Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 50 of 64
Found at i:10174011 original size:22 final size:22
Alignment explanation
Indices: 10173983--10174043 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
10173973 GACCACTATG
10173983 TCCCGAAGGACCACTGTATATA
1 TCCCGAAGGACCACTGTATATA
*
10174005 TCCCGAAGGACCAC----TATG
1 TCCCGAAGGACCACTGTATATA
*
10174023 TCCCGAATGACCACTGTATAT
1 TCCCGAAGGACCACTGTATAT
10174044 CCCTCGACTC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 16 0.48
22 17 0.52
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (22 bp):
TCCCGAAGGACCACTGTATATA
Found at i:10174299 original size:2 final size:2
Alignment explanation
Indices: 10174292--10174327 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10174282 TCATTGTATC
10174292 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
10174328 GTATGCATGT
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:10178370 original size:47 final size:47
Alignment explanation
Indices: 10178301--10178394 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
10178291 AATAGTAATG
10178301 AACCCTTGACATCCCTGTAGCAATAACTTCTTTGTCGTCATTACTGA
1 AACCCTTGACATCCCTGTAGCAATAACTTCTTTGTCGTCATTACTGA
10178348 AACCCTTGACATCCCTGTAGCAATAACTTCTTTGTCGTCATTACTGA
1 AACCCTTGACATCCCTGTAGCAATAACTTCTTTGTCGTCATTACTGA
10178395 GATTACATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.34
Consensus pattern (47 bp):
AACCCTTGACATCCCTGTAGCAATAACTTCTTTGTCGTCATTACTGA
Found at i:10181044 original size:5 final size:5
Alignment explanation
Indices: 10181034--10181085 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
10181024 ATAATAATAA
** * *
10181034 TATTT TATTT TATTTT TATGA TATTT TATTTT TATTT TGTTT TATTT AATTT
1 TATTT TATTT TA-TTT TATTT TATTT TA-TTT TATTT TATTT TATTT TATTT
10181086 AATATTGACA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
5 28 0.74
6 10 0.26
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (5 bp):
TATTT
Found at i:10181076 original size:16 final size:16
Alignment explanation
Indices: 10181034--10181080 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
10181024 ATAATAATAA
10181034 TATTTTATTTTATTTT
1 TATTTTATTTTATTTT
**
10181050 TATGATATTTTATTTT
1 TATTTTATTTTATTTT
*
10181066 TATTTTGTTTTATTT
1 TATTTTATTTTATTT
10181081 AATTTAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (16 bp):
TATTTTATTTTATTTT
Found at i:10181178 original size:17 final size:17
Alignment explanation
Indices: 10181145--10181184 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
10181135 ATGCAAATTC
10181145 CAATATTAATTTATTAAA
1 CAAT-TTAATTTATTAAA
10181163 CAATTTAATATT-TTAAA
1 CAATTTAAT-TTATTAAA
10181180 CAATT
1 CAATT
10181185 CAAGGAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (17 bp):
CAATTTAATTTATTAAA
Found at i:10187438 original size:16 final size:16
Alignment explanation
Indices: 10187417--10187474 Score: 98
Period size: 16 Copynumber: 3.6 Consensus size: 16
10187407 CAGATCAAGA
* *
10187417 AAACATGCATCAACAT
1 AAACATACACCAACAT
10187433 AAACATACACCAACAT
1 AAACATACACCAACAT
10187449 AAACATACACCAACAT
1 AAACATACACCAACAT
10187465 AAACATACAC
1 AAACATACAC
10187475 ATCATATGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.55, C:0.29, G:0.02, T:0.14
Consensus pattern (16 bp):
AAACATACACCAACAT
Found at i:10188624 original size:109 final size:107
Alignment explanation
Indices: 10188372--10188635 Score: 296
Period size: 107 Copynumber: 2.4 Consensus size: 107
10188362 AATTTACTTG
* * *
10188372 AAAACGGCCAGAACTCTTCAACATGGATGAGCAGTGTCGTTTTCAACACCAAATTATCTCCAAAT
1 AAAACGGCCAGAACTCTGCAACATCGATGAGCAGTGTCGTCTTCAACACCAAATTATCTCCAAAT
** ** * *
10188437 TGACTTGATGTCTACAGAGAGAAGGAATAGTGTCATCACCCG
66 TGACCCGACATCTACAGAGAGAAGGAATAATGTCATCACCCA
** * * *
10188479 AAAGTGGCCAGAACTCTTCAACATGGATGAGTAGTGTCGTCTTCAACACCAAATTATCTCCAAAT
1 AAAACGGCCAGAACTCTGCAACATCGATGAGCAGTGTCGTCTTCAACACCAAATTATCTCCAAAT
* * * *
10188544 TGACCCGACATCCTTAGATAGAGAGGGAATAATGTCATCACTCA
66 TGACCCGACAT-C-TACAGAGAGAAGGAATAATGTCATCACCCA
** * *
10188588 AAAACGGCCA-AATCTCTGCAATGTCGATGAGCAGTGTTGTCTTTAACA
1 AAAACGGCCAGAA-CTCTGCAACATCGATGAGCAGTGTCGTCTTCAACA
10188636 TCAAGTTTCA
Statistics
Matches: 131, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
107 68 0.52
108 3 0.02
109 60 0.46
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.25
Consensus pattern (107 bp):
AAAACGGCCAGAACTCTGCAACATCGATGAGCAGTGTCGTCTTCAACACCAAATTATCTCCAAAT
TGACCCGACATCTACAGAGAGAAGGAATAATGTCATCACCCA
Found at i:10188768 original size:3 final size:3
Alignment explanation
Indices: 10188760--10188798 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
10188750 TGCCCGAAGT
10188760 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10188799 GGTTACAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10190357 original size:2 final size:2
Alignment explanation
Indices: 10190342--10190376 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
10190332 TCATAATTCC
* *
10190342 AT AT AT GT AA AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10190377 AATCAAGGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:10190840 original size:17 final size:17
Alignment explanation
Indices: 10190807--10190846 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
10190797 ATGCCAATTC
10190807 CAATATTAATTTCTTAAA
1 CAAT-TTAATTTCTTAAA
10190825 CAATTTAATATT-TTAAA
1 CAATTTAAT-TTCTTAAA
10190842 CAATT
1 CAATT
10190847 CAAGGAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (17 bp):
CAATTTAATTTCTTAAA
Found at i:10193399 original size:24 final size:27
Alignment explanation
Indices: 10193339--10193400 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 27
10193329 TTTTCTTAAA
*
10193339 TTTAATTTTTTTAAAGATAAATAAATT
1 TTTAATTTTTATAAAGATAAATAAATT
*
10193366 TTCCAA-TTTTAT-AA-A-AAATAAATT
1 TT-TAATTTTTATAAAGATAAATAAATT
10193390 TTTAATTTTTA
1 TTTAATTTTTA
10193401 AAGAGAATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
23 2 0.07
24 16 0.53
25 1 0.03
26 2 0.07
27 7 0.23
28 2 0.07
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (27 bp):
TTTAATTTTTATAAAGATAAATAAATT
Found at i:10193413 original size:24 final size:24
Alignment explanation
Indices: 10193346--10193413 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
10193336 AAATTTAATT
10193346 TTTTTAAAGATAAATAAATTTTCCAA
1 TTTTTAAAG--AAATAAATTTTCCAA
*
10193372 TTTTATAAA-AAATAAATTTT-TAA
1 TTTT-TAAAGAAATAAATTTTCCAA
*
10193395 TTTTTAAAGAGAATCAATT
1 TTTTTAAAGA-AATAAATT
10193414 AAGTACATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
22 4 0.11
23 7 0.19
24 18 0.49
26 4 0.11
27 4 0.11
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (24 bp):
TTTTTAAAGAAATAAATTTTCCAA
Found at i:10196224 original size:18 final size:17
Alignment explanation
Indices: 10196201--10196236 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
10196191 AGGTAAAAAT
*
10196201 ATGATAAAATCGTATAAA
1 ATGATAAAACCG-ATAAA
10196219 ATGATAAAACCGATAAA
1 ATGATAAAACCGATAAA
10196236 A
1 A
10196237 CGTTACCGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.58, C:0.08, G:0.11, T:0.22
Consensus pattern (17 bp):
ATGATAAAACCGATAAA
Found at i:10196286 original size:178 final size:179
Alignment explanation
Indices: 10195983--10196444 Score: 641
Period size: 178 Copynumber: 2.6 Consensus size: 179
10195973 GATCCAAATT
* * *
10195983 AAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATAGAAATGAT-A
1 AAAATGTATCGATCC-AAACGATATAACAGGTAAAAATATGATAAAACCGGTATA-AAATGATAA
* * * * *
10196047 AACCGGTAAAGTGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTCG
64 AACCGGTAAAATGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCG
* * *
10196112 TGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTAA
129 TGAATTTAAAAGAGAAACAGCTTTAAAGCCTATAAAGTGTCGATAC-TTTAA
* *
10196164 AAAATGTATCGATCCAAACGATATACCAGGTAAAAATATGATAAAATC-GTATAAAATGATAAAA
1 AAAATGTATCGATCCAAACGATATAACAGGTAAAAATATGATAAAACCGGTATAAAATGATAAAA
* * * *
10196228 CCGATAAAACGTTACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTTTGTG
66 CCGGTAAAATGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTG
** *
10196292 AATTTAAAAGAGAAACAGCTTTAGCGCCTATAATGTGTCGATACTTTAA
131 AATTTAAAAGAGAAACAGCTTTAAAGCCTATAAAGTGTCGATACTTTAA
*
10196341 AAAATATATCGATCC--ACGATATAACAGGT-AAAA-ATGATAAAACCGGTATCAAAATGATAAA
1 AAAATGTATCGATCCAAACGATATAACAGGTAAAAATATGATAAAACCGGTAT-AAAATGATAAA
*
10196402 ACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
65 ACCGGTAAAATGATACCGGATATATTAAAAGTGTCGATACTTT
10196445 CGTAAGTACG
Statistics
Matches: 252, Mismatches: 26, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
173 10 0.04
174 8 0.03
175 63 0.25
177 19 0.08
178 66 0.26
179 43 0.17
180 29 0.12
181 14 0.06
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (179 bp):
AAAATGTATCGATCCAAACGATATAACAGGTAAAAATATGATAAAACCGGTATAAAATGATAAAA
CCGGTAAAATGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTG
AATTTAAAAGAGAAACAGCTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:10196396 original size:20 final size:20
Alignment explanation
Indices: 10196371--10196408 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
10196361 ATAACAGGTA
10196371 AAAATGATAAAACCGGTATC
1 AAAATGATAAAACCGGTATC
10196391 AAAATGATAAAACCGGTA
1 AAAATGATAAAACCGGTA
10196409 AAATGATACC
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:0.53, C:0.13, G:0.16, T:0.18
Consensus pattern (20 bp):
AAAATGATAAAACCGGTATC
Found at i:10198618 original size:21 final size:21
Alignment explanation
Indices: 10198579--10198644 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
10198569 AAGACAATCA
*
10198579 AGAGTCGAAGAGAAAACTTGAT
1 AGAGTCGAAGAG-AAACTTGAG
10198601 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
10198622 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
10198643 AG
1 AG
10198645 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 29 0.71
22 12 0.29
ACGTcount: A:0.42, C:0.11, G:0.30, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:10198954 original size:15 final size:14
Alignment explanation
Indices: 10198934--10198981 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
10198924 TGAATATGAA
10198934 GAAGAAAAGGAGGAG
1 GAAGAAAA-GAGGAG
10198949 GAAGAAGAAGA-GATG
1 GAAGAA-AAGAGGA-G
*
10198964 GAAGAAATGAGGAG
1 GAAGAAAAGAGGAG
10198978 GAAG
1 GAAG
10198982 GAAGTCAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 10 0.34
15 17 0.59
16 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.44, T:0.04
Consensus pattern (14 bp):
GAAGAAAAGAGGAG
Found at i:10200554 original size:19 final size:19
Alignment explanation
Indices: 10200530--10200578 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
10200520 AATGTAGGGT
10200530 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
10200549 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
10200568 TAATTTTGTAT
1 TAATTTTGTAT
10200579 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:10201244 original size:199 final size:200
Alignment explanation
Indices: 10200697--10201664 Score: 1720
Period size: 200 Copynumber: 4.9 Consensus size: 200
10200687 CAATATGGCC
* *
10200697 AACAGGGTGCAACAAT-AAGTGTCGAACC--ATAT-AAAAGTGTCGATCCC-AAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
10200757 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* *
10200822 GAATATGTCTAAATAATGTGTCGACACTGTTTTAGTTTATGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
10200887 TGGAA
196 TGGAA
* *
10200892 AGCAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATTGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
10200957 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGCACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
10201022 GAATATGTCTAAATAATGTGTCGATACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
10201087 TGGAA
196 TGGAA
*
10201092 AACATGGTGCAACCATAAAGTGTCGATCCATATA-AAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
10201156 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
10201221 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
10201286 TGGAA
196 TGGAA
* * *
10201291 AACAGGGTGCAACCATAAAGTGTCAATCCATATATAAAAAGTGTCGATTCCAAAAACATCAAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
10201356 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
10201421 GAATATGTCT-AATAATGTGTCGACACTTTTTTAGTTTGTGTCG--ATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
10201483 TGGAA
196 TGGAA
*
10201488 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
* *
10201553 CCGAAATTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* *
10201618 GAATATGTCTAAATAATATGTCGACACTTGTTTAGTTTGTGTCGATA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
10201665 CTAATTTAAA
Statistics
Matches: 739, Mismatches: 25, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
195 14 0.02
196 11 0.01
197 158 0.21
198 35 0.05
199 242 0.33
200 279 0.38
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TGGAA
Found at i:10203116 original size:83 final size:82
Alignment explanation
Indices: 10202957--10203121 Score: 321
Period size: 83 Copynumber: 2.0 Consensus size: 82
10202947 CGATCCGATA
10202957 TTCATCATTGTAACATGAAGTCTCCATGTTGCGTAACGATTACGTCAACGACATCAAACGAGTTA
1 TTCATCATTGTAACATGAAGTCTCCATGTTGCGTAACGATTACGTCAACGACATCAAACGAGTTA
10203022 GGTAATTCATTATCTAT
66 GGTAATTCATTATCTAT
10203039 TTCATCATTGTAACATGAAGTCTCCATGTTGCGTAACGAATTACGTCAACGACATCAAACGAGTT
1 TTCATCATTGTAACATGAAGTCTCCATGTTGCGTAACG-ATTACGTCAACGACATCAAACGAGTT
10203104 AGGTAATTCATTATCTAT
65 AGGTAATTCATTATCTAT
10203122 GTTTCTTAAC
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
82 38 0.46
83 44 0.54
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (82 bp):
TTCATCATTGTAACATGAAGTCTCCATGTTGCGTAACGATTACGTCAACGACATCAAACGAGTTA
GGTAATTCATTATCTAT
Found at i:10203218 original size:3 final size:3
Alignment explanation
Indices: 10203210--10203284 Score: 105
Period size: 3 Copynumber: 25.0 Consensus size: 3
10203200 TGAAGCTGAC
* * * * *
10203210 GAT GAT GAT GAT GAT GAT GAT GAA GCT GAC GAT GAA GAT GAT GAC GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
10203258 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
10203285 CCAAACAAGT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.35, C:0.04, G:0.33, T:0.28
Consensus pattern (3 bp):
GAT
Found at i:10204790 original size:183 final size:183
Alignment explanation
Indices: 10204482--10205971 Score: 2576
Period size: 183 Copynumber: 8.1 Consensus size: 183
10204472 CAAAGTTTTC
* *
10204482 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
* * * *
10204547 AAAAAACTGTCG--ATTGAAAAAACATCGGAACCTAGA-TTATAATGTAATAGATAATTTTGTAA
66 AAAAAAGTGTCGACATT---TACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAA
*
10204609 TATAATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* * *
10204665 ACACTTTTTAATATTATGTCGGTACTTTATGTCCAGATTAGAAGAAAAATGTGTCAATA-CATTG
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-
* * *
10204729 TCAAAAAGTGTCGACATTTACACAACGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
65 TAAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATA
* * *
10204794 TAACCGGTATAAATATATCGGTTTTATGAGAGAACAGGTCTACAACCTATATCG
130 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
10204848 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
10204913 AAAAAAGTGTCGACATTTACACATCAGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
* *
10204978 AACTGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
10205031 ACACTTTCTAATATTGTGTTGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
10205096 AAAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTTTAATA
66 -AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATA
10205161 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
130 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
10205215 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
10205280 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTTATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
10205345 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
10205398 ACA-TTTTCTAATATTGTGTCGGTTCTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT
1 ACACTTTT-TAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT
10205462 TAAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATA
65 TAAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATA
* *
10205527 TAACCGGTATAAATATATCGGTTTTTTGAGCGAATAGGTCTACAACCTATATCG
130 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
10205581 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
10205646 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
10205711 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
10205764 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
* *
10205829 AAAAAAGTGTCGAGATTTACACATCGGAACCCAGATTTATAATCTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
* *
10205894 AACCAGTATAAATATACCAGTTTTATGAGCGAATAGGTCTTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTC-TACAACCTATATCG
*
10205948 ACACGTTTTAATATTGTGTCGGTA
1 ACACTTTTTAATATTGTGTCGGTA
10205972 ATTTTAAGTA
Statistics
Matches: 1247, Mismatches: 51, Indels: 17
0.95 0.04 0.01
Matches are distributed among these distances:
182 21 0.02
183 1001 0.80
184 222 0.18
185 3 0.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:10205940 original size:733 final size:730
Alignment explanation
Indices: 10204482--10205971 Score: 2601
Period size: 733 Copynumber: 2.0 Consensus size: 730
10204472 CAAAGTTTTC
*
10204482 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATTT
1 ACAC-TTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATTT
*
10204547 AAAAAACTGTCGATTGAAAAAACATCGGAACCTAGATTATAATGTAATAGATAATTTTGTAATAT
65 AAAAAACTGTCGATT--AAAAACATCGGAACCCAGATTATAATGTAATAGATAATTTTGTAATAT
*
10204612 AATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAAT
128 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAAT
*
10204677 ATTATGTCGGTACTTTATGTCCAGATTAGAAGAAAAATGTGTCAATACATTGTCAAAAAGTGTCG
193 ATTATGTCGGTACTTTATGTCCAGATTAGAAGAAAAATGTGTCAATACATTGTAAAAAAGTGTCG
10204742 ACATTTACACAACGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAA
258 ACATTTACACAACGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAA
10204807 TATATCGGTTTTATGAGAGAACAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGTA
323 TATATCGGTTTTATGAGAGAACAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGTA
10204872 CTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATTTACACAT
388 CTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATTTACACAT
*
10204937 CAGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACTGGTATAAATATACCAGTTTT
453 CAGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTT
*
10205002 ATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTTGGTACTTTATGTCCAG
518 ATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGTACTTTATGTCCAG
10205067 ATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAAGTGTCGACATTTACACATCGGAACCCAGA
583 ATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAAGTGTCGACATTTACACATCGGAACCCAGA
* * * *
10205132 TTTATAATGTAATAGATAATTTTTTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
648 TTTATAATCTAATAGATAATTTTGTAATATAACCAGTATAAATATACCAGTTTTATGAGCGAATA
10205197 GGTCTACAACCTATATCG
713 GGTCTACAACCTATATCG
*
10205215 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTT-TAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATTT
* * * *
10205280 AAAAAAGTGTCGACATT-TACACATCGGAACCCAGATTTATAATGTTATAGATAATTTTGTAATA
65 AAAAAACTGTCG--ATTAAAAACATCGGAACCCAGA-TTATAATGTAATAGATAATTTTGTAATA
10205344 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACA-TTTTCTA
127 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTT-TA
* * * *
10205408 ATATTGTGTCGGTTCTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-TAAAAAAGTG
191 ATATTATGTCGGTACTTTATGTCCAGATTAGAAGAAAAATGTGTCAATA-CATTGTAAAAAAGTG
* *
10205472 TCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTAT
255 TCGACATTTACACAACGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTAT
* * *
10205537 AAATATATCGGTTTTTTGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCG
320 AAATATATCGGTTTTATGAGAGAACAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCG
10205602 GTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATTTACA
385 GTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATTTACA
* *
10205667 CATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGT
450 CATCAGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGT
*
10205732 TTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTC
515 TTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGTACTTTATGTC
*
10205797 CAGATTGGAAGAAAAATGTGTCGATACCATTT-AAAAAAGTGTCGAGATTTACACATCGGAACCC
580 CAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAAGTGTCGACATTTACACATCGGAACCC
10205861 AGATTTATAATCTAATAGATAATTTTGTAATATAACCAGTATAAATATACCAGTTTTATGAGCGA
645 AGATTTATAATCTAATAGATAATTTTGTAATATAACCAGTATAAATATACCAGTTTTATGAGCGA
10205926 ATAGGTCTTACAACCTATATCG
710 ATAGGTC-TACAACCTATATCG
10205948 ACACGTTTTAATATTGTGTCGGTA
1 ACAC-TTTTAATATTGTGTCGGTA
10205972 ATTTTAAGTA
Statistics
Matches: 721, Mismatches: 28, Indels: 16
0.94 0.04 0.02
Matches are distributed among these distances:
732 121 0.17
733 590 0.82
734 7 0.01
735 3 0.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (730 bp):
ACACTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATTTA
AAAAACTGTCGATTAAAAACATCGGAACCCAGATTATAATGTAATAGATAATTTTGTAATATAAC
CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
ATGTCGGTACTTTATGTCCAGATTAGAAGAAAAATGTGTCAATACATTGTAAAAAAGTGTCGACA
TTTACACAACGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATAT
ATCGGTTTTATGAGAGAACAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGTACTT
TATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATTTACACATCAG
AACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATG
AGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATT
GGAAGAAAAATGTGTCGATACCATTTAAAAAAAGTGTCGACATTTACACATCGGAACCCAGATTT
ATAATCTAATAGATAATTTTGTAATATAACCAGTATAAATATACCAGTTTTATGAGCGAATAGGT
CTACAACCTATATCG
Found at i:10208460 original size:25 final size:25
Alignment explanation
Indices: 10208426--10208490 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
10208416 TTATCATTAA
10208426 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
10208451 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
10208476 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
10208491 TCTTTTGAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:10208830 original size:22 final size:23
Alignment explanation
Indices: 10208778--10208849 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
10208768 ATAGGTAAAA
*
10208778 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
10208801 ATATAATGTAATAGGTAGCG-TT
1 ATATAATGTAATAGGTAGCGCTT
* *
10208823 TTATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
10208846 ATAT
1 ATAT
10208850 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 20 0.45
23 24 0.55
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:10209291 original size:23 final size:23
Alignment explanation
Indices: 10209260--10209309 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
10209250 ATAGGTAAAA
*
10209260 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
10209283 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
10209306 ATAT
1 ATAT
10209310 TTTAAAGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:10209684 original size:460 final size:463
Alignment explanation
Indices: 10208801--10210182 Score: 2324
Period size: 460 Copynumber: 3.0 Consensus size: 463
10208791 GGTAGCGCTT
* *
10208801 ATATAATGTAATAGGTAGCGTTTTATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCC
1 ATATGATGTAATAGGTAGCGTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCC
*
10208866 TTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGTGT
66 TTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGT
10208931 GAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATA
131 GAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATA
*
10208996 TATTATTATTAAATTAAAAACAATAAACATATATTACATATTTATTATTATCTTTGTTTAATATT
196 TATTATTATT-AATTAAAAACAATAAACATATATTACATATTTATTATTATCTTTGGTTAATATT
*
10209061 GTTAAATTTAAATTCTAAATATTATTTTATAAAATATC-AAACAATCAAATAATTTT-TGTAAAT
260 GTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAA-ATTTTTGTGTAAAT
10209124 GAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAA
324 GAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAA
*
10209188 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAACTATGGACACTTTCAATATAATA
389 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
10209253 GGT-AA-A-A
454 GGTAAAGATA
*
10209260 ATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGTGCTTATATTTTAAAGTATCTATC
1 ATATGATGTAATAGGTAGCG-TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATC
10209325 CTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
65 CTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
*
10209390 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTAT
130 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATAT
10209455 ATATTATTATTAATTAAAAACAATAAACATATATATAACATATTTA-TATTATCTTTGGTTAATA
195 ATATTATTATTAATTAAAAACAATAAACATATAT-T-ACATATTTATTATTATCTTTGGTTAATA
10209519 TTGTTAAATTTAAATTCTAAATATTATTTTAT-AAATATCAAAACAATCAAAATTTTTGTGTAAA
258 TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAAATTTTTGTGTAAA
*
10209583 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAACTGAAACATA
323 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
10209648 AATTACATAACTTT-AAAGAAGTATCGATCCTTTTTAT-AAAAGTATGGACACTTTCAATATAAT
388 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
10209711 AGGTAAAAATGATGTA
453 AGGT--AAA-GA--TA
10209727 ATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTG
1 ATA--T---G--------ATGTAATAGGTAGCG-TTATATAATGTAATAGGTAGTGCTTATATTG
*
10209792 TAAAGTATCTATCCTTTTTATAAAACTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAG
52 TAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAG
10209857 GTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
117 GTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
10209922 TACGTTACGATATATA-TATTA-TAATTAAAAACAATAAACATATATTACATATTTATTATTATC
182 TACGTTACGATATATATTATTATTAATTAAAAACAATAAACATATATTACATATTTATTATTATC
*
10209985 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTA-TTTATAAAATATCAAAACAATC-AATT
247 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAAAT
*
10210048 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
312 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
* *
10210113 ATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACT
377 ATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACT
10210178 TTCAA
442 TTCAA
10210183 CATATTATAA
Statistics
Matches: 874, Mismatches: 18, Indels: 43
0.93 0.02 0.05
Matches are distributed among these distances:
459 83 0.09
460 318 0.36
461 39 0.04
462 2 0.00
464 1 0.00
467 4 0.00
469 1 0.00
472 1 0.00
476 105 0.12
477 82 0.09
478 44 0.05
479 5 0.01
480 189 0.22
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.40
Consensus pattern (463 bp):
ATATGATGTAATAGGTAGCGTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCC
TTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGT
GAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATA
TATTATTATTAATTAAAAACAATAAACATATATTACATATTTATTATTATCTTTGGTTAATATTG
TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAAATTTTTGTGTAAATGA
AATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAAT
TACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGG
TAAAGATA
Found at i:10209748 original size:23 final size:23
Alignment explanation
Indices: 10209722--10209789 Score: 118
Period size: 23 Copynumber: 3.0 Consensus size: 23
10209712 GGTAAAAATG
10209722 ATGTAATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGCGCTTATATA
*
10209745 ATGTAATAGGTAGCGTTTATATA
1 ATGTAATAGGTAGCGCTTATATA
*
10209768 ATGTAATAGGTAGTGCTTATAT
1 ATGTAATAGGTAGCGCTTATAT
10209790 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (23 bp):
ATGTAATAGGTAGCGCTTATATA
Found at i:10211010 original size:36 final size:36
Alignment explanation
Indices: 10210970--10211052 Score: 141
Period size: 36 Copynumber: 2.3 Consensus size: 36
10210960 GTCACGCATG
*
10210970 GTTGCATGTTGTTTGGCTTTAGT-CTTTATTAGGAGA
1 GTTGCATGTTGTTTGGCTTTAGTAC-TTATTAAGAGA
10211006 GTTGCATGTTGTTTGGCTTTAGTACTTATTAAGAGA
1 GTTGCATGTTGTTTGGCTTTAGTACTTATTAAGAGA
10211042 GTTGCATGTTG
1 GTTGCATGTTG
10211053 ACTTGTTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
36 44 0.98
37 1 0.02
ACGTcount: A:0.18, C:0.08, G:0.28, T:0.46
Consensus pattern (36 bp):
GTTGCATGTTGTTTGGCTTTAGTACTTATTAAGAGA
Found at i:10214899 original size:21 final size:21
Alignment explanation
Indices: 10214874--10214915 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
10214864 GCGGAAGCCT
10214874 CAAATACCGCTTGTTATGTTA
1 CAAATACCGCTTGTTATGTTA
10214895 CAAATACCGCTTGTTATGTTA
1 CAAATACCGCTTGTTATGTTA
10214916 TTAATCAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (21 bp):
CAAATACCGCTTGTTATGTTA
Found at i:10219429 original size:2 final size:2
Alignment explanation
Indices: 10219422--10219453 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
10219412 CAGCTTAAGC
*
10219422 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10219454 AAAATCAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:10219572 original size:13 final size:13
Alignment explanation
Indices: 10219550--10219583 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
10219540 AGGGGGAGTA
*
10219550 ATTTTCAAAATTG
1 ATTTTCAAAAATG
10219563 A-TTTCAAAAATG
1 ATTTTCAAAAATG
10219575 ATTTTCAAA
1 ATTTTCAAA
10219584 TAAAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:10222035 original size:36 final size:36
Alignment explanation
Indices: 10221959--10222028 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
10221949 GCATGGTTTC
**
10221959 ATGTTGTTTGTCTTTAGTCCTTATTGGGAGAGTTAA
1 ATGTTGTTTGTCTTTAGTCCTTATTAAGAGAGTTAA
*
10221995 ATGTTGTTT-TCCTTTAGTTCTTATTAAGAGAGTT
1 ATGTTGTTTGT-CTTTAGTCCTTATTAAGAGAGTT
10222029 GTATGTTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 1 0.03
36 29 0.97
ACGTcount: A:0.20, C:0.09, G:0.21, T:0.50
Consensus pattern (36 bp):
ATGTTGTTTGTCTTTAGTCCTTATTAAGAGAGTTAA
Found at i:10227741 original size:31 final size:32
Alignment explanation
Indices: 10227706--10227774 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 32
10227696 ACCACTAAAC
* *
10227706 AAATTATGTACAAATAT-AATTTTATTTATTT
1 AAATTAGGTACAAATATAAATTTTATTCATTT
* *
10227737 AAATTCGGTGCAAATATAAAATTTTATTCATTT
1 AAATTAGGTACAAATAT-AAATTTTATTCATTT
10227770 AAATT
1 AAATT
10227775 CAATGCAGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 14 0.44
33 18 0.56
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (32 bp):
AAATTAGGTACAAATATAAATTTTATTCATTT
Found at i:10229624 original size:79 final size:80
Alignment explanation
Indices: 10229533--10229693 Score: 315
Period size: 79 Copynumber: 2.0 Consensus size: 80
10229523 TTGAATTCTA
10229533 AATATTCAAAAGAAAATATTTGTATAAAAGATCATAGAAAATATATAATTTTATTTATTTTTAAT
1 AATATTCAAAAGAAAATATTTGTATAAAAGATCATAGAAAATATATAATTTTATTTATTTTTAAT
10229598 TTATATA-TTTCTTT
66 TTATATATTTTCTTT
10229612 AATATTCAAAAGAAAATATTTGTATAAAAGATCATAGAAAATATATAATTTTATTTATTTTTAAT
1 AATATTCAAAAGAAAATATTTGTATAAAAGATCATAGAAAATATATAATTTTATTTATTTTTAAT
10229677 TTATATATTTTCTTT
66 TTATATATTTTCTTT
10229692 AA
1 AA
10229694 AAAAATTAAA
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 72 0.89
80 9 0.11
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.47
Consensus pattern (80 bp):
AATATTCAAAAGAAAATATTTGTATAAAAGATCATAGAAAATATATAATTTTATTTATTTTTAAT
TTATATATTTTCTTT
Found at i:10233553 original size:6 final size:6
Alignment explanation
Indices: 10233531--10233628 Score: 90
Period size: 6 Copynumber: 16.5 Consensus size: 6
10233521 TAAGGTCTGT
** * * *
10233531 AAAAT- AAAATA GTAATA AAAATA AAAGTA AAAATA AAGATA AAGATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* * * * * *
10233578 AAAATG ATAATA AAAATA AAAATA ATAATA ATAATA ATAATA ATAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
10233626 AAA
1 AAA
10233629 TCATAGACAA
Statistics
Matches: 78, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
5 5 0.06
6 73 0.94
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.22
Consensus pattern (6 bp):
AAAATA
Found at i:10233596 original size:9 final size:9
Alignment explanation
Indices: 10233584--10233628 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
10233574 GATAAAAATG
10233584 ATAATAAAA
1 ATAATAAAA
10233593 ATAA-AAATA
1 ATAATAAA-A
*
10233602 ATAATAATA
1 ATAATAAAA
*
10233611 ATAATAATA
1 ATAATAAAA
10233620 ATAATAAAA
1 ATAATAAAA
10233629 TCATAGACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 3 0.09
9 27 0.84
10 2 0.06
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
ATAATAAAA
Found at i:10233867 original size:28 final size:28
Alignment explanation
Indices: 10233825--10233895 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
10233815 ACTTACTAAT
*
10233825 TTTGGAAATAGTTTACTAGGTAAGAAAC
1 TTTGGAAATACTTTACTAGGTAAGAAAC
10233853 TTTGGAAATACTTTACTAGGTAAGAAAC
1 TTTGGAAATACTTTACTAGGTAAGAAAC
*
10233881 TTAGGAAATATCTTT
1 TTTGGAAATA-CTTT
10233896 CTTACTTTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 36 0.90
29 4 0.10
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.35
Consensus pattern (28 bp):
TTTGGAAATACTTTACTAGGTAAGAAAC
Found at i:10238009 original size:64 final size:64
Alignment explanation
Indices: 10237932--10238059 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
10237922 TCAACATTTT
10237932 CAAAATCAGCATCATCAGCAGCTCAATCAGAACAATAAAGGTATATCTTATTCCTCTAACACTA
1 CAAAATCAGCATCATCAGCAGCTCAATCAGAACAATAAAGGTATATCTTATTCCTCTAACACTA
10237996 CAAAATCAGCATCATCAGCAGCTCAATCAGAACAATAAAGGTATATCTTATTCCTCTAACACTA
1 CAAAATCAGCATCATCAGCAGCTCAATCAGAACAATAAAGGTATATCTTATTCCTCTAACACTA
10238060 ATTCGAATAC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (64 bp):
CAAAATCAGCATCATCAGCAGCTCAATCAGAACAATAAAGGTATATCTTATTCCTCTAACACTA
Found at i:10242405 original size:196 final size:182
Alignment explanation
Indices: 10242031--10242409 Score: 616
Period size: 196 Copynumber: 2.0 Consensus size: 182
10242021 TTGCCGACAA
10242031 ATCCATGTAAACCTAAAGGTAGAGTCGAGGATGTCGTAAGGGTGGACAAGTTTGTGTTTCCAGTC
1 ATCCATGTAAACCTAAAGGTAGAGTCGAGGATGTCGTAAGGGTGGACAAGTTTGTGTTTCCAGTC
10242096 GATTCTTAATTCTGGACTGCGAAGTTTATGCCAAGGCAATCATTCTGGGAATACCTTTCCTAGCC
66 GATTCTTAATTCTGGACTGCGAAGTTTATGCCAAGGCAATCATTCTGGGAATACCTTTCCTAGCC
10242161 ACTGGCTTGATAGACTGTGAAAAAGGTGAACTCACCATGAGAGTCGCTAATT
131 ACTGGCTTGATAGACTGTGAAAAAGGTGAACTCACCATGAGAGTCGCTAATT
10242213 ATCCATGTTAAACCTAAAGGTAGAGTCGAGGATGTCATAGTAA-GGTGGACAAGTTTTGTGTTTC
1 ATCCATG-TAAACCTAAAGGTAGAGTCGAGGATGTC---GTAAGGGTGGACAAG-TTTGTGTTTC
10242277 CAGTCGACTTCTTAATTCTGGACTGCGAAGTTTATGCCAAGGCACCAATCATTCTGGGAATACCT
61 CAGTCGA-TTCTTAATTCTGGACTGCGAAGTTTATGCCAAGG---CAATCATTCTGGGAATACCT
10242342 TTCCTAGCCACTGGATGTATCTTGATAGACTGTGAAAAAGGTGAACTCACCATGAGAGTCGCTAA
122 TTCCTAGCCACT-G--G---CTTGATAGACTGTGAAAAAGGTGAACTCACCATGAGAGTCGCTAA
10242407 TT
181 TT
10242409 A
1 A
10242410 GTGTGTGACT
Statistics
Matches: 182, Mismatches: 0, Indels: 16
0.92 0.00 0.08
Matches are distributed among these distances:
182 7 0.04
183 28 0.15
185 10 0.05
186 21 0.12
187 34 0.19
190 32 0.18
191 1 0.01
193 1 0.01
196 48 0.26
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (182 bp):
ATCCATGTAAACCTAAAGGTAGAGTCGAGGATGTCGTAAGGGTGGACAAGTTTGTGTTTCCAGTC
GATTCTTAATTCTGGACTGCGAAGTTTATGCCAAGGCAATCATTCTGGGAATACCTTTCCTAGCC
ACTGGCTTGATAGACTGTGAAAAAGGTGAACTCACCATGAGAGTCGCTAATT
Found at i:10260355 original size:26 final size:26
Alignment explanation
Indices: 10260322--10260390 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
10260312 ATATGTTCTA
10260322 TTTCTTCTTTTTCTTCTATTTTTT-C
1 TTTCTTCTTTTTCTTCTATTTTTTGC
* *
10260347 TTTCATTCTTTTT-TTTTTTTTTTTGC
1 TTTC-TTCTTTTTCTTCTATTTTTTGC
*
10260373 TTTCTCTTTTTTTCTTCT
1 TTTCT-TCTTTTTCTTCT
10260391 TCTTCTCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 14 0.39
26 19 0.53
27 3 0.08
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.78
Consensus pattern (26 bp):
TTTCTTCTTTTTCTTCTATTTTTTGC
Found at i:10260359 original size:16 final size:15
Alignment explanation
Indices: 10260331--10260453 Score: 66
Period size: 14 Copynumber: 8.2 Consensus size: 15
10260321 ATTTCTTCTT
10260331 TTTCTTCTATTTTTTC
1 TTTCTTCT-TTTTTTC
10260347 TTTCATTC--TTTTT-
1 TTTC-TTCTTTTTTTC
*
10260360 TTT-TT-TTTTTTGC
1 TTTCTTCTTTTTTTC
10260373 TTTC-TCTTTTTTTC
1 TTTCTTCTTTTTTTC
10260387 TTCTTCTTCTCTTTTTTTC
1 -T-TTC-T-TCTTTTTTTC
*
10260406 TTTC-CCTCTTTTTTC
1 TTTCTTCT-TTTTTTC
* *
10260421 TTTGTTTCTTTGTTTC
1 TTT-CTTCTTTTTTTC
10260437 TTT-TT-TTTCTTTTC
1 TTTCTTCTTT-TTTTC
10260451 TTT
1 TTT
10260454 TCTGTTCTTT
Statistics
Matches: 85, Mismatches: 7, Indels: 32
0.69 0.06 0.26
Matches are distributed among these distances:
11 2 0.02
12 4 0.05
13 10 0.12
14 23 0.27
15 11 0.13
16 16 0.19
17 8 0.09
18 1 0.01
19 10 0.12
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTCTTCTTTTTTTC
Found at i:10260388 original size:8 final size:8
Alignment explanation
Indices: 10260326--10260469 Score: 87
Period size: 8 Copynumber: 16.9 Consensus size: 8
10260316 GTTCTATTTC
10260326 TTCTTTTT
1 TTCTTTTT
10260334 CTTCTATTTT
1 -TTCT-TTTT
**
10260344 TTCTTTCA
1 TTCTTTTT
10260352 TTCTTTTT
1 TTCTTTTT
10260360 TT-TTTTT
1 TTCTTTTT
10260367 TT-TTGCTTT
1 TTCTT--TTT
*
10260376 CTCTTTTT
1 TTCTTTTT
10260384 TTCTTCTTCT
1 TTCTT-TT-T
10260394 TCTCTTTTT
1 T-TCTTTTT
**
10260403 TTCTTTCC
1 TTCTTTTT
*
10260411 CTC-TTTT
1 TTCTTTTT
*
10260418 TTCTTTGT
1 TTCTTTTT
*
10260426 TTCTTTGT
1 TTCTTTTT
10260434 TTCTTTTTT
1 TTC-TTTTT
10260443 TTCTTTTCTT
1 TTC-TTT-TT
10260453 TTCTGTTCTT
1 TTCT-TT-TT
10260463 TTCTTTT
1 TTCTTTT
10260470 CTTATCCTCT
Statistics
Matches: 110, Mismatches: 14, Indels: 23
0.75 0.10 0.16
Matches are distributed among these distances:
7 13 0.12
8 39 0.35
9 30 0.27
10 24 0.22
11 4 0.04
ACGTcount: A:0.01, C:0.19, G:0.03, T:0.77
Consensus pattern (8 bp):
TTCTTTTT
Found at i:10260418 original size:58 final size:61
Alignment explanation
Indices: 10260322--10260468 Score: 171
Period size: 59 Copynumber: 2.4 Consensus size: 61
10260312 ATATGTTCTA
* *
10260322 TTTCTTCTTTTTCTTCTATTTTTTCTTTCATTCTTTTTTT-TTT-TTT-TTTGCTTTCTCTTTT
1 TTTCTTCTTCTTC-TCTATTTTTTCTTTCACTCTTTTTTTCTTTGTTTCTTTG-TTTCT-TTTT
*
10260383 TTTCTTCTTCTTCTCT-TTTTTTCTTTCCCTC-TTTTTTCTTTGTTTCTTTGTTTCTTTTT
1 TTTCTTCTTCTTCTCTATTTTTTCTTTCACTCTTTTTTTCTTTGTTTCTTTGTTTCTTTTT
* *
10260442 TTTCTT-TTCTTTTCTGTTCTTTTCTTT
1 TTTCTTCTTCTTCTCTATT-TTTTCTTT
10260469 TCTTATCCTC
Statistics
Matches: 77, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
58 14 0.18
59 28 0.36
60 19 0.25
61 16 0.21
ACGTcount: A:0.01, C:0.19, G:0.03, T:0.77
Consensus pattern (61 bp):
TTTCTTCTTCTTCTCTATTTTTTCTTTCACTCTTTTTTTCTTTGTTTCTTTGTTTCTTTTT
Found at i:10260422 original size:23 final size:23
Alignment explanation
Indices: 10260396--10260453 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
10260386 CTTCTTCTTC
10260396 TCTTTTTTTCTTTCCCTCTTTTT
1 TCTTTTTTTCTTTCCCTCTTTTT
* ***
10260419 TCTTTGTTTCTTTGTTTCTTTTT
1 TCTTTTTTTCTTTCCCTCTTTTT
*
10260442 T-TTCTTTTCTTT
1 TCTTTTTTTCTTT
10260454 TCTGTTCTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
22 9 0.31
23 20 0.69
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (23 bp):
TCTTTTTTTCTTTCCCTCTTTTT
Found at i:10260451 original size:5 final size:5
Alignment explanation
Indices: 10260352--10260472 Score: 69
Period size: 5 Copynumber: 24.0 Consensus size: 5
10260342 TTTTCTTTCA
*
10260352 TTCTT TT-TT TT-TT TT-TT TTGCTT TCTCTT TTTTT CTTCTT CTTCTCT
1 TTCTT TTCTT TTCTT TTCTT TT-CTT T-TCTT TTCTT -TTCTT -TTCT-T
* *
10260399 TT-TT TTCTT TCCCTC TT-TT TTCTT TGT-TT CTT-TGT TTCTT TT-TT
1 TTCTT TTCTT T-TCTT TTCTT TTCTT T-TCTT -TTCT-T TTCTT TTCTT
*
10260443 TTCTT TTCTT TTCTG TTCTT TTCTT TTCTT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT
10260473 ATCCTCTTTA
Statistics
Matches: 95, Mismatches: 8, Indels: 26
0.74 0.06 0.20
Matches are distributed among these distances:
4 22 0.23
5 46 0.48
6 25 0.26
7 2 0.02
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (5 bp):
TTCTT
Found at i:10263853 original size:45 final size:45
Alignment explanation
Indices: 10263797--10263897 Score: 116
Period size: 45 Copynumber: 2.2 Consensus size: 45
10263787 GCACCAATCC
* *
10263797 ATGCTTCGATGCAC-CAATGAATAAATTG-AACATCGAATGCATTTT
1 ATGCATCGATGCACTC-A-GAATAAATTGAAACATCGAATACATTTT
** **
10263842 ATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATACATTTT
1 ATGCATCGATGCACTCAGAATAAATTGAAACATCGAATACATTTT
10263887 ATGCATCGATG
1 ATGCATCGATG
10263898 AACACTTAGT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
44 6 0.12
45 41 0.85
46 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (45 bp):
ATGCATCGATGCACTCAGAATAAATTGAAACATCGAATACATTTT
Found at i:10271689 original size:4 final size:4
Alignment explanation
Indices: 10271680--10271713 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
10271670 GTAAAAGGAA
10271680 AAAT AAAT AAAT AAAT AAAT AAAT AAAT GAAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT A
10271714 TTAAAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:10271863 original size:29 final size:30
Alignment explanation
Indices: 10271797--10271863 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
10271787 ATGAAAATAT
*
10271797 AATAT-AATATAATATAAATAAAAAAACCA
1 AATATAAAAATAATATAAATAAAAAAACCA
* * * *
10271826 AAAACAAAAATAA-ATAAATATATAAACCA
1 AATATAAAAATAATATAAATAAAAAAACCA
10271855 AATATAAAA
1 AATATAAAA
10271864 GTATACATAT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
29 24 0.80
30 6 0.20
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (30 bp):
AATATAAAAATAATATAAATAAAAAAACCA
Found at i:10272044 original size:19 final size:19
Alignment explanation
Indices: 10272022--10272103 Score: 56
Period size: 19 Copynumber: 4.0 Consensus size: 19
10272012 AAAAAAGTAT
10272022 ATATATATATAAATAATAA
1 ATATATATATAAATAATAA
* *
10272041 ATATAGTATTAAAAAATAACCAA
1 ATATA-TA-T-ATAAATAA-TAA
* *
10272064 ATGAATATAAATAAATAAAAA
1 AT--ATATATATAAATAATAA
* *
10272085 ATATATGTATATATAATAA
1 ATATATATATAAATAATAA
10272104 TAATAAATAG
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
19 18 0.38
20 2 0.04
21 5 0.10
22 14 0.29
23 4 0.08
24 2 0.04
25 3 0.06
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (19 bp):
ATATATATATAAATAATAA
Found at i:10272625 original size:37 final size:37
Alignment explanation
Indices: 10272584--10272689 Score: 149
Period size: 37 Copynumber: 2.9 Consensus size: 37
10272574 AGTGCTTGTG
* * * *
10272584 TATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTC
1 TATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTA
* * *
10272621 TATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTA
1 TATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTA
10272658 TATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 TATCCTATTTTTAGGAGTTTGAATCCTAGTAG
10272690 GACGAAAAGG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (37 bp):
TATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTA
Found at i:10273730 original size:106 final size:107
Alignment explanation
Indices: 10273418--10275002 Score: 2222
Period size: 106 Copynumber: 15.0 Consensus size: 107
10273408 GCATTGTTCT
* * ** * *
10273418 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTATTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
* * * *
10273482 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC-TC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
* **
10273524 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAAA-T-TTGGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * * *
10273583 TCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
* * * *
10273625 G-GTCCAAGATCCTTTGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * *
10273689 CCAACAGTCCCTTCGTCATAAAGTTGAACTTGCGTTGTCTT-
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
*
10273730 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
10273795 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTC-TG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
** * ** * * *
10273836 GAGTCCAATATCCTTCATTATGAAGTTGAAATTGGCTCCAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
10273901 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
* * * * *
10273942 GAGTCCAATATCCTTCGCCGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTGGTTTATTGAAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
10274007 CCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT-
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
* * * *
10274048 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGTAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
10274113 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTATC-TG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
** * * * *
10274154 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
10274219 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTC-TA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
* *
10274260 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
10274325 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT-
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
* *
10274366 GAGTCCAATATCCTACTCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * *
10274431 TCAGCGGTCCCTACGTCGTGAAGTTGAACTTGTGTTGT-TTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
* * * * * * *
10274472 GAGTCCAATATCCTTCGTTGTAAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
10274537 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT-
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
* *
10274578 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTTTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
10274643 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
* * * *
10274684 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
10274749 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTC-TG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
* * *
10274790 GAGTCCAATATACTTCACTATGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
10274855 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTAGT-TTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
* * * *
10274896 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * *
10274961 CCAGCGGTCCCTTCTTCATGAAGTTAAACTTGCGTTGTCTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
10275003 AGTGGCACGA
Statistics
Matches: 1323, Mismatches: 138, Indels: 35
0.88 0.09 0.02
Matches are distributed among these distances:
100 79 0.06
101 5 0.00
102 5 0.00
104 3 0.00
105 9 0.01
106 1214 0.92
107 8 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (107 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
Found at i:10275608 original size:24 final size:24
Alignment explanation
Indices: 10275580--10275640 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
10275570 AATATCAATA
*
10275580 AAGAGTTTCGAAAGATGTTTAATC
1 AAGAGTTTTGAAAGATGTTTAATC
*
10275604 AAGAGTTTTGAAAGATGTTTAATT
1 AAGAGTTTTGAAAGATGTTTAATC
*
10275628 AAAAGTTTTGAAA
1 AAGAGTTTTGAAA
10275641 ATATTGTCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.41, C:0.03, G:0.20, T:0.36
Consensus pattern (24 bp):
AAGAGTTTTGAAAGATGTTTAATC
Found at i:10275858 original size:22 final size:22
Alignment explanation
Indices: 10275832--10275908 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
10275822 TTATGTTTGG
10275832 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
10275854 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
10275876 TCATAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
10275898 TCAATGGTTTG
1 TCAAAGGTTTG
10275909 ATGGGGTAGC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.39
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:10276541 original size:20 final size:20
Alignment explanation
Indices: 10276516--10276596 Score: 85
Period size: 20 Copynumber: 3.9 Consensus size: 20
10276506 TTTTTGTCCC
10276516 TTTTTCTTTTTGAT-TTTTGT
1 TTTTTCTTTTTG-TCTTTTGT
10276536 TTTTTCTTTTT-TCTTTTGT
1 TTTTTCTTTTTGTCTTTTGT
*
10276555 TTTCTTCTTTTTTGCTTCTTTTCT
1 TTT-TTC-TTTTTG--TCTTTTGT
*
10276579 TTTTTCTTTTTTTCTTTT
1 TTTTTCTTTTTGTCTTTT
10276597 TATTTTGATT
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
18 1 0.02
19 9 0.17
20 20 0.38
21 5 0.09
22 5 0.09
23 3 0.06
24 10 0.19
ACGTcount: A:0.01, C:0.12, G:0.05, T:0.81
Consensus pattern (20 bp):
TTTTTCTTTTTGTCTTTTGT
Found at i:10276585 original size:7 final size:7
Alignment explanation
Indices: 10276516--10276597 Score: 78
Period size: 7 Copynumber: 11.6 Consensus size: 7
10276506 TTTTTGTCCC
10276516 TTTTTC-
1 TTTTTCT
**
10276522 TTTTTGA
1 TTTTTCT
*
10276529 TTTTTGT
1 TTTTTCT
10276536 TTTTTCT
1 TTTTTCT
10276543 TTTTTCT
1 TTTTTCT
*
10276550 TTTGT-T
1 TTTTTCT
*
10276556 TTCTTCT
1 TTTTTCT
10276563 TTTTTGCT
1 TTTTT-CT
10276571 TCTTTTCT
1 T-TTTTCT
10276579 TTTTTCTT
1 TTTTTC-T
10276587 TTTTTCT
1 TTTTTCT
10276594 TTTT
1 TTTT
10276598 ATTTTGATTC
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
6 9 0.14
7 38 0.59
8 13 0.20
9 4 0.06
ACGTcount: A:0.01, C:0.12, G:0.05, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:10276594 original size:31 final size:31
Alignment explanation
Indices: 10276539--10276597 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
10276529 TTTTTGTTTT
*
10276539 TTCTTTTTTCTTTTGTTTTCTTCTTTTTTGC
1 TTCTTTTTTCTTTTCTTTTCTTCTTTTTTGC
*
10276570 TTCTTTTCTT-TTTTCTTTTTTTCTTTTT
1 TTCTTTT-TTCTTTTCTTTTCTTCTTTTT
10276598 ATTTTGATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 23 0.92
32 2 0.08
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.81
Consensus pattern (31 bp):
TTCTTTTTTCTTTTCTTTTCTTCTTTTTTGC
Found at i:10281127 original size:2 final size:2
Alignment explanation
Indices: 10281120--10281146 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10281110 TGAAATATTA
10281120 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
10281147 AACGAGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10281213 original size:18 final size:18
Alignment explanation
Indices: 10281164--10281217 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 18
10281154 AAAATAGAAA
*
10281164 AATAATAATCATAACAATAAT
1 AATAGTAAT-ATAA-AAT-AT
10281185 AATAGTAATATGAAAATAT
1 AATAGTAATAT-AAAATAT
10281204 AATA-TAATATAAAA
1 AATAGTAATATAAAA
10281218 AAAACCAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 4 0.13
18 6 0.19
19 6 0.19
20 5 0.16
21 10 0.32
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (18 bp):
AATAGTAATATAAAATAT
Found at i:10281218 original size:18 final size:19
Alignment explanation
Indices: 10281168--10281218 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
10281158 TAGAAAAATA
*
10281168 ATAATCATAACAATAATAAT
1 ATAAT-ATAAAAATAATAAT
*
10281188 AGTAATATGAAAAT-ATAAT
1 A-TAATATAAAAATAATAAT
10281207 ATAATATAAAAA
1 ATAATATAAAAA
10281219 AAACCAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 10 0.37
19 6 0.22
20 7 0.26
21 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (19 bp):
ATAATATAAAAATAATAAT
Found at i:10281440 original size:19 final size:19
Alignment explanation
Indices: 10281396--10281455 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 19
10281386 CGCTTATAAG
*
10281396 TAAA-ATATT-TAAAAAAG
1 TAAATATATTATAAAAAAA
*
10281413 TATATATATATATAAAAATAA
1 TAAATATAT-TATAAAAA-AA
*
10281434 TAAATATATTATTAAAAAA
1 TAAATATATTATAAAAAAA
10281453 TAA
1 TAA
10281456 CCAAATGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 3 0.09
18 4 0.11
19 6 0.17
20 13 0.37
21 9 0.26
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAATATATTATAAAAAAA
Found at i:10282083 original size:37 final size:37
Alignment explanation
Indices: 10281984--10282086 Score: 134
Period size: 37 Copynumber: 2.8 Consensus size: 37
10281974 AGTGCTTGTG
* * ** *
10281984 TATCCTATCTTTAGGAGTTTAAATCATATTAGAACTC
1 TATCCTATTTTTAGGAGTTTAAATCCTAGCAAAACTC
* * *
10282021 TATCCTATTTTTATGAGTTTGAATCCTAGCAAAATTC
1 TATCCTATTTTTAGGAGTTTAAATCCTAGCAAAACTC
10282058 TATCCTATTTTTAGGAGTTTAAATCCTAG
1 TATCCTATTTTTAGGAGTTTAAATCCTAG
10282087 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.43
Consensus pattern (37 bp):
TATCCTATTTTTAGGAGTTTAAATCCTAGCAAAACTC
Found at i:10288574 original size:34 final size:32
Alignment explanation
Indices: 10288521--10288589 Score: 93
Period size: 34 Copynumber: 2.1 Consensus size: 32
10288511 CCTTACAAGC
* *
10288521 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACATT
*
10288553 TCCCTAGCTTTTACACGGGCTAAGCTAGAACATT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACATT
10288587 TCC
1 TCC
10288590 TCTTTACAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACATT
Found at i:10288981 original size:20 final size:20
Alignment explanation
Indices: 10288938--10289019 Score: 130
Period size: 20 Copynumber: 4.0 Consensus size: 20
10288928 CCGTTAGACA
*
10288938 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCTGTACCCCCT-G
10288959 GGGGGAATCTGT-CTCCCCTG
1 GGGGGAATCTGTAC-CCCCTG
10288979 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
10288999 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
10289019 G
1 G
10289020 ACAATCTAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
20 41 0.71
21 17 0.29
ACGTcount: A:0.13, C:0.29, G:0.38, T:0.20
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:10290451 original size:19 final size:19
Alignment explanation
Indices: 10290408--10290455 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
10290398 TCTAAATCCT
*
10290408 TTTTCAAAATTTCATTTTG
1 TTTTCAAAATCTCATTTTG
10290427 TCTTTCAAAATCT-ATTTTTG
1 T-TTTCAAAATCTCA-TTTTG
10290447 TTTTCAAAA
1 TTTTCAAAA
10290456 GAAAATCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.54
Consensus pattern (19 bp):
TTTTCAAAATCTCATTTTG
Found at i:10291619 original size:30 final size:30
Alignment explanation
Indices: 10291580--10291655 Score: 134
Period size: 30 Copynumber: 2.5 Consensus size: 30
10291570 ATAGCTTGGA
*
10291580 ATGTGTTTGAAGTTGTATATAGTCGTTGGGG
1 ATGT-TTTGAAGTCGTATATAGTCGTTGGGG
10291611 ATGTTTTGAAGTCGTATATAGTCGTTGGGG
1 ATGTTTTGAAGTCGTATATAGTCGTTGGGG
10291641 ATGTTTTGAAGTCGT
1 ATGTTTTGAAGTCGT
10291656 TTGGGGATGA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 40 0.91
31 4 0.09
ACGTcount: A:0.20, C:0.05, G:0.33, T:0.42
Consensus pattern (30 bp):
ATGTTTTGAAGTCGTATATAGTCGTTGGGG
Found at i:10291799 original size:19 final size:20
Alignment explanation
Indices: 10291763--10291823 Score: 106
Period size: 20 Copynumber: 3.1 Consensus size: 20
10291753 CCGTTAGACA
*
10291763 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
10291783 GGGGGAATCTGTACCCCCT-
1 GGGGGAATCTGTACCCCCTG
10291802 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
10291822 GG
1 GG
10291824 CAATCTGATT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 19 0.49
20 20 0.51
ACGTcount: A:0.15, C:0.30, G:0.38, T:0.18
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:10293334 original size:23 final size:23
Alignment explanation
Indices: 10293263--10293345 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
10293253 ACACTTAAAA
*
10293263 GTGCATGGATGCATC-CCTTTGAAT
1 GTGCATCGATGCA-CACC-TTGAAT
* *
10293287 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACACCTTGAAT
* *
10293308 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
10293331 GTGCATCGATGCACA
1 GTGCATCGATGCACA
10293346 AGGACATGCA
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
21 14 0.30
22 3 0.06
23 21 0.45
24 9 0.19
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (23 bp):
GTGCATCGATGCACACCTTGAAT
Found at i:10295296 original size:64 final size:65
Alignment explanation
Indices: 10295205--10295413 Score: 223
Period size: 65 Copynumber: 3.2 Consensus size: 65
10295195 TTTCAAAGGA
* * * *
10295205 ATGCATCGATACAC-TAATCCATGCATCGATGCAC-CAATGAATAAATTG-AACATCGAATGCAT
1 ATGCATCGATGCACAT-AGCCATGCATCGATGCACTC-A-GGATATATTGAAACATCGAATGCAT
10295267 TTT
63 TTT
* *
10295270 ATGCATCGATGCACATA-CCATGCATCGATGCACTCAGGGT-TTTATGAAAACATCGAATGCATT
1 ATGCATCGATGCACATAGCCATGCATCGATGCACTCAGGATATAT-TG-AAACATCGAATGCATT
*
10295333 TG
64 TT
* * *
10295335 ATGCATCGATGCACA-AGACATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTT
1 ATGCATCGATGCACATAGCCATGCATCGATGCACTCAGGATATATTGAAACATCGAATGCATTTT
**
10295399 AAACATCGATGCACA
1 ATGCATCGATGCACA
10295414 CTTAGTACAC
Statistics
Matches: 126, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 48 0.38
65 69 0.55
66 4 0.03
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (65 bp):
ATGCATCGATGCACATAGCCATGCATCGATGCACTCAGGATATATTGAAACATCGAATGCATTTT
Found at i:10295323 original size:65 final size:64
Alignment explanation
Indices: 10295253--10295413 Score: 236
Period size: 65 Copynumber: 2.5 Consensus size: 64
10295243 GAATAAATTG
* *
10295253 AACATCGAATGCATTTTATGCATCGATGCACATA-CCATGCATCGATGCACTCAGGGT-TTTATG
1 AACATCGAATGCATTTTATGCATCGATGCACA-AGACATGCATCGATGCACTCAGGCTATTT-TG
10295316 AA
64 -A
*
10295318 AACATCGAATGCATTTGATGCATCGATGCACAAGACATGCATCGATGCACTCAGGCTATTTTGA
1 AACATCGAATGCATTTTATGCATCGATGCACAAGACATGCATCGATGCACTCAGGCTATTTTGA
**
10295382 AACATCGAATGCATTTTAAACATCGATGCACA
1 AACATCGAATGCATTTTATGCATCGATGCACA
10295414 CTTAGTACAC
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
64 31 0.35
65 54 0.61
66 3 0.03
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACAAGACATGCATCGATGCACTCAGGCTATTTTGA
Found at i:10295404 original size:18 final size:18
Alignment explanation
Indices: 10295375--10295411 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10295365 CACTCAGGCT
10295375 ATTTTGAAACATCGAATGC
1 ATTTTGAAACATCG-ATGC
10295394 ATTTT-AAACATCGATGC
1 ATTTTGAAACATCGATGC
10295411 A
1 A
10295412 CACTTAGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 8 0.44
19 5 0.28
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (18 bp):
ATTTTGAAACATCGATGC
Found at i:10295525 original size:21 final size:21
Alignment explanation
Indices: 10295472--10295527 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
10295462 TTTACATTTG
*
10295472 ATGCACCGATGCACCTTGTGT
1 ATGCATCGATGCACCTTGTGT
**
10295493 ATGCATATATGCACCTTGTGT
1 ATGCATCGATGCACCTTGTGT
10295514 ATGCATCGATGCAC
1 ATGCATCGATGCAC
10295528 TGACGCTCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.30
Consensus pattern (21 bp):
ATGCATCGATGCACCTTGTGT
Found at i:10301825 original size:18 final size:18
Alignment explanation
Indices: 10301802--10301845 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
10301792 ACCGGTCACA
10301802 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
10301820 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
10301838 ACCCGACC
1 ACCCGACC
10301846 GTTGACCGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.18, C:0.52, G:0.20, T:0.09
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:10301849 original size:12 final size:13
Alignment explanation
Indices: 10301824--10301867 Score: 54
Period size: 12 Copynumber: 3.3 Consensus size: 13
10301814 CCGTTGACCC
10301824 GACCCGACCCGTT
1 GACCCGACCCGTT
10301837 GACCCGA-CCGTT
1 GACCCGACCCGTT
*
10301849 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
10301864 GACC
1 GACC
10301868 GTTGATCGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 9 0.33
13 7 0.26
14 2 0.07
15 9 0.33
ACGTcount: A:0.16, C:0.41, G:0.25, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:10301854 original size:7 final size:7
Alignment explanation
Indices: 10301842--10301872 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
10301832 CCGTTGACCC
10301842 GACCGTT
1 GACCGTT
10301849 GACCGTT
1 GACCGTT
10301856 GACCCGTT
1 GA-CCGTT
10301864 GACCGTT
1 GACCGTT
10301871 GA
1 GA
10301873 TCGGAGTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:10301864 original size:15 final size:15
Alignment explanation
Indices: 10301844--10301872 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10301834 GTTGACCCGA
10301844 CCGTTGACCGTTGAC
1 CCGTTGACCGTTGAC
10301859 CCGTTGACCGTTGA
1 CCGTTGACCGTTGA
10301873 TCGGAGTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.31, G:0.28, T:0.28
Consensus pattern (15 bp):
CCGTTGACCGTTGAC
Found at i:10303221 original size:18 final size:18
Alignment explanation
Indices: 10303195--10303230 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10303185 TCGAAAGGAC
*
10303195 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
10303213 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
10303231 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:10304460 original size:24 final size:24
Alignment explanation
Indices: 10304339--10304453 Score: 146
Period size: 24 Copynumber: 4.8 Consensus size: 24
10304329 TCGATTTGAT
10304339 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
10304363 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
10304387 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
10304411 TTCTGATATGTTACTTGACCA--GA
1 TTCTGATCTGATACTTGA-CATGGA
*
10304434 TTTCTGATATGATACTTGAC
1 -TTCTGATCTGATACTTGAC
10304454 CTGATTTATA
Statistics
Matches: 82, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
23 4 0.05
24 76 0.93
25 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:10306207 original size:18 final size:21
Alignment explanation
Indices: 10306155--10306209 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
10306145 TCTGATACAA
*
10306155 ATATGTATATTTAATAAATTAT
1 ATAT-TATATATAATAAATTAT
10306177 ATATTATTATATAAT-AATTA-
1 ATATTA-TATATAATAAATTAT
10306197 A-ATTATATATAAT
1 ATATTATATATAAT
10306210 TATCTTATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 8 0.26
19 4 0.13
20 1 0.03
21 7 0.23
22 11 0.35
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATATTATATATAATAAATTAT
Found at i:10306218 original size:15 final size:16
Alignment explanation
Indices: 10306182--10306211 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10306172 ATTATATATT
10306182 ATTATATAATAATTAA
1 ATTATATAATAATTAA
10306198 ATTATAT-ATAATTA
1 ATTATATAATAATTA
10306212 TCTTATACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTATATAATAATTAA
Found at i:10309058 original size:22 final size:21
Alignment explanation
Indices: 10309017--10309059 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
10309007 TTCATGTATG
*
10309017 TTTTTTCTCTCTCTTTTTCTT
1 TTTTTTCTCCCTCTTTTTCTT
10309038 TTTTATTCTCCCT-TTTGTTCTT
1 TTTT-TTCTCCCTCTTT-TTCTT
10309060 CATCTCTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTTTCTCCCTCTTTTTCTT
Found at i:10310173 original size:29 final size:27
Alignment explanation
Indices: 10310133--10310266 Score: 119
Period size: 29 Copynumber: 4.7 Consensus size: 27
10310123 TATATGCCAA
* *
10310133 TATTTTAATATATAAAAAATTGTTTTC
1 TATTTTAATTTATAAAAAATTGTCTTC
*
10310160 TATTTTAAATTATAAAAAATATTTGTCCTT-
1 TATTTTAATTTAT-AAAAA-A-TTGT-CTTC
*
10310190 TATTTTAATTTATAAGAAGAATTATCTTC
1 TATTTTAATTTATAA-AA-AATTGTCTTC
* *
10310219 TATTATAATTTATAAAAAGAGTTGTCCAT-
1 TATTTTAATTTATAAAAA-A-TTGT-CTTC
10310248 TATTTTAATTTATAAAAAA
1 TATTTTAATTTATAAAAAA
10310267 CTTTTTCCTT
Statistics
Matches: 88, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
27 12 0.14
28 12 0.14
29 40 0.45
30 21 0.24
31 3 0.03
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (27 bp):
TATTTTAATTTATAAAAAATTGTCTTC
Found at i:10310251 original size:58 final size:57
Alignment explanation
Indices: 10310133--10310266 Score: 171
Period size: 58 Copynumber: 2.3 Consensus size: 57
10310123 TATATGCCAA
* * * * * * *
10310133 TATTTTAATATATAAAAAATTGTTTTCTATTTTAAATTATAAAAAATATTTGTCCTT
1 TATTTTAATTTATAAAAAATTATCTTCTATTATAAATTATAAAAAAGAGTTGTCCAT
*
10310190 TATTTTAATTTATAAGAAGAATTATCTTCTATTATAATTTAT-AAAAAGAGTTGTCCAT
1 TATTTTAATTTATAA-AA-AATTATCTTCTATTATAAATTATAAAAAAGAGTTGTCCAT
10310248 TATTTTAATTTATAAAAAA
1 TATTTTAATTTATAAAAAA
10310267 CTTTTTCCTT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
56 2 0.03
57 16 0.24
58 30 0.45
59 19 0.28
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (57 bp):
TATTTTAATTTATAAAAAATTATCTTCTATTATAAATTATAAAAAAGAGTTGTCCAT
Found at i:10310313 original size:87 final size:88
Alignment explanation
Indices: 10310160--10310322 Score: 197
Period size: 87 Copynumber: 1.9 Consensus size: 88
10310150 AATTGTTTTC
* * * * *
10310160 TATTTTAAATTATAAAAAATATTTGTCCTTTATTTTAATTTATAAGAAGAATTATCTTCTATTAT
1 TATTTTAAATTATAAAAAATATTTGTCCTTAAATGTAATTTATAAAAAGAATTATATTCTATTAT
10310225 AATTTATAAAAAGAGTTGTCCAT
66 AATTTATAAAAAGAGTTGTCCAT
* * * *
10310248 TATTTTAATTTATAAAAAACT-TTT-TCCTTAAATGTAATTTATAAAAAGTATTTTAATTTTA-T
1 TATTTTAAATTATAAAAAA-TATTTGTCCTTAAATGTAATTTATAAAAAGAATTAT-ATTCTATT
*
10310310 ATAATTTTTAAAA
64 ATAATTTATAAAA
10310323 TTTTCAGTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
87 37 0.59
88 25 0.40
89 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (88 bp):
TATTTTAAATTATAAAAAATATTTGTCCTTAAATGTAATTTATAAAAAGAATTATATTCTATTAT
AATTTATAAAAAGAGTTGTCCAT
Found at i:10313536 original size:55 final size:55
Alignment explanation
Indices: 10313470--10314137 Score: 356
Period size: 55 Copynumber: 12.1 Consensus size: 55
10313460 AATCTTCGTC
* *
10313470 AATCGTGTCTGCTCCCCATTCTTCCAGAGAGTACAAGACTCAAACGATTCTCGAT
1 AATCGTGTCTGCTCCCCATTCTTCCAGAGAGTACAAGACTCAAACAATTCTCAAT
* * * * ** *
10313525 AATCGTATCTGCTCCCTATTTTTTCAGAGAGTATGAGACTCGAACAATTCTCAAT
1 AATCGTGTCTGCTCCCCATTCTTCCAGAGAGTACAAGACTCAAACAATTCTCAAT
* * * * ** * *
10313580 AACCGTGCCTGCTCCCTATT-TTCTTCAGAGAGAATGAGACTCGAACAA-TCTTCAACG
1 AATCGTGTCTGCTCCCCATTCTTC--CAGAGAGTACAAGACTCAAACAATTC-TCAA-T
* * ** * *
10313637 AA-CATGTCTGCTCCCTATTTCTT-CAGAGAGTATGAGACTCGAACAA-TCTTCAAC
1 AATCGTGTCTGCTCCCCA-TTCTTCCAGAGAGTACAAGACTCAAACAATTC-TCAAT
* ** * *
10313691 AATCGTGTCTGCTCCCTATTTCTT-CAGAGAGTATGAGACTCGAACAA-TCTTCAAC
1 AATCGTGTCTGCTCCCCA-TTCTTCCAGAGAGTACAAGACTCAAACAATTC-TCAAT
* ** * *
10313746 AATCGTGTCTGCTCCCTATTTCTT-CAGAGAGTATGAGACTCGAACAA-TCTTCAACA
1 AATCGTGTCTGCTCCCCA-TTCTTCCAGAGAGTACAAGACTCAAACAATTC-TCAA-T
* ** * *
10313802 AAT-GTGTCTGCTCCCTATTTCTT-CAGAGAGTATGAGACTCGAACAA-TCTTCAAC
1 AATCGTGTCTGCTCCCCA-TTCTTCCAGAGAGTACAAGACTCAAACAATTC-TCAAT
* * ** * *
10313856 AATCGTGTCTGCTCCCTATT-TTCTTCAGAGAGAATGAGACTCGAACAA-TCTTCAAC
1 AATCGTGTCTGCTCCCCATTCTTC--CAGAGAGTACAAGACTCAAACAATTC-TCAAT
* * ** * *
10313912 AAACGTGTCTGCTCCCTATTTCTT-CAGAGAGTATGAGACTCGAACAA-TCTTCAAC
1 AATCGTGTCTGCTCCCCA-TTCTTCCAGAGAGTACAAGACTCAAACAATTC-TCAAT
* * ** * * *
10313967 AATTGTGTCTGCTCCCTATTTCTT-CAGAGAGTATGAGACTCGAATAA-TCTTCAAC
1 AATCGTGTCTGCTCCCCA-TTCTTCCAGAGAGTACAAGACTCAAACAATTC-TCAAT
** * *
10314022 AATCGTGTCTGC-CCCCTATTTCTT-CAGAGAGTATGAGACTCGAACAA-TCTTCAAC
1 AATCGTGTCTGCTCCCC-A-TTCTTCCAGAGAGTACAAGACTCAAACAATTC-TCAAT
* ** * *
10314077 AATCGTGTCTGCTCCCTATTTCTT-CAGAGAGTATGAGACTCGAACAA-TCTTCAAC
1 AATCGTGTCTGCTCCCCA-TTCTTCCAGAGAGTACAAGACTCAAACAATTC-TCAAT
10314132 AATCGT
1 AATCGT
10314138 TGGGAAACCT
Statistics
Matches: 565, Mismatches: 32, Indels: 32
0.90 0.05 0.05
Matches are distributed among these distances:
53 2 0.00
54 12 0.02
55 449 0.79
56 92 0.16
57 6 0.01
58 4 0.01
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (55 bp):
AATCGTGTCTGCTCCCCATTCTTCCAGAGAGTACAAGACTCAAACAATTCTCAAT
Found at i:10313767 original size:110 final size:110
Alignment explanation
Indices: 10313431--10314137 Score: 1079
Period size: 110 Copynumber: 6.4 Consensus size: 110
10313421 TGGTTTTATC
* * * ** *
10313431 CCCTATTGCTTCAGGGAGTA--AAACTCGAA-AATCTTCGTCAATCGTGTCTGCTCCCCA-TTCT
1 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCT
** * * * * *
10313492 TCCAGAGAGTACAAGACTCAAACGAT-TCTCGATAATCGTATCTGCT
66 T-CAGAGAGTATGAGACTCGAACAATCT-TCAACAATCGTGTCTGCT
* * * *
10313538 CCCTATTTTTTCAGAGAGTATGAGACTCGAACAAT-TCTCAATAACCGTGCCTGCTCCCTATTTT
1 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCT-TCAACAATCGTGTCTGCTCCCTA-TTT
* *
10313602 CTTCAGAGAGAATGAGACTCGAACAATCTTCAACGAA-CATGTCTGCT
64 CTTCAGAGAGTATGAGACTCGAACAATCTTCAAC-AATCGTGTCTGCT
10313649 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCT
10313714 TCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
66 TCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
10313759 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAAAT-GTGTCTGCTCCCTATTTC
1 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAAC-AATCGTGTCTGCTCCCTATTTC
10313823 TTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
65 TTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
* *
10313869 CCCTATTTTCTTCAGAGAGAATGAGACTCGAACAATCTTCAACAAACGTGTCTGCTCCCTATTTC
1 CCCTA-TTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTC
*
10313934 TTCAGAGAGTATGAGACTCGAACAATCTTCAACAATTGTGTCTGCT
65 TTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
* *
10313980 CCCTATTTCTTCAGAGAGTATGAGACTCGAATAATCTTCAACAATCGTGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCT
10314045 TCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
66 TCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
10314090 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGT
1 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGT
10314138 TGGGAAACCT
Statistics
Matches: 553, Mismatches: 34, Indels: 23
0.91 0.06 0.04
Matches are distributed among these distances:
107 17 0.03
109 11 0.02
110 325 0.59
111 191 0.35
112 9 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (110 bp):
CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCT
TCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
Found at i:10313953 original size:276 final size:275
Alignment explanation
Indices: 10313431--10314137 Score: 1129
Period size: 276 Copynumber: 2.6 Consensus size: 275
10313421 TGGTTTTATC
* * * ** *
10313431 CCCTATTGCTTCAGGGAGTA--AAACTCGAAAATCTTCGTCAATCGTGTCTGCTCCCCA-TTCTT
1 CCCTATTTCTTCAGAGAGTATGAGACTCGAAAATCTTCAACAATCGTGTCTGCTCCCTATTTCTT
** * * * * * *
10313493 CCAGAGAGTACAAGACTCAAACGAT-TCTCGATAATCGTATCTGCTCCCTATTTTTTCAGAGAGT
66 -CAGAGAGTATGAGACTCGAACAATCT-TCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGT
* *
10313557 ATGAGACTCGAACAAT-TCTCAATAACCGTGCCTGCTCCCTATTTTCTTCAGAGAGAATGAGACT
129 ATGAGACTCGAACAATCT-TCAACAATCGTGCCTGCTCCCTATTTTCTTCAGAGAGAATGAGACT
*
10313621 CGAACAATCTTCAACGAACATGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCT
193 CGAACAATCTTCAACAAACATGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCT
10313686 TCAACAATCGTGTCTGCT
258 TCAACAATCGTGTCTGCT
10313704 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATGAGACTCGAA-AATCTTCAACAATCGTGTCTGCTCCCTATTTCT
10313769 TCAGAGAGTATGAGACTCGAACAATCTTCAACAAAT-GTGTCTGCTCCCTATTTCTTCAGAGAGT
65 TCAGAGAGTATGAGACTCGAACAATCTTCAAC-AATCGTGTCTGCTCCCTATTTCTTCAGAGAGT
*
10313833 ATGAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTTCTTCAGAGAGAATGAGACTC
129 ATGAGACTCGAACAATCTTCAACAATCGTGCCTGCTCCCTATTTTCTTCAGAGAGAATGAGACTC
*
10313898 GAACAATCTTCAACAAACGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTT
194 GAACAATCTTCAACAAACATGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTT
*
10313963 CAACAATTGTGTCTGCT
259 CAACAATCGTGTCTGCT
*
10313980 CCCTATTTCTTCAGAGAGTATGAGACTCGAATAATCTTCAACAATCGTGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATGAGACTCGAA-AATCTTCAACAATCGTGTCTGCTCCCTATTTCT
10314045 TCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTA
65 TCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTA
10314110 TGAGACTCGAACAATCTTCAACAATCGT
130 TGAGACTCGAACAATCTTCAACAATCGT
10314138 TGGGAAACCT
Statistics
Matches: 404, Mismatches: 22, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
273 18 0.04
275 11 0.03
276 365 0.90
277 10 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (275 bp):
CCCTATTTCTTCAGAGAGTATGAGACTCGAAAATCTTCAACAATCGTGTCTGCTCCCTATTTCTT
CAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTAT
GAGACTCGAACAATCTTCAACAATCGTGCCTGCTCCCTATTTTCTTCAGAGAGAATGAGACTCGA
ACAATCTTCAACAAACATGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCA
ACAATCGTGTCTGCT
Found at i:10331735 original size:25 final size:25
Alignment explanation
Indices: 10331706--10331755 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
10331696 ATGATATAAA
10331706 AACTAGACTTTATTGCAAATAAAGT
1 AACTAGACTTTATTGCAAATAAAGT
*
10331731 AACTAGACTTTCTTGCAAATAAAGT
1 AACTAGACTTTATTGCAAATAAAGT
10331756 TTTTGTTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (25 bp):
AACTAGACTTTATTGCAAATAAAGT
Found at i:10334084 original size:44 final size:41
Alignment explanation
Indices: 10334030--10334131 Score: 107
Period size: 41 Copynumber: 2.4 Consensus size: 41
10334020 TTTGTGCATA
* *
10334030 TGATTATTCTTGAATCTTCCATGGAT-TAGAGGAATTTTGTTTGT
1 TGATTGTTCTTGAAT-TACCAT-GATGTAGAGG-A-TTTGTTTGT
* **
10334074 TGATTGTTCTTGCATTAGTATGATGTAGAGGATTTGTTTGT
1 TGATTGTTCTTGAATTACCATGATGTAGAGGATTTGTTTGT
*
10334115 TGATTGTTCTTGCATTA
1 TGATTGTTCTTGAATTA
10334132 GTATGCATGT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
41 26 0.50
42 4 0.08
43 9 0.17
44 13 0.25
ACGTcount: A:0.21, C:0.08, G:0.23, T:0.49
Consensus pattern (41 bp):
TGATTGTTCTTGAATTACCATGATGTAGAGGATTTGTTTGT
Found at i:10334116 original size:41 final size:44
Alignment explanation
Indices: 10334056--10334142 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 44
10334046 TTCCATGGAT
10334056 TAGAGGAATTTTGTTTGTTGATTGTTCTTGCATTAGTATG-ATG
1 TAGAGGAATTTTGTTTGTTGATTGTTCTTGCATTAGTATGCATG
10334099 TAGAGG-A-TTTGTTTGTTGATTGTTCTTGCATTAGTATGCATG
1 TAGAGGAATTTTGTTTGTTGATTGTTCTTGCATTAGTATGCATG
10334141 TA
1 TA
10334143 AAACACTGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
41 31 0.72
42 6 0.14
43 6 0.14
ACGTcount: A:0.21, C:0.06, G:0.25, T:0.48
Consensus pattern (44 bp):
TAGAGGAATTTTGTTTGTTGATTGTTCTTGCATTAGTATGCATG
Found at i:10336184 original size:107 final size:107
Alignment explanation
Indices: 10336043--10336259 Score: 425
Period size: 107 Copynumber: 2.0 Consensus size: 107
10336033 TTTCCTAACA
*
10336043 AAGTTGCAATCCAGTTGCCTCAGGTGTGTTTTGTCAGTTTCTGCTTCAGTTATCTTGTTATGAGT
1 AAGTTGCAATCCAGTTGCCTCAGGTGTGTGTTGTCAGTTTCTGCTTCAGTTATCTTGTTATGAGT
10336108 ATCGAAATATTTACATTAATATTCCTGAATCATGTCAGGATG
66 ATCGAAATATTTACATTAATATTCCTGAATCATGTCAGGATG
10336150 AAGTTGCAATCCAGTTGCCTCAGGTGTGTGTTGTCAGTTTCTGCTTCAGTTATCTTGTTATGAGT
1 AAGTTGCAATCCAGTTGCCTCAGGTGTGTGTTGTCAGTTTCTGCTTCAGTTATCTTGTTATGAGT
10336215 ATCGAAATATTTACATTAATATTCCTGAATCATGTCAGGATG
66 ATCGAAATATTTACATTAATATTCCTGAATCATGTCAGGATG
10336257 AAG
1 AAG
10336260 CTTTACTTTT
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 109 1.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (107 bp):
AAGTTGCAATCCAGTTGCCTCAGGTGTGTGTTGTCAGTTTCTGCTTCAGTTATCTTGTTATGAGT
ATCGAAATATTTACATTAATATTCCTGAATCATGTCAGGATG
Found at i:10340297 original size:32 final size:32
Alignment explanation
Indices: 10340223--10340311 Score: 115
Period size: 32 Copynumber: 2.8 Consensus size: 32
10340213 AATAGTTGAT
* * **
10340223 ATGGAATGTGCCATGACACTCAAAGTGATGAG
1 ATGGAATGTGTCATGTCACTTGAAGTGATGAG
10340255 ATGGAATGTGTCATGTCACTTGAAGTGATGAG
1 ATGGAATGTGTCATGTCACTTGAAGTGATGAG
* * *
10340287 ATGGCATGTGTTATGTTACTTGAAG
1 ATGGAATGTGTCATGTCACTTGAAG
10340312 CGATAATGTG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.30
Consensus pattern (32 bp):
ATGGAATGTGTCATGTCACTTGAAGTGATGAG
Found at i:10340324 original size:32 final size:32
Alignment explanation
Indices: 10340260--10340359 Score: 112
Period size: 32 Copynumber: 3.1 Consensus size: 32
10340250 ATGAGATGGA
* *
10340260 ATGTGTCATGTCACTTGAAGTGATGA-GATGGC
1 ATGTGTTATGTCACTTGAAGCGATGATG-TGGC
* *
10340292 ATGTGTTATGTTACTTGAAGCGATAATGTGGC
1 ATGTGTTATGTCACTTGAAGCGATGATGTGGC
** * *
10340324 ATGTACTACGTCACTTGAAGCGATGATGTGAC
1 ATGTGTTATGTCACTTGAAGCGATGATGTGGC
10340356 ATGT
1 ATGT
10340360 CACCCAAAGC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
32 56 0.98
33 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (32 bp):
ATGTGTTATGTCACTTGAAGCGATGATGTGGC
Found at i:10340384 original size:25 final size:26
Alignment explanation
Indices: 10340341--10340419 Score: 81
Period size: 32 Copynumber: 2.9 Consensus size: 26
10340331 ACGTCACTTG
*
10340341 AAGCGATGATGT-GACATGTCACCCA
1 AAGCGATGATGTAGATATGTCACCCA
10340366 AAGCGATGATGTAGTATGTGATATGTCACCCA
1 AAGCGATGA--T-GTA---GATATGTCACCCA
10340398 AAGCGATGATGTAG-TATGTCAC
1 AAGCGATGATGTAGATATGTCAC
10340420 ATGTCACTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
25 17 0.37
26 1 0.02
27 1 0.02
28 2 0.04
29 3 0.07
30 1 0.02
32 21 0.46
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (26 bp):
AAGCGATGATGTAGATATGTCACCCA
Found at i:10340385 original size:32 final size:32
Alignment explanation
Indices: 10340349--10340473 Score: 178
Period size: 32 Copynumber: 3.9 Consensus size: 32
10340339 TGAAGCGATG
10340349 ATGTGACATGTCACCCAAAGCGATGATGTAGT
1 ATGTGACATGTCACCCAAAGCGATGATGTAGT
*
10340381 ATGTGATATGTCACCCAAAGCGATGATGTAGT
1 ATGTGACATGTCACCCAAAGCGATGATGTAGT
* * * *
10340413 ATGTCACATGTCACTCAAAACGATGATTTAGT
1 ATGTGACATGTCACCCAAAGCGATGATGTAGT
** *
10340445 ATGTTTCATGTCATCCAAAGCGATGATGT
1 ATGTGACATGTCACCCAAAGCGATGATGT
10340474 GGCTTGTATC
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 81 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (32 bp):
ATGTGACATGTCACCCAAAGCGATGATGTAGT
Found at i:10344328 original size:24 final size:24
Alignment explanation
Indices: 10344293--10344350 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
10344283 TTTATTTGAT
*
10344293 TTTC-GATTTGAAATATGTTATGA
1 TTTCTGATCTGAAATATGTTATGA
* * *
10344316 TTTCTTATCTGAATTCTGTTATGA
1 TTTCTGATCTGAAATATGTTATGA
10344340 TTTCTGATCTG
1 TTTCTGATCTG
10344351 GACTCTGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 4 0.14
24 25 0.86
ACGTcount: A:0.22, C:0.10, G:0.16, T:0.52
Consensus pattern (24 bp):
TTTCTGATCTGAAATATGTTATGA
Found at i:10344396 original size:24 final size:24
Alignment explanation
Indices: 10344308--10344397 Score: 90
Period size: 24 Copynumber: 3.8 Consensus size: 24
10344298 ATTTGAAATA
* *
10344308 TGTTATGATTTCTTATCTGAATTC
1 TGTTATGATTTCTGATATGAATTC
* * *
10344332 TGTTATGATTTCTGATCTGGACTC
1 TGTTATGATTTCTGATATGAATTC
* * **
10344356 TGTTTTGATATAAGATATGAATTC
1 TGTTATGATTTCTGATATGAATTC
*
10344380 TGTTTTGATTTCTGATAT
1 TGTTATGATTTCTGATAT
10344398 CTCCGTTTAT
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.22, C:0.10, G:0.17, T:0.51
Consensus pattern (24 bp):
TGTTATGATTTCTGATATGAATTC
Found at i:10347009 original size:8 final size:8
Alignment explanation
Indices: 10346996--10347030 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
10346986 TAAACTTTAT
10346996 TTTTCATC
1 TTTTCATC
*
10347004 TTTTCATA
1 TTTTCATC
10347012 TTTTCATC
1 TTTTCATC
10347020 TTTTCATC
1 TTTTCATC
10347028 TTT
1 TTT
10347031 CAATCCCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.66
Consensus pattern (8 bp):
TTTTCATC
Found at i:10348861 original size:65 final size:65
Alignment explanation
Indices: 10348719--10348881 Score: 172
Period size: 65 Copynumber: 2.5 Consensus size: 65
10348709 AATTGTTCAG
* * * * *
10348719 AGTGTATCGATGCACAGGAAGTGCATCAATGCA-CCCATTAAAAATGGAAACATCGAATGCAATT
1 AGTGTATCGATGCATAGGAAGTGCATCGATGCACCCCATTAAAAATGAAAACATCGAAGGAAATT
* * * *
10348783 AGTGCATCAATGCATTAGG-AGTGCATCGATGCACCCCCCTT-AAAATGAAAACATTGAAGGTAA
1 AGTGTATCGATGCA-TAGGAAGTGCATCGATGCA-CCCCATTAAAAATGAAAACATCGAAGG-AA
10348846 ATT
63 ATT
* *
10348849 -GTGTATCGATGCATGGGTAGTGCATCGATGCAC
1 AGTGTATCGATGCATAGGAAGTGCATCGATGCAC
10348882 ATGTTAAAGA
Statistics
Matches: 82, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
64 29 0.35
65 44 0.54
66 9 0.11
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (65 bp):
AGTGTATCGATGCATAGGAAGTGCATCGATGCACCCCATTAAAAATGAAAACATCGAAGGAAATT
Found at i:10348914 original size:20 final size:22
Alignment explanation
Indices: 10348869--10348926 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
10348859 GCATGGGTAG
10348869 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
10348893 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
10348913 TGCATCGATGCACT
1 TGCATCGATGCACT
10348927 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:10351286 original size:23 final size:23
Alignment explanation
Indices: 10351235--10351286 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
10351225 TATGGACATT
10351235 ATTATAT--GGCACTACGGTGCA
1 ATTATATGCGGCACTACGGTGCA
* * *
10351256 ATTCTATGCGGCACTTCGGTGTA
1 ATTATATGCGGCACTACGGTGCA
*
10351279 TTTATATG
1 ATTATATG
10351287 AGCTGTGGTG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 6 0.25
23 18 0.75
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (23 bp):
ATTATATGCGGCACTACGGTGCA
Found at i:10351449 original size:2 final size:2
Alignment explanation
Indices: 10351442--10351469 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10351432 ATTACATTGA
10351442 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
10351470 TATCTTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10352459 original size:23 final size:23
Alignment explanation
Indices: 10352391--10352459 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
10352381 ACATTTTATA
* *
10352391 TGGCACTTCGGTGCAATCCTACG
1 TGGCACTTCGGTGTAATTCTACG
* * *
10352414 TGGCACTACAGTGTATTTCTACG
1 TGGCACTTCGGTGTAATTCTACG
*
10352437 TGGCACTTCGGTGTAATTATACG
1 TGGCACTTCGGTGTAATTCTACG
10352460 AGCTATGTTG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (23 bp):
TGGCACTTCGGTGTAATTCTACG
Found at i:10352510 original size:16 final size:17
Alignment explanation
Indices: 10352489--10352522 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10352479 GTGCACAACC
10352489 TCTATAG-ACTCACATA
1 TCTATAGTACTCACATA
*
10352505 TCTATAGTTCTCACATA
1 TCTATAGTACTCACATA
10352522 T
1 T
10352523 GTACATGGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (17 bp):
TCTATAGTACTCACATA
Found at i:10366636 original size:20 final size:21
Alignment explanation
Indices: 10366613--10366657 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
10366603 TATTATATGT
**
10366613 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
10366633 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
10366654 ATAT
1 ATAT
10366658 CACTAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:10367493 original size:10 final size:11
Alignment explanation
Indices: 10367475--10367506 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
10367465 TTTTTCCTTC
10367475 TGTTTTTTTTT
1 TGTTTTTTTTT
10367486 TGTTTTTTTTT
1 TGTTTTTTTTT
10367497 TGTTTTTTTT
1 TGTTTTTTTT
10367507 GCTCTGTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (11 bp):
TGTTTTTTTTT
Found at i:10368064 original size:3 final size:3
Alignment explanation
Indices: 10368056--10368196 Score: 210
Period size: 3 Copynumber: 46.7 Consensus size: 3
10368046 TTAATATATT
* * *
10368056 TAA TAA TAA TTAG TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAG
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
10368102 CAA TAA TAA TAA TAA TAA TAA TAA TAG TAA AAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
10368150 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
10368197 TGGATAAAAA
Statistics
Matches: 123, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
3 121 0.98
4 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10368763 original size:113 final size:113
Alignment explanation
Indices: 10368516--10369980 Score: 2035
Period size: 113 Copynumber: 13.0 Consensus size: 113
10368506 AGAATTATGC
* * *
10368516 CAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
10368580 TTATGAACTTC--TCCGGAAAAGATAATCCATCAATTGATGGA-TTCAGG
66 TTATGAAC-TCGATCTGGAAAAGATGATCCATCAAATGATGGATTTGA-G
*
10368627 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
10368692 TTATGAACTCGAACTGGAAAAGATGATCCACCAAATGATGGATTCAT-A-
66 TTATGAACTCGATCTGGAAAAGATGATCCATCAAATGATGGATT--TGAG
*
10368740 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
10368805 TTATGAACTCGAACTGGGAAAGATGATCCACCAAATGATGGATTCAT-A-
66 TTATGAACTCGATCTGGAAAAGATGATCCATCAAATGATGGATT--TGAG
*
10368853 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
10368918 TTATGAACTCGAACTGGAAAAGATGATCCACCAAATGATGGATTCAT-A-
66 TTATGAACTCGATCTGGAAAAGATGATCCATCAAATGATGGATT--TGAG
*
10368966 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
10369031 TTATGAACTCGAACTGGAAAAGATGATCCACCAAATGATGGATTCAT-A-
66 TTATGAACTCGATCTGGAAAAGATGATCCATCAAATGATGGATT--TGAG
*
10369079 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
10369144 TTATGAACTCGAACTGGAAAAGATGATCCACCAAATGATGGATTCAT-A-
66 TTATGAACTCGATCTGGAAAAGATGATCCATCAAATGATGGATT--TGAG
* *
10369192 TAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*** * **
10369257 TTATGAACTTTTTCTGGAAAAGCTGATCCATCTGATGATGGATTTGAG
66 TTATGAACTCGATCTGGAAAAGATGATCCATCAAATGATGGATTTGAG
*
10369305 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*** * *
10369370 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAG
66 TTATGAACTCGATCTGGAAAAGATGATCCATCAAATGATGGATTTGAG
* *
10369418 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCC-TCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
** * * * * * *
10369482 TTATGAACTTTTACCTGGCAATGTTGATCCATCGAGTGATGGATTTGAG
66 TTATGAAC-TCGATCTGGAAAAGATGATCCATCAAATGATGGATTTGAG
*
10369531 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*** * *
10369596 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAG
66 TTATGAACTCGATCTGGAAAAGATGATCCATCAAATGATGGATTTGAG
*
10369644 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*** * *
10369709 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAG
66 TTATGAACTCGATCTGGAAAAGATGATCCATCAAATGATGGATTTGAG
*
10369757 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*** * *
10369822 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAG
66 TTATGAACTCGATCTGGAAAAGATGATCCATCAAATGATGGATTTGAG
* * * *
10369870 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCTTTCTTCAGATGAATTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * **
10369935 TTATGAACTCGACCT-GAAATGTTGATCCATTGAATGATGGATTTGA
66 TTATGAACTCGATCTGGAAAAGATGATCCATCAAATGATGGATTTGA
10369981 ATCTTTGCTA
Statistics
Matches: 1286, Mismatches: 58, Indels: 19
0.94 0.04 0.01
Matches are distributed among these distances:
111 7 0.01
112 120 0.09
113 1127 0.88
114 30 0.02
115 1 0.00
116 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (113 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCGATCTGGAAAAGATGATCCATCAAATGATGGATTTGAG
Found at i:10375100 original size:6 final size:6
Alignment explanation
Indices: 10375085--10375128 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
10375075 CTTTATTCGA
* *
10375085 TTTTCC TTTTCT TTTT-T TTTTCT TTTTCT TCTTCT TCTTTCT TT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T-TTTCT TT
10375129 GCTGGATGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
5 5 0.15
6 23 0.70
7 5 0.15
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTCT
Found at i:10375111 original size:17 final size:19
Alignment explanation
Indices: 10375085--10375128 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
10375075 CTTTATTCGA
*
10375085 TTTTCCTTTTCTT-TT-TT
1 TTTTCTTTTTCTTCTTCTT
10375102 TTTTCTTTTTCTTCTTCTT
1 TTTTCTTTTTCTTCTTCTT
*
10375121 CTTTCTTT
1 TTTTCTTT
10375129 GCTGGATGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 12 0.52
18 2 0.09
19 9 0.39
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTCTTTTTCTTCTTCTT
Found at i:10379149 original size:15 final size:13
Alignment explanation
Indices: 10379117--10379154 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
10379107 TTTGACAGAA
10379117 AAAT-AAATAATG
1 AAATAAAATAATG
10379129 AAATAAAATAATTG
1 AAATAAAATAA-TG
10379143 CAAATAAAATAA
1 -AAATAAAATAA
10379155 AACATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.17
13 6 0.26
14 2 0.09
15 11 0.48
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (13 bp):
AAATAAAATAATG
Found at i:10379907 original size:20 final size:21
Alignment explanation
Indices: 10379884--10379928 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
10379874 TATTATATGT
**
10379884 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
10379904 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
10379925 ATAT
1 ATAT
10379929 CACTAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:10381323 original size:3 final size:3
Alignment explanation
Indices: 10381315--10381467 Score: 209
Period size: 3 Copynumber: 50.7 Consensus size: 3
10381305 TTAATATATT
* *
10381315 TAA TAA TAA TTAG TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
10381361 TAA TAA TAG CAA TAA TAA TAA TAA TAA TAA TAG TAA AAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
10381409 TAA TAA TAA TAA AAA TTAA -AA TAA TAA TAA TAA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10381454 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
10381468 TGGATAAAAA
Statistics
Matches: 131, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
2 2 0.02
3 125 0.95
4 4 0.03
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10381552 original size:32 final size:32
Alignment explanation
Indices: 10381496--10381600 Score: 126
Period size: 32 Copynumber: 3.3 Consensus size: 32
10381486 CTTCAGATGA
*
10381496 CATGTGTCATGTCACC-AAAGTGATGATGTGT
1 CATGTGTCACGTCACCTAAAGTGATGATGTGT
*
10381527 CATGTGTCACGTCTCCTAAAGTGATGGCATG-G-
1 CATGTGTCACGTCACCTAAAGTGAT-G-ATGTGT
* *
10381559 CATATGTCACGTCACCTAAAGTGATGATATGT
1 CATGTGTCACGTCACCTAAAGTGATGATGTGT
*
10381591 TATGTGTCAC
1 CATGTGTCAC
10381601 ATCTGTAACG
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
30 2 0.03
31 16 0.26
32 39 0.63
33 2 0.03
34 3 0.05
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (32 bp):
CATGTGTCACGTCACCTAAAGTGATGATGTGT
Found at i:10381917 original size:2 final size:2
Alignment explanation
Indices: 10381910--10381937 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10381900 CTTACTAAAC
10381910 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
10381938 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:10385362 original size:18 final size:17
Alignment explanation
Indices: 10385322--10385370 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
10385312 TCATGCGTTT
*
10385322 AGTTCATTGAATAAGCT
1 AGTTCATTGAATAAGCA
* *
10385339 ATTTCATTTAAGTAAGCA
1 AGTTCATTGAA-TAAGCA
10385357 AGTTCATTGAATAA
1 AGTTCATTGAATAA
10385371 AGTTAGTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (17 bp):
AGTTCATTGAATAAGCA
Found at i:10385404 original size:17 final size:17
Alignment explanation
Indices: 10385377--10385435 Score: 82
Period size: 17 Copynumber: 3.5 Consensus size: 17
10385367 ATAAAGTTAG
* *
10385377 TAAAATAGTTCTTTAAT
1 TAAACTAGTTCATTAAT
* *
10385394 CAAACTAGTTCATTCAT
1 TAAACTAGTTCATTAAT
10385411 TAAACTAGTTCATTAAT
1 TAAACTAGTTCATTAAT
10385428 TAAACTAG
1 TAAACTAG
10385436 CTCTTTTAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.39
Consensus pattern (17 bp):
TAAACTAGTTCATTAAT
Found at i:10390595 original size:17 final size:17
Alignment explanation
Indices: 10390539--10390622 Score: 87
Period size: 17 Copynumber: 4.9 Consensus size: 17
10390529 ATAAAGTTAC
* * *
10390539 TTCATTGATCAAAATAG
1 TTCATTAATTAAACTAG
* *
10390556 TTCATTAATCAAACTAA
1 TTCATTAATTAAACTAG
* *
10390573 TCCATTCATTAAACTAG
1 TTCATTAATTAAACTAG
**
10390590 TTCATTTGTTAAACTAG
1 TTCATTAATTAAACTAG
10390607 TTCATTAATTAAACTA
1 TTCATTAATTAAACTA
10390623 TCTCTTTTAA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 55 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (17 bp):
TTCATTAATTAAACTAG
Found at i:10393788 original size:31 final size:31
Alignment explanation
Indices: 10393753--10393829 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 31
10393743 GTCTTTCAGC
* *
10393753 TGCAATTTGGCCCTCT-ACTTTGGCTTTGATT
1 TGCAATTTGGCCCT-TGAATTTGGCTTCGATT
*
10393784 TGCAAATTT-GTCCTTGAATTTGGCTTCGATT
1 TGC-AATTTGGCCCTTGAATTTGGCTTCGATT
*
10393815 AGCAATTTAGGCCCT
1 TGCAATTT-GGCCCT
10393830 AAATCTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
30 6 0.16
31 22 0.59
32 9 0.24
ACGTcount: A:0.18, C:0.21, G:0.19, T:0.42
Consensus pattern (31 bp):
TGCAATTTGGCCCTTGAATTTGGCTTCGATT
Done.