Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008184.1 Hibiscus syriacus cultivar Beakdansim tig00110785_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: 1549336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:663682 original size:6 final size:6
Alignment explanation
Indices: 663671--663704 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
663661 AAATATCTCT
663671 TTATAA TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTATAA TTAT
663705 TATGTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TTATAA
Found at i:664866 original size:2 final size:2
Alignment explanation
Indices: 664859--664884 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
664849 CTAAGCTTAC
664859 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
664885 CCAATCATAC
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):
TA
Found at i:669729 original size:11 final size:10
Alignment explanation
Indices: 669656--669735 Score: 56
Period size: 11 Copynumber: 7.7 Consensus size: 10
669646 TTCGATAATA
669656 TAATAATTATT
1 TAATAA-TATT
* *
669667 TTATAGTATT
1 TAATAATATT
669677 TAGATAA-ATT
1 TA-ATAATATT
669687 TAATAATAATT
1 TAATAAT-ATT
* *
669698 TTATAATCTTT
1 TAATAAT-ATT
669709 TAATAA-ATT
1 TAATAATATT
669718 TAATAAGTATT
1 TAATAA-TATT
*
669729 TTATAAT
1 TAATAAT
669736 TTTTTAAACT
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
9 12 0.22
10 11 0.20
11 31 0.57
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (10 bp):
TAATAATATT
Found at i:669741 original size:31 final size:30
Alignment explanation
Indices: 669656--669742 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 30
669646 TTCGATAATA
* *
669656 TAATAATTATTTTAT-AGTATTTAGATAAATT
1 TAATAA-TATTTTATAATTTTTTA-ATAAATT
*
669687 TAATAATAATTTTATAATCTTTTAATAAATT
1 TAATAAT-ATTTTATAATTTTTTAATAAATT
669718 TAATAAGTATTTTATAATTTTTTAA
1 TAATAA-TATTTTATAATTTTTTAA
669743 ACTTTATTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
30 1 0.02
31 42 0.86
32 6 0.12
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (30 bp):
TAATAATATTTTATAATTTTTTAATAAATT
Found at i:670467 original size:31 final size:30
Alignment explanation
Indices: 670432--670518 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 30
670422 TCAATAAAGT
670432 TTAAAAAATTATAAAATACTTATTAAATTTA
1 TTAAAAAATTATAAAATA-TTATTAAATTTA
* **
670463 TTAAAAGATTATAAAATTATTAACAAATTTA
1 TTAAAAAATTATAAAA-TATTATTAAATTTA
* *
670494 TCT-AAATACTATAAAATAATTATTA
1 T-TAAAAAATTATAAAAT-ATTATTA
670519 TATTATCAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
30 1 0.02
31 42 0.91
32 3 0.07
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (30 bp):
TTAAAAAATTATAAAATATTATTAAATTTA
Found at i:673236 original size:39 final size:39
Alignment explanation
Indices: 673140--673248 Score: 173
Period size: 40 Copynumber: 2.8 Consensus size: 39
673130 TTATATTTTC
* * *
673140 AATTTTGTAAAAAAAATATATAAAAATTTTATGAATTTA
1 AATTTTTTAAAGAAAATATATAAATATTTTATGAATTTA
*
673179 ATTTTTTTTAAAGAAAATATATAAATATTTTATGAATTTA
1 A-ATTTTTTAAAGAAAATATATAAATATTTTATGAATTTA
673219 AATTTTTTAAAGAAAATATATAAATATTTT
1 AATTTTTTAAAGAAAATATATAAATATTTT
673249 CCAACTTCTT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
39 29 0.45
40 35 0.55
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.46
Consensus pattern (39 bp):
AATTTTTTAAAGAAAATATATAAATATTTTATGAATTTA
Found at i:675043 original size:29 final size:29
Alignment explanation
Indices: 675008--675089 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
674998 AAACTAAATT
*
675008 GATGTCATTGCTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
675037 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
675066 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
675090 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:680183 original size:43 final size:44
Alignment explanation
Indices: 680135--680227 Score: 109
Period size: 46 Copynumber: 2.1 Consensus size: 44
680125 GATACTTTAC
* *
680135 AATATAACAGGTAAAC-C-TATGATGTAATAGGTAGCGCTTATAT
1 AATATAACAGGT-AACGCTTATAATGTAACAGGTAGCGCTTATAT
* *
680178 AATATAATAGGTAGCGCTTATATAATGTAACAGGTAGCGCTTATAT
1 AATATAACAGGTAACGC-T-TATAATGTAACAGGTAGCGCTTATAT
680224 AATA
1 AATA
680228 ACATAGGTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.05
43 12 0.29
46 28 0.67
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (44 bp):
AATATAACAGGTAACGCTTATAATGTAACAGGTAGCGCTTATAT
Found at i:680186 original size:23 final size:23
Alignment explanation
Indices: 680159--680235 Score: 120
Period size: 23 Copynumber: 3.3 Consensus size: 23
680149 ACCTATGATG
680159 TAATAGGTAGCGCTTATATAATA
1 TAATAGGTAGCGCTTATATAATA
*
680182 TAATAGGTAGCGCTTATATAATG
1 TAATAGGTAGCGCTTATATAATA
*
680205 TAACAGGTAGCGCTTATATAATA
1 TAATAGGTAGCGCTTATATAATA
680228 -ACATAGGT
1 TA-ATAGGT
680236 TAATTACTGG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 1 0.02
23 48 0.98
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.32
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATA
Found at i:680813 original size:23 final size:23
Alignment explanation
Indices: 680773--680822 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
680763 ACATATTTTA
*
680773 TTATATAAGCACTACCTATTACG
1 TTATATAAGCACTACCTAATACG
* * *
680796 TTATATAAGCGCTGCCTAATATG
1 TTATATAAGCACTACCTAATACG
680819 TTAT
1 TTAT
680823 TGTGCTTGAT
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:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (23 bp):
TTATATAAGCACTACCTAATACG
Found at i:680903 original size:87 final size:87
Alignment explanation
Indices: 680757--681014 Score: 426
Period size: 87 Copynumber: 3.0 Consensus size: 87
680747 ACAAATTAAA
* * * *
680757 TAATTAACATATTTTATTATATAAGCACTACCTATTACGTTATATAAGCGCTGCCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
680822 TTGTGCTTGATAATGTTTCCAG
66 TTGTGCTTGATAATGTTTCCAG
*** *
680844 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGTTTTATCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
*
680909 TTGTGCTTGATAATATTTCCAG
66 TTGTGCTTGATAATGTTTCCAG
*
680931 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
680996 TTGTGCTTGATAATGTTTC
66 TTGTGCTTGATAATGTTTC
681015 GGTTAAATGA
Statistics
Matches: 157, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 157 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (87 bp):
TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
TTGTGCTTGATAATGTTTCCAG
Found at i:680963 original size:23 final size:23
Alignment explanation
Indices: 680937--680987 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
680927 CCAGTAATTA
**
680937 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
680960 ACCTATTACATTATATAAGCGGT
1 ACCTATTACATTATATAAGCGCT
680983 ACCTA
1 ACCTA
680988 ATATGTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:681232 original size:20 final size:20
Alignment explanation
Indices: 681207--681250 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
681197 TCTAAGAGCC
*
681207 CATTTAGGAGAATTTAGATG
1 CATTTAGGAGAATATAGATG
* *
681227 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGAATATAGATG
681247 CATT
1 CATT
681251 ATATTTGCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (20 bp):
CATTTAGGAGAATATAGATG
Found at i:689157 original size:13 final size:13
Alignment explanation
Indices: 689139--689163 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
689129 CTCCCTTCGT
689139 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
689152 AAAAAAAAGAAA
1 AAAAAAAAGAAA
689164 ACAATGTGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:689546 original size:20 final size:20
Alignment explanation
Indices: 689521--689563 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
689511 TCTAATAGCC
* *
689521 CATTTAGGATCATTTAGATG
1 CATTTAGGAGCATATAGATG
*
689541 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
689561 CAT
1 CAT
689564 GAGGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:705934 original size:15 final size:15
Alignment explanation
Indices: 705911--705940 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
705901 AATATTTTTG
*
705911 TTTTCATATTATAAT
1 TTTTAATATTATAAT
705926 TTTTAATATTATAAT
1 TTTTAATATTATAAT
705941 AGTATTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTAATATTATAAT
Found at i:707248 original size:20 final size:20
Alignment explanation
Indices: 707223--707260 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
707213 TTTGGTTCAT
707223 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
707243 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
707261 GGAATAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:707331 original size:35 final size:35
Alignment explanation
Indices: 707290--707369 Score: 151
Period size: 35 Copynumber: 2.3 Consensus size: 35
707280 GTTATATTTT
*
707290 GTGTTTGGTTGGTTTAGCAGGAATGTAAGATTATC
1 GTGTTTGGTTGGCTTAGCAGGAATGTAAGATTATC
707325 GTGTTTGGTTGGCTTAGCAGGAATGTAAGATTATC
1 GTGTTTGGTTGGCTTAGCAGGAATGTAAGATTATC
707360 GTGTTTGGTT
1 GTGTTTGGTT
707370 AAAGGAATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.20, C:0.06, G:0.33, T:0.41
Consensus pattern (35 bp):
GTGTTTGGTTGGCTTAGCAGGAATGTAAGATTATC
Found at i:707524 original size:37 final size:37
Alignment explanation
Indices: 707451--707525 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 37
707441 GATGGAAAAT
* *
707451 ATTTATATATTTTCTTTAAAAATTTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAATTTGAAAATCATAAA
*
707488 ATTTATATAATTTTTTTTACAAAA-TTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTA-AAAATTTGAAAATCATAAA
707525 A
1 A
707526 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 14 0.42
38 15 0.45
39 4 0.12
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAATTTGAAAATCATAAA
Found at i:711880 original size:2 final size:2
Alignment explanation
Indices: 711858--711904 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
711848 GTGATTAAGT
* * *
711858 TA TA GA TA TA CA TA CA 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
711900 TA TA T
1 TA TA T
711905 TAATGAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:727390 original size:27 final size:27
Alignment explanation
Indices: 727359--727453 Score: 167
Period size: 27 Copynumber: 3.6 Consensus size: 27
727349 TCTATTTACA
727359 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
727386 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
*
727413 AAATCATATCTCTATAGGAATGTTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
727440 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
727454 ATTCCTACAC
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
25 9 0.13
27 58 0.87
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.32
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGTAAC
Found at i:731178 original size:27 final size:27
Alignment explanation
Indices: 731147--731214 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
731137 TCTATTTACA
731147 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
731174 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
731201 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
731215 ATTCCTACAG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 9 0.22
27 32 0.78
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGTAAC
Found at i:734158 original size:17 final size:17
Alignment explanation
Indices: 734136--734174 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
734126 ACGGTCAAAC
734136 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
734153 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
734170 GGTCA
1 GGTCA
734175 GACCGGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:734163 original size:7 final size:7
Alignment explanation
Indices: 734101--734146 Score: 83
Period size: 7 Copynumber: 6.4 Consensus size: 7
734091 GTCAAAGAAA
734101 GTCAACG
1 GTCAACG
734108 GTCAACG
1 GTCAACG
734115 GTCAACG
1 GTCAACG
734122 GTCAACG
1 GTCAACG
734129 GTCAAACG
1 GTC-AACG
734137 GTCAACG
1 GTCAACG
734144 GTC
1 GTC
734147 GGGTCGGGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 31 0.82
8 7 0.18
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.15
Consensus pattern (7 bp):
GTCAACG
Found at i:734188 original size:9 final size:9
Alignment explanation
Indices: 734170--734268 Score: 90
Period size: 9 Copynumber: 10.3 Consensus size: 9
734160 GGTCGGGTCG
*
734170 GGTCAGACC
1 GGTCAAACC
734179 GGTCAAACC
1 GGTCAAACC
*
734188 GGCTCAGACC
1 GG-TCAAACC
734198 GGTCAAACC
1 GGTCAAACC
*
734207 GGTTCGAACC
1 GG-TCAAACC
*
734217 GGTTGAAACC
1 GG-TCAAACC
734227 GGTCAAACC
1 GGTCAAACC
734236 GGTCAGAACC
1 GGTCA-AACC
*
734246 GGTTTAAAACC
1 GG--TCAAACC
*
734257 GGTTAAACC
1 GGTCAAACC
734266 GGT
1 GGT
734269 TTCCAGCAGC
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
9 38 0.50
10 30 0.39
11 6 0.08
12 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:734194 original size:19 final size:18
Alignment explanation
Indices: 734170--734248 Score: 88
Period size: 19 Copynumber: 4.2 Consensus size: 18
734160 GGTCGGGTCG
734170 GGTCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACC
734188 GGCTCAGACCGGTCAAACC
1 GG-TCAGACCGGTCAAACC
*
734207 GGTTC-GAACCGGTTGAAACC
1 GG-TCAG-ACCGG-TCAAACC
*
734227 GGTCAAACCGGTCAGAACC
1 GGTCAGACCGGTCA-AACC
734246 GGT
1 GGT
734249 TTAAAACCGG
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
18 5 0.10
19 39 0.75
20 8 0.15
ACGTcount: A:0.27, C:0.30, G:0.29, T:0.14
Consensus pattern (18 bp):
GGTCAGACCGGTCAAACC
Found at i:734227 original size:29 final size:31
Alignment explanation
Indices: 734195--734269 Score: 111
Period size: 29 Copynumber: 2.5 Consensus size: 31
734185 ACCGGCTCAG
*
734195 ACCGGTCAAACCGGTTC-GAACCGG-TTGAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTTAAA
734224 ACCGGTCAAACCGG-TCAGAACCGGTTTAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTTAAA
*
734254 ACCGGTTAAACCGGTT
1 ACCGGTCAAACCGGTT
734270 TCCAGCAGCC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 2 0.05
29 21 0.51
30 17 0.41
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.25, T:0.19
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTTAAA
Found at i:734262 original size:10 final size:10
Alignment explanation
Indices: 734202--734269 Score: 59
Period size: 10 Copynumber: 6.9 Consensus size: 10
734192 CAGACCGGTC
*
734202 AAACCGGTTC
1 AAACCGGTTA
* *
734212 GAACCGGTTG
1 AAACCGGTTA
*
734222 AAACCGG-TC
1 AAACCGGTTA
*
734231 AAACCGGTCA
1 AAACCGGTTA
*
734241 GAACCGGTTTA
1 AAACCGG-TTA
734252 AAACCGGTT-
1 AAACCGGTTA
734261 AAACCGGTT
1 AAACCGGTT
734270 TCCAGCAGCC
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
9 17 0.36
10 22 0.47
11 8 0.17
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (10 bp):
AAACCGGTTA
Found at i:741447 original size:17 final size:17
Alignment explanation
Indices: 741425--741457 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
741415 AACGGTCAAC
741425 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
741442 GGTCAACGGTCGGGTC
1 GGTCAACGGTCGGGTC
741458 AGACCGGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.24, G:0.45, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:741452 original size:7 final size:7
Alignment explanation
Indices: 741405--741435 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
741395 GTCAAAGAAA
741405 GTCAACG
1 GTCAACG
741412 GTCAACG
1 GTCAACG
741419 GTCAACG
1 GTCAACG
741426 GTCAACG
1 GTCAACG
741433 GTC
1 GTC
741436 GGGTCGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:741483 original size:19 final size:19
Alignment explanation
Indices: 741459--741522 Score: 119
Period size: 19 Copynumber: 3.4 Consensus size: 19
741449 GGTCGGGTCA
741459 GACCGGTCAAACCGGTTCG
1 GACCGGTCAAACCGGTTCG
741478 GACCGGTCAAACCGGTTCG
1 GACCGGTCAAACCGGTTCG
741497 GACCGGTCAAACCGGTTCG
1 GACCGGTCAAACCGGTTCG
*
741516 AACCGGT
1 GACCGGT
741523 TGAAACCAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.22, C:0.31, G:0.31, T:0.16
Consensus pattern (19 bp):
GACCGGTCAAACCGGTTCG
Found at i:741484 original size:10 final size:10
Alignment explanation
Indices: 741468--741552 Score: 63
Period size: 10 Copynumber: 8.8 Consensus size: 10
741458 AGACCGGTCA
741468 AACCGGTTCG
1 AACCGGTTCG
* *
741478 GACCGG-TCA
1 AACCGGTTCG
741487 AACCGGTTCG
1 AACCGGTTCG
* *
741497 GACCGG-TCA
1 AACCGGTTCG
741506 AACCGGTTCG
1 AACCGGTTCG
741516 AACCGGTT-G
1 AACCGGTTCG
* *
741525 AAACCAG-TCA
1 -AACCGGTTCG
741535 AACCGG-TCAG
1 AACCGGTTC-G
741545 AACCGGTT
1 AACCGGTT
741553 GAAAACCGGT
Statistics
Matches: 57, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
9 23 0.40
10 33 0.58
11 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.28, T:0.16
Consensus pattern (10 bp):
AACCGGTTCG
Found at i:741540 original size:38 final size:37
Alignment explanation
Indices: 741455--741568 Score: 131
Period size: 38 Copynumber: 3.0 Consensus size: 37
741445 CAACGGTCGG
* * *
741455 GTCAGACCGGTCAAACCGGTTCGGACCGGTCAAACCG
1 GTCAGACCGGTCAAACCGGTTCGAACCGGTTAAACCA
*
741492 GTTCGGACCGGTCAAACCGGTTCGAACCGGTTGAAACCA
1 G-TCAGACCGGTCAAACCGGTTCGAACCGGTT-AAACCA
*
741531 GTCAAACCGGTCAGAACCGGTT-GAAAACCGGTTAAACC
1 GTCAGACCGGTCA-AACCGGTTCG--AACCGGTTAAACC
741569 GATTTCCAGC
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
37 1 0.02
38 38 0.58
39 19 0.29
40 8 0.12
ACGTcount: A:0.28, C:0.29, G:0.27, T:0.16
Consensus pattern (37 bp):
GTCAGACCGGTCAAACCGGTTCGAACCGGTTAAACCA
Found at i:744350 original size:18 final size:18
Alignment explanation
Indices: 744312--744359 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
744302 TATATGTAAA
744312 TATTAAAAAGTATAATAATT
1 TATTAAAAA-T-TAATAATT
* *
744332 TATTTAAAATTAATCATT
1 TATTAAAAATTAATAATT
744350 TATTAAAAAT
1 TATTAAAAAT
744360 AATTATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 16 0.64
19 1 0.04
20 8 0.32
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
TATTAAAAATTAATAATT
Found at i:744357 original size:17 final size:18
Alignment explanation
Indices: 744323--744362 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
744313 ATTAAAAAGT
744323 ATAATAATTTATTTAAAA
1 ATAATAATTTATTTAAAA
* *
744341 TTAATCATTTA-TTAAAA
1 ATAATAATTTATTTAAAA
744358 ATAAT
1 ATAAT
744363 TATAATTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATAATTTATTTAAAA
Found at i:745718 original size:21 final size:22
Alignment explanation
Indices: 745680--745723 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
745670 GTATCTATAG
*
745680 TGGTTGAAGAGAAAATTATATT
1 TGGTTGAAGAGAAAATTAAATT
* *
745702 TGGTTGAA-ATAAGATTAAATT
1 TGGTTGAAGAGAAAATTAAATT
745723 T
1 T
745724 TGATTTTAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (22 bp):
TGGTTGAAGAGAAAATTAAATT
Found at i:746764 original size:18 final size:18
Alignment explanation
Indices: 746741--746786 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
746731 TAGAATTTGT
746741 CCGAAGGACCACTATGTC
1 CCGAAGGACCACTATGTC
746759 CCGAAGGACCACTATGTC
1 CCGAAGGACCACTATGTC
*
746777 CCGAAAGACC
1 CCGAAGGACC
746787 GTAGAACCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.30, C:0.35, G:0.22, T:0.13
Consensus pattern (18 bp):
CCGAAGGACCACTATGTC
Found at i:747293 original size:19 final size:18
Alignment explanation
Indices: 747271--747313 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
747261 TATCATTAAT
747271 ATATGCAACA-ATCAATAAC
1 ATATGCAACATATC-A-AAC
*
747290 ATATGTAACATATCAAAC
1 ATATGCAACATATCAAAC
747308 ATATGC
1 ATATGC
747314 TTATATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 8 0.38
19 10 0.48
20 3 0.14
ACGTcount: A:0.49, C:0.19, G:0.07, T:0.26
Consensus pattern (18 bp):
ATATGCAACATATCAAAC
Found at i:748166 original size:21 final size:21
Alignment explanation
Indices: 748140--748238 Score: 198
Period size: 21 Copynumber: 4.7 Consensus size: 21
748130 CTCTTAGTGT
748140 TTTAAGCTTATATAAGCTTTC
1 TTTAAGCTTATATAAGCTTTC
748161 TTTAAGCTTATATAAGCTTTC
1 TTTAAGCTTATATAAGCTTTC
748182 TTTAAGCTTATATAAGCTTTC
1 TTTAAGCTTATATAAGCTTTC
748203 TTTAAGCTTATATAAGCTTTC
1 TTTAAGCTTATATAAGCTTTC
748224 TTTAAGCTTATATAA
1 TTTAAGCTTATATAA
748239 CACCCAAATA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 78 1.00
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.47
Consensus pattern (21 bp):
TTTAAGCTTATATAAGCTTTC
Found at i:748168 original size:11 final size:11
Alignment explanation
Indices: 748152--748232 Score: 87
Period size: 11 Copynumber: 7.6 Consensus size: 11
748142 TAAGCTTATA
748152 TAAGCTTTCTT
1 TAAGCTTTCTT
* *
748163 TAAGC-TTATA
1 TAAGCTTTCTT
748173 TAAGCTTTCTT
1 TAAGCTTTCTT
* *
748184 TAAGC-TTATA
1 TAAGCTTTCTT
748194 TAAGCTTTCTT
1 TAAGCTTTCTT
* *
748205 TAAGC-TTATA
1 TAAGCTTTCTT
748215 TAAGCTTTCTT
1 TAAGCTTTCTT
748226 TAAGCTT
1 TAAGCTT
748233 ATATAACACC
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
10 24 0.44
11 31 0.56
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (11 bp):
TAAGCTTTCTT
Found at i:749571 original size:21 final size:21
Alignment explanation
Indices: 749547--749618 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 21
749537 TGTATATCAT
749547 ATAACACTTATATCATTTCAC
1 ATAACACTTATATCATTTCAC
* * *
749568 ATAACATCATATAT-ATGTATATAT
1 ATAACA-CTTATATCAT-T-T-CAC
749592 ATAACACTTATATCATTTCAC
1 ATAACACTTATATCATTTCAC
749613 ATAACA
1 ATAACA
749619 TCATGGCATT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
21 15 0.38
22 8 0.20
23 8 0.20
24 9 0.22
ACGTcount: A:0.43, C:0.18, G:0.01, T:0.38
Consensus pattern (21 bp):
ATAACACTTATATCATTTCAC
Found at i:749600 original size:45 final size:46
Alignment explanation
Indices: 749535--749622 Score: 169
Period size: 45 Copynumber: 1.9 Consensus size: 46
749525 ACTTATCATT
749535 TATGTATATCATATAACACTTATATCATTTCACATAACATCATATA
1 TATGTATATCATATAACACTTATATCATTTCACATAACATCATATA
749581 TATGTATAT-ATATAACACTTATATCATTTCACATAACATCAT
1 TATGTATATCATATAACACTTATATCATTTCACATAACATCAT
749623 GGCATTTCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 33 0.79
46 9 0.21
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.40
Consensus pattern (46 bp):
TATGTATATCATATAACACTTATATCATTTCACATAACATCATATA
Found at i:749863 original size:22 final size:22
Alignment explanation
Indices: 749837--749900 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
749827 GTTCAGTATT
*
749837 CGTCCCGAAGGACCACTATATA
1 CGTCCCGAAGGACTACTATATA
* **
749859 CGTCCCGTAGGACTACTGGATA
1 CGTCCCGAAGGACTACTATATA
*
749881 CATCCCGAAGGACTACTATA
1 CGTCCCGAAGGACTACTATA
749901 CCCTCGACTC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (22 bp):
CGTCCCGAAGGACTACTATATA
Found at i:751532 original size:7 final size:7
Alignment explanation
Indices: 751520--751547 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
751510 GAAAGAAGAT
751520 GAAGAAG
1 GAAGAAG
751527 GAAGAAG
1 GAAGAAG
751534 GAAGAAG
1 GAAGAAG
751541 GAAGAAG
1 GAAGAAG
751548 AGTTTGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (7 bp):
GAAGAAG
Found at i:752542 original size:2 final size:2
Alignment explanation
Indices: 752535--752588 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
752525 CAAACTATCC
752535 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
752577 AT AT AT AT AT AT
1 AT AT AT AT AT AT
752589 CTTTCAGTCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:753827 original size:2 final size:2
Alignment explanation
Indices: 753820--753863 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
753810 ATCATCTATC
753820 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
753862 AT
1 AT
753864 CATAAATCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:754707 original size:16 final size:16
Alignment explanation
Indices: 754686--754803 Score: 82
Period size: 16 Copynumber: 7.5 Consensus size: 16
754676 ATCATTTATG
754686 TATATCATATAACACT
1 TATATCATATAACACT
* *
754702 TATATCATTTCACA-T
1 TATATCATATAACACT
* * * *
754717 AACATCATAT-ATATT
1 TATATCATATAACACT
754732 GTATATCATATAACACT
1 -TATATCATATAACACT
* *
754749 TATATCATTTCACA-T
1 TATATCATATAACACT
* * * *
754764 AACATCATAT-ATATT
1 TATATCATATAACACT
754779 GTATATCATATAACACT
1 -TATATCATATAACACT
754796 TATATCAT
1 TATATCAT
754804 TTCACATAAC
Statistics
Matches: 76, Mismatches: 20, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
14 4 0.05
15 18 0.24
16 48 0.63
17 6 0.08
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.41
Consensus pattern (16 bp):
TATATCATATAACACT
Found at i:754736 original size:47 final size:47
Alignment explanation
Indices: 754684--754818 Score: 270
Period size: 47 Copynumber: 2.9 Consensus size: 47
754674 TTATCATTTA
754684 TGTATATCATATAACACTTATATCATTTCACATAACATCATATATAT
1 TGTATATCATATAACACTTATATCATTTCACATAACATCATATATAT
754731 TGTATATCATATAACACTTATATCATTTCACATAACATCATATATAT
1 TGTATATCATATAACACTTATATCATTTCACATAACATCATATATAT
754778 TGTATATCATATAACACTTATATCATTTCACATAACATCAT
1 TGTATATCATATAACACTTATATCATTTCACATAACATCAT
754819 GACATTTCAA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 88 1.00
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.40
Consensus pattern (47 bp):
TGTATATCATATAACACTTATATCATTTCACATAACATCATATATAT
Found at i:755081 original size:22 final size:22
Alignment explanation
Indices: 755030--755111 Score: 82
Period size: 22 Copynumber: 3.9 Consensus size: 22
755020 GTTCAGTATT
*
755030 CGTCCCGAATGACTA-T-TAT-
1 CGTCCCGAAGGACTACTATATA
* *
755049 -GTCCTGAAGGACCACTATATA
1 CGTCCCGAAGGACTACTATATA
* **
755070 CGTCCCGTAGGACTACTGGATA
1 CGTCCCGAAGGACTACTATATA
755092 CGTCCCGAAGGACTACTATA
1 CGTCCCGAAGGACTACTATA
755112 CCCTCGACTC
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
18 11 0.23
19 1 0.02
20 3 0.06
22 33 0.69
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (22 bp):
CGTCCCGAAGGACTACTATATA
Found at i:755295 original size:41 final size:41
Alignment explanation
Indices: 755244--755321 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
755234 ACCATGTATT
* *
755244 TCATATCATATCACATGTATCACATATTGCATATTCATATG
1 TCATATCATATAACATATATCACATATTGCATATTCATATG
* * *
755285 TCATTTCATATAACATATATCATATATTGCATTTTCA
1 TCATATCATATAACATATATCACATATTGCATATTCA
755322 CGTAGATCGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (41 bp):
TCATATCATATAACATATATCACATATTGCATATTCATATG
Found at i:758577 original size:21 final size:21
Alignment explanation
Indices: 758552--758591 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
758542 TAATGAGGTT
*
758552 TTAGTTGATTTAA-TATTTACA
1 TTAGTT-ATATAATTATTTACA
758573 TTAGTTATATAATTATTTA
1 TTAGTTATATAATTATTTA
758592 TAAAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (21 bp):
TTAGTTATATAATTATTTACA
Found at i:759326 original size:6 final size:6
Alignment explanation
Indices: 759315--759339 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
759305 GTGATGTAGG
759315 TGGGGT TGGGGT TGGGGT TGGGGT T
1 TGGGGT TGGGGT TGGGGT TGGGGT T
759340 TGGATCAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.64, T:0.36
Consensus pattern (6 bp):
TGGGGT
Found at i:761400 original size:160 final size:162
Alignment explanation
Indices: 761134--761425 Score: 421
Period size: 160 Copynumber: 1.8 Consensus size: 162
761124 AGATAATCGA
* * *
761134 TTCTTCATTTCTTAAATTGATTTTATAGAATAGATTTGATTAAATGAAGTCCCTTTTTTAACCTT
1 TTCTTCATTTCTTAAATTGATTTTAGAGAATAGATTCGATTAAATGAAATCCCTTTTTTAACCTT
* * *
761199 GGAATTGATAAACTAGACTTTGTAGAGACATTAAAATTGAATGTGCTTCTATTTAA-TATTAATG
66 GGAACTGATAAACTAGACTTTGTACAGACATTAAAATTGAATGTGCTTCTATTGAACT-TTAATG
761263 ATGTCAACTAAGGGTTGATTTTTAGGGTTTCAG
130 ATGTCAACTAAGGGTTGATTTTTAGGGTTTCAG
*
761296 TTCTTCATTTCTT-AATTGATTTTAGAGAATAGCTTCGATTAAATGAAAT-CCTTTTTTAA-CTT
1 TTCTTCATTTCTTAAATTGATTTTAGAGAATAGATTCGATTAAATGAAATCCCTTTTTTAACCTT
* ** * * *
761358 ATGAACTGATACGCTAGACTTTGTACTGACATTCAAATTGAATGTGCTTTTATTGAACTTTAATG
66 -GGAACTGATAAACTAGACTTTGTACAGACATTAAAATTGAATGTGCTTCTATTGAACTTTAATG
761423 ATG
130 ATG
761426 ACAAATCGGG
Statistics
Matches: 115, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
159 3 0.03
160 66 0.57
161 33 0.29
162 13 0.11
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (162 bp):
TTCTTCATTTCTTAAATTGATTTTAGAGAATAGATTCGATTAAATGAAATCCCTTTTTTAACCTT
GGAACTGATAAACTAGACTTTGTACAGACATTAAAATTGAATGTGCTTCTATTGAACTTTAATGA
TGTCAACTAAGGGTTGATTTTTAGGGTTTCAG
Found at i:763335 original size:32 final size:32
Alignment explanation
Indices: 763294--763358 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
763284 TTTTTTCTGA
* *
763294 TGTTTAGTGATTTTCCCAATGAAATGTGTTAT
1 TGTTTAGTGATTTTCCCAAGGAAATGTCTTAT
*
763326 TGTTTAGTGATTTTCCCGAGGAAATGTCTTAT
1 TGTTTAGTGATTTTCCCAAGGAAATGTCTTAT
763358 T
1 T
763359 CTTGGTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (32 bp):
TGTTTAGTGATTTTCCCAAGGAAATGTCTTAT
Found at i:764730 original size:17 final size:17
Alignment explanation
Indices: 764708--764741 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
764698 TGATTATTTA
*
764708 TTTAAATACAAATATAT
1 TTTAAAAACAAATATAT
*
764725 TTTAAAAACTAATATAT
1 TTTAAAAACAAATATAT
764742 ATATATATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTAAAAACAAATATAT
Found at i:767389 original size:33 final size:33
Alignment explanation
Indices: 767347--767413 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
767337 GCTAGATGCA
767347 AAGCACTTTGACTGTCACAAAACAGAGAGACAT
1 AAGCACTTTGACTGTCACAAAACAGAGAGACAT
767380 AAGCACTTTGACTGTCACAAAACAGAGAGACAT
1 AAGCACTTTGACTGTCACAAAACAGAGAGACAT
767413 A
1 A
767414 CTCTTGATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (33 bp):
AAGCACTTTGACTGTCACAAAACAGAGAGACAT
Found at i:772365 original size:16 final size:17
Alignment explanation
Indices: 772331--772370 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
772321 TTATATAAGC
*
772331 TGATATGTGTTTATATG
1 TGATATGTGATTATATG
*
772348 TGCTATGTGATT-TATG
1 TGATATGTGATTATATG
772364 TGATATG
1 TGATATG
772371 CCATATGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.50
Consensus pattern (17 bp):
TGATATGTGATTATATG
Found at i:772976 original size:24 final size:24
Alignment explanation
Indices: 772928--772993 Score: 107
Period size: 24 Copynumber: 2.8 Consensus size: 24
772918 CAATCTTATA
*
772928 TGGCACTACGGTGC-ATTTCTACG
1 TGGCACTACGGTGCAAATTCTACG
*
772951 TGGCACTTCGGTGCAAATTCTACG
1 TGGCACTACGGTGCAAATTCTACG
772975 TGGCACTACGGTGCAAATT
1 TGGCACTACGGTGCAAATT
772994 TATACGAGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
23 13 0.33
24 26 0.67
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (24 bp):
TGGCACTACGGTGCAAATTCTACG
Found at i:773709 original size:12 final size:12
Alignment explanation
Indices: 773689--773734 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
773679 TTAACATTCG
*
773689 GGTACTGTTCAT
1 GGTATTGTTCAT
*
773701 GGTAATGTTCAT
1 GGTATTGTTCAT
*
773713 --TATTGTTCAC
1 GGTATTGTTCAT
773723 GGTATTGTTCAT
1 GGTATTGTTCAT
773735 ACCGTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 8 0.29
12 20 0.71
ACGTcount: A:0.20, C:0.13, G:0.22, T:0.46
Consensus pattern (12 bp):
GGTATTGTTCAT
Found at i:773995 original size:19 final size:19
Alignment explanation
Indices: 773971--774010 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
773961 TACTTTATTA
773971 TGTTGGAGGATCCACCTTT
1 TGTTGGAGGATCCACCTTT
*
773990 TGTTGGAGGATGCACCTTT
1 TGTTGGAGGATCCACCTTT
774009 TG
1 TG
774011 GTGTCAACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.17, G:0.30, T:0.38
Consensus pattern (19 bp):
TGTTGGAGGATCCACCTTT
Found at i:774875 original size:13 final size:13
Alignment explanation
Indices: 774857--774881 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
774847 GTCCTTGAGC
774857 TTTTCAACCTTGT
1 TTTTCAACCTTGT
774870 TTTTCAACCTTG
1 TTTTCAACCTTG
774882 CCTTCAAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.08, T:0.52
Consensus pattern (13 bp):
TTTTCAACCTTGT
Found at i:781778 original size:21 final size:21
Alignment explanation
Indices: 781752--781797 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
781742 TTAATCAACA
781752 TAAAATTAA-AAGTTTA-AGTAC
1 TAAAATTAATAA-TTTAGA-TAC
781773 TAAAATTAATAATTTAGATAC
1 TAAAATTAATAATTTAGATAC
781794 TAAA
1 TAAA
781798 TACATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (21 bp):
TAAAATTAATAATTTAGATAC
Found at i:787522 original size:13 final size:13
Alignment explanation
Indices: 787504--787546 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
787494 CAACTTCTTT
787504 TTCTTCACTTTTC
1 TTCTTCACTTTTC
*
787517 TTCTTCATTATTTC
1 TTCTTCACT-TTTC
*
787531 -TCTTCACTCTTC
1 TTCTTCACTTTTC
787543 TTCT
1 TTCT
787547 AGACTGCAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
12 3 0.12
13 18 0.72
14 4 0.16
ACGTcount: A:0.09, C:0.30, G:0.00, T:0.60
Consensus pattern (13 bp):
TTCTTCACTTTTC
Found at i:789076 original size:26 final size:27
Alignment explanation
Indices: 789047--789105 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
789037 TGCAGTCTAG
* * *
789047 AAGAAGAG-TGAAGAAAAGTGAAGATA
1 AAGAAGAGAAGAAGAAAAGTGAAAAAA
789073 AAGAA-AGAAGAAGAAAAGTGAAAAAA
1 AAGAAGAGAAGAAGAAAAGTGAAAAAA
789099 AAGAAGA
1 AAGAAGA
789106 TGAGAATGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.07
26 25 0.89
27 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.27, T:0.07
Consensus pattern (27 bp):
AAGAAGAGAAGAAGAAAAGTGAAAAAA
Found at i:793772 original size:24 final size:25
Alignment explanation
Indices: 793732--793778 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
793722 TTTATTTATA
*
793732 TTTTAAATCATTTTAA-TGAATTTT
1 TTTTAAATCATTATAATTGAATTTT
793756 TTTTAATAT-ATTATAATTGAATT
1 TTTTAA-ATCATTATAATTGAATT
793779 ATAACGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (25 bp):
TTTTAAATCATTATAATTGAATTTT
Found at i:798440 original size:28 final size:29
Alignment explanation
Indices: 798349--798461 Score: 113
Period size: 29 Copynumber: 3.9 Consensus size: 29
798339 CGTCCCCAAC
*
798349 AGGTCGCCATGCATTCCCCAAC-ACCCCTACA
1 AGGTCGCCATGCACT-CCCAACGA--CCTACA
798380 AGGTCGCCATGCACTCCCAACGACCTACA
1 AGGTCGCCATGCACTCCCAACGACCTACA
* ***
798409 AGGTCGCCATGCACT-CCAGCGACCTTGT
1 AGGTCGCCATGCACTCCCAACGACCTACA
* * *
798437 AGGTCGCCAAGCAATCCCGACGACC
1 AGGTCGCCATGCACTCCCAACGACC
798462 AAGCTTCACG
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 22 0.31
29 28 0.39
30 6 0.08
31 15 0.21
ACGTcount: A:0.25, C:0.41, G:0.19, T:0.15
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCCAACGACCTACA
Found at i:798737 original size:26 final size:28
Alignment explanation
Indices: 798708--798771 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 28
798698 AGAACATAAA
* *
798708 AGAAAGAAAGGAGAAGAGATTGTAG-C-
1 AGAAAGAAAGGAGAAGAAATTGCAGCCG
798734 AG-AAGAAAGGGAGAAGAAATTGCAGCCG
1 AGAAAGAAA-GGAGAAGAAATTGCAGCCG
798762 AGAAAGAAAG
1 AGAAAGAAAG
798772 AAAGGGAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 6 0.19
26 16 0.50
27 1 0.03
28 3 0.09
29 6 0.19
ACGTcount: A:0.52, C:0.06, G:0.34, T:0.08
Consensus pattern (28 bp):
AGAAAGAAAGGAGAAGAAATTGCAGCCG
Found at i:798933 original size:22 final size:21
Alignment explanation
Indices: 798908--798948 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
798898 GTTAATTAGT
*
798908 TTGTTAATTTAGGGTTATATGA
1 TTGTTAATTTA-AGTTATATGA
*
798930 TTGTTAGTTTAAGTTATAT
1 TTGTTAATTTAAGTTATAT
798949 TATACATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
TTGTTAATTTAAGTTATATGA
Found at i:799262 original size:8 final size:8
Alignment explanation
Indices: 799249--799283 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
799239 TTTAAAAAGT
*
799249 TTAGTTTG
1 TTAGTTTA
799257 TTAGTTTA
1 TTAGTTTA
799265 TTAGTTTA
1 TTAGTTTA
799273 TTAGTTTA
1 TTAGTTTA
799281 TTA
1 TTA
799284 TATTAAAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.14, T:0.63
Consensus pattern (8 bp):
TTAGTTTA
Found at i:801523 original size:14 final size:14
Alignment explanation
Indices: 801504--801551 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
801494 TTTAAGTCGT
801504 AAATCATTACTATC
1 AAATCATTACTATC
801518 AAATCATTAC--T-
1 AAATCATTACTATC
*
801529 AAATCATTAATATC
1 AAATCATTACTATC
801543 AAATCATTA
1 AAATCATTA
801552 AATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:801567 original size:21 final size:22
Alignment explanation
Indices: 801503--801561 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 22
801493 GTTTAAGTCG
*
801503 TAAATCATTACTATCAAATCATT
1 TAAATCATTAATATCAAATCA-T
801526 ACTAAATCATTAATATCAAATCAT
1 --TAAATCATTAATATCAAATCAT
801550 TAAAT-ATTAATA
1 TAAATCATTAATA
801562 ATAAATTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 7 0.21
22 5 0.15
24 1 0.03
25 20 0.61
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATCATTAATATCAAATCAT
Found at i:801572 original size:21 final size:22
Alignment explanation
Indices: 801503--801572 Score: 63
Period size: 21 Copynumber: 3.1 Consensus size: 22
801493 GTTTAAGTCG
* *
801503 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATC-AA--ATTAT
*
801528 TAAATCATTAATATCAAATCAT
1 TAAATCATTAATATCAAATTAT
801550 TAAAT-ATTAATAAT-AAATTAT
1 TAAATCATTAAT-ATCAAATTAT
801571 TA
1 TA
801573 TTACTAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 14 0.35
22 10 0.25
24 2 0.05
25 14 0.35
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAATCATTAATATCAAATTAT
Found at i:801584 original size:10 final size:10
Alignment explanation
Indices: 801569--801598 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
801559 ATAATAAATT
801569 ATTATTACTA
1 ATTATTACTA
801579 ATTATTACTA
1 ATTATTACTA
*
801589 ATCATTACTA
1 ATTATTACTA
801599 TCAAATCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (10 bp):
ATTATTACTA
Found at i:801645 original size:49 final size:49
Alignment explanation
Indices: 801579--801932 Score: 245
Period size: 49 Copynumber: 6.7 Consensus size: 49
801569 ATTATTACTA
801579 ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
1 ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
* *
801628 ATTATTACTAATCATTACTAAATCATTAAT-ATCAAATCATTAAATATTAATAATAATTTC
1 ATTATTACTAATCATTACT--ATCA--AATCATTAAA-AATT--A-A-TAA---TAATTTC
*
801688 ATTATTACTAATCATTACTAATCATTACTATCAATCATTAAAATTTAATAATAATTTC
1 ATTATTACTAATCATTAC---T-A-T-C-A--AATCATTAAAAATTAATAATAATTTC
801746 ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
1 ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
* * *
801795 ATTATTACTAATCATTA-T-T-AAATCATTACTATCAAATCATTAAAAATTAATAATA
1 ATTATTACTAATCATTACTATCAAATCA-T--TA--AAA--ATTAATAA-TAAT-TTC
* * * *
801850 ATTTCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
1 A-TT-ATTACTAATCAT-T--ACTATCAAATCATTAAAAATTAATAATAATTTC
*
801904 ATTATTACTAATTATTA-T-T-AAATCATTAA
1 ATTATTACTAATCATTACTATCAAATCATTAA
801933 TATCAAATCA
Statistics
Matches: 247, Mismatches: 22, Indels: 75
0.72 0.06 0.22
Matches are distributed among these distances:
46 16 0.06
47 3 0.01
48 2 0.01
49 64 0.26
51 8 0.03
52 15 0.06
53 16 0.06
54 7 0.03
55 8 0.03
56 10 0.04
57 12 0.05
58 28 0.11
60 28 0.11
61 4 0.02
62 4 0.02
63 9 0.04
64 1 0.00
65 7 0.03
66 5 0.02
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (49 bp):
ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
Found at i:801669 original size:25 final size:25
Alignment explanation
Indices: 801503--801551 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
801493 GTTTAAGTCG
*
801503 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATCAAATCATTAC
801528 TAAATCATTAATATCAAATCATTA
1 TAAATCATTAATATCAAATCATTA
801552 AATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAATCATTAATATCAAATCATTAC
Found at i:801706 original size:10 final size:10
Alignment explanation
Indices: 801691--801717 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
801681 TAATTTCATT
801691 ATTACTAATC
1 ATTACTAATC
801701 ATTACTAATC
1 ATTACTAATC
801711 ATTACTA
1 ATTACTA
801718 TCAATCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:801826 original size:60 final size:60
Alignment explanation
Indices: 801744--801885 Score: 239
Period size: 60 Copynumber: 2.3 Consensus size: 60
801734 AATAATAATT
801744 TCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAA
1 TCATTATTA--AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAA
801806 TCATTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAA
1 TCATTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAA
801866 TCATTACTATCAAATCATTA
1 TCATTA-T-T-AAATCATTA
801886 AAAATTAATA
Statistics
Matches: 77, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
60 57 0.74
61 1 0.01
62 10 0.13
63 9 0.12
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (60 bp):
TCATTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAA
Found at i:801834 original size:25 final size:25
Alignment explanation
Indices: 801804--801885 Score: 75
Period size: 22 Copynumber: 3.3 Consensus size: 25
801794 CATTATTACT
801804 AATCATTATTAAATCATTACTATCA
1 AATCATTATTAAATCATTACTATCA
*
801829 AATCATTA--AAA--ATTAATAAT-A
1 AATCATTATTAAATCATTACT-ATCA
*
801850 ATTTCATTATTACTAATCATTACTATCA
1 A-ATCATTATTA--AATCATTACTATCA
801878 AATCATTA
1 AATCATTA
801886 AAAATTAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
21 7 0.16
22 8 0.18
23 3 0.07
24 1 0.02
25 8 0.18
26 2 0.05
27 8 0.18
28 7 0.16
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.40
Consensus pattern (25 bp):
AATCATTATTAAATCATTACTATCA
Found at i:801876 original size:109 final size:109
Alignment explanation
Indices: 801641--802257 Score: 720
Period size: 109 Copynumber: 5.7 Consensus size: 109
801631 ATTACTAATC
* * *
801641 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAT
*
801706 T-AATCATTACTATC-AATCATTAAAATTTAATAATAATTTCATT
65 TAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
801749 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTATT
801814 AAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
66 AAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
*
801858 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATTATTATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTATT
* *
801923 AAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATT
66 AAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
801967 ATTACTAATCATTACTAAATTATTACTATCAAATCATT-AAAA--AATAATAATTTCATTATTAC
1 ATTACT-A--A-T-C------ATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTAC
* * * * * * *
802029 TAATCATTACTTTCAAATCA-T--TA--AAATTAATAATAATT--TCATTATTACTAATA
55 TAATCATTA--TT-AAATCATTACTATCAAATCATTAAAAATTAATAATAATT--TCATT
* * *
802082 ATTACT-ATCA--A--ATC-ATTA----AAAATTAATAATAATTTCATTATTACTAATCATTACT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTATT
*
802137 AAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
66 AAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
* *
802181 ATTACTAATCATTACTATCAAATCATTAAAAATTGATAATAATTTCATTATTACTAATTATTACT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTA-T
802246 ATCAAATCATTA
65 -T-AAATCATTA
802258 AAAATTAATA
Statistics
Matches: 437, Mismatches: 32, Indels: 76
0.80 0.06 0.14
Matches are distributed among these distances:
94 6 0.01
95 6 0.01
97 31 0.07
98 2 0.00
99 23 0.05
100 4 0.01
101 7 0.02
102 1 0.00
103 1 0.00
104 3 0.01
105 2 0.00
107 56 0.13
108 19 0.04
109 174 0.40
110 2 0.00
111 2 0.00
112 10 0.02
113 7 0.02
114 1 0.00
115 20 0.05
117 30 0.07
119 7 0.02
120 23 0.05
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (109 bp):
ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTATT
AAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
Found at i:801928 original size:60 final size:60
Alignment explanation
Indices: 801858--802039 Score: 291
Period size: 60 Copynumber: 3.1 Consensus size: 60
801848 TAATTTCATT
*
801858 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATT
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
* * *
801917 ATTATTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
801977 ATTACTAAATTATTACTATCAAATCATT-AAAA--AATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
802034 ATTACT
1 ATTACT
802040 TTCAAATCAT
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
57 31 0.27
59 8 0.07
60 75 0.66
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (60 bp):
ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:801979 original size:49 final size:49
Alignment explanation
Indices: 801914--802275 Score: 417
Period size: 49 Copynumber: 7.0 Consensus size: 49
801904 ATTATTACTA
* * *
801914 ATTATTATTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTC
1 ATTATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
801964 ATTATTACTAATCATTACTAAATTATTACTATCAAATCATT-AAAA--AATAATAATTTC
1 ATTATTACT-A--A-T-C------ATTACTATCAAATCATTAAAAATTAATAATAATTTC
*
802021 ATTATTACTAATCATTACTTTCAAATCATT-AAAATTAATAATAATTTC
1 ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
*
802069 ATTATTACTAATAATTACTATCAAATCATTAAAAATTAATAATAATTTC
1 ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
*
802118 ATTATTACTAATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTC
1 ------A-T--T-ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
*
802178 ATTATTACTAATCATTACTATCAAATCATTAAAAATTGATAATAATTTC
1 ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
*
802227 ATTATTACTAATTATTACTATCAAATCATTAAAAATTAATAATAATTTC
1 ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
802276 GTTAAATAAA
Statistics
Matches: 276, Mismatches: 12, Indels: 49
0.82 0.04 0.15
Matches are distributed among these distances:
46 20 0.07
48 40 0.14
49 103 0.37
50 16 0.06
51 1 0.00
52 2 0.01
53 3 0.01
54 3 0.01
55 1 0.00
56 2 0.01
57 21 0.08
58 1 0.00
59 9 0.03
60 54 0.20
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.42
Consensus pattern (49 bp):
ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
Found at i:802095 original size:214 final size:205
Alignment explanation
Indices: 801579--802275 Score: 936
Period size: 214 Copynumber: 3.2 Consensus size: 205
801569 ATTATTACTA
801579 ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATT
1 ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTAC---T-A--
* *
801644 ACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACT-A
60 A-T--A--ATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAA
*
801708 ATCATTACTATC-AATCATTAAA-ATTTAATAATAATTTCATTATTACTAATCATTACTATCAAA
120 ATCATTAATATCAAATCATTAAATA-TTAATAATAATTTCATTATTACTAATCATTACTATCAAA
801771 TCATTAAAAATTAATAATAATTTC
184 TCATTAAAAA-T-ATAATAATTTC
801795 ATTATTACTAATCATTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTAT
1 ATTA-T--T-A-C-----T-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTAT
* * *
801860 TACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATTATTATTAA
55 TACTAATAATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAA
801925 ATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATTAT
120 ATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT-A--A-T-C------AT
801990 TACTATCAAATCATTAAAAA-ATAATAATTTC
174 TACTATCAAATCATTAAAAATATAATAATTTC
*
802021 ATTATTACTAATCATTACTTTCAAATCATT-AAAATTAATAATAATTTCATTATTACTAATAATT
1 ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATAATT
*
802085 ACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTAT
66 ACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATAT
802150 CAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTATCAAATCATTAAAAATT
131 CAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTATCAAATCATTAAAAA-T
802215 GATAATAATTTC
195 -ATAATAATTTC
*
802227 ATTATTACTAATTATTACTATCAAATCATTAAAAATTAATAATAATTTC
1 ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
802276 GTTAAATAAA
Statistics
Matches: 439, Mismatches: 13, Indels: 67
0.85 0.03 0.13
Matches are distributed among these distances:
203 22 0.05
206 39 0.09
207 18 0.04
209 1 0.00
210 1 0.00
211 1 0.00
213 1 0.00
214 132 0.30
215 20 0.05
216 56 0.13
217 13 0.03
218 33 0.08
219 3 0.01
220 2 0.00
221 4 0.01
222 2 0.00
223 3 0.01
224 1 0.00
225 1 0.00
226 16 0.04
227 48 0.11
229 22 0.05
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (205 bp):
ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATAATT
ACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATAT
CAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTATCAAATCATTAAAAATA
TAATAATTTC
Found at i:802107 original size:154 final size:157
Alignment explanation
Indices: 801914--802275 Score: 613
Period size: 154 Copynumber: 2.3 Consensus size: 157
801904 ATTATTACTA
* * * *
801914 ATTATTATTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCAT
1 ATTATTACT-AATAATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCAT
* *
801979 TACTAAATTATTACTATCAAATCATTAAA-A-AATAATAATTTCATTATTACTAATCATTACTTT
65 TACTAAATCATTACTATCAAATCATTAAATATAATAATAATTTCATTATTACTAATCATTACTAT
802042 CAAATCATT-AAAATTAATAATAATTTC
130 CAAATCATTAAAAATTAATAATAATTTC
802069 ATTATTACTAATAATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATT
1 ATTATTACTAATAATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATT
802134 ACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAT
66 ACTAAATCATTACTATCAAATCATTAAATA-TAATAATAATTTCATTATTACTAATCATTACTAT
*
802199 CAAATCATTAAAAATTGATAATAATTTC
130 CAAATCATTAAAAATTAATAATAATTTC
*
802227 ATTATTACTAATTATTACTATCAAATCATTAAAAATTAATAATAATTTC
1 ATTATTACTAATAATTACTATCAAATCATTAAAAATTAATAATAATTTC
802276 GTTAAATAAA
Statistics
Matches: 195, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
154 80 0.41
155 9 0.05
157 41 0.21
158 65 0.33
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.42
Consensus pattern (157 bp):
ATTATTACTAATAATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATT
ACTAAATCATTACTATCAAATCATTAAATATAATAATAATTTCATTATTACTAATCATTACTATC
AAATCATTAAAAATTAATAATAATTTC
Found at i:802149 original size:60 final size:60
Alignment explanation
Indices: 802072--802246 Score: 230
Period size: 60 Copynumber: 3.1 Consensus size: 60
802062 TAATTTCATT
802072 ATTACT-AATAATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATAATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
* *
802131 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT-A--
1 ATTACTAAATAATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
* *
802188 A-T-C------ATTACTATCAAATCATTAAAAATTGATAATAATTTCATTATTACTAATT
1 ATTACTAAATAATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
802240 ATTACTA
1 ATTACTA
802247 TCAAATCATT
Statistics
Matches: 104, Mismatches: 4, Indels: 19
0.82 0.03 0.15
Matches are distributed among these distances:
49 43 0.41
50 1 0.01
52 1 0.01
53 1 0.01
54 1 0.01
55 1 0.01
56 1 0.01
57 1 0.01
59 7 0.07
60 47 0.45
ACGTcount: A:0.46, C:0.12, G:0.01, T:0.42
Consensus pattern (60 bp):
ATTACTAAATAATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:802806 original size:16 final size:16
Alignment explanation
Indices: 802785--802835 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
802775 TTCATTTGTT
802785 TTATTTATTATTATTA
1 TTATTTATTATTATTA
*
802801 TTATTT-TGTTTTATTA
1 TTATTTAT-TATTATTA
*
802817 TTATATTA-AATTATTA
1 TTAT-TTATTATTATTA
802833 TTA
1 TTA
802836 AATAATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 1 0.03
16 26 0.90
17 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTATTTATTATTATTA
Found at i:806721 original size:14 final size:14
Alignment explanation
Indices: 806683--806721 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
806673 ATTTTAAATA
*
806683 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
806697 TTTTACATTTGCAT
1 ATTTACATTTGCAT
806711 ATTTACATTTG
1 ATTTACATTTG
806722 GAATCTTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.05, T:0.54
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:806809 original size:12 final size:13
Alignment explanation
Indices: 806792--806820 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
806782 ACATTCACAT
806792 ATTTACATTT-GC
1 ATTTACATTTAGC
806804 ATTTACATTTAGC
1 ATTTACATTTAGC
806817 ATTT
1 ATTT
806821 TTGTCATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (13 bp):
ATTTACATTTAGC
Found at i:812961 original size:53 final size:54
Alignment explanation
Indices: 812903--813006 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
812893 TGTTGTCAAA
* * * *
812903 TAGCATATGTGCAGAAGCCACATGA-AGGATGAATGTGTTGTCAAATGTTTTAC
1 TAGCATATGAGCAGAAACCACATGAGAGGATGAATGTATTGACAAATGTTTTAC
* * *
812956 TAGCATCTGAGCATAAACCACATGAGATGATGAATGTATTGACAAATGTTT
1 TAGCATATGAGCAGAAACCACATGAGAGGATGAATGTATTGACAAATGTTT
813007 AACGAACCAG
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 21 0.49
54 22 0.51
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (54 bp):
TAGCATATGAGCAGAAACCACATGAGAGGATGAATGTATTGACAAATGTTTTAC
Found at i:814029 original size:113 final size:113
Alignment explanation
Indices: 813813--814506 Score: 830
Period size: 113 Copynumber: 6.0 Consensus size: 113
813803 TAGCAAAGAT
* * *
813813 TCAAATCCATCAC--AATGGATCAACATTTCCAGA-AAGAGTTCATAATGAGAATAACTCATCTG
1 TCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTG
* *
813875 AAGAATGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
* *
813924 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGCGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
813989 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGATCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
814037 TCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
814102 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGATTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
**
814150 TCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGACTAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
814215 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
* * * * ** *
814263 AT-GACTCTATCACAGAAGGAGATAGATCAACATCAACTTTTCCAGAGAAAATTCATAATGAGAA
1 -TCAAATCCATCAC---------TTGAT--GGATCAACTTTTCCAGAGAAAGTTCATAATGAGAA
*
814327 GAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTACATGAC
54 GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT---TG-C
* * *** * * *
814390 TC-TAT-CATAAAAAGAGATAGATCAGCATCAATTTGTCTAGAG-AAGTTTATAATGAGAAGAAC
1 TCAAATCCAT--CACTTGATGGATCA--A-C--TTT-TCCAGAGAAAGTTCATAATGAGAAGAAC
* *
814452 TTATCTGAAG-AGGAATAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
58 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
814507 ATAACTCTAT
Statistics
Matches: 517, Mismatches: 38, Indels: 50
0.85 0.06 0.08
Matches are distributed among these distances:
111 13 0.03
113 313 0.61
114 3 0.01
116 5 0.01
117 1 0.00
118 7 0.01
119 1 0.00
121 72 0.14
122 10 0.02
123 41 0.08
124 43 0.08
125 2 0.00
126 4 0.01
127 2 0.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (113 bp):
TCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
Found at i:814479 original size:121 final size:121
Alignment explanation
Indices: 814170--814584 Score: 566
Period size: 122 Copynumber: 3.4 Consensus size: 121
814160 CACTTGATGG
**
814170 ATCAACTTTTCCAGAGAAAGTTCATAATGAGACTAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAA-TTTT-CAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCAT
* * *
814235 AATGAGAAGAGCTTGTTCGACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
63 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAAAAGGAGATAGATCAGC
* *
814294 ATCAACTTTTCCAGAGAAAATTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAA-TTTT-CAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * *
814359 ATGAGAAGAGCTTGTTCAACC-TTTACATGACTCTATCATAAAAAGAGATAGATCAGC
64 ATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAAAAGGAGATAGATCAGC
* * *
814416 ATCAATTTGTCTAGAG-AAGTTTATAATGAGAAGAACTTATCTGAAGAGGAATAAGAAGTTCATA
1 ATCAATTT-TC-AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * *
814480 ATGAGAAGAGCTTGTTCAACCTTTTGCATAACTCTATCACAAAAGGAGATAAACCAGC
64 ATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAAAAGGAGATAGATCAGC
**
814538 ATCAACATTTTCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGA
1 ATC-A-ATTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
814585 ATAAGGAGCA
Statistics
Matches: 262, Mismatches: 23, Indels: 14
0.88 0.08 0.05
Matches are distributed among these distances:
121 70 0.27
122 104 0.40
123 41 0.16
124 47 0.18
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (121 bp):
ATCAATTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
GAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAAAAGGAGATAGATCAGC
Found at i:814862 original size:16 final size:16
Alignment explanation
Indices: 814831--814877 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
814821 TCATTTGTTT
*
814831 TATT-TATTATTGTTA
1 TATTATATTATTATTA
* * *
814846 TTTTGTTTTATTATTA
1 TATTATATTATTATTA
814862 TATTATATTATTATTA
1 TATTATATTATTATTA
814878 AATAATTAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 3 0.12
16 22 0.88
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (16 bp):
TATTATATTATTATTA
Found at i:817636 original size:8 final size:8
Alignment explanation
Indices: 817623--817658 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
817613 TAATAATTAC
817623 TACTAATT
1 TACTAATT
*
817631 TACTAATC
1 TACTAATT
817639 TA-TAATT
1 TACTAATT
817646 TACTAATT
1 TACTAATT
817654 TACTA
1 TACTA
817659 GTTTGGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (8 bp):
TACTAATT
Found at i:818310 original size:28 final size:28
Alignment explanation
Indices: 818256--818311 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
818246 AACGTCGTTG
* * *
818256 CTTTCAAGCACTGGTTCGACGATATAAT
1 CTTTCAAGCACTGGCTCGACAACATAAT
818284 CTTTCAAGCACTGGCTCGACAACATAAT
1 CTTTCAAGCACTGGCTCGACAACATAAT
818312 GTAAACATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CTTTCAAGCACTGGCTCGACAACATAAT
Found at i:822853 original size:5 final size:5
Alignment explanation
Indices: 822845--822876 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
822835 CGAGTCGAGT
*
822845 CGTGC CGTGC CGTGC CGTGC CGTGC CGAGC CG
1 CGTGC CGTGC CGTGC CGTGC CGTGC CGTGC CG
822877 AGACGAGACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.03, C:0.41, G:0.41, T:0.16
Consensus pattern (5 bp):
CGTGC
Found at i:822865 original size:15 final size:15
Alignment explanation
Indices: 822840--822876 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
822830 ACGACCGAGT
*
822840 CGAGTCGTGCCGTGC
1 CGAGCCGTGCCGTGC
*
822855 CGTGCCGTGCCGTGC
1 CGAGCCGTGCCGTGC
822870 CGAGCCG
1 CGAGCCG
822877 AGACGAGACG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.05, C:0.38, G:0.41, T:0.16
Consensus pattern (15 bp):
CGAGCCGTGCCGTGC
Found at i:828368 original size:22 final size:22
Alignment explanation
Indices: 828310--828368 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
828300 TTCAGCTGTT
* *
828310 ATAACTCCTGAAATTATATCAT
1 ATAACTCCTGAAATTAAATCAA
* *
828332 GTAAC-CCATGGAATTAAATCAA
1 ATAACTCC-TGAAATTAAATCAA
*
828354 ATAACTCCTGTAATT
1 ATAACTCCTGAAATT
828369 CCTGATATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
21 2 0.07
22 25 0.86
23 2 0.07
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (22 bp):
ATAACTCCTGAAATTAAATCAA
Found at i:831985 original size:18 final size:19
Alignment explanation
Indices: 831951--831987 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
831941 CTCCTTAAAA
*
831951 ATTTTAAATTTTTTTATAT
1 ATTTTAAATTATTTTATAT
831970 ATTTTAAA-TATTTTATAT
1 ATTTTAAATTATTTTATAT
831988 TAAACATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTAAATTATTTTATAT
Found at i:841196 original size:26 final size:27
Alignment explanation
Indices: 841153--841203 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
841143 TTTTTTCTTT
*
841153 TTAAAATTTTATAAATTTA-TCATATA
1 TTAAAATTTCATAAATTTATTCATATA
*
841179 TTAAAATTTCATACATTTATTCATA
1 TTAAAATTTCATAAATTTATTCATA
841204 ACATACGTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (27 bp):
TTAAAATTTCATAAATTTATTCATATA
Found at i:841985 original size:2 final size:2
Alignment explanation
Indices: 841978--842007 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
841968 TTGTGAGTAT
841978 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
842008 CTTTTTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:842920 original size:15 final size:15
Alignment explanation
Indices: 842897--842931 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
842887 TACAATTAAG
*
842897 TTAATTTATAAAATA
1 TTAAATTATAAAATA
*
842912 TTAAATTATAAAGTA
1 TTAAATTATAAAATA
842927 TTAAA
1 TTAAA
842932 CATATAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (15 bp):
TTAAATTATAAAATA
Found at i:842931 original size:23 final size:24
Alignment explanation
Indices: 842905--842963 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 24
842895 AGTTAATTTA
842905 TAAAATATTAAATTATAAAGTA-T
1 TAAAATATTAAATTATAAAGTAGT
*
842928 TAAACATA-T-AATTATAAATTAGT
1 TAAA-ATATTAAATTATAAAGTAGT
842951 TAAAA-ATATAAAT
1 TAAAATAT-TAAAT
842964 GTAATTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
21 1 0.03
22 12 0.40
23 11 0.37
24 6 0.20
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (24 bp):
TAAAATATTAAATTATAAAGTAGT
Found at i:842941 original size:22 final size:23
Alignment explanation
Indices: 842906--842961 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
842896 GTTAATTTAT
842906 AAAATATTAAATTATAAAGTA-TTA
1 AAAATA-T-AATTATAAAGTAGTTA
* *
842930 AACATATAATTATAAATTAGTTA
1 AAAATATAATTATAAAGTAGTTA
842953 AAAATATAA
1 AAAATATAA
842962 ATGTAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.39
23 12 0.43
24 5 0.18
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.36
Consensus pattern (23 bp):
AAAATATAATTATAAAGTAGTTA
Found at i:842976 original size:23 final size:23
Alignment explanation
Indices: 842897--842978 Score: 67
Period size: 23 Copynumber: 3.4 Consensus size: 23
842887 TACAATTAAG
842897 TTAATTTATAAAATATTAAATTATAAA
1 TTAA-TTA-AAAATAT-AAA-TATAAA
* * *
842924 GT-ATTAAACATATAATTATAAA
1 TTAATTAAAAATATAAATATAAA
* * *
842946 TTAGTTAAAAATATAAATGTAAT
1 TTAATTAAAAATATAAATATAAA
842969 TTAATTAAAA
1 TTAATTAAAA
842979 TACAATATTT
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
22 7 0.16
23 26 0.59
24 6 0.14
25 3 0.07
26 1 0.02
27 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (23 bp):
TTAATTAAAAATATAAATATAAA
Found at i:852476 original size:21 final size:21
Alignment explanation
Indices: 852429--852481 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
852419 TCACCTTTTT
* *
852429 TAAAAAATAAATAAAAATGAT
1 TAAAAAATAAATAAAAATCAA
* * *
852450 TTAAAAATGAATAAAATTCAA
1 TAAAAAATAAATAAAAATCAA
852471 TAAAAATATAA
1 TAAAAA-ATAA
852482 TGTAAAGCTA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (21 bp):
TAAAAAATAAATAAAAATCAA
Found at i:853031 original size:14 final size:14
Alignment explanation
Indices: 853012--853042 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
853002 AGATCAAATG
853012 AATTATTATTTATT
1 AATTATTATTTATT
*
853026 AATTATTATTTTTT
1 AATTATTATTTATT
853040 AAT
1 AAT
853043 AACAGTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
AATTATTATTTATT
Found at i:853192 original size:10 final size:10
Alignment explanation
Indices: 853166--853220 Score: 67
Period size: 10 Copynumber: 5.5 Consensus size: 10
853156 CTTTACATTA
853166 TATTTTTATT
1 TATTTTTATT
* *
853176 GAATTTTATT
1 TATTTTTATT
*
853186 TATTTTTAAT
1 TATTTTTATT
853196 T-TTTTTATT
1 TATTTTTATT
853205 GTATTTTTATT
1 -TATTTTTATT
853216 TATTT
1 TATTT
853221 AAAAAAATGA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
9 7 0.19
10 22 0.59
11 8 0.22
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (10 bp):
TATTTTTATT
Found at i:857449 original size:14 final size:14
Alignment explanation
Indices: 857420--857465 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
857410 CGTTCGTGAA
857420 CGTTCGATTATATGTT
1 CGTTC-ATT-TATGTT
*
857436 TGTTCATTTATGTT
1 CGTTCATTTATGTT
*
857450 CGTTTATTTATGTT
1 CGTTCATTTATGTT
857464 CG
1 CG
857466 AACAGAGGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 20 0.74
15 3 0.11
16 4 0.15
ACGTcount: A:0.15, C:0.11, G:0.17, T:0.57
Consensus pattern (14 bp):
CGTTCATTTATGTT
Found at i:857742 original size:13 final size:12
Alignment explanation
Indices: 857728--857796 Score: 74
Period size: 13 Copynumber: 5.8 Consensus size: 12
857718 TGTGTTTGTG
857728 TTGTTCGTTTA-
1 TTGTTCGTTTAT
857739 -TGTTCGTTTAT
1 TTGTTCGTTTAT
857750 TGTGTTCGTTTA-
1 T-TGTTCGTTTAT
857762 -TGTTCGTTTAT
1 TTGTTCGTTTAT
857773 TGTGTTCGTTTAT
1 T-TGTTCGTTTAT
857786 GTTCGTTCGTT
1 -TT-GTTCGTT
857797 CGTGTTCGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
10 20 0.40
13 22 0.44
14 8 0.16
ACGTcount: A:0.07, C:0.10, G:0.22, T:0.61
Consensus pattern (12 bp):
TTGTTCGTTTAT
Found at i:857744 original size:10 final size:10
Alignment explanation
Indices: 857729--857792 Score: 74
Period size: 10 Copynumber: 5.8 Consensus size: 10
857719 GTGTTTGTGT
857729 TGTTCGTTTA
1 TGTTCGTTTA
857739 TGTTCGTTTA
1 TGTTCGTTTA
857749 TTGTGTTCGTTTA
1 ---TGTTCGTTTA
857762 TGTTCGTTTA
1 TGTTCGTTTA
857772 TTGTGTTCGTTTA
1 ---TGTTCGTTTA
857785 TGTTCGTT
1 TGTTCGTT
857793 CGTTCGTGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
10 28 0.58
13 20 0.42
ACGTcount: A:0.08, C:0.09, G:0.22, T:0.61
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:857747 original size:23 final size:23
Alignment explanation
Indices: 857729--857809 Score: 135
Period size: 23 Copynumber: 3.5 Consensus size: 23
857719 GTGTTTGTGT
857729 TGTTCGTTTATGTTCGTTTATTG
1 TGTTCGTTTATGTTCGTTTATTG
857752 TGTTCGTTTATGTTCGTTTATTG
1 TGTTCGTTTATGTTCGTTTATTG
**
857775 TGTTCGTTTATGTTCGTTCGTTCG
1 TGTTCGTTTATGTTCGTTTATT-G
857799 TGTTCGTTTAT
1 TGTTCGTTTAT
857810 TTATTAAATG
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
23 43 0.78
24 12 0.22
ACGTcount: A:0.07, C:0.11, G:0.22, T:0.59
Consensus pattern (23 bp):
TGTTCGTTTATGTTCGTTTATTG
Found at i:857895 original size:16 final size:16
Alignment explanation
Indices: 857874--857904 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
857864 AAAAAAAAAT
857874 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
857890 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
857905 CTTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:858146 original size:20 final size:20
Alignment explanation
Indices: 858121--858174 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
858111 TATTTTAATT
858121 TATATTATTAAAAAATTATC
1 TATATTATTAAAAAATTATC
** *
858141 TATATTTATT-AAATTTTATT
1 TATA-TTATTAAAAAATTATC
858161 TATATTATTAAAAA
1 TATATTATTAAAAA
858175 TATGTTGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.18
20 18 0.64
21 5 0.18
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TATATTATTAAAAAATTATC
Found at i:864238 original size:32 final size:32
Alignment explanation
Indices: 864194--864259 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
864184 CAGATTCTTA
*
864194 ATTTGTTGTAACCCCTTTCTGTTATATAGTTT
1 ATTTGTTATAACCCCTTTCTGTTATATAGTTT
864226 ATTTGTTATAACCCCTTTCTGTTATATAGTTT
1 ATTTGTTATAACCCCTTTCTGTTATATAGTTT
864258 AT
1 AT
864260 GACCATAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.21, C:0.15, G:0.11, T:0.53
Consensus pattern (32 bp):
ATTTGTTATAACCCCTTTCTGTTATATAGTTT
Found at i:868325 original size:30 final size:30
Alignment explanation
Indices: 868289--868349 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
868279 TCCGACATTC
868289 CGATCATTCCTCCCGGTGCTTGTTGTGTCA
1 CGATCATTCCTCCCGGTGCTTGTTGTGTCA
*
868319 CGATCATTCCTCTCGGTGCTTGTTGTGTCA
1 CGATCATTCCTCCCGGTGCTTGTTGTGTCA
868349 C
1 C
868350 TATCGGCGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.10, C:0.30, G:0.23, T:0.38
Consensus pattern (30 bp):
CGATCATTCCTCCCGGTGCTTGTTGTGTCA
Found at i:869174 original size:22 final size:21
Alignment explanation
Indices: 869146--869197 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 21
869136 GATATGATTT
869146 AAAAAAATTAAATATAAAAAAC
1 AAAAAAATTAAATAT-AAAAAC
* *
869168 AATAAAATTTAAATATCAAAAC
1 AA-AAAAATTAAATATAAAAAC
869190 AAAAAAAT
1 AAAAAAAT
869198 AATAGTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 5 0.19
22 9 0.35
23 12 0.46
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAAAAATTAAATATAAAAAC
Found at i:869179 original size:23 final size:22
Alignment explanation
Indices: 869146--869197 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
869136 GATATGATTT
869146 AAAAAAA-TTAAATATAAAAAAC
1 AAAAAAATTTAAATAT-AAAAAC
* *
869168 AATAAAATTTAAATATCAAAAC
1 AAAAAAATTTAAATATAAAAAC
869190 AAAAAAAT
1 AAAAAAAT
869198 AATAGTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAAAAATTTAAATATAAAAAC
Found at i:870636 original size:17 final size:17
Alignment explanation
Indices: 870614--870657 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
870604 AAATTTTAAA
*
870614 TTATATTATATTATATT
1 TTATATTATACTATATT
870631 TTATATTATACTATATT
1 TTATATTATACTATATT
*
870648 TTATAATATA
1 TTATATTATA
870658 GCAGGGATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATATTATACTATATT
Found at i:871255 original size:14 final size:14
Alignment explanation
Indices: 871236--871265 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
871226 TTTTTTTATC
*
871236 AAAATAAAATTTAA
1 AAAATAAAATATAA
871250 AAAATAAAATATAA
1 AAAATAAAATATAA
871264 AA
1 AA
871266 TCAACTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAATAAAATATAA
Found at i:871799 original size:23 final size:23
Alignment explanation
Indices: 871773--871822 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
871763 TTCCCGAGAA
871773 TCGACGTTAGTATCGTAAAAGAT
1 TCGACGTTAGTATCGTAAAAGAT
** *
871796 TCGATTTTAGTATCGTGAAAGAT
1 TCGACGTTAGTATCGTAAAAGAT
871819 TCGA
1 TCGA
871823 TTTTAGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (23 bp):
TCGACGTTAGTATCGTAAAAGAT
Found at i:871823 original size:23 final size:23
Alignment explanation
Indices: 871779--871828 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
871769 AGAATCGACG
871779 TTAGTATCGTAAAAGATTCGATT
1 TTAGTATCGTAAAAGATTCGATT
*
871802 TTAGTATCGTGAAAGATTCGATT
1 TTAGTATCGTAAAAGATTCGATT
871825 TTAG
1 TTAG
871829 GGTTTTCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (23 bp):
TTAGTATCGTAAAAGATTCGATT
Done.