGTTTCATTTTGGTTGAAAGGAAAAGCTCAGTCCTAGATTCATTAGCCCGTATGAGATTATAAAG
88469 AGAGTGGGACGAGTAGCATATCAGTTAGCATTGCCACCAGAAATGGAGAAGATCCACAATGTTTT
584 AGAGTGGGACGAGTAGCATATCAGTTAGCATTGCCACCAGAAATGGAGAAGATCCACAATGTTTT
*
88534 TCATGTTTCGATGCTCAGAAGATATCGATCAGATCATTCTCACATCATAACAACGA
649 TCATGTTTCGATGCTCAGAAGATATCGATCAGATCCTTCTCACATCATAACAACGA
* *
88590 AGATTGTTCGACTTTATGGAGTTTTGAGTTCAATAGTATCTGACAGAGATCCAAGGTTTACGTCA
1 AGATTGTTCGACTTCATGGAGTTTCGAGTTCAATAGTATCTGACAGAGATCCAAGGTTTACGTCA
*
88655 ATAG-TTTGGAAGTCTTTACATGAAGCCTTAGGTTCTTGATTGAACTTTAGCACATCCTTTCACC
66 AT-GTTTTGGAAGTCTTTACATGAAGCCTTAGGTTCTCGATTGAACTTTAGCACATCC-TTCACC
*
88719 ACACAGACAGATGGTCAATTTGAACGGACTATCTAGGTTTTGGAAGATATGTTAAGGGCGTGTGT
129 -CACAGACAGATGGTCAATTTGAGCGGACTATCTAGGTTTTGGAAGATATGTTAAGGGCGTGTGT
*
88784 GATTGATTTCAATGGATCTTAGGAGAAGTATATGCTGCTCGCAGAGTTTGCGTACAATAACAGTT
193 GATTGATTTCAATGGATCTTGGGAGAAGTATATGCTGCTCGCAGAGTTTGCGTACAATAACAGTT
*
88849 ATCAATCCAACTTTAAAATAGTACCATATGAGGCATTGTATGGAAGAAAATGTAGAACACTGCTT
258 ATCAATCCAACTTTAAAATAGTACCGTATGAGGCATTGTATGGAAGAAAATGTAGAACACTGCTT
*
88914 AATTGGTACGAATTAAAAGATTGGGACGTTCTTGGTCCTGATTTAATTAAAGAAGTAGAAGAAAA
323 AATTGGTACGAATTAAAAGATTGGGACGTTCTTGGTCCTGATTTGATTAAAGAAGTAGAAGAAAA
* ** * *
88979 GGTCTATTTGATCCAACATAACCTTAAAGTGGCATCAGACAAATAAAAGTCCTACGCGAATTTAA
388 GGTCAAGGTGATCCAACATAACCTTAAAGTGGCATCAGACAAACAAAAGTCCTACGCGGATTTAA
* * *
89044 AAAGAAAAGAGATTGAGTATCAACTAGGGGATAAAGTGTTTTTGAAAGTCTCTCATTAGAATAAA
453 AAAGAAAAGAGATTGAGTATCAAGTAGGAGATAAAGTGTTTTTGAAAGTCTCTCATTGGAATAAA
*
89109 GTGTTTCATTTTGGTTGAAAGGAAAAGCTCAATCCTAGATTCATTAGCCCGTATGAGATTATAAA
518 GTGTTTCATTTTGGTTGAAAGGAAAAGCTCAGTCCTAGATTCATTAGCCCGTATGAGATTATAAA
*
89174 GAGAGTGGGACGAGTAGCATATCAGTTAGCATTGCCACCAGAAATAGAGAAGATCCACAATGTTT
583 GAGAGTGGGACGAGTAGCATATCAGTTAGCATTGCCACCAGAAATGGAGAAGATCCACAATGTTT
* * * *
89239 TTCATGTTTCCATGTTCAGAAGATATCGATCAGATCCTTCTCACATTATAACAACGG
648 TTCATGTTTCGATGCTCAGAAGATATCGATCAGATCCTTCTCACATCATAACAACGA
* * *
89296 AGATTGTTCAACTTCATAGAGTTTCGAGTTCAATAGTATCTGACAGAGATCCTAGGTTTACGTCA
1 AGATTGTTCGACTTCATGGAGTTTCGAGTTCAATAGTATCTGACAGAGATCCAAGGTTTACGTCA
* *
89361 ATGTTTTGGAAGTCTTTACATAAAGCCTTAGGTTCTCGATTGAACTTTAG------C-GC-CCCA
66 ATGTTTTGGAAGTCTTTACATGAAGCCTTAGGTTCTCGATTGAACTTTAGCACATCCTTCACCCA
* *
89418 CAGACAGATGGTCAATTTGAGCAGACTATCTAGGTTTTGGAAGATATATTAAGGGCGTGTGTGAT
131 CAGACAGATGGTCAATTTGAGCGGACTATCTAGGTTTTGGAAGATATGTTAAGGGCGTGTGTGAT
89483 TGATTTCAATGGATCTTGGGAGAAGTATATGCTGCTCGCAGAGTTTGCGTACAATAACAGTTATC
196 TGATTTCAATGGATCTTGGGAGAAGTATATGCTGCTCGCAGAGTTTGCGTACAATAACAGTTATC
* * *
89548 AAT-CAAGCTTTAAAATGGTACCGTATGAGGCGTTGTATGGAAGAAAATATAGAACACTGCTTAA
261 AATCCAA-CTTTAAAATAGTACCGTATGAGGCATTGTATGGAAGAAAATGTAGAACACTGCTTAA
* *
89612 TTGGTACGAATTAAAAGATTGGGACGTTCTTGGTCCTGATTTGATTAAATAAGTAGAATAAAAGG
325 TTGGTACGAATTAAAAGATTGGGACGTTCTTGGTCCTGATTTGATTAAAGAAGTAGAAGAAAAGG
* *
89677 TCAAGGTGATCCAACATAACCTTAAAGTGGCATCAGATAAACAAAATTCCTACGCGGATTTAAAA
390 TCAAGGTGATCCAACATAACCTTAAAGTGGCATCAGACAAACAAAAGTCCTACGCGGATTTAAAA
89742 AGAAAAGAGATTGAGTATCAAGTAGGAGATAAAGTGTTTTTGAAAGTCTCTCATTGGAATAAAGT
455 AGAAAAGAGATTGAGTATCAAGTAGGAGATAAAGTGTTTTTGAAAGTCTCTCATTGGAATAAAGT
* * *
89807 GTTTCATTTTAGTTGAAAGGAAAAGCTCGGTCCTAGATTTATTAGCCCGTATGAGATTATAAAGA
520 GTTTCATTTTGGTTGAAAGGAAAAGCTCAGTCCTAGATTCATTAGCCCGTATGAGATTATAAAGA
*
89872 GAGTGGGACGAGTAACATATCAGTTAGCATTGCCACCAGAAATGGAGAAGATCCACAATGTTTTT
585 GAGTGGGACGAGTAGCATATCAGTTAGCATTGCCACCAGAAATGGAGAAGATCCACAATGTTTTT
89937 CATGTTTCGATGCTCAGAAGATATCGATCAGATCCTTCTCACATCATAACAACGGA
650 CATGTTTCGATGCTCAGAAGATATCGATCAGATCCTTCTCACATCATAACAAC-GA
89993 AGA
1 AGA
89996 GATAGAAGTC
Statistics
Matches: 1329, Mismatches: 71, Indels: 21
0.94 0.05 0.01
Matches are distributed among these distances:
695 3 0.00
696 540 0.41
697 6 0.00
698 1 0.00
700 1 0.00
705 3 0.00
706 773 0.58
707 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (704 bp):
AGATTGTTCGACTTCATGGAGTTTCGAGTTCAATAGTATCTGACAGAGATCCAAGGTTTACGTCA
ATGTTTTGGAAGTCTTTACATGAAGCCTTAGGTTCTCGATTGAACTTTAGCACATCCTTCACCCA
CAGACAGATGGTCAATTTGAGCGGACTATCTAGGTTTTGGAAGATATGTTAAGGGCGTGTGTGAT
TGATTTCAATGGATCTTGGGAGAAGTATATGCTGCTCGCAGAGTTTGCGTACAATAACAGTTATC
AATCCAACTTTAAAATAGTACCGTATGAGGCATTGTATGGAAGAAAATGTAGAACACTGCTTAAT
TGGTACGAATTAAAAGATTGGGACGTTCTTGGTCCTGATTTGATTAAAGAAGTAGAAGAAAAGGT
CAAGGTGATCCAACATAACCTTAAAGTGGCATCAGACAAACAAAAGTCCTACGCGGATTTAAAAA
GAAAAGAGATTGAGTATCAAGTAGGAGATAAAGTGTTTTTGAAAGTCTCTCATTGGAATAAAGTG
TTTCATTTTGGTTGAAAGGAAAAGCTCAGTCCTAGATTCATTAGCCCGTATGAGATTATAAAGAG
AGTGGGACGAGTAGCATATCAGTTAGCATTGCCACCAGAAATGGAGAAGATCCACAATGTTTTTC
ATGTTTCGATGCTCAGAAGATATCGATCAGATCCTTCTCACATCATAACAACGA
Found at i:91557 original size:15 final size:15
Alignment explanation
Indices: 91537--91569 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
91527 TATTATGAGT
91537 ATATGTTCTATCTGA
1 ATATGTTCTATCTGA
*
91552 ATATGTTCTATGTGA
1 ATATGTTCTATCTGA
91567 ATA
1 ATA
91570 AATGATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.45
Consensus pattern (15 bp):
ATATGTTCTATCTGA
Found at i:91707 original size:23 final size:23
Alignment explanation
Indices: 91681--91774 Score: 80
Period size: 23 Copynumber: 4.1 Consensus size: 23
91671 GATTCTACGC
* * *
91681 GGTCTTTCGGGACAATTTTATGT
1 GGTCCTTCGGGACAAATCTATGT
* * *
91704 GGTCCTTCGGGACAATTCTAAGC
1 GGTCCTTCGGGACAAATCTATGT
* * * * *
91727 GGTCATCCTGAACAAATTTATGT
1 GGTCCTTCGGGACAAATCTATGT
*
91750 GGTCCTTCGAGACAAATCTATGT
1 GGTCCTTCGGGACAAATCTATGT
91773 GG
1 GG
91775 CATTTCAGTG
Statistics
Matches: 53, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (23 bp):
GGTCCTTCGGGACAAATCTATGT
Found at i:92623 original size:21 final size:21
Alignment explanation
Indices: 92599--92642 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
92589 AAAAAAAATC
92599 AAAACAAAAAATATTGTTTAA
1 AAAACAAAAAATATTGTTTAA
*
92620 AAAACAAAAACTATTGTTTAA
1 AAAACAAAAAATATTGTTTAA
92641 AA
1 AA
92643 CCAAACGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (21 bp):
AAAACAAAAAATATTGTTTAA
Found at i:92647 original size:20 final size:20
Alignment explanation
Indices: 92599--92647 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
92589 AAAAAAAATC
92599 AAAACAAAAAATATTGTTTAA
1 AAAACAAAAAATATTGTTT-A
*
92620 AAAACAAAAACTATTGTTTA
1 AAAACAAAAAATATTGTTTA
*
92640 AAACCAAA
1 AAAACAAA
92648 CGAACTCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.61, C:0.10, G:0.04, T:0.24
Consensus pattern (20 bp):
AAAACAAAAAATATTGTTTA
Found at i:93029 original size:74 final size:75
Alignment explanation
Indices: 92932--93070 Score: 194
Period size: 74 Copynumber: 1.9 Consensus size: 75
92922 GCGCAGATCC
*
92932 TAAAATCTGAAATTTTTTCGATTAATTATC-TATTTTATTAATGATATCTACT-TGAAATTTTAT
1 TAAAATCTGAAATTTTTTCGATTAATTA-CATATTTTATTAATGATATCCACTCTGAAATTTTAT
92995 TGTGCTCATCT
65 TGTGCTCATCT
* * * *
93006 TAAAAT-TTAAATTTTCTTTGATTAATTACATATTTTATTAATGATGTCCACTCTTAAATTTTAT
1 TAAAATCTGAAATTTT-TTCGATTAATTACATATTTTATTAATGATATCCACTCTGAAATTTTAT
93070 T
65 T
93071 TATGTTTAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
73 9 0.16
74 37 0.65
75 11 0.19
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.51
Consensus pattern (75 bp):
TAAAATCTGAAATTTTTTCGATTAATTACATATTTTATTAATGATATCCACTCTGAAATTTTATT
GTGCTCATCT
Found at i:95012 original size:9 final size:9
Alignment explanation
Indices: 94990--95032 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
94980 TTGAATTTAA
*
94990 AAAAAATCAG
1 AAAAAAT-AC
95000 AAAAAATAC
1 AAAAAATAC
95009 AAAAAATTAC
1 AAAAAA-TAC
*
95019 AAAAATTAC
1 AAAAAATAC
95028 AAAAA
1 AAAAA
95033 CAATTAGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 15 0.50
10 15 0.50
ACGTcount: A:0.74, C:0.09, G:0.02, T:0.14
Consensus pattern (9 bp):
AAAAAATAC
Found at i:95014 original size:19 final size:19
Alignment explanation
Indices: 94990--95032 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
94980 TTGAATTTAA
*
94990 AAAAAATCAGAAAAAATAC
1 AAAAAATCACAAAAAATAC
* *
95009 AAAAAATTACAAAAATTAC
1 AAAAAATCACAAAAAATAC
95028 AAAAA
1 AAAAA
95033 CAATTAGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.74, C:0.09, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAAAATCACAAAAAATAC
Found at i:95096 original size:115 final size:115
Alignment explanation
Indices: 94893--95108 Score: 310
Period size: 115 Copynumber: 1.9 Consensus size: 115
94883 TGAATTTAAA
*
94893 AAAAAATCAGAAAAATTACAAAATAAAATTAGTATGCTTATTTATCTAATTTCAATGTATTTTTA
1 AAAAAATCACAAAAATTACAAAATAAAATTAGTATGCTTATTTATCTAATTTCAATGTATTTTTA
94958 TCAATCTTGCAAATTAATATACTTGAATTTAAAAAAAATCAGAAAAAATAC
66 TCAATCTTGCAAATTAATATACTTGAA-TTAAAAAAAATCAGAAAAAATAC
* * *
95009 AAAAAATTACAAAAATTACAAAA-ACAATTAGTATGTTTATTTATCTAATTTCAATGTATTTTTA
1 AAAAAATCACAAAAATTACAAAATAAAATTAGTATGCTTATTTATCTAATTTCAATGTATTTTTA
* ** * * *
95073 T-ATATTTTTTAATTTAATTTACTTTAATTAAAAAAA
66 TCA-ATCTTGCAAATTAATATACTTGAATTAAAAAAA
95109 TGTATCATGA
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
114 10 0.11
115 58 0.65
116 21 0.24
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (115 bp):
AAAAAATCACAAAAATTACAAAATAAAATTAGTATGCTTATTTATCTAATTTCAATGTATTTTTA
TCAATCTTGCAAATTAATATACTTGAATTAAAAAAAATCAGAAAAAATAC
Found at i:97925 original size:2 final size:2
Alignment explanation
Indices: 97918--97943 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
97908 AGATATGATA
97918 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
97944 CTAATCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98681 original size:2 final size:2
Alignment explanation
Indices: 98606--98668 Score: 101
Period size: 2 Copynumber: 31.5 Consensus size: 2
98596 TACTATGTTG
*
98606 TA TA T- TA TA TA GTA TA AA 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
98648 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
98669 TATTGTTATA
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
1 1 0.02
2 54 0.95
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:99106 original size:24 final size:21
Alignment explanation
Indices: 99078--99132 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 21
99068 GAACCCAGTC
99078 GAAAAAAATAGAGAGTTTCGAAAA
1 GAAAAAAATAGAGA--TTCG-AAA
*
99102 GAAAAATAA-AGAGATTCGAAG
1 GAAAAA-AATAGAGATTCGAAA
99123 GAAAAAAATA
1 GAAAAAAATA
99133 CAAAACTAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 2 0.07
21 9 0.32
22 4 0.14
24 11 0.39
25 2 0.07
ACGTcount: A:0.62, C:0.04, G:0.20, T:0.15
Consensus pattern (21 bp):
GAAAAAAATAGAGATTCGAAA
Found at i:99128 original size:22 final size:21
Alignment explanation
Indices: 99079--99132 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
99069 AACCCAGTCG
* *
99079 AAAAAAATAGAGAGTTTCGAA
1 AAAAAAATAAAGAGATTCGAA
99100 AAGAAAAATAAAGAGATTCGAA
1 AA-AAAAATAAAGAGATTCGAA
99122 GGAAAAAAATA
1 --AAAAAAATA
99133 CAAAACTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 2 0.07
22 17 0.61
23 7 0.25
24 2 0.07
ACGTcount: A:0.63, C:0.04, G:0.19, T:0.15
Consensus pattern (21 bp):
AAAAAAATAAAGAGATTCGAA
Found at i:100057 original size:2 final size:2
Alignment explanation
Indices: 100050--100074 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
100040 ATTTATTTAT
100050 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
100075 CTTTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104397 original size:99 final size:98
Alignment explanation
Indices: 104206--104414 Score: 330
Period size: 99 Copynumber: 2.1 Consensus size: 98
104196 CGTATACCCG
* *
104206 GATTATAATATTATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACTCCCCAGCT
1 GATTATAATATTATACAATAAAGCTTGAGCTGTCCCTCTAAAGAAATTGGTTAAACGCCCCAGCT
* *
104271 TTATGGATAAGATTTAACTAACCTGATAAAGGT
66 TTATGGATAAGATTCAACTAACATGATAAAGGT
*
104304 GATTATAATATCTATACAATAAAGCTTGAGCTGTCCCTCTAAAGAAATTGGTTAAACGCCTC-GA
1 GATTATAATAT-TATACAATAAAGCTTGAGCTGTCCCTCTAAAGAAATTGGTTAAACGCCCCAG-
* *
104368 CTTTATGGATAAGATTCAGCTAGCATGATAAAGGT
64 CTTTATGGATAAGATTCAACTAACATGATAAAGGT
104403 GATTATAATATT
1 GATTATAATATT
104415 GAGTTGTCCC
Statistics
Matches: 102, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
98 13 0.13
99 89 0.87
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (98 bp):
GATTATAATATTATACAATAAAGCTTGAGCTGTCCCTCTAAAGAAATTGGTTAAACGCCCCAGCT
TTATGGATAAGATTCAACTAACATGATAAAGGT
Found at i:106181 original size:87 final size:87
Alignment explanation
Indices: 106031--106315 Score: 365
Period size: 87 Copynumber: 3.4 Consensus size: 87
106021 TATCACAACT
* *
106031 TAGCTCAGGGCGAGAAGGGCTATCTGTC-A-ATAAAAACCTTCGAGTTCGATTACATTCAGCTCA
1 TAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAAAACCTTCGAGTTCGATTACATTCAGCTCA
*
106094 AGGACATATCAAATTTATAGCG
66 AGGACATATTAAATTTATAGCG
*
106116 TAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAAAACCTTCGAGTTCGATTACATTCAGCTCA
1 TAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAAAACCTTCGAGTTCGATTACATTCAGCTCA
* * *
106181 AGAACATGTTAAATTTACAGCG
66 AGGACATATTAAATTTATAGCG
* * * * *
106203 TAGCTCAAGGCGAGAAGGACTATATGTCAAC--AAAAACCTTCGGGTTTGATTGCATTCAGCTCA
1 TAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAAAACCTTCGAGTTCGATTACATTCAGCTCA
* *
106266 AGGACATATTACA-GTATA---
66 AGGACATATTAAATTTATAGCG
*
106284 -A-CTCAAGGCGAGAAGGGTTATCTGTCAACAAA
1 TAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAA
106316 TACCTTCTTC
Statistics
Matches: 175, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
79 25 0.14
80 1 0.01
81 1 0.01
84 3 0.02
85 65 0.37
86 1 0.01
87 79 0.45
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (87 bp):
TAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAAAACCTTCGAGTTCGATTACATTCAGCTCA
AGGACATATTAAATTTATAGCG
Found at i:107107 original size:12 final size:11
Alignment explanation
Indices: 107060--107140 Score: 64
Period size: 10 Copynumber: 7.5 Consensus size: 11
107050 AGCATAAGTG
107060 TATTATAT-TA
1 TATTATATATA
*
107070 TATAATATATGCA
1 TATTATATAT--A
* *
107083 TATTATGTTGTA
1 TATTAT-ATATA
107095 TATTATATAGTA
1 TATTATATA-TA
107107 TA-TATATATA
1 TATTATATATA
107117 TA-TATATATA
1 TATTATATATA
107127 TA-TATATAT-
1 TATTATATATA
107136 TATTA
1 TATTA
107141 CATTGTTATA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
9 2 0.03
10 30 0.51
11 8 0.14
12 11 0.19
13 6 0.10
14 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (11 bp):
TATTATATATA
Found at i:107153 original size:2 final size:2
Alignment explanation
Indices: 107093--107135 Score: 70
Period size: 2 Copynumber: 21.5 Consensus size: 2
107083 TATTATGTTG
107093 TA TA T- TA TA TA GTA 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
107135 T
1 T
107136 TATTACATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.03
2 36 0.92
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:111347 original size:2 final size:2
Alignment explanation
Indices: 111340--111380 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
111330 TCATGTTATG
111340 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
111381 TTTTTTATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:111461 original size:24 final size:25
Alignment explanation
Indices: 111433--111480 Score: 80
Period size: 24 Copynumber: 1.9 Consensus size: 25
111423 GTTTGATTTA
111433 ATTATTTTAATAG-GTAGTGGTTTG
1 ATTATTTTAATAGTGTAGTGGTTTG
111457 ATTATTTTAATAGTTGTAGTGGTT
1 ATTATTTTAATAG-TGTAGTGGTT
111481 AAGGTTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 13 0.59
26 9 0.41
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.52
Consensus pattern (25 bp):
ATTATTTTAATAGTGTAGTGGTTTG
Found at i:111770 original size:21 final size:19
Alignment explanation
Indices: 111746--111790 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
111736 ATTTATTTTA
111746 TTTTTATTATTATATTAATAT
1 TTTTTATTATT-T-TTAATAT
* *
111767 TTTTTATTCTTTTTTATAT
1 TTTTTATTATTTTTAATAT
111786 TTTTT
1 TTTTT
111791 TAACAATCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 1 0.05
21 10 0.45
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTATTATTTTTAATAT
Found at i:114518 original size:94 final size:94
Alignment explanation
Indices: 114401--114600 Score: 276
Period size: 95 Copynumber: 2.1 Consensus size: 94
114391 CCAGATTATA
* *** *
114401 ATTATATATATATAAAAAACTTGAGATGTCCCTCTAGAGCAAATGGTTAAA-GGGTCGGCTTTAT
1 ATTATA-ATATACAAAAAACTTGAGATGTCCCTCTAGAGCAAATGGTTAAACGCCCCGGCTTCAT
*
114465 GGATAAGATTCAGCTAGCCTGATAGAGGCG
65 GGATAAGATTCAGCTAGCCTGATAAAGGCG
* * *
114495 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTCAT
1 ATTATAATATACAA-AAAACTTGAGATGTCCCTCTAGAGCAAATGGTTAAACGCCCCGGCTTCAT
* *
114560 GGATAATATTCAGCTAGCCTGATAAAGGTG
65 GGATAAGATTCAGCTAGCCTGATAAAGGCG
114590 ATTATAATATA
1 ATTATAATATA
114601 AGCTGTCCCT
Statistics
Matches: 93, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
93 7 0.08
94 39 0.42
95 47 0.51
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (94 bp):
ATTATAATATACAAAAAACTTGAGATGTCCCTCTAGAGCAAATGGTTAAACGCCCCGGCTTCATG
GATAAGATTCAGCTAGCCTGATAAAGGCG
Found at i:115820 original size:86 final size:85
Alignment explanation
Indices: 115465--116170 Score: 841
Period size: 85 Copynumber: 8.4 Consensus size: 85
115455 TGACATGTTG
* * *
115465 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTACAGCATAACACAAAGC
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGC
* * * *
115530 TAGAAAGGTTATCTATCAAC
66 GAGAAGGGCTATCTGTCAAC
* * * *
115550 AAAGACCTTCGAGTTCAATTACATTCAGCTTAAAGGCATATCAAATTTACAGCATAGCTCAAGGC
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGC
* * *
115615 GAGAAGAGCTATATGTCGAC
66 GAGAAGGGCTATCTGTCAAC
* * * * *
115635 AAAGACCTTCGAGTTC-ATTACACTCAGCTTAAA-GCACATCAAATTTACAACATAGCTCAAGGT
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGC
* * *
115698 GAAAAGGGCTATTTGTAAAC
66 GAGAAGGGCTATCTGTCAAC
* * * *
115718 AAAAGACCTTCGAGTTCGATTACACTCAGTTCAAAGGGCATATCAAATTTATAGCATAAATCAAA
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAA-GGCATATCAAATTTACAGCATAACTCAAG
*
115783 GCGAGAAGGGTTATCTGTCAAC
64 GCGAGAAGGGCTATCTGTCAAC
* * *
115805 CAAGACCTTCGAGTTCGATTACACTCAGTTCAAAGGCATATCAAA-TTACAGCATAGCTC-A-G-
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGC
*
115866 GAGAATGGCTATC--TCAAC
66 GAGAAGGGCTATCTGTCAAC
* * *
115884 CAAGACCTTTGTA-TTCGATTACAATCAGCTCAAAGG-----C--ATTTACAGCATAACTCAAGG
1 AAAGACCTTCG-AGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGG
* *
115941 CGAGAAGAGTTATCTGTCAAC
65 CGAGAAGGGCTATCTGTCAAC
* * *
115962 AAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGG
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGG
116027 CGAGAAGGGCTATCTGTCAAC
65 CGAGAAGGGCTATCTGTCAAC
* *
116048 AAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCATATCAAATTTACAACATAACTCAAGG
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGG
* * *
116113 TGAGAAGGGTTATATGTCAAC
65 CGAGAAGGGCTATCTGTCAAC
* *
116134 CAAGACATTCGAGTTCGATTACACTCAGCTCAAAGGC
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGC
116171 GTTTATAGCA
Statistics
Matches: 537, Mismatches: 64, Indels: 40
0.84 0.10 0.06
Matches are distributed among these distances:
72 1 0.00
73 13 0.02
74 2 0.00
75 1 0.00
76 10 0.02
78 6 0.01
79 67 0.12
80 1 0.00
81 11 0.02
82 1 0.00
83 43 0.08
84 44 0.08
85 149 0.28
86 149 0.28
87 39 0.07
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (85 bp):
AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGC
GAGAAGGGCTATCTGTCAAC
Found at i:116363 original size:85 final size:85
Alignment explanation
Indices: 116203--116730 Score: 514
Period size: 85 Copynumber: 6.3 Consensus size: 85
116193 AAAAGGGGCA
* * * * * * **
116203 TTCGAGTTCGATTAAATTCAACTCAAAGGCACATCAAAATTACAACAT-GCTCAAGGCGAGAATA
1 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACAGCATAGCTCAAGGCGAGAAGG
* *
116267 GTTATTTGTCAACCAAGACC
66 GCTATCTGTCAACCAAGACC
* * * *
116287 TTCAAGTTTGATTACACTCAGCTCAAAGGCATATCCCATTTACAGCATAGCTCAAGGCGAGAAGG
1 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACAGCATAGCTCAAGGCGAGAAGG
*
116352 GCTATCTGTCAACAAAAGACC
66 GCTATCTGTCAAC-CAAGACC
* *
116373 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACATCATAACTCAAGGCGAGAAGG
1 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACAGCATAGCTCAAGGCGAGAAGG
*
116438 GTTATCTGTCAACCAAGACC
66 GCTATCTGTCAACCAAGACC
* * * *
116458 TTTGAGTTCAATTACACTCAGCTCAAAGGCACATCC-ACTTACAACATAGC-CAAGGCGAGAAGG
1 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACAGCATAGCTCAAGGCGAGAAGG
* * *
116521 GCTATATGTTAA-CAAAACC
66 GCTATCTGTCAACCAAGACC
* * * * *
116540 TTCGAGTTCGATCACACTAAGCTCAAATGCATATCCAATTTACAGCATAACTCAA-G-GAGAA-G
1 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACAGCATAGCTCAAGGCGAGAAGG
* *
116602 GCTTATCTGTCAACAAAAACC
66 GC-TATCTGTCAACCAAGACC
* * * * ** * * * ** **
116623 TTTGAGTTCGATTCCATTCAGCTC-AGGGCATGTCAAATTTACAGCTTAGCTTAATTCGAGAAAA
1 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACAGCATAGCTCAAGGCGAGAAGG
* * * *
116687 GCTATTTGTCAACAAAAAAC
66 GCTATCTGTCAACCAAGACC
* *
116707 TGTCGAGTTCGATTCCATTCAGCT
1 T-TCGAGTTCGATTACACTCAGCT
116731 TGATGATATA
Statistics
Matches: 373, Mismatches: 61, Indels: 19
0.82 0.13 0.04
Matches are distributed among these distances:
81 3 0.01
82 72 0.19
83 59 0.16
84 74 0.20
85 88 0.24
86 77 0.21
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (85 bp):
TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACAGCATAGCTCAAGGCGAGAAGG
GCTATCTGTCAACCAAGACC
Found at i:116487 original size:171 final size:170
Alignment explanation
Indices: 116203--116730 Score: 602
Period size: 171 Copynumber: 3.1 Consensus size: 170
116193 AAAAGGGGCA
* * * * * * **
116203 TTCGAGTTCGATTAAATTCAACTCAAAGGCACATCAAAATTACAACAT-GCTCAAGGCGAGAATA
1 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACAACATAACTCAAGGCGAGAAGG
* ** *
116267 GTTATTTGTCAACCAAGACCTTCAAGTTTGATTACACTCAGCTCAAAGGCATATCCCATTTACAG
66 GTTATCTGTCAACCAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCATATCCCATTTACAG
*
116332 CATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAGACC
131 CATAGCTCAAGGCGAGAAGGGCTATATGTCAACAAAA-ACC
*
116373 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACATCATAACTCAAGGCGAGAAGG
1 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACAACATAACTCAAGGCGAGAAGG
* * * *
116438 GTTATCTGTCAACCAAGACCTTTGAGTTCAATTACACTCAGCTCAAAGGCACAT-CCACTTACAA
66 GTTATCTGTCAACCAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCATATCCCATTTACAG
*
116502 CATAGC-CAAGGCGAGAAGGGCTATATGTTAAC-AAAACC
131 CATAGCTCAAGGCGAGAAGGGCTATATGTCAACAAAAACC
* * * * *
116540 TTCGAGTTCGATCACACTAAGCTCAAATGCATATCCAATTTACAGCATAACTCAA-G-GAGAAGG
1 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACAACATAACTCAAGGCGAGAAGG
* * * * * * * **
116603 CTTATCTGTCAACAAAAACCTTTGAGTTCGATTCCATTCAGCTC-AGGGCATGTCAAATTTACAG
66 GTTATCTGTCAACCAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCATATCCCATTTACAG
* * ** ** * *
116667 CTTAGCTTAATTCGAGAAAAGCTATTTGTCAACAAAAAAC
131 CATAGCTCAAGGCGAGAAGGGCTATATGTCAACAAAAACC
* *
116707 TGTCGAGTTCGATTCCATTCAGCT
1 T-TCGAGTTCGATTACACTCAGCT
116731 TGATGATATA
Statistics
Matches: 303, Mismatches: 50, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
164 6 0.02
165 56 0.18
166 20 0.07
167 59 0.19
168 21 0.07
169 24 0.08
170 56 0.18
171 61 0.20
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (170 bp):
TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACAACATAACTCAAGGCGAGAAGG
GTTATCTGTCAACCAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCATATCCCATTTACAG
CATAGCTCAAGGCGAGAAGGGCTATATGTCAACAAAAACC
Done.