Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008311.1 Hibiscus syriacus cultivar Beakdansim tig00111002_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: 1790494
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:793997 original size:12 final size:12
Alignment explanation
Indices: 793982--794045 Score: 60
Period size: 12 Copynumber: 5.4 Consensus size: 12
793972 TTGACCCTCA
*
793982 TTTTTATCTTCT
1 TTTTTATTTTCT
*
793994 TTTTTCTTTTCT
1 TTTTTATTTTCT
*
794006 TTTCT-TTTTCT
1 TTTTTATTTTCT
*
794017 TTTCTATTTTCT
1 TTTTTATTTTCT
*
794029 TTTCTT-TTTTAT
1 TTT-TTATTTTCT
794041 TTTTT
1 TTTTT
794046 TCTTCAAGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
11 13 0.29
12 31 0.69
13 1 0.02
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTATTTTCT
Found at i:794005 original size:5 final size:5
Alignment explanation
Indices: 793995--794049 Score: 58
Period size: 5 Copynumber: 10.4 Consensus size: 5
793985 TTATCTTCTT
*
793995 TTTTC TTTTC TTTTC TTTTTC TTTTC TATTTTC TTTTC TTTT- TTATTT
1 TTTTC TTTTC TTTTC -TTTTC TTTTC --TTTTC TTTTC TTTTC TT-TTC
794043 TTTTC TT
1 TTTTC TT
794050 CAAGCATAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
4 2 0.05
5 30 0.68
6 7 0.16
7 5 0.11
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:794008 original size:11 final size:11
Alignment explanation
Indices: 793995--794049 Score: 71
Period size: 11 Copynumber: 5.2 Consensus size: 11
793985 TTATCTTCTT
793995 TTTTC-TTTTC
1 TTTTCTTTTTC
794005 TTTTCTTTTTC
1 TTTTCTTTTTC
794016 TTTTCTATTTTC
1 TTTTCT-TTTTC
794028 TTTTCTTTTT-
1 TTTTCTTTTTC
*
794038 TATT-TTTTTC
1 TTTTCTTTTTC
794048 TT
1 TT
794050 CAAGCATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
9 5 0.12
10 9 0.22
11 15 0.38
12 11 0.28
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:794013 original size:28 final size:28
Alignment explanation
Indices: 793982--794036 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
793972 TTGACCCTCA
*
793982 TTTTTATCTTCTTTTTTCTTTTCTTTTC
1 TTTTTATCTTCTATTTTCTTTTCTTTTC
* *
794010 TTTTTCTTTTCTATTTTCTTTTCTTTT
1 TTTTTATCTTCTATTTTCTTTTCTTTT
794037 TTATTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (28 bp):
TTTTTATCTTCTATTTTCTTTTCTTTTC
Found at i:794016 original size:23 final size:23
Alignment explanation
Indices: 793990--794037 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
793980 CATTTTTATC
* *
793990 TTCTTTTTTCTTTTCTTTTCTTT
1 TTCTTTTCTATTTTCTTTTCTTT
794013 TTCTTTTCTATTTTCTTTTCTTT
1 TTCTTTTCTATTTTCTTTTCTTT
794036 TT
1 TT
794038 TATTTTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (23 bp):
TTCTTTTCTATTTTCTTTTCTTT
Found at i:807828 original size:55 final size:55
Alignment explanation
Indices: 807762--808060 Score: 352
Period size: 55 Copynumber: 5.4 Consensus size: 55
807752 CATTAAATAC
807762 AAGAAATTCATACTAAGTGGATAAATTTCCGTATGGGCACTTTATGTGTAAACTT
1 AAGAAATTCATACTAAGTGGATAAATTTCCGTATGGGCACTTTATGTGTAAACTT
* ** * * *
807817 AAGAAATTCATACTAAGTGAATAAATACCCATATCGACACTTTATGTGTAAACTT
1 AAGAAATTCATACTAAGTGGATAAATTTCCGTATGGGCACTTTATGTGTAAACTT
* * * *
807872 AAGATATTCATACTAAGTGGATGAATTTCCATATGGGCACTTTGTGTGTAAACTT
1 AAGAAATTCATACTAAGTGGATAAATTTCCGTATGGGCACTTTATGTGTAAACTT
* ** *
807927 AA-AGAATTCATACTAAGTGGATGAATTTATGTATGGGCACTTTGTGTGTAAACTT
1 AAGA-AATTCATACTAAGTGGATAAATTTCCGTATGGGCACTTTATGTGTAAACTT
* * * *
807982 AA-AGAATTCATACTAAGGGGATGAATTTCTGTATGGGCACTTTATGTGCAAAAC-T
1 AAGA-AATTCATACTAAGTGGATAAATTTCCGTATGGGCACTTTATGTG-TAAACTT
* * * *
808037 AGGAAATTTATACTACGTGTATAA
1 AAGAAATTCATACTAAGTGGATAA
808061 TTTTTTGTAT
Statistics
Matches: 213, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
54 1 0.00
55 207 0.97
56 5 0.02
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.34
Consensus pattern (55 bp):
AAGAAATTCATACTAAGTGGATAAATTTCCGTATGGGCACTTTATGTGTAAACTT
Found at i:819889 original size:26 final size:26
Alignment explanation
Indices: 819859--819909 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
819849 CCAAAAGGCG
* * *
819859 CGCTGAGTAGATCTTTTAGAAACTGT
1 CGCTGACTAGACCTTCTAGAAACTGT
819885 CGCTGACTAGACCTTCTAGAAACTG
1 CGCTGACTAGACCTTCTAGAAACTG
819910 CCACGTCCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
CGCTGACTAGACCTTCTAGAAACTGT
Found at i:822534 original size:22 final size:22
Alignment explanation
Indices: 822488--822563 Score: 122
Period size: 22 Copynumber: 3.6 Consensus size: 22
822478 TGAAAAAGTG
822488 GTATCGATACCATA--ATAG-A
1 GTATCGATACCATATTATAGTA
*
822507 GTATCGGTACCATATTATAGTA
1 GTATCGATACCATATTATAGTA
822529 GTATCGATACCATATTATAGTA
1 GTATCGATACCATATTATAGTA
822551 GTATCGATACCAT
1 GTATCGATACCAT
822564 GGTAAGGGTA
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
19 13 0.25
21 4 0.08
22 35 0.67
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (22 bp):
GTATCGATACCATATTATAGTA
Found at i:823003 original size:55 final size:55
Alignment explanation
Indices: 822919--823178 Score: 387
Period size: 55 Copynumber: 4.7 Consensus size: 55
822909 AAGAGTGCAA
822919 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
*
822974 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATAGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
* * *
823029 AAACTTAAGAAATTCATGCTAAGTGGATGAATTTCCATATGGGCACTTTGTGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
* ** * *
823084 AAACTTAAGGAATTCATACTAAGTGGATGAATTTATGTATGGGCACTTTATATGCA
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTG-T
* * * *
823140 AAAC-TAGGAAATTCATACTAAGTGTATAAATTTTCGTAT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTAT
823179 TGGTAGTGGG
Statistics
Matches: 185, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
55 181 0.98
56 4 0.02
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (55 bp):
AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
Found at i:823619 original size:27 final size:26
Alignment explanation
Indices: 823579--823629 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 26
823569 TTTTGTTTAC
*
823579 TTACGTAAGTTTAATGAATGTTTTATTA
1 TTACGTAAATTTAA--AATGTTTTATTA
823607 TTAC-TAAATTTAAAATGTTTTAT
1 TTACGTAAATTTAAAATGTTTTAT
823630 AAAAAGAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 10 0.45
27 8 0.36
28 4 0.18
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (26 bp):
TTACGTAAATTTAAAATGTTTTATTA
Found at i:825306 original size:19 final size:19
Alignment explanation
Indices: 825282--825318 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
825272 TAATAAGTGA
825282 GGGGAATTTTATTAGTGTG
1 GGGGAATTTTATTAGTGTG
825301 GGGGAATTTTATTAGTGT
1 GGGGAATTTTATTAGTGT
825319 TCAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (19 bp):
GGGGAATTTTATTAGTGTG
Found at i:828808 original size:36 final size:36
Alignment explanation
Indices: 828767--828842 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
828757 ATTTTCGGGA
*
828767 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
828803 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
828839 TTTT
1 TTTT
828843 TTTGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:829886 original size:3 final size:3
Alignment explanation
Indices: 829878--829956 Score: 126
Period size: 3 Copynumber: 27.0 Consensus size: 3
829868 TTTTGCCCGT
829878 TTA TTA TTA -TA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
829924 TAA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
829957 ATAAATAATT
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
2 4 0.06
3 66 0.94
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:830447 original size:17 final size:17
Alignment explanation
Indices: 830425--830463 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
830415 CCGGCCGCAA
830425 GGTTGGTGGCGGTAGAC
1 GGTTGGTGGCGGTAGAC
830442 GGTTGGTGGCGGTAGAC
1 GGTTGGTGGCGGTAGAC
830459 GGTTG
1 GGTTG
830464 CCGGCCGGTG
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:0.10, C:0.10, G:0.54, T:0.26
Consensus pattern (17 bp):
GGTTGGTGGCGGTAGAC
Found at i:831075 original size:14 final size:14
Alignment explanation
Indices: 831026--831077 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
831016 TTGTTTAGCC
831026 ATAT-TTTAATTTT
1 ATATATTTAATTTT
* *
831039 ATATGTTTAATTTA
1 ATATATTTAATTTT
831053 ATATATTTAATTATT
1 ATATATTTAATT-TT
831068 AT-TATTTAAT
1 ATATATTTAAT
831078 CATATATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
13 4 0.12
14 27 0.79
15 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (14 bp):
ATATATTTAATTTT
Found at i:831093 original size:24 final size:24
Alignment explanation
Indices: 831048--831098 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
831038 TATATGTTTA
*
831048 ATTTAATATATTTAATTATTAT-T
1 ATTTAATATATATAATTATTATCT
831071 ATTTAATCATATATAA-TATTTATCT
1 ATTTAAT-ATATATAATTA-TTATCT
831096 ATT
1 ATT
831099 AATTTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 9 0.38
24 11 0.46
25 4 0.17
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTAATATATATAATTATTATCT
Found at i:831973 original size:8 final size:9
Alignment explanation
Indices: 831922--831982 Score: 51
Period size: 8 Copynumber: 7.2 Consensus size: 9
831912 AAATTCTATA
831922 TATATTTAT
1 TATATTTAT
831931 TAT-TTTCAT
1 TATATTT-AT
*
831940 AATATTTA-
1 TATATTTAT
*
831948 TATATATA-
1 TATATTTAT
*
831956 TATATATAT
1 TATATTTAT
831965 TAT-TTTAT
1 TATATTTAT
831973 T-TATTTAT
1 TATATTTAT
831981 TA
1 TA
831983 ATGTTTTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
7 1 0.02
8 28 0.65
9 11 0.26
10 3 0.07
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
TATATTTAT
Found at i:836283 original size:20 final size:20
Alignment explanation
Indices: 836258--836300 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
836248 TCTAAGAGCC
*
836258 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
836278 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
836298 CAT
1 CAT
836301 GTGGTGGATT
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:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:845294 original size:20 final size:20
Alignment explanation
Indices: 845269--845311 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
845259 TCTAAGAACC
*
845269 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
845289 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
845309 CAT
1 CAT
845312 GTGGTGGATT
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:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:855458 original size:17 final size:17
Alignment explanation
Indices: 855436--855498 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 17
855426 CAACTGTTCC
855436 AGAAGAAGTTCATAATG
1 AGAAGAAGTTCATAATG
* *
855453 AGAAGAACTCTTCTGAAGAATG
1 AGAAGAA--GTTC---ATAATG
855475 AGAAGAAGTTCATAATG
1 AGAAGAAGTTCATAATG
855492 AGAAGAA
1 AGAAGAA
855499 CTTGTTTAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
17 19 0.51
19 3 0.08
20 3 0.08
22 12 0.32
ACGTcount: A:0.48, C:0.08, G:0.24, T:0.21
Consensus pattern (17 bp):
AGAAGAAGTTCATAATG
Found at i:855639 original size:113 final size:113
Alignment explanation
Indices: 855417--855837 Score: 595
Period size: 113 Copynumber: 3.7 Consensus size: 113
855407 CCATCATTAT
* * * *
855417 TTGATGGATCAAC-TGTTCCA-GAAGAAGTTCATAATGAGAAGAACTCTTCTGAAGAATG-AGAA
1 TTGATGGATCAACAT-TGCCAGGAAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAA
855479 GAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCA-
64 GAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCAC
* *
855528 TTCGATGGATCAAC-TGTTCCA-GAAGAAGTTCATAATGAGAAGAACTCATCTGAATAAGGAAAA
1 TT-GATGGATCAACAT-TGCCAGGAAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAA
855591 AGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCAC
63 AGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCAC
* * *
855642 TTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGA
* * *
855707 AGTTTATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCAC
66 AGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCAC
* * * *
855755 TTGATGGATCAGCATTGCTAGGTAGAGTTCATATTGAGAAGAACTCATCTGAAGAA-GAAAGAAG
1 TTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAA-AAG
855819 AAGTTCATAATGAGAAGAA
65 AAGTTCATAATGAGAAGAA
855838 GTTCATAATG
Statistics
Matches: 288, Mismatches: 16, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
111 2 0.01
112 56 0.19
113 224 0.78
114 6 0.02
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (113 bp):
TTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGA
AGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCAC
Found at i:855822 original size:226 final size:232
Alignment explanation
Indices: 855441--855981 Score: 669
Period size: 226 Copynumber: 2.3 Consensus size: 232
855431 GTTCCAGAAG
* *
855441 AAGTTCATAATGAGAAGAACTCTTCTGAAGAATG-AGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * *
855505 TAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTGTTCCAGAAGAAGTTCATAATGAGAAG
66 CAACCTTTTGCTCGAATTCATCATTCGATGGATCAACTGTGCCAGAAGAAGTTCATAATGAGAAG
*
855570 AACTCATCTGAATAAGGAAAAAGAAGTTCATAATGAGAAGAA-C-T-T-G-T-TT-AACCTTTTG
131 AACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAATCATATAGATGTTCAACCTTTTG
* * *
855628 CTTGAATTCATCACTTGATGGATCAGCATTGCCAG-GTA
196 CTAGAATTCAACACTTGA-GGATCAACATTGCCAGAG-A
* *
855666 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTTATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * *
855731 CAACCTTTTGCTCGAATTCATCACTT-GATGGATCAGCAT-TGCTAGGTAG-AGTTCATATTGAG
66 CAACCTTTTGCTCGAATTCATCA-TTCGATGGATCAAC-TGTGCCA-GAAGAAGTTCATAATGAG
855793 AAGAACTCATCTGAAGAA-GAAAGAAGAAGTTCATAATGAGAAGAAGTTCATAATGAGAAGAACT
128 AAGAACTCATCTGAAGAAGGAAA-AAGAAGTTCATAATGAGAAGAA--TCAT-AT----AG-A--
**
855857 TGTTCAACCTTTTGCTAGAATTCAACACTTGAGGATCAACATTTTCAGAGA
182 TGTTCAACCTTTTGCTAGAATTCAACACTTGAGGATCAACATTGCCAGAGA
* *
855908 AAGTTCATAATAAGAAGAACTCATCTGAAG-AGGAAGAAAAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
855972 CAACCTTTTG
66 CAACCTTTTG
855982 AGTTACATCA
Statistics
Matches: 272, Mismatches: 21, Indels: 30
0.84 0.07 0.09
Matches are distributed among these distances:
225 35 0.13
226 114 0.42
227 6 0.02
229 1 0.00
230 1 0.00
232 1 0.00
237 1 0.00
241 43 0.16
242 44 0.16
243 26 0.10
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (232 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTTTGCTCGAATTCATCATTCGATGGATCAACTGTGCCAGAAGAAGTTCATAATGAGAAG
AACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAATCATATAGATGTTCAACCTTTTG
CTAGAATTCAACACTTGAGGATCAACATTGCCAGAGA
Found at i:855846 original size:130 final size:128
Alignment explanation
Indices: 855701--855965 Score: 390
Period size: 130 Copynumber: 2.1 Consensus size: 128
855691 TGAAGAAGGA
* * *
855701 AGAAGAAGTTTATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTAGAATTCAACACTTGA-GGATCA
* * * * *
855766 GCATTGCT-AG-GTAGAGTTCATATTGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAA
65 ACATT-CTCAGAG-AAAGTTCATAATAAGAAGAACTCATCTGAAG-AGAAAGAAAAAGTTCATAA
855829 TG
127 TG
855831 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTAGAATTCAACACTTGAGGATCAA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTAGAATTCAACACTTGAGGATCAA
* *
855896 CATTTTCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATG
66 CATTCTCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAGAAAGAAAAAGTTCATAATG
855959 AGAAGAA
1 AGAAGAA
855966 CTTGTTCAAC
Statistics
Matches: 123, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
128 27 0.22
129 40 0.33
130 56 0.46
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.26
Consensus pattern (128 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTAGAATTCAACACTTGAGGATCAA
CATTCTCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAGAAAGAAAAAGTTCATAATG
Found at i:855862 original size:20 final size:17
Alignment explanation
Indices: 855814--855854 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
855804 TGAAGAAGAA
855814 AGAAGAAGTTCATAATG
1 AGAAGAAGTTCATAATG
855831 AGAAGAAGTTCATAATG
1 AGAAGAAGTTCATAATG
855848 AGAAGAA
1 AGAAGAA
855855 CTTGTTCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.51, C:0.05, G:0.24, T:0.20
Consensus pattern (17 bp):
AGAAGAAGTTCATAATG
Found at i:856195 original size:3 final size:3
Alignment explanation
Indices: 856175--856240 Score: 51
Period size: 3 Copynumber: 22.0 Consensus size: 3
856165 TTTTGCCCGT
* * * * * * *
856175 TTA TTT TTA TTT TTA TTA TTA TTA TTG TTG TTG TTA TAA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
856223 TTG TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
856241 CTAAATAATT
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:856199 original size:21 final size:21
Alignment explanation
Indices: 856175--856239 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
856165 TTTTGCCCGT
* * *
856175 TTATTTTTATTTTTATTATTA
1 TTATTGTTATTGTTATAATTA
*
856196 TTATTGTTGTTGTTATAATTA
1 TTATTGTTATTGTTATAATTA
*
856217 TTA---TAATTGTTATAATTA
1 TTATTGTTATTGTTATAATTA
856235 TTATT
1 TTATT
856240 ACTAAATAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
18 16 0.44
21 20 0.56
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (21 bp):
TTATTGTTATTGTTATAATTA
Found at i:857651 original size:23 final size:23
Alignment explanation
Indices: 857608--857651 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
857598 TATTTTAATA
* *
857608 TATTTAATTATTATTATTATTAT
1 TATTTAATCATTATTAATATTAT
857631 TATTTAATCA-TATATAATATT
1 TATTTAATCATTAT-TAATATT
857652 TATCTATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TATTTAATCATTATTAATATTAT
Found at i:861891 original size:17 final size:17
Alignment explanation
Indices: 861869--861907 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
861859 TAATAGTGAG
861869 TTATTATAAAATATATT
1 TTATTATAAAATATATT
*
861886 TTATTA-GAAATATATT
1 TTATTATAAAATATATT
861902 TT-TTAT
1 TTATTAT
861908 TTTTATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 3 0.15
16 11 0.55
17 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTATTATAAAATATATT
Found at i:861917 original size:14 final size:14
Alignment explanation
Indices: 861898--861928 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
861888 ATTAGAAATA
861898 TATTTTT-TATTTT
1 TATTTTTATATTTT
861911 TATTTTTATATTTT
1 TATTTTTATATTTT
861925 TATT
1 TATT
861929 ATAGTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TATTTTTATATTTT
Found at i:863837 original size:15 final size:15
Alignment explanation
Indices: 863800--863842 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
863790 TTAATTATAG
863800 TTAAAATAAAAAAAA
1 TTAAAATAAAAAAAA
* * *
863815 TTATAATAAAATAAT
1 TTAAAATAAAAAAAA
863830 TTAAAATATAAAA
1 TTAAAATA-AAAA
863843 TTAATTTGAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 19 0.86
16 3 0.14
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TTAAAATAAAAAAAA
Found at i:863842 original size:17 final size:18
Alignment explanation
Indices: 863820--863856 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
863810 AAAAATTATA
863820 ATAAAA-TAATTTAAAAT
1 ATAAAATTAATTTAAAAT
*
863837 ATAAAATTAATTTGAAAT
1 ATAAAATTAATTTAAAAT
863855 AT
1 AT
863857 GTCACTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAAAATTAATTTAAAAT
Found at i:865604 original size:27 final size:27
Alignment explanation
Indices: 865567--865641 Score: 118
Period size: 27 Copynumber: 2.8 Consensus size: 27
865557 GTCGGACGTG
865567 GCAG-TTTCTAGAAGGTCTAGTCAGCA
1 GCAGTTTTCTAGAAGGTCTAGTCAGCA
865593 GCAGTTTTCTAGAAGGT-TCAGTCAGCA
1 GCAGTTTTCTAGAAGGTCT-AGTCAGCA
*
865620 ACAGTTTTCTAGAAGGTCTAGT
1 GCAGTTTTCTAGAAGGTCTAGT
865642 AAGAACTTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
26 5 0.11
27 39 0.87
28 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (27 bp):
GCAGTTTTCTAGAAGGTCTAGTCAGCA
Found at i:875383 original size:45 final size:46
Alignment explanation
Indices: 875332--875449 Score: 150
Period size: 45 Copynumber: 2.6 Consensus size: 46
875322 ACCGTTTTGT
**
875332 ATTTTCATTTATGGCATCCTTTCATACCACTTATGCACTATT-TAC
1 ATTTTCATTTATGGCATCCTTTCATACCAAATATGCACTATTGTAC
* * *
875377 ATTTTCATTTATGGCATCCTTTCATACTAAATATGCATTGTTGTAC
1 ATTTTCATTTATGGCATCCTTTCATACCAAATATGCACTATTGTAC
* * *
875423 A-TTTAATATATGACATCCTTTCATACC
1 ATTTTCATTTATGGCATCCTTTCATACC
875450 GTTAATGCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 59 0.94
46 4 0.06
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (46 bp):
ATTTTCATTTATGGCATCCTTTCATACCAAATATGCACTATTGTAC
Found at i:876239 original size:81 final size:81
Alignment explanation
Indices: 875491--876227 Score: 1021
Period size: 81 Copynumber: 9.1 Consensus size: 81
875481 TAAATCCTTA
* * * * *
875491 AATCTTTTACCCAAAGGCATTTAGCCTTTCATCTAACTGGCATAATTGACACATTTATG-CCAAT
1 AATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAAT
*
875555 GCATAGCTAGGCTATT
66 GCACAGCTAGGCTATT
* * * * *
875571 AATATTTTACTCAAATGCATTTAACCTTTCATCTAACTGGCATAATTGAAACCTTTCTGTCAAAT
1 AATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAAT
*
875636 GCACAGCTAGGATATT
66 GCACAGCTAGGCTATT
* * * *
875652 AATATGTTACTCAAATGTATTTAACCTTTCATCTAACTAGCATAATTGACACATTTCTGTCAAAT
1 AATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAAT
** *
875717 GCACATTTAGGATATT
66 GCACAGCTAGGCTATT
* ** * * *
875733 AATCTTCTACTCAAATATATTTAACCTTTCATCTAACTGGAATAATTTACACATTTCTATCAAAT
1 AATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAAT
*
875798 GCACAACTAGGCTATT
66 GCACAGCTAGGCTATT
* **
875814 AATCTTTTACCCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACATTTTTCTGTCAAAT
1 AATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAAT
*
875879 GCACAACTAGGCTATT
66 GCACAGCTAGGCTATT
* * * **
875895 AATCTTTTACTCAAAGGTATTGAACCTTTGATCTAACTGACATAATTG-CATTTTTCTGTCAAAT
1 AATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAAT
875959 GCACAGCTAGGCTATT
66 GCACAGCTAGGCTATT
* *
875975 AATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTT-TGTCAAAT
1 AATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAAT
*
876039 GCACATCTAGGCTATT
66 GCACAGCTAGGCTATT
* * * *
876055 AATCTTTTACCCAAAGGTATTTAACTTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAAAT
1 AATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAAT
*
876120 GCATAGCTAGGCTATT
66 GCACAGCTAGGCTATT
* * * *
876136 AATCTTTTACTCAAAGGTATTTAACTTTTCATCTAAATGGTATAATTGACACATTTCTATCAAAT
1 AATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAAT
*
876201 GCATAGCTAGGCTATT
66 GCACAGCTAGGCTATT
876217 AATCTTTTACT
1 AATCTTTTACT
876228 TTAAACAATT
Statistics
Matches: 594, Mismatches: 60, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
80 203 0.34
81 391 0.66
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (81 bp):
AATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAAT
GCACAGCTAGGCTATT
Found at i:876670 original size:22 final size:22
Alignment explanation
Indices: 876639--876716 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 22
876629 TACCCCTACC
*
876639 ATGGTGTCGATACTTCTATACT
1 ATGGTATCGATACTTCTATACT
*
876661 ATGGTATCGATATCTT-TCT-CT
1 ATGGTATCGATA-CTTCTATACT
* * *
876682 CT-GTATCGATACTACTACACT
1 ATGGTATCGATACTTCTATACT
*
876703 ATGGTACCGATACT
1 ATGGTATCGATACT
876717 CCCTTTCGGT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
19 2 0.05
20 10 0.23
21 6 0.14
22 23 0.52
23 3 0.07
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.38
Consensus pattern (22 bp):
ATGGTATCGATACTTCTATACT
Found at i:886184 original size:3 final size:3
Alignment explanation
Indices: 886171--886265 Score: 59
Period size: 3 Copynumber: 32.3 Consensus size: 3
886161 AAACATAAGC
* * * ** ** *
886171 AAT ATT AAT AAT AAT ACT AAT AAT AAT TAT AAT TTT AAT TGT CAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
886219 AAT AAC AAT AAT AGT TAT AAT -AT AAT ATT AAT AAT TAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
886265 A
1 A
886266 TTTATAACCC
Statistics
Matches: 65, Mismatches: 25, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
2 4 0.06
3 61 0.94
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (3 bp):
AAT
Found at i:886250 original size:20 final size:20
Alignment explanation
Indices: 886193--886267 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
886183 AATACTAATA
* * *
886193 ATAATTATAATTTTAATTGTC
1 ATAA-TATAATATTAATAGTT
* *
886214 ATAATAATAACAATAATAGTT
1 ATAAT-ATAATATTAATAGTT
*
886235 ATAATATAATATTAATAATT
1 ATAATATAATATTAATAGTT
886255 ATAATATAATATT
1 ATAATATAATATT
886268 TATAACCCGG
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
20 26 0.58
21 19 0.42
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (20 bp):
ATAATATAATATTAATAGTT
Found at i:886272 original size:20 final size:20
Alignment explanation
Indices: 886227--886272 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
886217 ATAATAACAA
*
886227 TAATAGTTATAATATAATAT
1 TAATAATTATAATATAATAT
886247 TAATAATTATAATATAATAT
1 TAATAATTATAATATAATAT
*
886267 TTATAA
1 TAATAA
886273 CCCGGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
TAATAATTATAATATAATAT
Found at i:886482 original size:53 final size:53
Alignment explanation
Indices: 886439--886814 Score: 524
Period size: 53 Copynumber: 7.1 Consensus size: 53
886429 TTCGACCAGT
*
886439 GGGTTCGCTCCCTCTTGCTTCAGTGAGTAGAACTCGAACAATCTTCTGCCTAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* * *
886492 GGGTTTC-CTCCCTCTTGCTTCAGGGAGTAGAACTCGAATAATCTTCTACCTAT
1 GGG-TTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* *
886545 GGGTTTGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATTTTCTGCCTAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
886598 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* * * *
886651 AGGTTCGCTCCCTTTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACCTAT
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* ** * *
886704 GGGTTCACTTTCTCTTGCTTCAGGGAGTAGAACTCGGACAATCATCTGCCTAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* * * * * *
886757 GGGTTTGCT--CTCTTGATTTAGGGAGTAGAACTCGAACAATATTCCGTCTAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
*
886808 GAGTTCG
1 GGGTTCG
886815 TTTCACTATT
Statistics
Matches: 286, Mismatches: 35, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
51 40 0.14
52 2 0.01
53 241 0.84
54 3 0.01
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.31
Consensus pattern (53 bp):
GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
Found at i:887266 original size:42 final size:42
Alignment explanation
Indices: 887186--887267 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
887176 CAAATTATTT
* * * *
887186 GAAGGATTTAATCATCATGCTTGAAATACTTACTGATGGCCC
1 GAAGGACTTAATCATCATGCTCGAAAGACTTACCGATGGCCC
* * *
887228 GAAGGACTTCATCATCATGGTCGAAAGACTTCCCGATGGC
1 GAAGGACTTAATCATCATGCTCGAAAGACTTACCGATGGC
887268 ACTTACTGAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (42 bp):
GAAGGACTTAATCATCATGCTCGAAAGACTTACCGATGGCCC
Found at i:887379 original size:135 final size:135
Alignment explanation
Indices: 887146--887393 Score: 361
Period size: 135 Copynumber: 1.8 Consensus size: 135
887136 TACTAATGAA
* *** *
887146 TTTGCTTCACTACTCTTCGGTGAAGGCTTACAAATTATTTGAAGGATTTAATCATCATGCTTGAA
1 TTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTAACCGAAGGATTTAATCATCATGCTCGAA
* * * *
887211 ATACTTACTGATGGCCCGAAGGACTTCATCATCATGGTCGAAAGACTTCCCGATGGCACTTACTG
66 AGACTTACTGATGGCCCGAAGGACTTAAGCATCATGCTCGAAAGACTTCCCGATGGCACTTACTG
887276 ATGGG
131 ATGGG
* * *
887281 TTTGCTTCACTACTTTTCCGTGAAGGCTTATAAATTAACCGAAGTATTTAATCATCATGCTCGAA
1 TTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTAACCGAAGGATTTAATCATCATGCTCGAA
* * *
887346 AGACTTACTGATGGCTCTAAGGATTTAAGCATCATGCTCGAAAGACTT
66 AGACTTACTGATGGCCCGAAGGACTTAAGCATCATGCTCGAAAGACTT
887394 ATTGATGAAC
Statistics
Matches: 98, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
135 98 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (135 bp):
TTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTAACCGAAGGATTTAATCATCATGCTCGAA
AGACTTACTGATGGCCCGAAGGACTTAAGCATCATGCTCGAAAGACTTCCCGATGGCACTTACTG
ATGGG
Found at i:887410 original size:42 final size:42
Alignment explanation
Indices: 887317--887410 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
887307 CTTATAAATT
* *
887317 AACCGAAGTATTTAATCATCATGCTCGAAAGACTTACTGATG
1 AACCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATG
* * *
887359 -GCTCTAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATG
1 AAC-CGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATG
887401 AACCGAAGGA
1 AACCGAAGGA
887411 CTTACTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.02
42 41 0.95
43 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (42 bp):
AACCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATG
Found at i:897449 original size:20 final size:20
Alignment explanation
Indices: 897410--897466 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
897400 AATTTTTTTT
* *
897410 GTTATAATAATAACAATAATA
1 GTTATAAT-ATAATATTAATA
897431 GTTATAATATAATATTAATA
1 GTTATAATATAATATTAATA
*
897451 ATTATAATATAATATT
1 GTTATAATATAATATT
897467 TATAACCCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 25 0.76
21 8 0.24
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (20 bp):
GTTATAATATAATATTAATA
Found at i:897463 original size:14 final size:15
Alignment explanation
Indices: 897425--897471 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
897415 AATAATAACA
897425 ATAATAGTT-ATAA-T
1 ATAATA-TTAATAATT
897439 ATAATATTAATAATT
1 ATAATATTAATAATT
*
897454 ATAATA-TAATATTT
1 ATAATATTAATAATT
897468 ATAA
1 ATAA
897472 CCCGAACAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 2 0.07
14 21 0.70
15 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
ATAATATTAATAATT
Found at i:897771 original size:24 final size:24
Alignment explanation
Indices: 897741--897802 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
897731 TTTCCTTTTT
*
897741 AATAAAACTAACAAGTTTTATTTG
1 AATAAAACTAACAACTTTTATTTG
*
897765 AATAAAACTAACGACTTTTATTTG
1 AATAAAACTAACAACTTTTATTTG
*
897789 CATAAAACTAACAA
1 AATAAAACTAACAA
897803 TATTAATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (24 bp):
AATAAAACTAACAACTTTTATTTG
Found at i:904716 original size:13 final size:13
Alignment explanation
Indices: 904698--904723 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
904688 TATTTCCTTT
904698 TACAAAATAGGAA
1 TACAAAATAGGAA
904711 TACAAAATAGGAA
1 TACAAAATAGGAA
904724 ACTAAATTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.15, T:0.15
Consensus pattern (13 bp):
TACAAAATAGGAA
Found at i:904752 original size:52 final size:56
Alignment explanation
Indices: 904669--904819 Score: 145
Period size: 58 Copynumber: 2.7 Consensus size: 56
904659 CCTAAAACAT
* * * *
904669 GAAAATAAATCCAATGAGTTATTTCCTTTTACAAAATAGGAAT-ACA-AA-A-TAG
1 GAAACTAAATTCAATGATTTATTTTCTTTTACAAAATAGGAATCACATAAGATTAG
* *
904721 GAAACTAAATTCTAA-GATTTATTTTCTTTTAC-ATATCA-GAATCATATAAGATTCTTAG
1 GAAACTAAATTC-AATGATTTATTTTCTTTTACAAAAT-AGGAATCACATAAGA---TTAG
*
904779 GAAATTAAATTCAATGATTTATTTTCTTTTACAAAATAGGA
1 GAAACTAAATTCAATGATTTATTTTCTTTTACAAAATAGGA
904820 CAATAAATCC
Statistics
Matches: 79, Mismatches: 8, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
51 7 0.09
52 28 0.35
53 4 0.05
54 1 0.01
57 2 0.03
58 32 0.41
59 5 0.06
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (56 bp):
GAAACTAAATTCAATGATTTATTTTCTTTTACAAAATAGGAATCACATAAGATTAG
Found at i:905226 original size:58 final size:58
Alignment explanation
Indices: 905095--905309 Score: 188
Period size: 58 Copynumber: 3.7 Consensus size: 58
905085 TTTATTTTTT
* * * *
905095 ATTCAATATTCCCGAGAAAATAATTTTAGCAATTTATTTTCTTTAATAAAATAGAATC
1 ATTCAATATTCTCAAGAAAATAAATTTAACAATTTATTTTCTTTAATAAAATAGAATC
* * * *
905153 ATTTAAGATTATCAAGAAAATAAATTTAACAATTTATTTCTTTTTAA-AAAGATAGAATC
1 ATTCAATATTCTCAAGAAAATAAATTTAACAATTTATTT-TCTTTAATAAA-ATAGAATC
* * * * **
905212 A-TCCATATTCTCAAGAAACA-AAATTCAATAATTTATTTTCCTTACGAAGTAA-A-AATC
1 ATTCAATATTCTCAAGAAA-ATAAATTTAACAATTTATTTTCTTTAATAA--AATAGAATC
* * **
905269 ATTCAAGATTCTTAAGAAAATAAATTTAATTATTTATTTTC
1 ATTCAATATTCTCAAGAAAATAAATTTAACAATTTATTTTC
905310 GTTATGAATC
Statistics
Matches: 127, Mismatches: 22, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
57 10 0.08
58 99 0.78
59 17 0.13
60 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (58 bp):
ATTCAATATTCTCAAGAAAATAAATTTAACAATTTATTTTCTTTAATAAAATAGAATC
Found at i:905331 original size:51 final size:51
Alignment explanation
Indices: 905265--905412 Score: 167
Period size: 51 Copynumber: 2.8 Consensus size: 51
905255 ACGAAGTAAA
* *
905265 AATCATTCAAGATTCTTAAGAAAATAAATTTAATTATTTATTTT-C-GTTATG
1 AATCATTTAAGATTCTTAAG-AAATAAATTTAACTATTTATTTTACAGTTA-G
* * *
905316 AATCATTTAAAATTCTTAAGGAAATAAATTAAACTATTTTTTTTACAAAGTTAG
1 AATCATTTAAGATTCTTAA-GAAATAAATTTAACTATTTATTTTAC--AGTTAG
*
905370 AATCATTTAAGATTCTCAATGAAATAAA-TTAACTATTTATTTT
1 AATCATTTAAGATTCTTAA-GAAATAAATTTAACTATTTATTTT
905413 TCTTACGATG
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
51 37 0.45
52 2 0.02
53 13 0.16
54 26 0.32
55 4 0.05
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (51 bp):
AATCATTTAAGATTCTTAAGAAATAAATTTAACTATTTATTTTACAGTTAG
Found at i:905643 original size:45 final size:44
Alignment explanation
Indices: 905593--905796 Score: 205
Period size: 45 Copynumber: 4.5 Consensus size: 44
905583 AAATTAATTC
* *
905593 TTTAATTTTAGCAACCCAATAATCACAAGGAATTAA-TCTTTTGAT
1 TTTAATTTTCGCAATCCAATAATCA-AAGGAATTAATTC-TTTGAT
* * *
905638 TTTAATGTTT-GCAATTCAATAATTGAAAGGATTTAATTCTTTGAT
1 TTTAAT-TTTCGCAATCCAATAA-TCAAAGGAATTAATTCTTTGAT
* * *
905683 TTTAATTTTCGCAATTCAATAATCGAAAGGAACTAATTATTTGAT
1 TTTAATTTTCGCAATCCAATAATC-AAAGGAATTAATTCTTTGAT
* ** *
905728 TTTAATTTTCGTAATCCAATAATCAAAATAAATTGATTCTTTGAT
1 TTTAATTTTCGCAATCCAATAATC-AAAGGAATTAATTCTTTGAT
* * *
905773 TTTAATTTTTGAAACCCAATAATC
1 TTTAATTTTCGCAATCCAATAATC
905797 GAAGTTTTGG
Statistics
Matches: 135, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
44 4 0.03
45 124 0.92
46 7 0.05
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (44 bp):
TTTAATTTTCGCAATCCAATAATCAAAGGAATTAATTCTTTGAT
Found at i:905713 original size:90 final size:90
Alignment explanation
Indices: 905593--905799 Score: 240
Period size: 90 Copynumber: 2.3 Consensus size: 90
905583 AAATTAATTC
* *
905593 TTTAATTTTAGCAACCCAATAATC-ACAAGGAATTAATCT-TTTGATTTTAATGTTT-GCAATTC
1 TTTAATTTTAGCAACCCAATAATCGA-AAGGAACTAAT-TATTTGATTTTAAT-TTTCGCAATCC
** * *
905655 AATAATTGAAAGGATTTAATTCTTTGAT
63 AATAATCAAAAGAAATTAATTCTTTGAT
* ** *
905683 TTTAATTTTCGCAATTCAATAATCGAAAGGAACTAATTATTTGATTTTAATTTTCGTAATCCAAT
1 TTTAATTTTAGCAACCCAATAATCGAAAGGAACTAATTATTTGATTTTAATTTTCGCAATCCAAT
* *
905748 AATCAAAATAAATTGATTCTTTGAT
66 AATCAAAAGAAATTAATTCTTTGAT
* *
905773 TTTAATTTTTGAAACCCAATAATCGAA
1 TTTAATTTTAGCAACCCAATAATCGAA
905800 GTTTTGGATT
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
89 4 0.04
90 93 0.95
91 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.42
Consensus pattern (90 bp):
TTTAATTTTAGCAACCCAATAATCGAAAGGAACTAATTATTTGATTTTAATTTTCGCAATCCAAT
AATCAAAAGAAATTAATTCTTTGAT
Found at i:909146 original size:3 final size:3
Alignment explanation
Indices: 909133--909204 Score: 135
Period size: 3 Copynumber: 23.7 Consensus size: 3
909123 AAAATGTGTA
909133 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
909179 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
909205 CGAGAACCCA
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 65 0.96
4 3 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:909581 original size:20 final size:21
Alignment explanation
Indices: 909556--909601 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
909546 TTTTCCAAGA
*
909556 AAAAC-TGTCTCAAGAGATAC
1 AAAACTTGTCTCAAGAGAAAC
*
909576 AAAACTTTGTTTCAAGAGAAAC
1 AAAAC-TTGTCTCAAGAGAAAC
909598 AAAA
1 AAAA
909602 TCAAAGACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
22 17 0.77
ACGTcount: A:0.50, C:0.15, G:0.13, T:0.22
Consensus pattern (21 bp):
AAAACTTGTCTCAAGAGAAAC
Found at i:909615 original size:30 final size:30
Alignment explanation
Indices: 909581--909657 Score: 145
Period size: 30 Copynumber: 2.6 Consensus size: 30
909571 GATACAAAAC
*
909581 TTTGTTTCAAGAGAAACAAAATCAAAGACT
1 TTTGTTTAAAGAGAAACAAAATCAAAGACT
909611 TTTGTTTAAAGAGAAACAAAATCAAAGACT
1 TTTGTTTAAAGAGAAACAAAATCAAAGACT
909641 TTTGTTTAAAGAGAAAC
1 TTTGTTTAAAGAGAAAC
909658 TGTCTCAGGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (30 bp):
TTTGTTTAAAGAGAAACAAAATCAAAGACT
Found at i:909728 original size:68 final size:67
Alignment explanation
Indices: 909603--909761 Score: 182
Period size: 68 Copynumber: 2.3 Consensus size: 67
909593 GAAACAAAAT
*
909603 CAAAGACTTTTGTTTAAAGAGAAACAAAATCAAAGACTTTTGTTTAAAGAGAAACTGTCTC-AGG
1 CAAA-ACTTTT-TTTCAAGAGAAACAAAATCAAAGACTTTTGTTTAAAGAGAAACTGTCTCAAGG
909667 AGAGA
64 -GAGA
** *
909672 CAAAACATTTTTTTCAAGAGAAACAATCTCAAA-A-TTTTACGTTTAAAGATAAACTGTCTCAAG
1 CAAAAC-TTTTTTTCAAGAGAAACAAAATCAAAGACTTTT--GTTTAAAGAGAAACTGTCTCAAG
*
909735 GGGGA
63 GGAGA
*
909740 CAAAAC-TTATTTCAAGAGAAAC
1 CAAAACTTTTTTTCAAGAGAAAC
909762 TGTCTTAAGA
Statistics
Matches: 80, Mismatches: 6, Indels: 11
0.82 0.06 0.11
Matches are distributed among these distances:
66 19 0.24
67 1 0.01
68 49 0.61
69 11 0.14
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (67 bp):
CAAAACTTTTTTTCAAGAGAAACAAAATCAAAGACTTTTGTTTAAAGAGAAACTGTCTCAAGGGA
GA
Found at i:909762 original size:36 final size:36
Alignment explanation
Indices: 909717--909797 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
909707 TTTACGTTTA
* * *
909717 AAGATAAACTGTCTCAAGGGGGACAAAACTTATTTC
1 AAGAGAAACTGTCTCAAGAGAGACAAAACTTATTTC
* *
909753 AAGAGAAACTGTCTTAAGAGAGACAAAATTTATTTC
1 AAGAGAAACTGTCTCAAGAGAGACAAAACTTATTTC
*
909789 AAGGGAAAC
1 AAGAGAAAC
909798 AATCTCAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (36 bp):
AAGAGAAACTGTCTCAAGAGAGACAAAACTTATTTC
Found at i:916292 original size:16 final size:15
Alignment explanation
Indices: 916273--916321 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
916263 AAAATAAACT
916273 AAAATGAAACAAAATA
1 AAAAT-AAACAAAATA
916289 AAAATAAA-AAGAGATA
1 AAAATAAACAA-A-ATA
*
916305 AAAATAATCAAAATA
1 AAAATAAACAAAATA
916320 AA
1 AA
916322 TAAACGTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 2 0.07
15 9 0.31
16 16 0.55
17 2 0.07
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (15 bp):
AAAATAAACAAAATA
Found at i:918638 original size:17 final size:17
Alignment explanation
Indices: 918602--918673 Score: 66
Period size: 15 Copynumber: 4.6 Consensus size: 17
918592 AGATTCAATC
*
918602 GAAACAAATAG-AAA-A
1 GAAACAAAGAGCAAAGA
*
918617 GAAACGAAGAGCAAAGA
1 GAAACAAAGAGCAAAGA
918634 GAAAC-AA-AGCAAA-A
1 GAAACAAAGAGCAAAGA
*
918648 -AAAAAAAGAGCAAAGA
1 GAAACAAAGAGCAAAGA
*
918664 AAAACAAAGA
1 GAAACAAAGA
918674 AAAAAATAGG
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
13 3 0.06
14 3 0.06
15 21 0.45
16 6 0.13
17 14 0.30
ACGTcount: A:0.71, C:0.10, G:0.18, T:0.01
Consensus pattern (17 bp):
GAAACAAAGAGCAAAGA
Found at i:918659 original size:30 final size:29
Alignment explanation
Indices: 918623--918679 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
918613 AAAAGAAACG
*
918623 AAGAGCAAAGAGAAACAAAGCAAAAAAAAA
1 AAGAGCAAAGAAAAACAAAG-AAAAAAAAA
918653 AAGAGCAAAGAAAAACAAAGAAAAAAA
1 AAGAGCAAAGAAAAACAAAGAAAAAAA
918680 TAGGACAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.75, C:0.09, G:0.16, T:0.00
Consensus pattern (29 bp):
AAGAGCAAAGAAAAACAAAGAAAAAAAAA
Found at i:918673 original size:10 final size:10
Alignment explanation
Indices: 918628--918677 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
918618 AAACGAAGAG
*
918628 CAAAGAGAAA
1 CAAAGAAAAA
918638 CAAAGCAAAAA
1 CAAAG-AAAAA
*
918649 -AAA-AAAGAG
1 CAAAGAAA-AA
918658 CAAAGAAAAA
1 CAAAGAAAAA
918668 CAAAGAAAAA
1 CAAAGAAAAA
918678 AATAGGACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
8 3 0.09
9 1 0.03
10 22 0.67
11 7 0.21
ACGTcount: A:0.76, C:0.10, G:0.14, T:0.00
Consensus pattern (10 bp):
CAAAGAAAAA
Found at i:919707 original size:32 final size:32
Alignment explanation
Indices: 919644--919707 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
919634 CAAGAAATGA
*
919644 TGAATGATGGGGCATCTTTAGAGATTTAACAT
1 TGAATGATGGGGCATCTTTAGAGATTCAACAT
* * *
919676 TGAATGTTGGGGCATCTTTGGGGATTCAACAT
1 TGAATGATGGGGCATCTTTAGAGATTCAACAT
919708 CCTGATGTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.34
Consensus pattern (32 bp):
TGAATGATGGGGCATCTTTAGAGATTCAACAT
Found at i:920319 original size:83 final size:85
Alignment explanation
Indices: 920124--920353 Score: 236
Period size: 83 Copynumber: 2.7 Consensus size: 85
920114 AGAATGCATG
* * * *
920124 CCATCCTCATCACGTAAGAACCGTGTCATCCCCCAACAGACGTCCTCATCACATAGGAACCATGT
1 CCATCCTCATCACGTAGGAACCGTGTCATCCCCCACCAGACCTCCTCATCACATAGGAGCCA-GT
** *
920189 TATCATCCTTAAAGATGGCCTG
65 TATCATCCTT-AAGATGAACTA
* *
920211 CCATCCTCATCATGTAGGAATCGTGTCATCCACCCACCAGACCTCCTCATCACATAGGAGCC-G-
1 CCATCCTCATCACGTAGGAACCGTGTCATCC-CCCACCAGACCTCCTCATCACATAGGAGCCAGT
* *
920274 TGTCA-CCTCT-AGCT-AACTA
65 TATCATCCT-TAAGATGAACTA
* * * *
920293 CTCATCCTCATCGCGTAGGAACCGTGTAATCCCCTGACCAGACCTCCTCATCACGTAGGAG
1 C-CATCCTCATCACGTAGGAACCGTGTCATCCCC-CACCAGACCTCCTCATCACATAGGAG
920354 TTGTGTCTTC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
82 5 0.04
83 53 0.43
84 3 0.02
85 5 0.04
86 1 0.01
87 28 0.23
88 27 0.22
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (85 bp):
CCATCCTCATCACGTAGGAACCGTGTCATCCCCCACCAGACCTCCTCATCACATAGGAGCCAGTT
ATCATCCTTAAGATGAACTA
Found at i:920350 original size:40 final size:39
Alignment explanation
Indices: 920214--920352 Score: 118
Period size: 40 Copynumber: 3.4 Consensus size: 39
920204 TGGCCTGCCA
* * *
920214 TCCTCATCATGTAGGAATCGTGTCATCCACCCACCAGACC
1 TCCTCATCACGTAGGAACCGTGTCATCC-CCTACCAGACC
* * * * *
920254 TCCTCATCACATAGGAGCCGTGTCA-CCTCTAGCTAACTACTC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCTA-C-CA-GAC-C
* *
920296 ATCCTCATCGCGTAGGAACCGTGTAATCCCCTGACCAGACC
1 -TCCTCATCACGTAGGAACCGTGTCATCCCCT-ACCAGACC
920337 TCCTCATCACGTAGGA
1 TCCTCATCACGTAGGA
920353 GTTGTGTCTT
Statistics
Matches: 76, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
38 2 0.03
39 3 0.04
40 37 0.49
41 3 0.04
42 3 0.04
43 22 0.29
44 5 0.07
45 1 0.01
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.23
Consensus pattern (39 bp):
TCCTCATCACGTAGGAACCGTGTCATCCCCTACCAGACC
Found at i:921977 original size:26 final size:28
Alignment explanation
Indices: 921947--922005 Score: 68
Period size: 31 Copynumber: 2.1 Consensus size: 28
921937 GAAAATTTTA
921947 AGCTC-GC-GAGTTTTCGAGTCGAGTCG
1 AGCTCTGCAGAGTTTTCGAGTCGAGTCG
*
921973 AGCTCTATTTCAGAGTTTTCGAGTCGAGTCG
1 AGCTC---TGCAGAGTTTTCGAGTCGAGTCG
922004 AG
1 AG
922006 TCGAGCTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 5 0.19
30 1 0.04
31 21 0.78
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.31
Consensus pattern (28 bp):
AGCTCTGCAGAGTTTTCGAGTCGAGTCG
Found at i:922777 original size:30 final size:29
Alignment explanation
Indices: 922743--922820 Score: 113
Period size: 30 Copynumber: 2.6 Consensus size: 29
922733 ATAATTTCCG
922743 TTTAGTCCTTTAACATTTTAT-TTTTACTAT
1 TTTAGTCCTTTAA-ATTTTATATTTT-CTAT
922773 TTTAGTCCTTTAAATTTCTATATTTTCTAT
1 TTTAGTCCTTTAAATTT-TATATTTTCTAT
*
922803 TTTAGTCTTTTAAATTTT
1 TTTAGTCCTTTAAATTTT
922821 TGTTAGTGCC
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
29 5 0.11
30 36 0.80
31 4 0.09
ACGTcount: A:0.23, C:0.12, G:0.04, T:0.62
Consensus pattern (29 bp):
TTTAGTCCTTTAAATTTTATATTTTCTAT
Found at i:925645 original size:18 final size:19
Alignment explanation
Indices: 925619--925655 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
925609 CATCTACCAC
925619 TTGTATTGAGA-TCATTTTT
1 TTGTATTGA-ACTCATTTTT
925638 TTGT-TTGAACTCATTTTT
1 TTGTATTGAACTCATTTTT
925656 GTTTTATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.06
18 12 0.71
19 4 0.24
ACGTcount: A:0.19, C:0.08, G:0.14, T:0.59
Consensus pattern (19 bp):
TTGTATTGAACTCATTTTT
Found at i:926566 original size:22 final size:22
Alignment explanation
Indices: 926535--926597 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
926525 AGATTCAATT
926535 GAAACAAAGAGAAAAGAAACAAA
1 GAAA-AAAGAGAAAAGAAACAAA
* *
926558 GAGAAAAGAGAAACA-AAGCAAA
1 GAAAAAAGAGAAA-AGAAACAAA
* *
926580 GAAAAAAAAGCAAAGAAA
1 GAAAAAAGAGAAAAGAAA
926598 AAGAGAGGAC
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
21 1 0.03
22 27 0.84
23 4 0.12
ACGTcount: A:0.73, C:0.08, G:0.19, T:0.00
Consensus pattern (22 bp):
GAAAAAAGAGAAAAGAAACAAA
Found at i:926575 original size:17 final size:15
Alignment explanation
Indices: 926535--926566 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
926525 AGATTCAATT
926535 GAAACAAAGAGAAAA
1 GAAACAAAGAGAAAA
926550 GAAACAAAGAGAAAA
1 GAAACAAAGAGAAAA
926565 GA
1 GA
926567 GAAACAAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.72, C:0.06, G:0.22, T:0.00
Consensus pattern (15 bp):
GAAACAAAGAGAAAA
Found at i:926580 original size:15 final size:15
Alignment explanation
Indices: 926535--926595 Score: 54
Period size: 14 Copynumber: 4.0 Consensus size: 15
926525 AGATTCAATT
*
926535 GAAACAAAG-AGAAAA
1 GAAACAAAGCA-AAGA
*
926550 GAAACAAAGAGAAAAGA
1 GAAAC-AA-AGCAAAGA
926567 GAAACAAAGCAAAGA
1 GAAACAAAGCAAAGA
*
926582 -AAAAAAAGCAAAGA
1 GAAACAAAGCAAAGA
926596 AAAAGAGAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
14 13 0.32
15 12 0.30
16 4 0.10
17 10 0.25
18 1 0.03
ACGTcount: A:0.72, C:0.08, G:0.20, T:0.00
Consensus pattern (15 bp):
GAAACAAAGCAAAGA
Found at i:926591 original size:14 final size:14
Alignment explanation
Indices: 926547--926599 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
926537 AACAAAGAGA
* *
926547 AAAGAAACAAAGAGA
1 AAAGAAA-AAAAAGC
*
926562 AAAGAGAAACAAAGC
1 AAAGA-AAAAAAAGC
926577 AAAGAAAAAAAAGC
1 AAAGAAAAAAAAGC
926591 AAAGAAAAA
1 AAAGAAAAA
926600 GAGAGGACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 17 0.52
15 14 0.42
16 2 0.06
ACGTcount: A:0.75, C:0.08, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAGC
Found at i:928691 original size:3 final size:3
Alignment explanation
Indices: 928683--928730 Score: 64
Period size: 3 Copynumber: 16.0 Consensus size: 3
928673 GGTCTACAAA
928683 ATT ATT ATTT ATAT ATT ATT A-T ATT A-T ATT ATT ATT ATT ATT ATT
1 ATT ATT A-TT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
928728 ATT
1 ATT
928731 TAATACAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.10
3 31 0.76
4 6 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:928709 original size:19 final size:19
Alignment explanation
Indices: 928683--928732 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
928673 GGTCTACAAA
928683 ATTATTATTTATATATTATT
1 ATTATTATTTAT-TATTATT
928703 A-TATTATATTATTATTATT
1 ATTATTAT-TTATTATTATT
928722 ATTATTATTTA
1 ATTATTATTTA
928733 ATACAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTATTATTTATTATTATT
Found at i:929410 original size:2 final size:2
Alignment explanation
Indices: 929403--929435 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
929393 ATAGAGAAAT
929403 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
929436 CACAGAGGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:930547 original size:30 final size:30
Alignment explanation
Indices: 930445--930536 Score: 139
Period size: 30 Copynumber: 3.1 Consensus size: 30
930435 CAACTTTCTA
*
930445 TTTTTGATATTTTAGTCCTTTAAATTTTTG
1 TTTTTGCTATTTTAGTCCTTTAAATTTTTG
* *
930475 TTTTTGCTATTTTAGTCCTTTAAACTTTTA
1 TTTTTGCTATTTTAGTCCTTTAAATTTTTG
* *
930505 TTTTTTCTATTTTAGTCCTTTAAGTTTTTG
1 TTTTTGCTATTTTAGTCCTTTAAATTTTTG
930535 TT
1 TT
930537 AGTGCCATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.17, C:0.10, G:0.09, T:0.64
Consensus pattern (30 bp):
TTTTTGCTATTTTAGTCCTTTAAATTTTTG
Found at i:930558 original size:60 final size:61
Alignment explanation
Indices: 930431--930558 Score: 159
Period size: 60 Copynumber: 2.1 Consensus size: 61
930421 ATTGTTTAAT
* ** * *
930431 CCTTCAACTTTCTATTTTTGATATTTTAGTCCTTTAAATTTTTGTTTTTGCTATTTTAGTC
1 CCTTAAACTTTCTATTTTTGATATTTTAGTCCTTTAAATTTTTGTTAGTGCCATTTTAGCC
* ** * *
930492 CTTTAAACTTT-TATTTTTTCTATTTTAGTCCTTTAAGTTTTTGTTAGTGCCATTTTGGCC
1 CCTTAAACTTTCTATTTTTGATATTTTAGTCCTTTAAATTTTTGTTAGTGCCATTTTAGCC
930552 CCTTAAA
1 CCTTAAA
930559 TCACCCTATG
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
60 47 0.84
61 9 0.16
ACGTcount: A:0.19, C:0.16, G:0.09, T:0.56
Consensus pattern (61 bp):
CCTTAAACTTTCTATTTTTGATATTTTAGTCCTTTAAATTTTTGTTAGTGCCATTTTAGCC
Found at i:932620 original size:15 final size:16
Alignment explanation
Indices: 932600--932630 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
932590 TAACGTTATT
932600 TTAAAATT-AAATTAA
1 TTAAAATTAAAATTAA
932615 TTAAAATTAAAATTAA
1 TTAAAATTAAAATTAA
932631 AATTTTCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAAAATTAAAATTAA
Found at i:933230 original size:19 final size:20
Alignment explanation
Indices: 933184--933230 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
933174 ATATTTTTTT
*
933184 AATAAATTTTTATTTATGAA
1 AATAAAATTTTATTTATGAA
*
933204 ATTAAAATTTTATGTT-T-AA
1 AATAAAATTTTAT-TTATGAA
933223 AATAAAAT
1 AATAAAAT
933231 ATTAAAAGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 9 0.39
20 12 0.52
21 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (20 bp):
AATAAAATTTTATTTATGAA
Found at i:952983 original size:21 final size:22
Alignment explanation
Indices: 952957--952997 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
952947 CAGGATAGGG
*
952957 GAGTATTGGTACT-CCTTTAAT
1 GAGTATCGGTACTACCTTTAAT
952978 GAGTATCGGTACTACCTTTA
1 GAGTATCGGTACTACCTTTA
952998 TAAAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (22 bp):
GAGTATCGGTACTACCTTTAAT
Found at i:964503 original size:20 final size:21
Alignment explanation
Indices: 964478--964518 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
964468 TAAAATCTCT
*
964478 AAACCCAA-ATCTTTAAATCC
1 AAACCCAATATCTCTAAATCC
964498 AAACCCAATATCTCTAAATCC
1 AAACCCAATATCTCTAAATCC
964519 CAACACACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (21 bp):
AAACCCAATATCTCTAAATCC
Found at i:969711 original size:14 final size:14
Alignment explanation
Indices: 969692--969729 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
969682 CCCTGTCTTG
*
969692 AAATTTCGCCCACA
1 AAATTTCACCCACA
969706 AAATTTCACCCACA
1 AAATTTCACCCACA
969720 AAATTTCACC
1 AAATTTCACC
969730 GGCCTCTCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.39, C:0.34, G:0.03, T:0.24
Consensus pattern (14 bp):
AAATTTCACCCACA
Found at i:971365 original size:3 final size:3
Alignment explanation
Indices: 971359--971391 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
971349 TTTAATTTTT
971359 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
971392 AACTTTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:978048 original size:3 final size:3
Alignment explanation
Indices: 978042--978071 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
978032 TTAATAATAA
978042 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
978072 TTCAAGTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:985341 original size:20 final size:21
Alignment explanation
Indices: 985318--985364 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
985308 ACTATATAAC
985318 ATAT-TATATTTTCAAAAACT
1 ATATATATATTTTCAAAAACT
* *
985338 ATATAATATGTTTTCAAAAATT
1 ATAT-ATATATTTTCAAAAACT
985360 ATATA
1 ATATA
985365 CATTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 1 0.04
22 18 0.78
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (21 bp):
ATATATATATTTTCAAAAACT
Found at i:985418 original size:43 final size:42
Alignment explanation
Indices: 985342--985446 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 42
985332 AAAACTATAT
*
985342 AATATGTTTTCAAAAAT-TATATACATTATATATGTTTTCAAA
1 AATATGTTTTCAAAACTATATATACATTATATATGTTTT-AAA
* *
985384 AATTAT-TTTT-AAAACTATATATATATGTATATATGTTTTTAA
1 AA-TATGTTTTCAAAACTATATATACAT-TATATATGTTTTAAA
985426 AATATGTTTTCAAAACTATAT
1 AATATGTTTTCAAAACTATAT
985447 TATGTACGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
41 8 0.15
42 22 0.40
43 25 0.45
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.48
Consensus pattern (42 bp):
AATATGTTTTCAAAACTATATATACATTATATATGTTTTAAA
Found at i:985508 original size:12 final size:12
Alignment explanation
Indices: 985491--985515 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
985481 TATATATTAT
985491 ATATTTTCAAAA
1 ATATTTTCAAAA
985503 ATATTTTCAAAA
1 ATATTTTCAAAA
985515 A
1 A
985516 CTATACTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATTTTCAAAA
Found at i:985526 original size:39 final size:40
Alignment explanation
Indices: 985348--985527 Score: 119
Period size: 43 Copynumber: 4.5 Consensus size: 40
985338 ATATAATATG
* * *
985348 TTTTCAAAAATTATATACATTATATATGTTTTCAAAAATTA
1 TTTTCAAAAACTATATATATTATATA-GTTTTCAAAAACTA
* * *
985389 TTTT-TAAAACTATATATATATGTATATATGTTTTTAAAATA-TG
1 TTTTCAAAAAC--TATATATAT-TATATA-GTTTTCAAAA-ACTA
* * *
985432 TTTTC-AAAACTATAT-TA-TGTA-CGTTTTCAAAAACCA
1 TTTTCAAAAACTATATATATTATATAGTTTTCAAAAACTA
*
985468 TTTTTTAAAAA--ACTATATATTATATA-TTTTCAAAAA-TA
1 -TTTTCAAAAACTA-TATATATTATATAGTTTTCAAAAACTA
985506 TTTTCAAAAACTATACTATATT
1 TTTTCAAAAACTATA-TATATT
985528 TTATTATATA
Statistics
Matches: 109, Mismatches: 15, Indels: 32
0.70 0.10 0.21
Matches are distributed among these distances:
35 1 0.01
36 10 0.09
37 16 0.15
38 12 0.11
39 20 0.18
40 6 0.06
41 9 0.08
42 8 0.07
43 26 0.24
44 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.46
Consensus pattern (40 bp):
TTTTCAAAAACTATATATATTATATAGTTTTCAAAAACTA
Found at i:985543 original size:12 final size:12
Alignment explanation
Indices: 985522--985551 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
985512 AAAACTATAC
*
985522 TATATTTTATTA
1 TATATATTATTA
985534 TATATATTATTA
1 TATATATTATTA
985546 TATATA
1 TATATA
985552 ATAAATAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATATTATTA
Found at i:992776 original size:2 final size:2
Alignment explanation
Indices: 992765--992805 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
992755 TAAAGGTAAT
992765 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
992806 CACAATAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:994312 original size:21 final size:21
Alignment explanation
Indices: 994287--994410 Score: 126
Period size: 21 Copynumber: 5.7 Consensus size: 21
994277 TTTTTGTAAG
994287 AGTACTTTGTGTACTTGGAGT
1 AGTACTTTGTGTACTTGGAGT
994308 AGTACTTTGTGTACTATGGTAAG-
1 AGTACTTTGTGTACT-TGG--AGT
* *
994331 ATTATTTTGTGTACTTGGAGT
1 AGTACTTTGTGTACTTGGAGT
* *
994352 AGTACTTTGTGTATTATAGAAAG-
1 AGTACTTTGTGTACT-T-G-GAGT
*
994375 AGTACTTTGTGTACTTGTAGT
1 AGTACTTTGTGTACTTGGAGT
*
994396 AGTACTTTGTATACT
1 AGTACTTTGTGTACT
994411 ATGGCACTTT
Statistics
Matches: 86, Mismatches: 9, Indels: 16
0.77 0.08 0.14
Matches are distributed among these distances:
20 4 0.05
21 42 0.49
22 8 0.09
23 28 0.33
24 4 0.05
ACGTcount: A:0.24, C:0.08, G:0.23, T:0.44
Consensus pattern (21 bp):
AGTACTTTGTGTACTTGGAGT
Found at i:994345 original size:44 final size:44
Alignment explanation
Indices: 994282--994414 Score: 203
Period size: 44 Copynumber: 3.0 Consensus size: 44
994272 TTACATTTTT
994282 GTAAGAGTACTTTGTGTACTTGGAGTAGTACTTTGTGTACTATG
1 GTAAGAGTACTTTGTGTACTTGGAGTAGTACTTTGTGTACTATG
* * * *
994326 GTAAGATTATTTTGTGTACTTGGAGTAGTACTTTGTGTATTATA
1 GTAAGAGTACTTTGTGTACTTGGAGTAGTACTTTGTGTACTATG
* * *
994370 GAAAGAGTACTTTGTGTACTTGTAGTAGTACTTTGTATACTATG
1 GTAAGAGTACTTTGTGTACTTGGAGTAGTACTTTGTGTACTATG
994414 G
1 G
994415 CACTTTGTGT
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 78 1.00
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.43
Consensus pattern (44 bp):
GTAAGAGTACTTTGTGTACTTGGAGTAGTACTTTGTGTACTATG
Found at i:996268 original size:42 final size:41
Alignment explanation
Indices: 996157--996268 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 41
996147 CCAAAATTGG
* *
996157 TAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGAT
1 TAAGTCCTTC-GGCCATCAATAAGCCTTTCGAGCAAGATGAT
* * **
996199 TAAATCCTTCAGGTCATTTATAAGCCTTTCGAGCAAGATGA-
1 TAAGTCCTTC-GGCCATCAATAAGCCTTTCGAGCAAGATGAT
*
996240 TAAGTCCTTCGTGCCATCCATAAGGCCTT
1 TAAGTCCTTCG-GCCATCAATAA-GCCTT
996269 CGGGAAAGAT
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
40 1 0.02
41 17 0.30
42 39 0.68
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (41 bp):
TAAGTCCTTCGGCCATCAATAAGCCTTTCGAGCAAGATGAT
Found at i:996360 original size:255 final size:254
Alignment explanation
Indices: 995925--997076 Score: 1555
Period size: 255 Copynumber: 4.6 Consensus size: 254
995915 CTATCAGTGT
* * * ** *
995925 GTCTTTTGAGCATGATGCTTAAATCTTTTGGGTCATCAATAAGCCTTTCGAGCAAGATGATAAGT
1 GTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTATAAGCCTTTCGAGCAAGATGATAAGT
** * *
995990 TTTTCAGGCCATCCATAAGGCCTTCGGGCAGGATGTTTTCGCATGTTTTTCAAAAAATGAGAAAA
66 CCTTCGGGCCATCCATAAGGCCTTCGGGCAGGATGTTTTCACATGTTTTTC-AAAAATGAGAAAA
* * *
996055 CAATTTCTAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAATGATTTC
130 CGATTTCCAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAACGATTTC
* * *
996120 CAAAGTTTCTTACCTAGTAAGCTATATCCAAAATTGGTAAGTCCTTCGGGCCATCAATAA
195 CAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCAGGCCATCAATAA
*
996180 GTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATTTATAAGCCTTTCGAGCAAGATGATAAGT
1 GTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTATAAGCCTTTCGAGCAAGATGATAAGT
* * * * *
996245 CCTTCGTGCCATCCATAAGGCCTTCGGGAAAGATGTTTTCATATGTTTTCCAATAAATGAG-AAA
66 CCTTCGGGCCATCCATAAGGCCTTCGGGCAGGATGTTTTCACATGTTTTTCAA-AAATGAGAAAA
* * *
996309 CGGTTTCCAAAGTTTCTCATTTAAATGTGAAAATTAAAATATTTTGAAAAGTAAGAAAACGATTT
130 CGATTTCCAAAGTTTCTCATTTAAATCTGAAAATTGAAAT-TTTTGAAAAGTAAGAAAACGATTT
* *
996374 CCAAAGTTTCTTACCTAGTAAACTATTTCCAAAGTTGGTAAGTCCTTCAGGCCATCAGTAA
194 CCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCAGGCCATCAATAA
* *
996435 GTCTTTCGAGCATGATGATTAAATCATTCGGGTCATCTATAAGCCTTTCGAGCAAGATGATAAGT
1 GTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTATAAGCCTTTCGAGCAAGATGATAAGT
* * *
996500 CCTTCGGGCTATCCATAAGACCTTCGGGCAGGATGTTTTCACATGTTTTTCGAAAAATGAGAGAA
66 CCTTCGGGCCATCCATAAGGCCTTCGGGCAGGATGTTTTCACATGTTTTTC-AAAAATGAGAAAA
* * * *
996565 CAATTTCCAAAATTTCTCATTTAAATCTGAAAATTGAAATTTTTTAAAAGTAAGAAAAATGATTT
130 CGATTTCCAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAG-AAAACGATTT
*
996630 CCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGA-AA
194 CCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCAGGCCATCA-ATAA
* * * *
996691 GTCTTTCAAGCATGATGATTAAATCTTTCAGGTTATCTATAAGCCTTTCAAGCAAGATGATAAGT
1 GTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTATAAGCCTTTCGAGCAAGATGATAAGT
* ** * * *
996756 CC-T-------T-C---AGTCCTTCGGTTAGGATGATTTCACATGTTTTTGAAAAATGAGAAAAT
66 CCTTCGGGCCATCCATAAGGCCTTCGGGCAGGATGTTTTCACATGTTTTTCAAAAATGAGAAAAC
* * *
996809 GATTTCCAAAGTTTCTCATTTAAATGTAAAAATTGAAATTTGTGAAAAGTAAGAAAACGATTTCC
131 GATTTCCAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAACGATTTCC
* * ** *
996874 AAAGTTTATTACCTAGTAAACTATTTCCAAAATTGGTAAGTCATTCAGGTGATCAGTAA
196 AAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCAGGCCATCAATAA
* * *
996933 GTCTTTCGAGCATGAGGATTAAATCCTTCA-GTCATTTATAAG-CTTTTGAGCAAGATGATAAGT
1 GTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTATAAGCCTTTCGAGCAAGATGATAAGT
* * * * *
996996 -CTTTGGGCCATCCATAAGACCTTCGAGCAGGATGTCTTCACATGTTTTTCAAAAAATAAGAAAA
66 CCTTCGGGCCATCCATAAGGCCTTCGGGCAGGATGTTTTCACATGTTTTTC-AAAAATGAGAAAA
997060 CGATTTCCAAAGTTTCT
130 CGATTTCCAAAGTTTCT
997077 TACCTAGTAA
Statistics
Matches: 788, Mismatches: 89, Indels: 43
0.86 0.10 0.05
Matches are distributed among these distances:
239 1 0.00
240 20 0.03
241 10 0.01
242 90 0.11
243 59 0.07
244 29 0.04
247 2 0.00
248 2 0.00
251 27 0.03
252 28 0.04
254 40 0.05
255 313 0.40
256 167 0.21
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (254 bp):
GTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTATAAGCCTTTCGAGCAAGATGATAAGT
CCTTCGGGCCATCCATAAGGCCTTCGGGCAGGATGTTTTCACATGTTTTTCAAAAATGAGAAAAC
GATTTCCAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAACGATTTCC
AAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCAGGCCATCAATAA
Found at i:997440 original size:3 final size:3
Alignment explanation
Indices: 997432--997459 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
997422 AGGTGTTTAA
997432 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
997460 TTCAAGTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:997698 original size:18 final size:18
Alignment explanation
Indices: 997675--997720 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
997665 CCAAAAACCC
997675 TCGCCGCTACCGCTTCTG
1 TCGCCGCTACCGCTTCTG
*
997693 TCGCCGCTACTGCTTCTG
1 TCGCCGCTACCGCTTCTG
*
997711 TCGTCGCTAC
1 TCGCCGCTAC
997721 AGCCACTCGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.07, C:0.41, G:0.22, T:0.30
Consensus pattern (18 bp):
TCGCCGCTACCGCTTCTG
Found at i:998013 original size:24 final size:25
Alignment explanation
Indices: 997980--998037 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
997970 GTTTTCAAAG
*
997980 AAGAAAAAAATCA-AAAAGGAAAAA
1 AAGAAAAAAAACATAAAAGGAAAAA
*
998004 AAGAAGAAAAACATAAAAGGAAAAA
1 AAGAAAAAAAACATAAAAGGAAAAA
*
998029 GATGAAAAA
1 -AAGAAAAA
998038 CTTTCGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 11 0.39
25 11 0.39
26 6 0.21
ACGTcount: A:0.76, C:0.03, G:0.16, T:0.05
Consensus pattern (25 bp):
AAGAAAAAAAACATAAAAGGAAAAA
Found at i:998021 original size:25 final size:26
Alignment explanation
Indices: 997976--998028 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
997966 GGGGGTTTTC
997976 AAAGAAGAAAAAAATCAAAAAGGAAAA
1 AAAGAAGAAAAAAAT-AAAAAGGAAAA
*
998003 AAAGAAGAAAAACAT-AAAAGGAAAA
1 AAAGAAGAAAAAAATAAAAAGGAAAA
998028 A
1 A
998029 GATGAAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 11 0.44
27 14 0.56
ACGTcount: A:0.77, C:0.04, G:0.15, T:0.04
Consensus pattern (26 bp):
AAAGAAGAAAAAAATAAAAAGGAAAA
Found at i:998956 original size:2 final size:2
Alignment explanation
Indices: 998944--998982 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
998934 ACAAAGTGTA
998944 AT AT A- 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
998983 TTGTTATTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:999726 original size:131 final size:131
Alignment explanation
Indices: 999495--999850 Score: 570
Period size: 131 Copynumber: 2.7 Consensus size: 131
999485 GAAAATAATA
* * * * *
999495 ATATCTTTTCATTTCGGTTGGAGTAATAGATGATTGCTTTAAGGCATGAGAGATCATTTATTCCC
1 ATATCTCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTCTC
* * *
999560 AATTGGAAATAATTAGATATTATCATTTTCTCTCGAATCAATATTG-ATTTTGAAGACGAAATAG
66 GATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAATATTGAATTTT-AAGACGAAATAG
999624 TG
130 TG
* * * *
999626 ATATCTCTTCATTTCGATCGGAGTAATAAATGACTACTTTAAGGCATGAGAGGTCATTTATTATC
1 ATATCTCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTCTC
*
999691 GATTGGAAATCATTAGATATTATCGTTTTCACTCGAATCAATATTGAATTTTAAGACGAAATAGT
66 GATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAATATTGAATTTTAAGACGAAATAGT
999756 G
131 G
999757 ATATCTCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTCTC
1 ATATCTCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTCTC
*
999822 GATTGGAAATAATTATATATTATCGTTTT
66 GATTGGAAATAATTAGATATTATCGTTTT
999851 ATCTCTTTGA
Statistics
Matches: 205, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
131 200 0.98
132 5 0.02
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (131 bp):
ATATCTCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTCTC
GATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAATATTGAATTTTAAGACGAAATAGT
G
Found at i:1001864 original size:23 final size:23
Alignment explanation
Indices: 1001814--1001892 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 23
1001804 ATATTATAAA
* *
1001814 AATATTTATTTAATT-TTTAAAAT
1 AATA-TTATTTATTTATTTGAAAT
*
1001837 CATATTATTTATTTATTTTG-AAT
1 AATATTATTTATTTA-TTTGAAAT
**
1001860 AATATTAAATATTTATTTGAAAT
1 AATATTATTTATTTATTTGAAAT
*
1001883 AATATAATTT
1 AATATTATTT
1001893 TTAAATTATC
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
22 13 0.30
23 28 0.64
24 3 0.07
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (23 bp):
AATATTATTTATTTATTTGAAAT
Found at i:1002028 original size:25 final size:23
Alignment explanation
Indices: 1002007--1002079 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
1001997 AGATAATTAA
*
1002007 AAATAATATTATTTTAAATAATT
1 AAATAATATAATTTTAAATAATT
* *
1002030 AATTAATATAATTTTAAA-AAAT
1 AAATAATATAATTTTAAATAATT
1002052 AAATAA-AT-ATTTTATAATAATAT
1 AAATAATATAATTTTA-AATAAT-T
1002075 AAATA
1 AAATA
1002080 TACTTTTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
20 6 0.14
21 4 0.10
22 10 0.24
23 22 0.52
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATAATATAATTTTAAATAATT
Found at i:1004650 original size:3 final size:3
Alignment explanation
Indices: 1004631--1004697 Score: 57
Period size: 3 Copynumber: 21.7 Consensus size: 3
1004621 AAAATATATA
* * *
1004631 TAT TAT ATAT ATAT TAT TAT TAT TAT TAT AAA TAT TAT TTT TAT TA-
1 TAT TAT -TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1004677 TATT TAT T-T TATT TAT TAT TA
1 TA-T TAT TAT TA-T TAT TAT TA
1004698 ATAAAAATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
2 4 0.08
3 37 0.70
4 12 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1006276 original size:29 final size:31
Alignment explanation
Indices: 1006220--1006286 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
1006210 TTAAATGTTG
* *
1006220 ATTTTTATTATTTTATTCATTAAAACTAT-T
1 ATTTTTACTATTTTAATCATTAAAACTATCT
**
1006250 ATTTTTACTATTTTAATC-TTTTAACTATCT
1 ATTTTTACTATTTTAATCATTAAAACTATCT
*
1006280 GTTTTTA
1 ATTTTTA
1006287 TTACCTTAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.28, C:0.09, G:0.01, T:0.61
Consensus pattern (31 bp):
ATTTTTACTATTTTAATCATTAAAACTATCT
Found at i:1014266 original size:7 final size:7
Alignment explanation
Indices: 1014239--1014268 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
1014229 TTACATTTTC
*
1014239 ATTCTTC
1 ATTCTTT
1014246 ATTCTTT
1 ATTCTTT
1014253 ATTCTTT
1 ATTCTTT
1014260 ATTCTTT
1 ATTCTTT
1014267 AT
1 AT
1014269 AATCATTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (7 bp):
ATTCTTT
Found at i:1027350 original size:12 final size:12
Alignment explanation
Indices: 1027307--1027354 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
1027297 GATACATGAC
1027307 CTGAATTCTGTT
1 CTGAATTCTGTT
* * * *
1027319 ATGATTTTTGAT
1 CTGAATTCTGTT
*
1027331 CTGGATTCTGTT
1 CTGAATTCTGTT
1027343 CTGAATTCTGTT
1 CTGAATTCTGTT
1027355 TTGATTTATG
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.17, C:0.12, G:0.19, T:0.52
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:1031272 original size:24 final size:24
Alignment explanation
Indices: 1031185--1031264 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 24
1031175 ATTTCCGACT
*
1031185 TGAATTCTGTTATGATA-CATGACC
1 TGAATTCTGTTATGATATC-TGATC
* *
1031209 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTATGATATCTGATC
* * *
1031233 TGGATTATGTTATGATATCTGTTC
1 TGAATTCTGTTATGATATCTGATC
1031257 TGAATTCT
1 TGAATTCT
1031265 ATTTTGATTT
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
24 44 0.98
25 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (24 bp):
TGAATTCTGTTATGATATCTGATC
Found at i:1032334 original size:2 final size:2
Alignment explanation
Indices: 1032329--1032372 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
1032319 TGGACTTAAA
*
1032329 AT AT AT AT AT -T AT AT AT AT -T AT AT AT AT -T AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1032368 -T AT AT
1 AT AT AT
1032373 TTATTGTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
1 4 0.11
2 32 0.89
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (2 bp):
AT
Found at i:1032344 original size:9 final size:9
Alignment explanation
Indices: 1032330--1032409 Score: 73
Period size: 9 Copynumber: 9.3 Consensus size: 9
1032320 GGACTTAAAA
1032330 TATATATAT
1 TATATATAT
1032339 TATATATAT
1 TATATATAT
1032348 TATATATAT
1 TATATATAT
*
1032357 TATATTTA-
1 TATATATAT
1032365 TAT-TATAT
1 TATATATAT
*
1032373 T-TAT-TGT
1 TATATATAT
1032380 TAT-TATTAT
1 TATATA-TAT
1032389 TAT-TAATAT
1 TATAT-ATAT
*
1032398 TATAAATAT
1 TATATATAT
1032407 TAT
1 TAT
1032410 TAATATATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
7 8 0.14
8 6 0.10
9 44 0.75
10 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (9 bp):
TATATATAT
Found at i:1032382 original size:6 final size:6
Alignment explanation
Indices: 1032336--1032435 Score: 52
Period size: 6 Copynumber: 16.8 Consensus size: 6
1032326 AAAATATATA
*
1032336 TATTA- TATATAT TA-TAT ATATTA- TATT-T ATATTA- TATTTAT TGTTAT
1 TATTAT TAT-TAT TATTAT -TATTAT TATTAT -TATTAT TA-TTAT TATTAT
* * * *
1032383 TATTAT TATTAA TATTAT AAATAT TATTAA TA-TATT TATT-T TATTTAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTA-T TATTAT TA-TTAT
1032431 TATTA
1 TATTA
1032436 ATAAAATTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 25
0.67 0.09 0.23
Matches are distributed among these distances:
5 17 0.24
6 46 0.64
7 9 0.12
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (6 bp):
TATTAT
Found at i:1032414 original size:9 final size:9
Alignment explanation
Indices: 1032379--1032438 Score: 63
Period size: 9 Copynumber: 7.0 Consensus size: 9
1032369 ATATTTATTG
*
1032379 TTATTATTA
1 TTATTAATA
1032388 TTATTAATA
1 TTATTAATA
*
1032397 TTATAAATA
1 TTATTAATA
1032406 TTATTAATA
1 TTATTAATA
* *
1032415 -TATTTATT
1 TTATTAATA
1032423 TTATT--TA
1 TTATTAATA
1032430 TTATTAATA
1 TTATTAATA
1032439 AAATTATTAC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
7 6 0.14
8 6 0.14
9 30 0.71
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTATTAATA
Found at i:1032422 original size:24 final size:24
Alignment explanation
Indices: 1032395--1032447 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
1032385 TTATTATTAA
* *
1032395 TATTATAAATATTATTAATATATT
1 TATTATAAATATTATTAATAAAAT
* **
1032419 TATTTTATTTATTATTAATAAAAT
1 TATTATAAATATTATTAATAAAAT
1032443 TATTA
1 TATTA
1032448 CATGTGTTTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TATTATAAATATTATTAATAAAAT
Found at i:1032506 original size:24 final size:24
Alignment explanation
Indices: 1032479--1032533 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
1032469 TTACAGCCAA
*
1032479 TACAAGCAGTCCATATACAATATT
1 TACAAGAAGTCCATATACAATATT
*
1032503 TACAAGAAGTCCATATGCAATATT
1 TACAAGAAGTCCATATACAATATT
1032527 TACAAGA
1 TACAAGA
1032534 CCAACACCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (24 bp):
TACAAGAAGTCCATATACAATATT
Found at i:1034032 original size:29 final size:31
Alignment explanation
Indices: 1033976--1034042 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
1033966 TTAAATGTTG
* *
1033976 ATTTTTATTATTTTATTCATTAAAACTAT-T
1 ATTTTTACTATTTTAATCATTAAAACTATCT
**
1034006 ATTTTTACTATTTTAATC-TTTTAACTATCT
1 ATTTTTACTATTTTAATCATTAAAACTATCT
*
1034036 GTTTTTA
1 ATTTTTA
1034043 TTACCTTAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.28, C:0.09, G:0.01, T:0.61
Consensus pattern (31 bp):
ATTTTTACTATTTTAATCATTAAAACTATCT
Found at i:1035296 original size:18 final size:18
Alignment explanation
Indices: 1035273--1035307 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1035263 TATGCACTTA
* *
1035273 AAGTTCATATTTGAACTC
1 AAGTTCAAACTTGAACTC
1035291 AAGTTCAAACTTGAACT
1 AAGTTCAAACTTGAACT
1035308 ATAGATTGGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (18 bp):
AAGTTCAAACTTGAACTC
Found at i:1042211 original size:12 final size:12
Alignment explanation
Indices: 1042181--1042224 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
1042171 CACTTTCCAC
1042181 TTTCATATTCAT
1 TTTCATATTCAT
**
1042193 TCACATATTCAT
1 TTTCATATTCAT
1042205 TTTCATATTCCAT
1 TTTCATATT-CAT
*
1042218 GTTCATA
1 TTTCATA
1042225 ATAATTGCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 17 0.65
13 9 0.35
ACGTcount: A:0.27, C:0.20, G:0.02, T:0.50
Consensus pattern (12 bp):
TTTCATATTCAT
Found at i:1046251 original size:2 final size:2
Alignment explanation
Indices: 1046244--1046279 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1046234 GTCCATAACA
1046244 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
1046280 TCTATCATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1049017 original size:21 final size:22
Alignment explanation
Indices: 1048991--1049040 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
1048981 TCAAAATACT
*
1048991 AATAAAGTCAAGTCCCTATT-A
1 AATAAAGTCAAGTCCATATTCA
1049012 AATAAAGTCAAGTCCATATTCA
1 AATAAAGTCAAGTCCATATTCA
1049034 AACTAAA
1 AA-TAAA
1049041 ACAACAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 19 0.73
22 3 0.12
23 4 0.15
ACGTcount: A:0.48, C:0.18, G:0.08, T:0.26
Consensus pattern (22 bp):
AATAAAGTCAAGTCCATATTCA
Found at i:1050305 original size:25 final size:27
Alignment explanation
Indices: 1050263--1050317 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
1050253 ATACCTGGTG
*
1050263 TAACTAAAAAATATAAAGAAAAATAAA
1 TAACCAAAAAATATAAAGAAAAATAAA
* *
1050290 TAACCAAAAAA-A-AAAGTAAATTAAA
1 TAACCAAAAAATATAAAGAAAAATAAA
1050315 TAA
1 TAA
1050318 ATAGATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 1 0.04
27 10 0.40
ACGTcount: A:0.73, C:0.05, G:0.04, T:0.18
Consensus pattern (27 bp):
TAACCAAAAAATATAAAGAAAAATAAA
Found at i:1050999 original size:20 final size:20
Alignment explanation
Indices: 1050976--1051039 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
1050966 TGCTTCTTTG
1050976 CCGATCTCACTCCCTCTTCA
1 CCGATCTCACTCCCTCTTCA
* * *
1050996 CCGAATCT-ACTGCTTCTTCG
1 CCG-ATCTCACTCCCTCTTCA
1051016 CCGATCTCACTCCCTCTTCA
1 CCGATCTCACTCCCTCTTCA
1051036 CCGA
1 CCGA
1051040 ATCTGTTGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 4 0.11
20 28 0.78
21 4 0.11
ACGTcount: A:0.16, C:0.45, G:0.09, T:0.30
Consensus pattern (20 bp):
CCGATCTCACTCCCTCTTCA
Found at i:1051050 original size:40 final size:40
Alignment explanation
Indices: 1050960--1051050 Score: 155
Period size: 40 Copynumber: 2.3 Consensus size: 40
1050950 ATCCAAACCC
*
1050960 ATCTGTTGCTTCTTTGCCGATCTCACTCCCTCTTCACCGA
1 ATCTGTTGCTTCTTCGCCGATCTCACTCCCTCTTCACCGA
**
1051000 ATCTACTGCTTCTTCGCCGATCTCACTCCCTCTTCACCGA
1 ATCTGTTGCTTCTTCGCCGATCTCACTCCCTCTTCACCGA
1051040 ATCTGTTGCTT
1 ATCTGTTGCTT
1051051 TGCAAGTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.13, C:0.37, G:0.12, T:0.37
Consensus pattern (40 bp):
ATCTGTTGCTTCTTCGCCGATCTCACTCCCTCTTCACCGA
Found at i:1059260 original size:14 final size:14
Alignment explanation
Indices: 1059241--1059271 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1059231 TAAATGATAT
*
1059241 ACAAACATAAATGA
1 ACAAACATAAACGA
1059255 ACAAACATAAACGA
1 ACAAACATAAACGA
1059269 ACA
1 ACA
1059272 TAAAGGAAAA
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:0.65, C:0.19, G:0.06, T:0.10
Consensus pattern (14 bp):
ACAAACATAAACGA
Done.