Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008129.1 Hibiscus syriacus cultivar Beakdansim tig00110684_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: 2577775
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 10
Found at i:806251 original size:28 final size:26
Alignment explanation
Indices: 806220--806271 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
806210 TTTCAAATCA
806220 TTTTGAAAATATATATATATTATATAGG
1 TTTTGAAAATAT-TATATA-TATATAGG
* *
806248 TTTTGGAAATATTTTATATATATA
1 TTTTGAAAATATTATATATATATA
806272 ATATATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 5 0.23
28 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (26 bp):
TTTTGAAAATATTATATATATATAGG
Found at i:806269 original size:74 final size:75
Alignment explanation
Indices: 806078--806276 Score: 221
Period size: 76 Copynumber: 2.6 Consensus size: 75
806068 ATATATATAT
* * *
806078 ATATATATATATTATATA-G-TTTGCAAATGATTTT-TGAAAATATATATAATATATAGTTTTTG
1 ATATATATATATTATATAGGTTTTGAAAAT-ATTTTAT--ATATATATATAATATATAG-TTTTC
806140 AAAACATTTTGAAA
62 AAAACATTTTGAAA
* * *
806154 ATATATATA-A-TATATAGTTTTTGAAAACATTTTGAAAATATATATATAATATATAG-TTTCAA
1 ATATATATATATTATATAGGTTTTGAAAATATTTT--ATATATATATATAATATATAGTTTTCAA
*
806216 ATCATTTTGAAA
64 AACATTTTGAAA
*
806228 ATATATATATATTATATAGGTTTTGGAAATATTTTATATATATAATATA
1 ATATATATATATTATATAGGTTTTGAAAATATTTTATATATAT-ATATA
806277 TTATTATTAT
Statistics
Matches: 104, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
74 38 0.37
75 12 0.12
76 54 0.52
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (75 bp):
ATATATATATATTATATAGGTTTTGAAAATATTTTATATATATATATAATATATAGTTTTCAAAA
CATTTTGAAA
Found at i:807572 original size:10 final size:9
Alignment explanation
Indices: 807555--807594 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
807545 CCCTTTTTCA
807555 TTTTTTATT
1 TTTTTTATT
807564 TTATTTTATT
1 TT-TTTTATT
*
807574 TCTTTTATT
1 TTTTTTATT
*
807583 TTCTTTATT
1 TTTTTTATT
807592 TTT
1 TTT
807595 ATTGTTTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTATT
Found at i:807579 original size:14 final size:13
Alignment explanation
Indices: 807555--807608 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 13
807545 CCCTTTTTCA
*
807555 TTTTTTATTTTAT
1 TTTTTTCTTTTAT
807568 TTTATTTCTTTTAT
1 TTT-TTTCTTTTAT
*
807582 TTTCTTTATTTTTAT
1 TTT-TTT-CTTTTAT
807597 TGTTTTTCTTTT
1 T-TTTTTCTTTT
807609 TACTCAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
13 3 0.09
14 19 0.56
15 10 0.29
16 2 0.06
ACGTcount: A:0.11, C:0.06, G:0.02, T:0.81
Consensus pattern (13 bp):
TTTTTTCTTTTAT
Found at i:810817 original size:36 final size:36
Alignment explanation
Indices: 810766--810835 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
810756 ATCCTGTTTT
*
810766 AACTTGTTTTTTGAACTTTCTCATAGTTCTTTTTGC
1 AACTTGTTTTGTGAACTTTCTCATAGTTCTTTTTGC
*
810802 AACTTGTTTTGTGAACTTTCTCATATTTCTTTTT
1 AACTTGTTTTGTGAACTTTCTCATAGTTCTTTTT
810836 ATAAGGATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.17, C:0.16, G:0.10, T:0.57
Consensus pattern (36 bp):
AACTTGTTTTGTGAACTTTCTCATAGTTCTTTTTGC
Found at i:811529 original size:99 final size:99
Alignment explanation
Indices: 811349--811544 Score: 293
Period size: 99 Copynumber: 2.0 Consensus size: 99
811339 ATATTATATG
* * * *
811349 TATACAATAAATCTTGAGTTGTCCCTATAGAGCAATTGGTTAAACGCCCTGACTTTATGGATAAG
1 TATACAATAAAGCTTGAGCTGTCCCTATAGAGCAATTGGTTAAACACCCAGACTTTATGGATAAG
*
811414 ATTTAGCTAGAATGATAAAGGTGATTATAATACC
66 ATTCAGCTAGAATGATAAAGGTGATTATAATACC
* * *
811448 TATACAATAAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTTAAATACTCAGACTTTATGGATAAG
1 TATACAATAAAGCTTGAGCTGTCCCTATAGAGCAATTGGTTAAACACCCAGACTTTATGGATAAG
* **
811513 ATTCAGTTAGCCTGATAAAGGTGATTATAATA
66 ATTCAGCTAGAATGATAAAGGTGATTATAATA
811545 TTGAGTTGTC
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
99 86 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (99 bp):
TATACAATAAAGCTTGAGCTGTCCCTATAGAGCAATTGGTTAAACACCCAGACTTTATGGATAAG
ATTCAGCTAGAATGATAAAGGTGATTATAATACC
Found at i:812963 original size:83 final size:82
Alignment explanation
Indices: 812831--813356 Score: 393
Period size: 83 Copynumber: 6.3 Consensus size: 82
812821 TTCACATCAC
* * * *
812831 AGCTCAAGGCGAGAAGGGCTATCTGTCAACAAA-CTTTCGAGTTCTATTACATTCAGCTCAAAGG
1 AGCTCAAGGCGAGAAGGGTTATCTATCCACAAACCTTT-GAGTTCGATTACATTCAGCTCAAAGG
*
812895 CACATTAAATTCAAAGCAT
65 -ACATCAAATTCAAAGCAT
* *
812914 AGCTCAAGGCGAGAAGGGCTATCTAACCACAAACCTTTGAGTTCGATTACATTCAGCTCAAAGGC
1 AGCTCAAGGCGAGAAGGGTTATCTATCCACAAACCTTTGAGTTCGATTACATTCAGCTCAAAGG-
* *
812979 ATATCAAATTCACAGCAT
65 ACATCAAATTCAAAGCAT
* * * * ** * *
812997 AGCTCAAGGAGAGAATGGTTATCTGTCTACAAACCTTCAAGTTCGATTACATTCTGCTCGAA-GA
1 AGCTCAAGGCGAGAAGGGTTATCTATCCACAAACCTTTGAGTTCGATTACATTCAGCTCAAAGGA
* *
813061 CATCAAATTTACAGCAT
66 CATCAAATTCAAAGCAT
* ** * * * * *
813078 AACTCAAGGTAAGAAGGGTTATTTGTCAACCAAAACCTTCGAGTTCGATTACATTCAGGTC-AAG
1 AGCTCAAGGCGAGAAGGGTTATCTATCCA-C-AAACCTTTGAGTTCGATTACATTCAGCTCAAAG
*
813142 GACATATCAAATTTACAA-CAT
64 GAC--ATCAAATTCA-AAGCAT
* ** *
813163 AACTCAAGGCGAGAAGAATTATCTGTCATCCA-AAACCTTTGAGTTCGATTACATTTAGCTCAAA
1 AGCTCAAGGCGAGAAGGGTTATC--T-ATCCACAAACCTTTGAGTTCGATTACATTCAGCTCAAA
* * *
813227 GATATATCAAATTTACAA-CAT
63 G-GACATCAAATTCA-AAGCAT
* * * * * * * ** * *
813248 AACTCAAGACGAGAAAGGTTATTTGTCAATAGAAACCTTCAAGTTTGATTCCATTCAGCTC-AAG
1 AGCTCAAGGCGAGAAGGGTTATCTATC--CACAAACCTTTGAGTTCGATTACATTCAGCTCAAAG
* *
813312 GCCATATCAAACTT-ACAGCAT
64 G--ACATCAAA-TTCAAAGCAT
*
813333 AGCTCAAGGCAAGAAGGGTTATCT
1 AGCTCAAGGCGAGAAGGGTTATCT
813357 GTCAAGAAAT
Statistics
Matches: 364, Mismatches: 60, Indels: 36
0.79 0.13 0.08
Matches are distributed among these distances:
81 39 0.11
82 6 0.02
83 153 0.42
84 9 0.02
85 146 0.40
86 6 0.02
87 2 0.01
88 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (82 bp):
AGCTCAAGGCGAGAAGGGTTATCTATCCACAAACCTTTGAGTTCGATTACATTCAGCTCAAAGGA
CATCAAATTCAAAGCAT
Found at i:813116 original size:166 final size:168
Alignment explanation
Indices: 812820--813446 Score: 585
Period size: 166 Copynumber: 3.7 Consensus size: 168
812810 TAAAGGAACT
* * * * * * *
812820 ATTCACATCACAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAACTTTCGAGTTCTATTACATTC
1 ATTCACAGCATAGCTCAAGGAGAGAAGGGTTATCTGTCAACAAACCTTCAAGTTCGATTACATTC
* * * * * * * *
812885 AGCTCAAAGGCACATTAAATTCAAAGCATAGCTCAAGGCGAGAAGGGCTA--TCT-AACCACAAA
66 TGCTCAAA-GAACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATTTGTCAACCACAAA
*
812947 CCTTTGAGTTCGATTACATTCAGCTCAAAGG-CATATCAA
130 CCTTCGAGTTCGATTACATTCAGCTC-AAGGACATATCAA
* *
812986 ATTCACAGCATAGCTCAAGGAGAGAATGGTTATCTGTCTACAAACCTTCAAGTTCGATTACATTC
1 ATTCACAGCATAGCTCAAGGAGAGAAGGGTTATCTGTCAACAAACCTTCAAGTTCGATTACATTC
* **
813051 TGCTCGAAG-ACATCAAATTTACAGCATAACTCAAGGTAAGAAGGGTTATTTGTCAACCA-AAAC
66 TGCTCAAAGAACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATTTGTCAACCACAAAC
*
813114 CTTCGAGTTCGATTACATTCAGGTCAAGGACATATCAA
131 CTTCGAGTTCGATTACATTCAGCTCAAGGACATATCAA
* * * * ** * **
813152 ATTTACAACATAACTCAAGGCGAGAAGAATTATCTGTCATCCAAAACCTTTGAGTTCGATTACAT
1 ATTCACAGCATAGCTCAAGGAGAGAAGGGTTATCTGTCA-AC-AAACCTTCAAGTTCGATTACAT
* * * * * *
813217 T-TAGCTCAAAGATATATCAAATTTACAACATAACTCAAGACGAGAAAGGTTATTTGTCAA-TAG
64 TCT-GCTCAAAGA-ACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATTTGTCAACCAC
* * * *
813280 AAACCTTCAAGTTTGATTCCATTCAGCTCAAGGCCATATCAA
127 AAACCTTCGAGTTCGATTACATTCAGCTCAAGGACATATCAA
* ** *
813322 ACTT-ACAGCATAGCTCAAGGCA-AGAAGGGTTATCTGTCAAGAAATACCTTCAAGTT-TTTTCC
1 A-TTCACAGCATAGCTCAAGG-AGAGAAGGGTTATCTGTCAA-CAA-ACCTTCAAGTTCGATTAC
* * ** * * * *
813384 AATCAGCT-AAAGGGCATGTCAAATTTACATCATAACTCAAGACGATAAGGGTTATCTGTCAAC
62 ATTCTGCTCAAAGAACA--TCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATTTGTCAAC
813447 AAAAATTGTC
Statistics
Matches: 377, Mismatches: 66, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
164 32 0.08
165 5 0.01
166 130 0.34
167 8 0.02
168 32 0.08
169 51 0.14
170 117 0.31
171 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (168 bp):
ATTCACAGCATAGCTCAAGGAGAGAAGGGTTATCTGTCAACAAACCTTCAAGTTCGATTACATTC
TGCTCAAAGAACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATTTGTCAACCACAAAC
CTTCGAGTTCGATTACATTCAGCTCAAGGACATATCAA
Found at i:813178 original size:85 final size:84
Alignment explanation
Indices: 812833--813450 Score: 592
Period size: 85 Copynumber: 7.4 Consensus size: 84
812823 CACATCACAG
* * *
812833 CTCAAGGCGAGAAGGGCTATCTGTCAAC-AAACTTTCGAGTTCTATTACATTCAGCTCAAAGGCA
1 CTCAAGGCGAGAAGGGTTATCTGTCAACAAAACCTTCGAGTTCGATTACATTCAGCTC-AAGG-A
* *
812897 CAT-T-AAATTCA-AAGCATAG
64 CATATCAAATTTACAA-CATAA
* ** * *
812916 CTCAAGGCGAGAAGGGCTATCTAACCAC-AAACCTTTGAGTTCGATTACATTCAGCTCAAAGG-C
1 CTCAAGGCGAGAAGGGTTATCTGTCAACAAAACCTTCGAGTTCGATTACATTCAGCTC-AAGGAC
* * *
812979 ATATCAAATTCACAGCATAG
65 ATATCAAATTTACAACATAA
* * * * *
812999 CTCAAGGAGAGAATGGTTATCTGTCTAC-AAACCTTCAAGTTCGATTACATTCTGCTCGAA-GAC
1 CTCAAGGCGAGAAGGGTTATCTGTCAACAAAACCTTCGAGTTCGATTACATTCAGCTC-AAGGAC
*
813062 --ATCAAATTTACAGCATAA
65 ATATCAAATTTACAACATAA
** * *
813080 CTCAAGGTAAGAAGGGTTATTTGTCAACCAAAACCTTCGAGTTCGATTACATTCAGGTCAAGGAC
1 CTCAAGGCGAGAAGGGTTATCTGTCAA-CAAAACCTTCGAGTTCGATTACATTCAGCTCAAGGAC
813145 ATATCAAATTTACAACATAA
65 ATATCAAATTTACAACATAA
** * * * * *
813165 CTCAAGGCGAGAAGAATTATCTGTCATCCAAAACCTTTGAGTTCGATTACATTTAGCTCAAAGAT
1 CTCAAGGCGAGAAGGGTTATCTGTCA-ACAAAACCTTCGAGTTCGATTACATTCAGCTCAAGGAC
813230 ATATCAAATTTACAACATAA
65 ATATCAAATTTACAACATAA
* * * * * * * *
813250 CTCAAGACGAGAAAGGTTATTTGTCAATAGAAACCTTCAAGTTTGATTCCATTCAGCTCAAGGCC
1 CTCAAGGCGAGAAGGGTTATCTGTCAACA-AAACCTTCGAGTTCGATTACATTCAGCTCAAGGAC
* * *
813315 ATATCAAACTTACAGCATAG
65 ATATCAAATTTACAACATAA
* * * ** * * * *
813335 CTCAAGGCAAGAAGGGTTATCTGTCAAGAAATACCTTCAAGTT-TTTTCCAATCAGCTAAAGGGC
1 CTCAAGGCGAGAAGGGTTATCTGTCAACAAA-ACCTTCGAGTTCGATTACATTCAGCTCAAGGAC
* *
813399 ATGTCAAATTTACATCATAA
65 ATATCAAATTTACAACATAA
* *
813419 CTCAAGACGATAAGGGTTATCTGTCAACAAAA
1 CTCAAGGCGAGAAGGGTTATCTGTCAACAAAA
813451 ATTGTCAAGT
Statistics
Matches: 448, Mismatches: 75, Indels: 24
0.82 0.14 0.04
Matches are distributed among these distances:
81 41 0.09
82 5 0.01
83 149 0.33
84 63 0.14
85 190 0.42
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (84 bp):
CTCAAGGCGAGAAGGGTTATCTGTCAACAAAACCTTCGAGTTCGATTACATTCAGCTCAAGGACA
TATCAAATTTACAACATAA
Found at i:814063 original size:2 final size:2
Alignment explanation
Indices: 814056--814090 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
814046 TATTTTATTT
814056 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
814091 GCATAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:814143 original size:37 final size:40
Alignment explanation
Indices: 814081--814167 Score: 108
Period size: 38 Copynumber: 2.2 Consensus size: 40
814071 ATATATATAT
* * * *
814081 ATATAATATAGCATAATTTTTGAAAA-TATTTTTGAAAA-
1 ATATAATATAGAATAATTTTAGAAAACGATTTTTAAAAAC
*
814119 ATATAATATATAAT-ATTTTAGAAAACGATTTTTAAAAAC
1 ATATAATATAGAATAATTTTAGAAAACGATTTTTAAAAAC
814158 ATATAATATA
1 ATATAATATA
814168 CTGTTTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 10 0.24
38 22 0.52
39 10 0.24
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (40 bp):
ATATAATATAGAATAATTTTAGAAAACGATTTTTAAAAAC
Found at i:814197 original size:2 final size:2
Alignment explanation
Indices: 814190--814234 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
814180 TGATTTTTAA
814190 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
814232 AT A
1 AT A
814235 GCTTTGAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:814263 original size:39 final size:39
Alignment explanation
Indices: 814216--814493 Score: 280
Period size: 39 Copynumber: 7.4 Consensus size: 39
814206 ATATATATAT
* *
814216 ATATATATATATATATATAG-CTTTGAAAATGATTTTTGA
1 ATATATATATATATATATAGTTTTTGAAAATCA-TTTTGA
* * *
814255 ATATATATATATATATATAG--TATGCAAATGATTTTTGA
1 ATATATATATATATATATAGTTTTTGAAAATCA-TTTTGA
* *
814293 AAATATATATA-ATATATAGTTTTTTAAAA-CATTTTGA
1 ATATATATATATATATATAGTTTTTGAAAATCATTTTGA
*
814330 A-A-ATATATA-ATATATAGTTTTTTAAAA-CATTTTGA
1 ATATATATATATATATATAGTTTTTGAAAATCATTTTGA
*
814365 AAATATATATATAATATATAGTTTTTGAAAA-CATTTTGA
1 ATATATATATAT-ATATATAGTTTTTGAAAATCATTTTGA
814404 ATATATATATATATATAATA-TAGTTTTG-AAATCATTTTGA
1 ATATATATATATATAT-ATAGT--TTTTGAAAATCATTTTGA
* * **
814444 AAATATATATAT-TATATAGTTTTTGGAAAT-ATTTTTT
1 ATATATATATATATATATAGTTTTTGAAAATCATTTTGA
814481 ATATATA-ATATAT
1 ATATATATATATAT
814494 TATTATTATT
Statistics
Matches: 213, Mismatches: 13, Indels: 28
0.84 0.05 0.11
Matches are distributed among these distances:
35 34 0.16
36 6 0.03
37 39 0.18
38 39 0.18
39 71 0.33
40 24 0.11
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.47
Consensus pattern (39 bp):
ATATATATATATATATATAGTTTTTGAAAATCATTTTGA
Found at i:814265 original size:37 final size:36
Alignment explanation
Indices: 814218--814493 Score: 245
Period size: 37 Copynumber: 7.4 Consensus size: 36
814208 ATATATATAT
* *
814218 ATATATATATATATATAG-CTTTGAAAATGATTTTTGA
1 ATATATATATATATATAGTTTTTGAAAA-CA-TTTTGA
* * **
814255 ATATATATATATATATA-TAGTATGCAAATGATTTTTGA
1 ATATATATATATATATAGT-TTTTG-AAAACA-TTTTGA
* *
814293 AAATATATATAATATATAGTTTTTTAAAACATTTTGA
1 ATATATATAT-ATATATAGTTTTTGAAAACATTTTGA
* *
814330 AAATATATA-ATATATAGTTTTTTAAAACATTTTGAAA
1 ATATATATATATATATAGTTTTTGAAAACATTTTG--A
814367 ATATATATATAATATATAGTTTTTGAAAACATTTTGA
1 ATATATATAT-ATATATAGTTTTTGAAAACATTTTGA
* *
814404 ATATATATATATATATAATATAGTTTTGAAATCATTTTGA
1 ATATATATATATATAT-A-GT--TTTTGAAAACATTTTGA
* * * **
814444 AAATATATATATTATATAGTTTTTGGAAATATTTTTT
1 ATATATATATA-TATATAGTTTTTGAAAACATTTTGA
814481 ATATATA-ATATAT
1 ATATATATATATAT
814494 TATTATTATT
Statistics
Matches: 204, Mismatches: 21, Indels: 30
0.80 0.08 0.12
Matches are distributed among these distances:
35 28 0.14
36 9 0.04
37 71 0.35
38 26 0.13
39 37 0.18
40 28 0.14
41 5 0.02
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (36 bp):
ATATATATATATATATAGTTTTTGAAAACATTTTGA
Found at i:814343 original size:139 final size:137
Alignment explanation
Indices: 814056--814345 Score: 317
Period size: 137 Copynumber: 2.1 Consensus size: 137
814046 TATTTTATTT
**
814056 TATAT-ATATATATATATATATATATATATAATATAGCATAATTTTTGAAAATATTTTTGAAAAA
1 TATATAATATATATATATATATATATATATAATATAGCATAAGCTTTGAAAATATTTTTGAAAAA
* * *
814120 TATAATATATAATATTTTAGAAAACGATTTTTAAAAACATATAATATACTGTTTAAAAATTGATT
66 TATAATATATAATAGTATAGAAAACGATTTTTAAAAACATATAATATACTGTTTAAAAA-TCATT
*
814185 TTTAAATA
130 TTGAAATA
*
814193 TATAT-ATATATATATATATATATATATATATATATA-TATATAGCTTTGAAAATGATTTTTG-A
1 TATATAATATATATATATATATATATATATA-ATATAGCATA-AGCTTTGAAAAT-ATTTTTGAA
* * * * *
814255 ATATATATATATATATATAGTAT-GCAAATGATTTTTGAAAATATATATAATATA-TAGTTTTTT
63 AAATATA-ATATATA-ATAGTATAGAAAACGATTTTT-AAAA-ACATATAATATACT-G--TTTA
814318 AAAA-CATTTTGAAA-A
121 AAAATCATTTTGAAATA
814333 TATATAATATATA
1 TATATAATATATA
814346 GTTTTTTAAA
Statistics
Matches: 130, Mismatches: 12, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
137 33 0.25
138 22 0.17
139 25 0.19
140 16 0.12
141 27 0.21
143 7 0.05
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (137 bp):
TATATAATATATATATATATATATATATATAATATAGCATAAGCTTTGAAAATATTTTTGAAAAA
TATAATATATAATAGTATAGAAAACGATTTTTAAAAACATATAATATACTGTTTAAAAATCATTT
TGAAATA
Found at i:814499 original size:3 final size:3
Alignment explanation
Indices: 814491--814521 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
814481 ATATATAATA
814491 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
814522 ATTTTTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:815884 original size:16 final size:14
Alignment explanation
Indices: 815862--815896 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
815852 TTATTGTACT
815862 TTTTATTCTTTTTTA
1 TTTTATT-TTTTTTA
815877 TATTTATTTTTTTTA
1 T-TTTATTTTTTTTA
815892 TTTTA
1 TTTTA
815897 CAACCTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.21
15 9 0.47
16 6 0.32
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTATTTTTTTTA
Found at i:818868 original size:21 final size:21
Alignment explanation
Indices: 818842--818884 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
818832 TATCAATTCT
818842 CCCCAGTAGTATCGATACTCC
1 CCCCAGTAGTATCGATACTCC
818863 CCCCAGTAGTATCGATACTCC
1 CCCCAGTAGTATCGATACTCC
818884 C
1 C
818885 AGCTGGAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.40, G:0.14, T:0.23
Consensus pattern (21 bp):
CCCCAGTAGTATCGATACTCC
Found at i:819671 original size:2 final size:2
Alignment explanation
Indices: 819664--819770 Score: 214
Period size: 2 Copynumber: 53.5 Consensus size: 2
819654 TTTCATTATA
819664 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
819706 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
819748 TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG T
819771 TAGTTAGGCA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 105 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:820020 original size:33 final size:33
Alignment explanation
Indices: 819944--820107 Score: 148
Period size: 33 Copynumber: 5.0 Consensus size: 33
819934 TGAAGATTCA
* * *
819944 TGTCTCTTCGCCAAGAGTTGCTTCCAAAAGTTG
1 TGTCTCTTCGCCAAGAGGTGCCTCCAAAAGTCG
* * * * *
819977 TGCCTATTTGCCAAGAGGTGCCTCTAAAACTCG
1 TGTCTCTTCGCCAAGAGGTGCCTCCAAAAGTCG
* * * * *
820010 TGTCTCTTTGCTAATAGGTGCCTTCAAGAGTCG
1 TGTCTCTTCGCCAAGAGGTGCCTCCAAAAGTCG
** * *
820043 TGTCTCTTAACAAAGAGGTGCCTCCAAGAGTCG
1 TGTCTCTTCGCCAAGAGGTGCCTCCAAAAGTCG
* * *
820076 TGTCTATTCGCTAAGAGGTACCTCCAAAAGTC
1 TGTCTCTTCGCCAAGAGGTGCCTCCAAAAGTC
820108 ATAACTTTTC
Statistics
Matches: 104, Mismatches: 27, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 104 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (33 bp):
TGTCTCTTCGCCAAGAGGTGCCTCCAAAAGTCG
Found at i:822322 original size:18 final size:19
Alignment explanation
Indices: 822294--822329 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
822284 AAATGAATAA
*
822294 ATATCAAATTAATTTTAAC
1 ATATCAAATTAAATTTAAC
822313 ATAT-AAATTAAATTTAA
1 ATATCAAATTAAATTTAA
822330 AAAGTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATCAAATTAAATTTAAC
Found at i:823351 original size:182 final size:182
Alignment explanation
Indices: 823142--823519 Score: 578
Period size: 182 Copynumber: 2.1 Consensus size: 182
823132 CGATACAAAT
* * * * * *
823142 AAAAAATGTATCAATCCATAGCAATATAACAGGTAAGAATATGGCAAAACCGGTCTCAAAATGAT
1 AAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAAACCGGTCTAAAAATGA-
* * * *
823207 C-AAACCGGTAAAGCGCTACCGGATTTGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACT
65 CAAAACCGGTAAAGAGCCACCGGATATGTTAAAAGTGTCGATACTTTATTATAAGTATCGACACT
* **
823271 TTTGGAATTTAAAAGACAAGCAGTAATAGCGTTTATAAAGTGTCGATACTTTA
130 TTTGGAATTTAAAAGACAAGCAATAATAGCGCCTATAAAGTGTCGATACTTTA
*
823324 AAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGATAAAACCGGTCTAAAAATGAC
1 AAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAAACCGGTCTAAAAATGAC
823389 AAAACCGGTAAAGAGCCACCGGATATGTTAAAAGTGTCGATACTTTATTATAAGTATCGACACTT
66 AAAACCGGTAAAGAGCCACCGGATATGTTAAAAGTGTCGATACTTTATTATAAGTATCGACACTT
* * *
823454 TTGGAATTTAAAAGAGAAGTAATAATATCGCCTATAAAGTGTCGATACTTTA
131 TTGGAATTTAAAAGACAAGCAATAATAGCGCCTATAAAGTGTCGATACTTTA
*
823506 TAAAAATGTATCGA
1 AAAAAATGTATCGA
823520 CACTTGGGTT
Statistics
Matches: 177, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
181 1 0.01
182 176 0.99
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.28
Consensus pattern (182 bp):
AAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAAACCGGTCTAAAAATGAC
AAAACCGGTAAAGAGCCACCGGATATGTTAAAAGTGTCGATACTTTATTATAAGTATCGACACTT
TTGGAATTTAAAAGACAAGCAATAATAGCGCCTATAAAGTGTCGATACTTTA
Found at i:823392 original size:20 final size:21
Alignment explanation
Indices: 823359--823397 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
823349 ATAACAAGTA
*
823359 AAAATATGATAAAACCGGTCT
1 AAAATATGACAAAACCGGTCT
823380 AAAA-ATGACAAAACCGGT
1 AAAATATGACAAAACCGGT
823398 AAAGAGCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.18
Consensus pattern (21 bp):
AAAATATGACAAAACCGGTCT
Found at i:825428 original size:22 final size:23
Alignment explanation
Indices: 825378--825431 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
825368 AACATTTTTG
*
825378 TTTT-TTATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAGAA
*
825400 TAGTTATTATATAAAATGATA-AA
1 T-TTTATTATATAAAATGATAGAA
825423 TTTTATTAT
1 TTTTATTAT
825432 TAATGCATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 8 0.30
23 4 0.15
24 15 0.56
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (23 bp):
TTTTATTATATAAAATGATAGAA
Found at i:825732 original size:15 final size:15
Alignment explanation
Indices: 825709--825743 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
825699 GATGGTTGTA
*
825709 GAGGTGGATGACGGT
1 GAGGGGGATGACGGT
825724 GAGGGGGATGACGGT
1 GAGGGGGATGACGGT
825739 GAGGG
1 GAGGG
825744 AAAACAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.20, C:0.06, G:0.60, T:0.14
Consensus pattern (15 bp):
GAGGGGGATGACGGT
Found at i:826096 original size:18 final size:18
Alignment explanation
Indices: 826075--826124 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
826065 ATGAATTGAA
*
826075 AAAATATGGAGGAAGAAG
1 AAAAGATGGAGGAAGAAG
*
826093 AAAAGATGGACGAAGAAG
1 AAAAGATGGAGGAAGAAG
826111 AAAAGATGGAGGAA
1 AAAAGATGGAGGAA
826125 ATGAGGAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.56, C:0.02, G:0.34, T:0.08
Consensus pattern (18 bp):
AAAAGATGGAGGAAGAAG
Found at i:827701 original size:19 final size:19
Alignment explanation
Indices: 827677--827721 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
827667 AATGTAGGGT
827677 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
827696 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
827715 TAATTTT
1 TAATTTT
827722 ATATGTGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:828544 original size:11 final size:11
Alignment explanation
Indices: 828528--828552 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
828518 TGTGGCTTTG
828528 ATTATTTGAAC
1 ATTATTTGAAC
828539 ATTATTTGAAC
1 ATTATTTGAAC
828550 ATT
1 ATT
828553 GTTATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (11 bp):
ATTATTTGAAC
Found at i:830530 original size:199 final size:198
Alignment explanation
Indices: 830164--831376 Score: 1473
Period size: 199 Copynumber: 6.0 Consensus size: 198
830154 TTCAGTAATC
* * * *
830164 TCCAGAATGAATGTCCAACCGAGGTGCACGAATAAAGTGTCGATACATTAATAAAACGTATCGTT
1 TCCAGAATGAATGACCAACCG-GGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* * * ** *
830229 CCCAAAAACATCGAATAAGATAATTATAATGTAATAGGTAAATTTACAATGCAATTGTTAGAAAT
65 CCCATAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
*
830294 ATACCGGTTAATTAGAGAATAGGTCTACATAATGTATCGACACTTATGGAATTTGTGTCGATACT
130 ATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTT-TGGAATTTGTGTCGATACT
830359 TTTTG
194 TTTTG
* * * *
830364 TCCAGAATAAATGACTAACCGGGTACACGAATAAAGTGTCGATACATTTATAAAAAGTATTGATC
1 TCCAGAATGAATGACCAACCGGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATC
* * **
830429 CCATAAACATCGAATAATATAATTATAATGTAATAGGTCAATTTCCAATGTAACCAATAGAAATA
66 CCATAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATA
*
830494 TACCGGTTAATTAGAAAATAGGTCTACATCATGTATCGACACTTGTGGAATTTGTGTCGATACTT
131 TACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTT-TGGAATTTGTGTCGATACTT
830559 TTTG
195 TTTG
* * * * * *
830563 TCCATAATAAATG-CCAAACGGGGTGCACGCATAAAGTGTCGATACATGTATTAAAAGTATCGAT
1 TCCAGAATGAATGACC-AACCGGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGA-
* *
830627 TCCGA-AAACATCGAAATAGATAATTACAATGTAATAGGTAACTTTACAATGTAATAGGTAACTT
64 TCCCATAAACATCG----A-ATAA-T---A--TAAT---T-A---T--AATGTAATAGGTAAATT
* * *
830691 TAAAATGTAACCGGTAAAAATATACCGGTTAATTCGAAAATAGGTCTACATAATGTATCGACACT
109 TACAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACT
** *
830756 TTTTAAATTGTGTCGATACTTTTTG
174 TTGGAATTTGTGTCGATACTTTTTG
* * *
830781 TTCAGAATGAATGACCAACCGAGGTGTACGAATAAAGTGTCGATACATTTATAAAAAGTATTGAT
1 TCCAGAATGAATGACCAACCG-GGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* * *
830846 CCTATAAACATCGAATAATATAATTATAATGTAATAGGTCAATTTCCAATGTAACCGGTAGAAAT
65 CCCATAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
* * * *
830911 ATACCGTTTAATTAGACAATAGGTCTACATCATGTATCGACACTTGTGGAATTTGTATCGATACT
130 ATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTT-TGGAATTTGTGTCGATACT
830976 TTTTG
194 TTTTG
* ** **
830981 TCCAGAATGAATGCCCAAAAGGGTGCACTCATAAAGTGTCGATACATTTATAAAAAGTATCGATC
1 TCCAGAATGAATGACCAACCGGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATC
* * * *
831046 CCAAAAACATCGAA-ACCTATAATTATAATGTAATATGTAAATTTACACTGTAACCGGTAGAAAT
66 CCATAAACATCGAATA-ATATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
* ** *
831110 ATACCTGTTAATTCA-AAAATAGGTCTACATAATGTATCGACACTTTTTAAATTGTGTCGATACT
130 ATACCGGTTAATT-AGAAAATAGGTCTACATAATGTATCGACACTTTGGAATTTGTGTCGATACT
831174 TTTTG
194 TTTTG
* * *
831179 TCCATAATGAATTACCAACCGGGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCAAT
1 TCCAGAATGAATGACCAACC-GGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* * *
831244 CCCATAAACATCGAATAATATAATTATAATGTAATAGGTTAATTTCCAATGTAACCAGTAGAAAT
65 CCCATAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
* * * * ** * *
831309 ATACC-GTTAATTCGAAAATACGTCTGCATAATGTATCGACCCTTTTTAAAGTCGTGTCGATACT
130 ATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACAC-TTTGGAATTTGTGTCGATACT
831373 TTTT
194 TTTT
831377 TAAATTACGT
Statistics
Matches: 872, Mismatches: 109, Indels: 65
0.83 0.10 0.06
Matches are distributed among these distances:
198 69 0.08
199 554 0.64
200 61 0.07
201 1 0.00
203 1 0.00
204 5 0.01
205 2 0.00
208 5 0.01
210 5 0.01
213 2 0.00
214 5 0.01
215 1 0.00
217 1 0.00
218 39 0.04
219 121 0.14
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (198 bp):
TCCAGAATGAATGACCAACCGGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATC
CCATAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATA
TACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTGGAATTTGTGTCGATACTTT
TTG
Found at i:830675 original size:20 final size:20
Alignment explanation
Indices: 830650--830700 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
830640 AAATAGATAA
830650 TTACAATGTAATAGGTAACT
1 TTACAATGTAATAGGTAACT
830670 TTACAATGTAATAGGTAACT
1 TTACAATGTAATAGGTAACT
*
830690 TTAAAATGTAA
1 TTACAATGTAA
830701 CCGGTAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (20 bp):
TTACAATGTAATAGGTAACT
Found at i:830706 original size:20 final size:20
Alignment explanation
Indices: 830654--830707 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
830644 AGATAATTAC
* *
830654 AATGTAATAGGTAACTTTAC
1 AATGTAACAGGTAACTTTAA
*
830674 AATGTAATAGGTAACTTTAA
1 AATGTAACAGGTAACTTTAA
*
830694 AATGTAACCGGTAA
1 AATGTAACAGGTAA
830708 AAATATACCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (20 bp):
AATGTAACAGGTAACTTTAA
Found at i:831039 original size:418 final size:403
Alignment explanation
Indices: 830164--831348 Score: 1587
Period size: 418 Copynumber: 2.9 Consensus size: 403
830154 TTCAGTAATC
* * * *
830164 TCCAGAATGAATGTCC-AACCGAGGTGCACGAATAAAGTGTCGATACAT-TAATAAAACGTATCG
1 TCCAGAATAAATG-CCAAACAG-GGTGCACGCATAAAGTGTCGATACATGT-ATAAAAAGTATCG
* * * *
830227 TTCCCAAAAACATCG----A-ATAA-GATAAT-T-ATAATGTAATAGGTAAATTTACAATGCAAT
63 ATCCCAAAAACATCGAAACAGATAATTATAATGTAATAATGTAATAGGT-AATTTACAATGTAAC
* * * * ** *
830284 TGTTAGAAATATACCGGTTAATTAGAGAATAGGTCTACATAATGTATCGACACTTATGGAATTTG
127 CGGTAGAAATATACCGGTTAATTCGAAAATAGGTCTACATAATGTATCGACACTT-TTTAAATTG
* * *
830349 TGTCGATACTTTTTGTCCAGAATAAATGACTAACCGGGTACACGAATAAAGTGTCGATACATTTA
191 TGTCGATACTTTTTGTCCAGAATGAATGACCAACCGGGTGCACGAATAAAGTGTCGATACATTTA
830414 TAAAAAGTATTGATCCCATAAACATCGAATAATATAATTATAATGTAATAGGTCAATTTCCAATG
256 TAAAAAGTATTGATCCCATAAACATCGAATAATATAATTATAATGTAATAGGTCAATTTCCAATG
*
830479 TAACCAATAGAAATATACCGGTTAATTAGAAAATAGGTCTACATCATGTATCGACACTTGTGGAA
321 TAACCAGTAGAAATATACC-GTTAATTAGAAAATAGGTCTACATCATGTATCGACACTTGTGGAA
*
830544 TTTGTGTCGATACTTTTTG
385 TTTGTATCGATACTTTTTG
* * * *
830563 TCCATAATAAATGCCAAACGGGGTGCACGCATAAAGTGTCGATACATGTATTAAAAGTATCGATT
1 TCCAGAATAAATGCCAAACAGGGTGCACGCATAAAGTGTCGATACATGTATAAAAAGTATCGATC
* *
830628 CCGAAAACATCGAAATAGATAATTACAATGTAATAGGTAACTTTACAATGTAATAGGTAACTTTA
66 CCAAAAACATCGAAACAGATAATT---A--TAAT--GTAA---T--AATGTAATAGGTAA-TTTA
* *
830693 AAATGTAACCGGTAAAAATATACCGGTTAATTCGAAAATAGGTCTACATAATGTATCGACACTTT
118 CAATGTAACCGGTAGAAATATACCGGTTAATTCGAAAATAGGTCTACATAATGTATCGACACTTT
* *
830758 TTAAATTGTGTCGATACTTTTTGTTCAGAATGAATGACCAACCGAGGTGTACGAATAAAGTGTCG
183 TTAAATTGTGTCGATACTTTTTGTCCAGAATGAATGACCAACCG-GGTGCACGAATAAAGTGTCG
*
830823 ATACATTTATAAAAAGTATTGATCCTATAAACATCGAATAATATAATTATAATGTAATAGGTCAA
247 ATACATTTATAAAAAGTATTGATCCCATAAACATCGAATAATATAATTATAATGTAATAGGTCAA
* *
830888 TTTCCAATGTAACCGGTAGAAATATACCGTTTAATTAGACAATAGGTCTACATCATGTATCGACA
312 TTTCCAATGTAACCAGTAGAAATATACCG-TTAATTAGAAAATAGGTCTACATCATGTATCGACA
830953 CTTGTGGAATTTGTATCGATACTTTTTG
376 CTTGTGGAATTTGTATCGATACTTTTTG
* * *
830981 TCCAGAATGAATGCCCAAA-AGGGTGCACTCATAAAGTGTCGATACATTTATAAAAAGTATCGAT
1 TCCAGAATAAATG-CCAAACAGGGTGCACGCATAAAGTGTCGATACATGTATAAAAAGTATCGAT
** *
831045 CCCAAAAACATCGAAACCTATAATTATAATGTAAT-ATG---TA---AATTTACACTGTAACCGG
65 CCCAAAAACATCGAAACAGATAATTATAATGTAATAATGTAATAGGTAATTTACAATGTAACCGG
* *
831103 TAGAAATATACCTGTTAATTCAAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTGTGTC
130 TAGAAATATACCGGTTAATTCGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTGTGTC
* *
831168 GATACTTTTTGTCCATAATGAATTACCAACCGGGGTGCACGAATAAAGTGTCGATACATTTATAA
195 GATACTTTTTGTCCAGAATGAATGACCAACC-GGGTGCACGAATAAAGTGTCGATACATTTATAA
** *
831233 AAAGTATCAATCCCATAAACATCGAATAATATAATTATAATGTAATAGGTTAATTTCCAATGTAA
259 AAAGTATTGATCCCATAAACATCGAATAATATAATTATAATGTAATAGGTCAATTTCCAATGTAA
* * * *
831298 CCAGTAGAAATATACCGTTAATTCGAAAATACGTCTGCATAATGTATCGAC
324 CCAGTAGAAATATACCGTTAATTAGAAAATAGGTCTACATCATGTATCGAC
831349 CCTTTTTAAA
Statistics
Matches: 698, Mismatches: 61, Indels: 56
0.86 0.07 0.07
Matches are distributed among these distances:
397 29 0.04
398 262 0.38
399 19 0.03
402 3 0.00
403 4 0.01
405 3 0.00
407 1 0.00
408 1 0.00
409 4 0.01
411 4 0.01
412 1 0.00
413 5 0.01
415 1 0.00
416 1 0.00
417 42 0.06
418 313 0.45
419 5 0.01
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (403 bp):
TCCAGAATAAATGCCAAACAGGGTGCACGCATAAAGTGTCGATACATGTATAAAAAGTATCGATC
CCAAAAACATCGAAACAGATAATTATAATGTAATAATGTAATAGGTAATTTACAATGTAACCGGT
AGAAATATACCGGTTAATTCGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTGTGTCG
ATACTTTTTGTCCAGAATGAATGACCAACCGGGTGCACGAATAAAGTGTCGATACATTTATAAAA
AGTATTGATCCCATAAACATCGAATAATATAATTATAATGTAATAGGTCAATTTCCAATGTAACC
AGTAGAAATATACCGTTAATTAGAAAATAGGTCTACATCATGTATCGACACTTGTGGAATTTGTA
TCGATACTTTTTG
Found at i:831376 original size:617 final size:614
Alignment explanation
Indices: 830166--831298 Score: 1614
Period size: 617 Copynumber: 1.8 Consensus size: 614
830156 CAGTAATCTC
* * *
830166 CAGAATGAATGTCCAACCGAGGTGCACGAATAAAGTGTCGATACATTAATAAAACGTATCGTTCC
1 CAGAATGAATGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTAATAAAAAGTATCGATCC
** *
830231 CAAAAACATCGAATAAGATAATTATAATGTAATAGGTAAATTTACAATGCAATTGTTAGAAATAT
66 CAAAAACATCGAATAAGATAATTATAATGTAATAGGTAAATTTACAATGCAACCGGTAGAAATAT
* *
830296 ACCGGTTAATTAGAGAATAGGTCTACATAATGTATCGACACTTATGGAATTTGTGTCGATACTTT
131 ACCGGTTAATTAGACAATAGGTCTACATAATGTATCGACACTTATGGAATTTGTATCGATACTTT
* ** *
830361 TTGTCCAGAATAAATGACTAACCGGGTACACGAATAAAGTGTCGATACATTTATAAAAAGTATTG
196 TTGTCCAGAATAAATGACCAAAAGGGTACACGAATAAAGTGTCGATACATTTATAAAAAGTATCG
* * *
830426 ATCCCATAAACATCGAATAATATAATTATAATGTAATAGGTCAATTTCCAATGTAACCAATAGAA
261 ATCCCAAAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCAATAGAA
* *
830491 ATATACCGGTTAATTAGAAAATAGGTCTACATCATGTATCGACACTTGTGGAATTTGTGTCGATA
326 ATATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTGTGGAAATTGTGTCGATA
* * *
830556 CTTTTTGTCCATAATAAATGCCAAACGGGGTGCACGCATAAAGTGTCGATACATGTATTAAAAGT
391 CTTTTTGTCCATAATAAATACCAAACGGGGTGCACGAATAAAGTGTCGATACATGTATAAAAAGT
* * *
830621 ATCGATTCCGAAAACATCGAAATAGATAATTACAATGTAATAGGTAACTTTACAATGTAATAGGT
456 ATCGAATCCCAAAACATCGAAATAGATAATTACAATGTAATAGGTAACTTTACAATGTAACAGGT
* **
830686 AACTTTAAAATGTAACCGGTAAAAATATACCGGTTAATTCGAAAATAGGTCTACATAATGTATCG
521 AA---TAAAATATAACCGGTAAAAATATACCGCATAATTCGAAAATA-GTCTACATAATGTATCG
830751 ACAC-TTTTTAAATTGTGTCGATACTTTTTGTT
582 ACACTTTTTTAAATTGTGTCGATACTTTTTGTT
* * *
830783 CAGAATGAATGACCAACCGAGGTGTACGAATAAAGTGTCGATACATTTATAAAAAGTATTGATCC
1 CAGAATGAATGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTAATAAAAAGTATCGATCC
* * * * * *
830848 TATAAACATCGAATAATATAATTATAATGTAATAGGTCAATTTCCAATGTAACCGGTAGAAATAT
66 CAAAAACATCGAATAAGATAATTATAATGTAATAGGTAAATTTACAATGCAACCGGTAGAAATAT
* * *
830913 ACCGTTTAATTAGACAATAGGTCTACATCATGTATCGACACTTGTGGAATTTGTATCGATACTTT
131 ACCGGTTAATTAGACAATAGGTCTACATAATGTATCGACACTTATGGAATTTGTATCGATACTTT
* * * **
830978 TTGTCCAGAATGAATGCCCAAAAGGGTGCACTCATAAAGTGTCGATACATTTATAAAAAGTATCG
196 TTGTCCAGAATAAATGACCAAAAGGGTACACGAATAAAGTGTCGATACATTTATAAAAAGTATCG
* * * **
831043 ATCCCAAAAACATCGAA-ACCTATAATTATAATGTAATATGTAAATTTACACTGTAACCGGTAGA
261 ATCCCAAAAACATCGAATA-ATATAATTATAATGTAATAGGTAAATTTACAATGTAACCAATAGA
* **
831107 AATATACCTGTTAATTCA-AAAATAGGTCTACATAATGTATCGACACTT-TTTAAATTGTGTCGA
325 AATATACCGGTTAATT-AGAAAATAGGTCTACATAATGTATCGACACTTGTGGAAATTGTGTCGA
* * *
831170 TACTTTTTGTCCATAATGAATTACCAACCGGGGTGCACGAATAAAGTGTCGATACATTTATAAAA
389 TACTTTTTGTCCATAAT-AAATACCAAACGGGGTGCACGAATAAAGTGTCGATACATGTATAAAA
* * *
831235 AGTATC-AATCCCATAAACATCG-AATAATATAATTATAATGTAATAGGTTAA-TTTCCAATGTA
453 AGTATCGAATCCCA-AAACATCGAAAT-AGATAATTACAATGTAATAGG-TAACTTTACAATGTA
831297 AC
515 AC
831299 CAGTAGAAAT
Statistics
Matches: 456, Mismatches: 54, Indels: 12
0.87 0.10 0.02
Matches are distributed among these distances:
616 38 0.08
617 414 0.91
618 4 0.01
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (614 bp):
CAGAATGAATGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTAATAAAAAGTATCGATCC
CAAAAACATCGAATAAGATAATTATAATGTAATAGGTAAATTTACAATGCAACCGGTAGAAATAT
ACCGGTTAATTAGACAATAGGTCTACATAATGTATCGACACTTATGGAATTTGTATCGATACTTT
TTGTCCAGAATAAATGACCAAAAGGGTACACGAATAAAGTGTCGATACATTTATAAAAAGTATCG
ATCCCAAAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCAATAGAA
ATATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTGTGGAAATTGTGTCGATA
CTTTTTGTCCATAATAAATACCAAACGGGGTGCACGAATAAAGTGTCGATACATGTATAAAAAGT
ATCGAATCCCAAAACATCGAAATAGATAATTACAATGTAATAGGTAACTTTACAATGTAACAGGT
AATAAAATATAACCGGTAAAAATATACCGCATAATTCGAAAATAGTCTACATAATGTATCGACAC
TTTTTTAAATTGTGTCGATACTTTTTGTT
Found at i:833009 original size:19 final size:19
Alignment explanation
Indices: 832985--833032 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
832975 ATGTAGGGGA
*
832985 AATTTTGTATACGATTCAT
1 AATTTTGTATACAATTCAT
* * *
833004 AATTTTGAATATAATTTAT
1 AATTTTGTATACAATTCAT
833023 AATTTTGTAT
1 AATTTTGTAT
833033 GTCAATGTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.52
Consensus pattern (19 bp):
AATTTTGTATACAATTCAT
Found at i:835851 original size:201 final size:199
Alignment explanation
Indices: 835503--836218 Score: 990
Period size: 201 Copynumber: 3.6 Consensus size: 199
835493 TAAATATGTT
*
835503 TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATAGGT
1 TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
* ** *
835568 AAATTTACAATGTAACCAGTCTAAATTTACCGGTTTTATGAGAAAATATGTCTACATAATGTATC
66 AAATTTACAATGTAACCGGTAGAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAATGTATC
* *
835633 GACACTTGTAAAACTTGTGTTGATACTTGTTGTCCAGAATGAATGCCCAAAAGGGTGCACGCATA
131 GACACTTGTAAAACTTGTGTCGATACTT-TTGTCCATAATGAATGCCCAAAAGGGTGCACGCATA
835698 AAGTG
195 AAGTG
* *
835703 TCGATACATTTATAAAAAGTATCGATCCCAAAAAATATCGAAACCCATAATTATAATGTAATATG
1 TCGATACATTTATAAAAAGTATCGATCCC-AAAAACATCGAAACCCATAATTATAATGTAATAGG
* *
835768 TAAATTTACAATGTAACCGGTAGAAATTTACTGGTTTTATGAAAAAATAGGTCTACATAATGTAT
65 TAAATTTACAATGTAACCGGTAGAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAATGTAT
**
835833 CGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCATAATGAATG-CCAAACAGGGTGCACGCA
130 CGACACTTGTAAAACTTGTGTCGATAC-TTTTGTCCATAATGAATGCCCAAA-AGGGTGCACGCA
835897 TAAAGTG
193 TAAAGTG
* * * * *
835904 CCGATACATTTATTAAAAGTATTGATCCCAAAAACATCGAAACCGATAATTACAATGTAATAGGT
1 TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
* * * * *
835969 AAATTTACAATATACCCGATAGAAATATACCGGTTTTATGAGAAAATAGTTCTACATAATGTATC
66 AAATTTACAATGTAACCGGTAGAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAATGTATC
* * ** * * *
836034 GACACTTTTTAAGTTTGTGTCGATACTTTTTTCCATAATGAATGCCC-AACGAGGTGCATGCATA
131 GACACTTGTAAAACTTGTGTCGATACTTTTGTCCATAATGAATGCCCAAAAG-GGTGCACGCATA
836098 AAGTG
195 AAGTG
** * * *
836103 TCGATACATTTA-AAATTGTATCGATCCCAAAAATATCAAAACCGATAATTATAATGTAATAGGT
1 TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
* * ** *
836167 AAATTTACAATGTTACCGGTATAAATAAACCGG-TTTAGTTAGAAAATAGGTC
66 AAATTTACAATGTAACCGGTAGAAATTTACCGGTTTTA-TGAGAAAATAGGTC
836219 AATATAAGCG
Statistics
Matches: 459, Mismatches: 51, Indels: 14
0.88 0.10 0.03
Matches are distributed among these distances:
197 4 0.01
198 85 0.19
199 46 0.10
200 147 0.32
201 175 0.38
202 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (199 bp):
TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
AAATTTACAATGTAACCGGTAGAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAATGTATC
GACACTTGTAAAACTTGTGTCGATACTTTTGTCCATAATGAATGCCCAAAAGGGTGCACGCATAA
AGTG
Found at i:839572 original size:28 final size:28
Alignment explanation
Indices: 839532--839599 Score: 127
Period size: 28 Copynumber: 2.4 Consensus size: 28
839522 TTAGACATTT
839532 AACTGAAACAAATAAATATTAAAAACTA
1 AACTGAAACAAATAAATATTAAAAACTA
*
839560 AACTGAAACAAATAAATATTATAAACTA
1 AACTGAAACAAATAAATATTAAAAACTA
839588 AACTGAAACAAA
1 AACTGAAACAAA
839600 ATGCATACGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.63, C:0.12, G:0.04, T:0.21
Consensus pattern (28 bp):
AACTGAAACAAATAAATATTAAAAACTA
Found at i:840991 original size:189 final size:192
Alignment explanation
Indices: 840527--840998 Score: 581
Period size: 195 Copynumber: 2.5 Consensus size: 192
840517 TGAATATGTA
* * * * * * * * * *
840527 TCCTTAAGGATTAACAACAATTTTTTTATCAGGGAAATCAATTAATTCATGCCACACATCCAACC
1 TCCTTAAAGAATAAAAACAATTATTTTACCACGGAAACCACTCAATTCGTGCCACACATCCAACC
** * * *
840592 TTAGTTGGTATTTTATCAGTTTTCATTAATAATTTGGGGTACGTACAAGATAATATATGTTCAAA
66 TTAGTTGGTATCCTATCAGTTTTC--TAATAATCTGGGATACGTACAAGAGAATATATGTTCAAA
* * *
840657 GATAACTCTCAACTTCTTGACATTGAACACTCACACCCCTGACATCTATAGTACTTGAACATGGG
129 GATAACTCTC-ACATCTTAACATTGAACACTCACACCCCTGACATCTATAATACTTGAACATGGG
* * * *
840722 TCCTTAAGGAATAAAAACAATTCTTTTACCACGGAAACCACTTAATTGGTGCCACACATCCAACC
1 TCCTTAAAGAATAAAAACAATTATTTTACCACGGAAACCACTCAATTCGTGCCACACATCCAACC
* * *
840787 TTAGTTGGTATCCTATCAGTTTTC-ACTAATCTGTGATACGTACAAGAGAATATATGTTCAATGA
66 TTAGTTGGTATCCTATCAGTTTTCTAATAATCTGGGATACGTACAAGAGAATATATGTTCAAAGA
* * * * *
840851 TAACTCTC-CATCTTAACATTTAACGCTCATACCCCTGACATCTATAATGCTTGAACTTGGG
131 TAACTCTCACATCTTAACATTGAACACTCACACCCCTGACATCTATAATACTTGAACATGGG
* ** *
840912 TCCTTAAAGAATAACAACAATTATTTTATTAC-GAAACCACTCGATTCGTGCCACACATCCAACC
1 TCCTTAAAGAATAAAAACAATTATTTTACCACGGAAACCACTCAATTCGTGCCACACATCCAACC
*
840976 TTAATTGGTATCCTATCAGTTTT
66 TTAGTTGGTATCCTATCAGTTTT
840999 TCTCATTTAT
Statistics
Matches: 243, Mismatches: 34, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
189 51 0.21
190 72 0.30
192 42 0.17
195 78 0.32
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (192 bp):
TCCTTAAAGAATAAAAACAATTATTTTACCACGGAAACCACTCAATTCGTGCCACACATCCAACC
TTAGTTGGTATCCTATCAGTTTTCTAATAATCTGGGATACGTACAAGAGAATATATGTTCAAAGA
TAACTCTCACATCTTAACATTGAACACTCACACCCCTGACATCTATAATACTTGAACATGGG
Found at i:850466 original size:17 final size:17
Alignment explanation
Indices: 850441--850474 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
850431 AGAAAGATAA
*
850441 ATTCCAATATTACGCCT
1 ATTCCAATACTACGCCT
*
850458 ATTCTAATACTACGCCT
1 ATTCCAATACTACGCCT
850475 CTAATTTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (17 bp):
ATTCCAATACTACGCCT
Found at i:850907 original size:20 final size:19
Alignment explanation
Indices: 850882--850935 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
850872 ACGAAATAAA
850882 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
** *
850902 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGC-GATCCCAG
850922 AATCGCAACGCGAT
1 AATCGCAACGCGAT
850936 TATGAAGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:850946 original size:21 final size:19
Alignment explanation
Indices: 850922--851039 Score: 83
Period size: 21 Copynumber: 5.8 Consensus size: 19
850912 CAGTTCCCAG
850922 AATCGCAACGCGATTATGAA
1 AATCGCAACGCGATTAT-AA
*
850942 GAATCGCAATGCGATAGTATAA
1 -AATCGCAACGCGAT--TATAA
* ** * *
850964 ATTCGCATTGCGATTTTCCAG
1 AATCGCAACGCGATTAT--AA
*
850985 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGATTAT-AA
**
851005 AATCGCAACGCGAACATATA
1 AATCGCAACGCGATTATA-A
851025 AATCGCAACGCGATT
1 AATCGCAACGCGATT
851040 CTGACTATCG
Statistics
Matches: 77, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
19 3 0.04
20 31 0.40
21 38 0.49
22 2 0.03
23 3 0.04
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.22
Consensus pattern (19 bp):
AATCGCAACGCGATTATAA
Found at i:851010 original size:20 final size:20
Alignment explanation
Indices: 850922--851198 Score: 107
Period size: 20 Copynumber: 13.7 Consensus size: 20
850912 CAGTTCCCAG
*
850922 AATCGCAACGCGATTATGAA
1 AATCGCAACGCGAATATGAA
*
850942 GAATCGCAATGCGATAGTAT-AA
1 -AATCGCAACGCGA-A-TATGAA
* ** * * * *
850964 ATTCGCATTGCGATTTTCCAG
1 AATCGCAACGCGAATAT-GAA
850985 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATATGAA
*
851005 AATCGCAACGCGAACAT-ATA
1 AATCGCAACGCGAATATGA-A
* * *
851025 AATCGCAACGCGATTCTGAC
1 AATCGCAACGCGAATATGAA
* * *
851045 TATCGCAA--CGAGTATCCATA
1 AATCGCAACGCGAATAT-GA-A
* * * *
851065 AATCACAACGAGAATACGTA
1 AATCGCAACGCGAATATGAA
* * *
851085 AATCGCAACGCGTATCTGTA
1 AATCGCAACGCGAATATGAA
* *
851105 AATCGCAACGAGAATA-CATA
1 AATCGCAACGCGAATATGA-A
* * ** *
851125 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATATGAA
*
851145 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATATG-AA
* ** *
851166 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATATGAA
851186 AATCGCAACGCGA
1 AATCGCAACGCGA
851199 TCGATAATTC
Statistics
Matches: 186, Mismatches: 55, Indels: 31
0.68 0.20 0.11
Matches are distributed among these distances:
18 5 0.03
19 4 0.02
20 115 0.62
21 53 0.28
22 6 0.03
23 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATATGAA
Found at i:851034 original size:40 final size:40
Alignment explanation
Indices: 850985--851216 Score: 215
Period size: 40 Copynumber: 5.8 Consensus size: 40
850975 GATTTTCCAG
* * *
850985 AATCGCAACGCGAATATGAAAATCGCAACGCG-AACATATA
1 AATCGCAACGCGAATACGAAAATCGCAACGCGTATC-CATA
* ** *
851025 AATCGCAACGCG-ATTCTGACTATCGCAACGAGTATCCATA
1 AATCGCAACGCGAATAC-GAAAATCGCAACGCGTATCCATA
* * * **
851065 AATCACAACGAGAATACGTAAATCGCAACGCGTATCTGTA
1 AATCGCAACGCGAATACGAAAATCGCAACGCGTATCCATA
* * *
851105 AATCGCAACGAGAATAC-ATAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATACGA-AAATCGCAACGCGTATCCATA
*
851145 AATCGCAACGAC-AATACGTAAAATCGCAACGCGTATCCGTA
1 AATCGCAACG-CGAATACG-AAAATCGCAACGCGTATCCATA
*
851186 AATCGCAACGCG-AT-CGATAATTCGCAACGCG
1 AATCGCAACGCGAATACGA-AAATCGCAACGCG
851217 ATCTCCGGTA
Statistics
Matches: 160, Mismatches: 23, Indels: 19
0.79 0.11 0.09
Matches are distributed among these distances:
38 1 0.01
39 16 0.10
40 107 0.67
41 35 0.22
42 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (40 bp):
AATCGCAACGCGAATACGAAAATCGCAACGCGTATCCATA
Found at i:851074 original size:60 final size:60
Alignment explanation
Indices: 850985--851128 Score: 150
Period size: 60 Copynumber: 2.4 Consensus size: 60
850975 GATTTTCCAG
* * * * *
850985 AATCGCAACGCGAATATGA-AAATCGCAACGCGAACATATAAATCGCAACGCG-ATTCTG-A
1 AATCGCAACGAGAATA-CATAAATCACAACGAGAACACATAAATCGCAACGCGTA-TCTGTA
* * * * *
851044 CTATCGCAACGAGTATCCATAAATCACAACGAGAATACGTAAATCGCAACGCGTATCTGTA
1 -AATCGCAACGAGAATACATAAATCACAACGAGAACACATAAATCGCAACGCGTATCTGTA
851105 AATCGCAACGAGAATACATAAATC
1 AATCGCAACGAGAATACATAAATC
851129 GCAATGCGTA
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
59 1 0.01
60 65 0.96
61 2 0.03
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.19
Consensus pattern (60 bp):
AATCGCAACGAGAATACATAAATCACAACGAGAACACATAAATCGCAACGCGTATCTGTA
Found at i:851166 original size:60 final size:59
Alignment explanation
Indices: 851004--851215 Score: 182
Period size: 60 Copynumber: 3.5 Consensus size: 59
850994 GCGAATATGA
* * **
851004 AAATCGCAACGCGAACATATAAATCGCAACGCGAT-TCTG-ACTATCGCAACGAGTATCCAT
1 AAATCGCAACGCGATC--GTAAATCGCAACGC-ATATCTGTAAAATCGCAACGAGTATCCAT
* * * * *
851064 AAATCACAACGAGAATACGTAAATCGCAACGCGTATCTGT-AAATCGCAACGAGAATACAT
1 AAATCGCAACGCG-AT-CGTAAATCGCAACGCATATCTGTAAAATCGCAACGAGTATCCAT
* * *
851124 AAATCGCAATGCGTATCCGTAAATCGCAACGACA-ATAC-GTAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCG-AT-CGTAAATCGCAACG-CATAT-CTGTAAAATCGCAACGAGTATCCAT
*
851185 AAATCGCAACGCGATCGATAATTCGCAACGC
1 AAATCGCAACGCGATCG-TAAATCGCAACGC
851216 GATCTCCGGT
Statistics
Matches: 123, Mismatches: 21, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
59 4 0.03
60 87 0.71
61 31 0.25
62 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (59 bp):
AAATCGCAACGCGATCGTAAATCGCAACGCATATCTGTAAAATCGCAACGAGTATCCAT
Found at i:851212 original size:19 final size:18
Alignment explanation
Indices: 850985--851219 Score: 130
Period size: 20 Copynumber: 11.8 Consensus size: 18
850975 GATTTTCCAG
* *
850985 AATCGCAACGCGAATATGAA
1 AATCGCAACGCG-AT-CGTA
* *
851005 AATCGCAACGCGAACATATA
1 AATCGCAACGCGATC--GTA
851025 AATCGCAACGCGATTC-TGA
1 AATCGCAACGCGA-TCGT-A
* * *
851044 CTATCGCAACGAGTATCCATA
1 -AATCGCAACGCG-AT-CGTA
* *
851065 AATCACAACGAGAATACGTA
1 AATCGCAACGCG-AT-CGTA
851085 AATCGCAACGCGTATCTGTA
1 AATCGCAACGCG-ATC-GTA
* *
851105 AATCGCAACGAGAATACATA
1 AATCGCAACGCG-AT-CGTA
*
851125 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCG-AT-CGTA
*
851145 AATCGCAACGACAATACGTAA
1 AATCGCAACG-CGAT-CGT-A
851166 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCG-AT-CGTA
851186 AATCGCAACGCGATCGATA
1 AATCGCAACGCGATCG-TA
*
851205 ATTCGCAACGCGATC
1 AATCGCAACGCGATC
851220 TCCGGTATCA
Statistics
Matches: 172, Mismatches: 29, Indels: 29
0.75 0.13 0.13
Matches are distributed among these distances:
18 3 0.02
19 21 0.12
20 125 0.73
21 22 0.13
22 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (18 bp):
AATCGCAACGCGATCGTA
Found at i:851330 original size:20 final size:20
Alignment explanation
Indices: 851305--851454 Score: 214
Period size: 20 Copynumber: 7.5 Consensus size: 20
851295 GCGATTTTCC
* *
851305 TAAATCGCAATGCGATTACT
1 TAAATCGCAATGCGAATACG
851325 TAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGAATACG
*
851345 TAAATCGCAATGCGATTACG
1 TAAATCGCAATGCGAATACG
* *
851365 TAAATCACAATGCGAATACA
1 TAAATCGCAATGCGAATACG
851385 TAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGAATACG
*
851405 TAAATCGCAATGTGAAT-CTG
1 TAAATCGCAATGCGAATAC-G
851425 TAAATCGCAATGCGAAT-CTG
1 TAAATCGCAATGCGAATAC-G
851445 TAAATCGCAA
1 TAAATCGCAA
851455 CGAGATTCTG
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
19 1 0.01
20 118 0.99
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.24
Consensus pattern (20 bp):
TAAATCGCAATGCGAATACG
Found at i:851676 original size:20 final size:20
Alignment explanation
Indices: 851651--851739 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 20
851641 CAACGCGGAA
851651 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
*
851671 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
* * *
851691 ATCCCAATGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
* *
851711 ATCGCAATGCAGAAATGACT
1 ATCGCAACGCGGAAATGACT
851731 ATCGCAACG
1 ATCGCAACG
851740 AGAGAATCGC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
20 56 0.95
21 3 0.05
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:851768 original size:19 final size:19
Alignment explanation
Indices: 851744--851816 Score: 137
Period size: 19 Copynumber: 3.8 Consensus size: 19
851734 GCAACGAGAG
851744 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
851763 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
851782 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
851801 AATCGCAACGCGAAAT
1 AATCGCAATGCGAAAT
851817 TAGTTTCGCG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 53 1.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:851882 original size:33 final size:34
Alignment explanation
Indices: 851825--851920 Score: 122
Period size: 33 Copynumber: 2.9 Consensus size: 34
851815 ATTAGTTTCG
851825 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* *
851859 CGTTGCGATTTTTA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* ** * *
851892 CGTTGTGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
851921 AGTCTGTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.53
34 25 0.47
ACGTcount: A:0.14, C:0.22, G:0.21, T:0.44
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:852033 original size:14 final size:14
Alignment explanation
Indices: 852014--852050 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
852004 CATCAATTAA
852014 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
852028 ACAAATCATCTTTT
1 ACAAATCAACATTT
852042 ACAAATCAA
1 ACAAATCAA
852051 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:853487 original size:18 final size:20
Alignment explanation
Indices: 853464--853503 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
853454 CTCTTGAGGG
853464 ATGATA-GG-GGCCTCTTGA
1 ATGATAGGGAGGCCTCTTGA
853482 ATGATATGGGAGGCCTCTTGA
1 ATGATA-GGGAGGCCTCTTGA
853503 A
1 A
853504 CGATGACAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
20 2 0.11
21 11 0.58
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGATAGGGAGGCCTCTTGA
Found at i:853509 original size:42 final size:41
Alignment explanation
Indices: 853402--853513 Score: 109
Period size: 42 Copynumber: 2.7 Consensus size: 41
853392 TCTAGAATGT
* * *
853402 TGGGAGGGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGGG-CCTCTTGAACGATGACAGGGGCCTCTTGAACGA
* ** * *
853444 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAATGATA
1 TGGGA-GGGCCTCTTGAACGATGACAGGGGCCTCTTGAACG--A
853488 TGGGA-GGCCTCTTGAACGATGACAGG
1 TGGGAGGGCCTCTTGAACGATGACAGG
853514 TGAGTCGGGC
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
42 47 0.85
43 3 0.05
44 5 0.09
ACGTcount: A:0.22, C:0.18, G:0.38, T:0.22
Consensus pattern (41 bp):
TGGGAGGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
Found at i:854016 original size:20 final size:20
Alignment explanation
Indices: 853993--854079 Score: 147
Period size: 20 Copynumber: 4.3 Consensus size: 20
853983 GAAACTTAAA
*
853993 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
854013 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
854033 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
854053 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
854073 ATCGCAA
1 ATCGCAA
854080 CGAGAGAATT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:854346 original size:94 final size:94
Alignment explanation
Indices: 854235--854614 Score: 665
Period size: 94 Copynumber: 4.1 Consensus size: 94
854225 ATGGATTACA
* *
854235 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAAAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
854299 TTAGCAGAATTGGCAGCAGCCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
854328 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
854393 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
854422 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
854487 TTAGCAGAATTGGCAGCAACCAAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
854516 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
854580 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
854610 TTACT
1 TTACT
854615 AAGCAATCTA
Statistics
Matches: 276, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
93 23 0.08
94 253 0.92
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.21
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:856343 original size:20 final size:20
Alignment explanation
Indices: 856318--856392 Score: 118
Period size: 20 Copynumber: 3.8 Consensus size: 20
856308 TGAAATAAAA
*
856318 ATCGCAACGAG-AGAATGACT
1 ATCGCAACGCGTA-AATGACT
856338 ATCGCAACGCGTAAATGACT
1 ATCGCAACGCGTAAATGACT
856358 ATCGCAACGCGTAAATGACT
1 ATCGCAACGCGTAAATGACT
856378 ATCGCAACGCG-AAAT
1 ATCGCAACGCGTAAAT
856393 TAAAATCGCA
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
19 4 0.08
20 48 0.91
21 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGTAAATGACT
Found at i:856400 original size:19 final size:19
Alignment explanation
Indices: 856309--856465 Score: 152
Period size: 19 Copynumber: 8.1 Consensus size: 19
856299 TCTTTTGGTT
* *
856309 GAAATAAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
**
856328 GAGAATGACTATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
856348 GTAAATGACTATCGCAACGC
1 G-AAATGAAAATCGCAACGC
**
856368 GTAAATGACTATCGCAACGC
1 G-AAATGAAAATCGCAACGC
* *
856388 GAAATTAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
* *
856407 GAAATTAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
* *
856426 GAAATTAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
*
856445 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
856464 GA
1 GA
856466 TTTTGGTTTC
Statistics
Matches: 127, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
19 74 0.58
20 52 0.41
21 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:856513 original size:33 final size:33
Alignment explanation
Indices: 856461--856541 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 33
856451 AAAATCGCAA
** **
856461 TGCGATTTTGGTTTCGCGTTGTGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTACGATTATCTCGT
* *
856494 TGCGATTTTCATTTTGCGTTACGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTACGATTATCTCGT
856527 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
856542 TCTCGTTGCG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.11, C:0.19, G:0.21, T:0.49
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTACGATTATCTCGT
Found at i:856544 original size:21 final size:20
Alignment explanation
Indices: 856525--856596 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
856515 CGATTCTCTC
856525 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCAT
** *
856545 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCAT
856566 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
856586 GTTGCGATTTT
1 GTTGCGATTTT
856597 AAGTTTAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 30 0.67
21 15 0.33
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:857179 original size:20 final size:20
Alignment explanation
Indices: 857154--857367 Score: 234
Period size: 20 Copynumber: 10.6 Consensus size: 20
857144 CTTTAAAAAT
857154 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
857174 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
857194 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* * *
857215 CGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* *
857235 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
* *
857255 CGCGTTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
*
857275 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
857295 CGCGTTGCCATTTTATGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
857315 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
857336 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
857357 CTCGTTGCGAT
1 CGCGTTGCGAT
857368 AGTCAGAATC
Statistics
Matches: 158, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
20 107 0.68
21 51 0.32
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:857240 original size:40 final size:41
Alignment explanation
Indices: 857156--857468 Score: 338
Period size: 40 Copynumber: 7.7 Consensus size: 41
857146 TTAAAAATCG
*
857156 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
857197 CGTTGCGATTTACGGATACGCATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
857237 CGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* * *
857277 CGTTGCGATTTACGGATACGCGTTGCCATTTTATGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
857318 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* * * *
857359 CGTTGCGATAGT-CAGA-ATCGCGTTGCGATTTATA--TGTTCG
1 CGTTGCGAT-TTACGGATA-CGCGTTGCGATTT-TACGTATTCT
** * *
857399 CGTTGCGATTTATATG-TTCGCGTTGCGATTTATA--TATTCG
1 CGTTGCGATTTA-CGGATACGCGTTGCGATTT-TACGTATTCT
* ** *
857439 CGTTGCGATTTTCATATTCGCGTTGCGATT
1 CGTTGCGATTTACGGATACGCGTTGCGATT
857469 CTGGAAAATC
Statistics
Matches: 236, Mismatches: 28, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
39 1 0.00
40 133 0.56
41 99 0.42
42 3 0.01
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
Found at i:857331 original size:162 final size:162
Alignment explanation
Indices: 857156--857449 Score: 405
Period size: 162 Copynumber: 1.8 Consensus size: 162
857146 TTAAAAATCG
* ** * *
857156 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGAT--TTACGGATACGCA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGTCA-GAAT-CGCA
* * * *
857219 TTGCGATTTACGTATTCTCGTTGCGATTTACA-GATACGCGTTGCGATTTACGTATTCTCGTTGC
64 TTGCGATTTACATATTCGCGTTGCGATTTACATG-TACGCGTTGCGATTTACATATTCGCGTTGC
857283 GATTTACGGATACGCGTTGCCATTTTATGTATTGT
128 GATTTACGGATACGCGTTGCCATTTTATGTATTGT
*
857318 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGTCAGAATCGCGTT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGTCAGAATCGCATT
* * * * *
857383 GCGATTTATATGTTCGCGTTGCGATTTATATGTTCGCGTTGCGATTTATATATTCGCGTTGCGAT
66 GCGATTTACATATTCGCGTTGCGATTTACATGTACGCGTTGCGATTTACATATTCGCGTTGCGAT
857448 TT
131 TT
857450 TCATATTCGC
Statistics
Matches: 114, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
162 108 0.95
163 4 0.04
164 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (162 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGTCAGAATCGCATT
GCGATTTACATATTCGCGTTGCGATTTACATGTACGCGTTGCGATTTACATATTCGCGTTGCGAT
TTACGGATACGCGTTGCCATTTTATGTATTGT
Found at i:857399 original size:20 final size:20
Alignment explanation
Indices: 857376--857468 Score: 152
Period size: 20 Copynumber: 4.7 Consensus size: 20
857366 ATAGTCAGAA
*
857376 TCGCGTTGCGATTTATATGT
1 TCGCGTTGCGATTTATATAT
*
857396 TCGCGTTGCGATTTATATGT
1 TCGCGTTGCGATTTATATAT
857416 TCGCGTTGCGATTTATATAT
1 TCGCGTTGCGATTTATATAT
857436 TCGCGTTGCGATTT-TCATAT
1 TCGCGTTGCGATTTAT-ATAT
857456 TCGCGTTGCGATT
1 TCGCGTTGCGATT
857469 CTGGAAAATC
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
19 1 0.01
20 70 0.99
ACGTcount: A:0.15, C:0.17, G:0.24, T:0.44
Consensus pattern (20 bp):
TCGCGTTGCGATTTATATAT
Found at i:857529 original size:42 final size:42
Alignment explanation
Indices: 857436--857529 Score: 95
Period size: 42 Copynumber: 2.3 Consensus size: 42
857426 ATTTATATAT
* *
857436 TCGCGTTGCG-ATTTTCATATTCGCGTTGCGATTCTGGAAAA
1 TCGCGTTGCGAATTTTCATATTCGCATTGCGATTCTGCAAAA
** * *
857477 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTCTTCATAA
1 TCGCGTTGCGAATTT-TCA-TATTCGCATTGCGATTCTGCAAAA
857519 TCGCGTTGCGA
1 TCGCGTTGCGA
857530 TTCTGGGAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
41 8 0.19
42 31 0.74
43 3 0.07
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (42 bp):
TCGCGTTGCGAATTTTCATATTCGCATTGCGATTCTGCAAAA
Found at i:857567 original size:20 final size:19
Alignment explanation
Indices: 857518--857571 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
857508 ATTCTTCATA
857518 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
857537 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
857558 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
857572 TTTATTTCGT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:861699 original size:2 final size:2
Alignment explanation
Indices: 861694--861772 Score: 135
Period size: 2 Copynumber: 40.5 Consensus size: 2
861684 AGATATGTAA
*
861694 AT AT AT A- AT AT AA AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
861734 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
861773 AAAAATAAGA
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
1 2 0.03
2 71 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:864872 original size:38 final size:38
Alignment explanation
Indices: 864828--865647 Score: 504
Period size: 38 Copynumber: 21.9 Consensus size: 38
864818 TTAACTTTTT
* **
864828 TTTATCTCGCTTGAGATAGTTTCGCTTGAAACAGAAGA
1 TTTATCTCACTTGAGATAGTTTTACTTGAAACAGAAGA
* *
864866 TTTATCTCACTTGAGATTA-TTTTTCTT-AAA-ACAAGA
1 TTTATCTCACTTGAGA-TAGTTTTACTTGAAACAGAAGA
* * * * *
864902 TTCATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGA
1 TTTATCTCACTTGAGATAGTTTTACTTGAAACAGAAGA
* ** * *
864940 TTTATCTCCCTTGAGATTTTTTTTCTT-AAA-ACAAGA
1 TTTATCTCACTTGAGATAGTTTTACTTGAAACAGAAGA
* * *
864976 TTCATCTCACTTGAGATAGTTTCACTCGAAGA-AGAAGACA
1 TTTATCTCACTTGAGATAGTTTTACTTGAA-ACAGAAG--A
* ** * * * *
865016 TTTCATTTCACTCAAGATTGTTTTTCTTAAAACA-AA-C
1 TTT-ATCTCACTTGAGATAGTTTTACTTGAAACAGAAGA
* * * ** *
865053 TTTGTCTCGCTTGAGACAGTTTTTACTCAAAACA-AGACA
1 TTTATCTCACTTGAGATAG-TTTTACTTGAAACAGA-AGA
* ** * * *
865092 TTTCATTTCACTCAAGATTGTTTTTCTT-AAA-ATAA-A
1 TTT-ATCTCACTTGAGATAGTTTTACTTGAAACAGAAGA
* * * *
865128 CTTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA
1 -TTTATCTCACTTGAGATAGTTTTACTTGAAACAGAAGA
* * * *
865167 TTTATCTCACTTGTGATCGTTCTT-CTTAAAACA-AA-C
1 TTTATCTCACTTGAGATAGTT-TTACTTGAAACAGAAGA
* * ** *
865203 TTCATATTGCTTGAGATA-TTTTCACTCGAAACAGAAGA
1 TTTATCTCACTTGAGATAGTTTT-ACTTGAAACAGAAGA
* * * *
865241 TTTATCTCACTTGAGATCGTTTTTCTTAAAACA-AA-T
1 TTTATCTCACTTGAGATAGTTTTACTTGAAACAGAAGA
* * *
865277 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA
1 TTTATCTCACTTGAGATAGTTTTACTTGAAACAGAAGA
* * * *
865315 TTTATCTCACTTGAGATTGTTTTTCTTAAAAC-GAA-T
1 TTTATCTCACTTGAGATAGTTTTACTTGAAACAGAAGA
* *
865351 TTTATCTCACTTTAGATAGTTTTACTCGAAACAGAAGA
1 TTTATCTCACTTGAGATAGTTTTACTTGAAACAGAAGA
* *
865389 TTTATTTCACTTGAGATAGTTTTTACTCGAAACAAGAA-A
1 TTTATCTCACTTGAGATAG-TTTTACTTGAAAC-AGAAGA
* ** * * *
865428 TTTCATTTCACTCAAGATTGTTTTTCTT-AAA-ACAAGA
1 TTT-ATCTCACTTGAGATAGTTTTACTTGAAACAGAAGA
* ** * * * *
865465 TTCATCTTGCATGAGATAGTTTCACTCGAAACAAAAGA
1 TTTATCTCACTTGAGATAGTTTTACTTGAAACAGAAGA
* * *
865503 TTTATCTCACTTGAGATAGTTTCACTCGAAATAGAAGA
1 TTTATCTCACTTGAGATAGTTTTACTTGAAACAGAAGA
* * * * *
865541 TTTATCTCGCTTGAGATTGTTTTTCTTAAAACA-AA-T
1 TTTATCTCACTTGAGATAGTTTTACTTGAAACAGAAGA
* *
865577 TTTATCTCGCTTGAGATAGTTTCACTTGAAACAAGAAG-
1 TTTATCTCACTTGAGATAGTTTTACTTGAAAC-AGAAGA
* * *
865615 TTTATCTCACTTGAGATTGTTTTTCTTAAAACA
1 TTTATCTCACTTGAGATAGTTTTACTTGAAACA
865648 AACTACGCCT
Statistics
Matches: 590, Mismatches: 154, Indels: 77
0.72 0.19 0.09
Matches are distributed among these distances:
34 2 0.00
35 4 0.01
36 193 0.33
37 58 0.10
38 241 0.41
39 40 0.07
40 32 0.05
41 20 0.03
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (38 bp):
TTTATCTCACTTGAGATAGTTTTACTTGAAACAGAAGA
Found at i:865665 original size:74 final size:74
Alignment explanation
Indices: 864831--865651 Score: 855
Period size: 74 Copynumber: 11.0 Consensus size: 74
864821 ACTTTTTTTT
* * *
864831 ATCTCGCTTGAGATAGTTTCGCTTGAAACAGAAGATTTATCTCACTTGAGATTATTTTTCTTAAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTTTCTTAAA
864896 ACAAGA-TTC
66 ACAA-ACTTC
* * *
864905 ATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGATTTATCTCCCTTGAGATTTTTTTTCTTAAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTTTCTTAAA
864970 ACAAGA-TTC
66 ACAA-ACTTC
* * **
864979 ATCTCACTTGAGATAGTTTCACTCGAAGA-AGAAGACATTTCATTTCACTCAAGATTGTTTTTCT
1 ATCTCGCTTGAGATAGTTTCACTCGAA-ACAGAAG--ATTT-ATCTCACTTGAGATTGTTTTTCT
*
865043 TAAAACAAACTTT
62 TAAAACAAACTTC
* * * * * * **
865056 GTCTCGCTTGAGACAGTTTTTACTCAAAACA-AGACATTTCATTTCACTCAAGATTGTTTTTCTT
1 ATCTCGCTTGAGATAG-TTTCACTCGAAACAGA-AGATTT-ATCTCACTTGAGATTGTTTTTCTT
*
865120 AAAATAAACTTC
63 AAAACAAACTTC
* * *
865132 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGTGATCGTTCTTCTTAAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTTTCTTAAA
865197 ACAAACTTC
66 ACAAACTTC
* * * *
865206 ATATTGCTTGAGATATTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATCGTTTTTCTTAAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTTTCTTAAA
* *
865271 ACAAATTTT
66 ACAAACTTC
865280 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTTTCTTAAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTTTCTTAAA
* * *
865345 ACGAATTTT
66 ACAAACTTC
* * * * * *
865354 ATCTCACTTTAGATAGTTTTACTCGAAACAGAAGATTTATTTCACTTGAGATAGTTTTTACTCGA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTTT-CT--T
* *
865419 AACAAGAAATTTC
63 AA-AACAAACTTC
* * ** * ** * * * ** * * ** **
865432 ATTTCACTCAAGATTGTTTTTCT-TAAA-ACAAGATTCATCTTGCATGAGATAGTTTCACTCGAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTTTCTTAAA
* *
865495 ACAAAAGATTT
66 AC-AAA-CTTC
* * *
865506 ATCTCACTTGAGATAGTTTCACTCGAAATAGAAGATTTATCTCGCTTGAGATTGTTTTTCTTAAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTTTCTTAAA
* *
865571 ACAAATTTT
66 ACAAACTTC
*
865580 ATCTCGCTTGAGATAGTTTCACTTGAAACAAGAAG-TTTATCTCACTTGAGATTGTTTTTCTTAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAAC-AGAAGATTTATCTCACTTGAGATTGTTTTTCTTAA
865644 AACAAACT
65 AACAAACT
865652 ACGCCTCACT
Statistics
Matches: 635, Mismatches: 94, Indels: 36
0.83 0.12 0.05
Matches are distributed among these distances:
72 2 0.00
73 4 0.01
74 402 0.63
75 33 0.05
76 110 0.17
77 48 0.08
78 36 0.06
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (74 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTTTCTTAAA
ACAAACTTC
Found at i:865744 original size:59 final size:59
Alignment explanation
Indices: 865652--865797 Score: 204
Period size: 59 Copynumber: 2.5 Consensus size: 59
865642 AAAACAAACT
* * * *
865652 ACGCCTCACTTGAGGGATTAATATTTTCTTTGCTCGATTCACAACACTTT-GAATCAGTA
1 ACGCCTCAGTCGAGGGATTAATATTTCCTTTGCTCGATTCACAACA-TTTCGAATCAGCA
* *
865711 ACGCCTCAGTCGAGGGATTAACATTTCCTTTGCTCGATTCACAACATTTCGAATCAGCG
1 ACGCCTCAGTCGAGGGATTAATATTTCCTTTGCTCGATTCACAACATTTCGAATCAGCA
* *
865770 ATGCCTCAGTCGAGGGATCAATATTTCC
1 ACGCCTCAGTCGAGGGATTAATATTTCC
865798 AGTGGAGAAT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
58 3 0.04
59 74 0.96
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (59 bp):
ACGCCTCAGTCGAGGGATTAATATTTCCTTTGCTCGATTCACAACATTTCGAATCAGCA
Found at i:865810 original size:59 final size:59
Alignment explanation
Indices: 865687--865810 Score: 135
Period size: 59 Copynumber: 2.1 Consensus size: 59
865677 TTCTTTGCTC
* * ** **
865687 GATTCACAACACTTTGAATCAGTAACGCCTCAGTCGAGGGATTAACATTTCCTTTGCTC
1 GATTCACAACACTTTGAATCAGCAACGCCTCAGTCGAGGGATCAACATTTCCAGTGCGA
* * *
865746 GATTCACAACA-TTTCGAATCAGCGATGCCTCAGTCGAGGGATCAATATTTCCAGTG-GA
1 GATTCACAACACTTT-GAATCAGCAACGCCTCAGTCGAGGGATCAACATTTCCAGTGCGA
865804 GAATTCA
1 G-ATTCA
865811 TGAGAAGAAC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
58 4 0.07
59 50 0.93
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (59 bp):
GATTCACAACACTTTGAATCAGCAACGCCTCAGTCGAGGGATCAACATTTCCAGTGCGA
Found at i:865961 original size:93 final size:92
Alignment explanation
Indices: 865737--865969 Score: 322
Period size: 92 Copynumber: 2.5 Consensus size: 92
865727 ATTAACATTT
* * *
865737 CCTTTGCTCGATTCACAACATTTCGAATCAGCGATGCCTCAGTCGAGGGATCAATATTTCCAGTG
1 CCTTTGCTCGATTCACAACATTTCGAATCAGCGATGCCTCACTCGAGGGACCAATATTTCCAGTA
*
865802 GAGAATTCATGAGAAGAACTTATTCAA
66 GAGAATTCATAAGAAGAACTTATTCAA
** * *
865829 AATTTGCTCGATTCACAACATTTCGAATCAGCGACGCCTCACTCGTGGGACCAATATTTCCAGTA
1 CCTTTGCTCGATTCACAACATTTCGAATCAGCGATGCCTCACTCGAGGGACCAATATTTCCAGTA
865894 GAGAATTCATAATGAAGAACTTATTCAA
66 GAGAATTCATAA-GAAGAACTTATTCAA
* ** * * * *
865922 CCTTTGATCGATTCATGACAATTCAAATCAGCAATGCCTCAATCGAGG
1 CCTTTGCTCGATTCACAACATTTCGAATCAGCGATGCCTCACTCGAGG
865970 AATCAACATT
Statistics
Matches: 121, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
92 69 0.57
93 52 0.43
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28
Consensus pattern (92 bp):
CCTTTGCTCGATTCACAACATTTCGAATCAGCGATGCCTCACTCGAGGGACCAATATTTCCAGTA
GAGAATTCATAAGAAGAACTTATTCAA
Found at i:865997 original size:93 final size:92
Alignment explanation
Indices: 865737--866001 Score: 325
Period size: 93 Copynumber: 2.9 Consensus size: 92
865727 ATTAACATTT
*
865737 CCTTTGCTCGATTCACAACATTTCGAATCAGCGATGCCTCAGTCGAGGGATCAATATTTCCAGTG
1 CCTTTGCTCGATTCACAACATTTCGAATCAGCGATGCCTCAATCGAGGGATCAATATTTCCAGTG
*
865802 GAGAATTCATGA-GAAGAACTTATTCAA
66 G-GAATTCATAATGAAGAACTTATTCAA
** * * * *
865829 AATTTGCTCGATTCACAACATTTCGAATCAGCGACGCCTCACTCGTGGGACCAATATTTCCAGTA
1 CCTTTGCTCGATTCACAACATTTCGAATCAGCGATGCCTCAATCGAGGGATCAATATTTCCAGT-
*
865894 GAGAATTCATAATGAAGAACTTATTCAA
65 GGGAATTCATAATGAAGAACTTATTCAA
* ** * * * * * *
865922 CCTTTGATCGATTCATGACAATTCAAATCAGCAATGCCTCAATCGAGGAATCAACATTTACAGTG
1 CCTTTGCTCGATTCACAACATTTCGAATCAGCGATGCCTCAATCGAGGGATCAATATTTCCAGTG
*
865987 GGAAGATCATAATGA
66 GGAA-TTCATAATGA
866002 GAAGAACCCG
Statistics
Matches: 145, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
92 71 0.49
93 74 0.51
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (92 bp):
CCTTTGCTCGATTCACAACATTTCGAATCAGCGATGCCTCAATCGAGGGATCAATATTTCCAGTG
GGAATTCATAATGAAGAACTTATTCAA
Found at i:866324 original size:19 final size:19
Alignment explanation
Indices: 866300--866340 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
866290 AGCAAGCAAG
866300 CAAACCAACACTCAAAAAT
1 CAAACCAACACTCAAAAAT
866319 CAAACCAACACTCAAAAAT
1 CAAACCAACACTCAAAAAT
866338 CAA
1 CAA
866341 TCTTTGTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.59, C:0.32, G:0.00, T:0.10
Consensus pattern (19 bp):
CAAACCAACACTCAAAAAT
Found at i:866495 original size:15 final size:14
Alignment explanation
Indices: 866471--866504 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
866461 CCTTTTCAAA
*
866471 AAAAATAAAAAAATG
1 AAAAAGAAAAAAA-G
866486 AAAAAGAAAAAAAG
1 AAAAAGAAAAAAAG
866500 AAAAA
1 AAAAA
866505 AATTTGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:873569 original size:55 final size:55
Alignment explanation
Indices: 873476--873807 Score: 448
Period size: 55 Copynumber: 6.0 Consensus size: 55
873466 TATGTTACAT
* * * *
873476 ATTTTCGTATTGACACTATGTGTGCAACCCCATGAAATTCATAACGAGTTTATGA
1 ATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGA
* * *
873531 ATTTCCGTATTGGCACTATGTGTACAATCCCACAAAATTCATAATGAGTTTATGA
1 ATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGA
* ** *
873586 ATTTCCGTATTGGCACTATATGCACAACCCCACGGAATTCATAATGAGTTTATGA
1 ATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGA
* *
873641 ATTTCCATATTGGCACTATGTGTGCAACCCCACGAAATTCATAAAGAGTTTATGA
1 ATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGA
* * * *
873696 ATTTCCGTATTGGTACTATATGTGTAACCCCACAAAATTCATAATGAGTTTATGA
1 ATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGA
* * * * * * *
873751 ATTTTCGTATTGGCACTATATATGCAACCCCAAGAAATTAACAATGAGTTTGTGA
1 ATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGA
873806 AT
1 AT
873808 GACTGTATCA
Statistics
Matches: 244, Mismatches: 33, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 244 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (55 bp):
ATTTCCGTATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGA
Found at i:873762 original size:165 final size:165
Alignment explanation
Indices: 873483--873807 Score: 497
Period size: 165 Copynumber: 2.0 Consensus size: 165
873473 CATATTTTCG
* *
873483 TATTGACACTATGTGTGCAACCCCATGAAATTCATAACGAGTTTATGAATTTCCGTATTGGCACT
1 TATTGACACTATGTGTGCAACCCCACGAAATTCATAAAGAGTTTATGAATTTCCGTATTGGCACT
* * *
873548 ATGTGTACAATCCCACAAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATATGCACAA
66 ATATGTACAACCCCACAAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATATACACAA
* * * *
873613 CCCCACGGAATTCATAATGAGTTTATGAATTTCCA
131 CCCCAAGAAATTAACAATGAGTTTATGAATTTCCA
* *
873648 TATTGGCACTATGTGTGCAACCCCACGAAATTCATAAAGAGTTTATGAATTTCCGTATTGGTACT
1 TATTGACACTATGTGTGCAACCCCACGAAATTCATAAAGAGTTTATGAATTTCCGTATTGGCACT
** * **
873713 ATATGTGTAACCCCACAAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTATATATGCAA
66 ATATGTACAACCCCACAAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATATACACAA
*
873778 CCCCAAGAAATTAACAATGAGTTTGTGAAT
131 CCCCAAGAAATTAACAATGAGTTTATGAAT
873808 GACTGTATCA
Statistics
Matches: 143, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
165 143 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (165 bp):
TATTGACACTATGTGTGCAACCCCACGAAATTCATAAAGAGTTTATGAATTTCCGTATTGGCACT
ATATGTACAACCCCACAAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATATACACAA
CCCCAAGAAATTAACAATGAGTTTATGAATTTCCA
Found at i:873824 original size:110 final size:110
Alignment explanation
Indices: 873476--873872 Score: 447
Period size: 110 Copynumber: 3.6 Consensus size: 110
873466 TATGTTACAT
* * * *
873476 ATTTTCGTATTGACACTATGTGTGCAACCCCATGAAATTCATAACGAGTTTATGAATTTCCGTAT
1 ATTTCCGTATTGACACTATATGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTAT
* *
873541 TGGCACTATGTGTACAATCCCACA-AAATTCATAATGAGTTTATGA
66 TGGCACTATGTGTGCAACCCCA-AGAAATTCATAATGAGTTTATGA
* ** * *
873586 ATTTCCGTATTGGCACTATATGCACAACCCCACGGAATTCATAATGAGTTTATGAATTTCCATAT
1 ATTTCCGTATTGACACTATATGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTAT
* *
873651 TGGCACTATGTGTGCAACCCCACGAAATTCATAAAGAGTTTATGA
66 TGGCACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGA
** * * *
873696 ATTTCCGTATTGGTACTATATGTGTAACCCCACAAAATTCATAATGAGTTTATGAATTTTCGTAT
1 ATTTCCGTATTGACACTATATGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTAT
* * * * *
873761 TGGCACTATATATGCAACCCCAAGAAATTAACAATGAGTTTGTGA
66 TGGCACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGA
** * ** * * * * * * * *
873806 ATGACTGTATCAACACTATATGTTC-ACCCCAAGGATTTTAAAATGAGTTTGTGAATTTCCTTAT
1 ATTTCCGTATTGACACTATATGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTAT
873870 TGG
66 TGG
873873 TACTTAGGTG
Statistics
Matches: 240, Mismatches: 46, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
109 33 0.14
110 207 0.86
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (110 bp):
ATTTCCGTATTGACACTATATGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTAT
TGGCACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGA
Found at i:874416 original size:2 final size:2
Alignment explanation
Indices: 874405--874452 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
874395 AGTAGACGTG
874405 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
874446 TA TA TA T
1 TA TA TA T
874453 TGAAGAATGT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:878992 original size:32 final size:32
Alignment explanation
Indices: 878949--879010 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
878939 TTTAAATAGG
878949 TTTTAGTATTTTA-ATTAAGTTTTAGGATATTAT
1 TTTTAGTATTTTATATT-AGTTTTAGG-TATTAT
*
878982 TTTTA-TATTTTATATTTGTTTTAGGTATT
1 TTTTAGTATTTTATATTAGTTTTAGGTATT
879011 TTAGTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 4 0.15
32 15 0.56
33 8 0.30
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (32 bp):
TTTTAGTATTTTATATTAGTTTTAGGTATTAT
Found at i:879015 original size:76 final size:76
Alignment explanation
Indices: 878908--879061 Score: 222
Period size: 76 Copynumber: 2.0 Consensus size: 76
878898 ATTTTAAATA
* * *
878908 TTATATTTCATCTTTTCTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTA-AGTTTT
1 TTATATTTCATATTTTCTTTAGGTATTTTAGTTTAAATAGATTTTAGTATTTTAATTAGA-ATTT
*
878972 AGGATATTATTT
65 AGAATATTATTT
* *
878984 TTATATTTTATATTTGT-TTTAGGTATTTTAGTTTAAATATATTTTAGTATTTTAATTAGAATTT
1 TTATATTTCATATTT-TCTTTAGGTATTTTAGTTTAAATAGATTTTAGTATTTTAATTAGAATTT
879048 AGAATATTATTT
65 AGAATATTATTT
879060 TT
1 TT
879062 TAGATATTTT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
76 68 0.97
77 2 0.03
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (76 bp):
TTATATTTCATATTTTCTTTAGGTATTTTAGTTTAAATAGATTTTAGTATTTTAATTAGAATTTA
GAATATTATTT
Found at i:879814 original size:24 final size:24
Alignment explanation
Indices: 879785--879865 Score: 69
Period size: 24 Copynumber: 3.3 Consensus size: 24
879775 CTCTTTTATC
879785 TTTATTATTATTTTTAATTCATTA
1 TTTATTATTATTTTTAATTCATTA
* * *
879809 TTTATTATT-TTATTAAATTTCCTTT
1 TTTATTATTATT-TTTAA-TTCATTA
*
879834 TTTAAT-TTATTTTTAATT-ATTTA
1 TTTATTATTATTTTTAATTCA-TTA
879857 TTTTATTAT
1 -TTTATTAT
879866 ACCTTTTCAA
Statistics
Matches: 43, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
23 6 0.14
24 24 0.56
25 13 0.30
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTATTATTATTTTTAATTCATTA
Found at i:880194 original size:7 final size:7
Alignment explanation
Indices: 880182--880216 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
880172 CAAACGCTTT
880182 GAGAAAA
1 GAGAAAA
880189 GAGAAAA
1 GAGAAAA
880196 GAGAAAA
1 GAGAAAA
880203 -AGAAAA
1 GAGAAAA
880209 GAAGAAAA
1 G-AGAAAA
880217 AGAGCAGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.23
7 14 0.54
8 6 0.23
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
GAGAAAA
Found at i:891786 original size:22 final size:21
Alignment explanation
Indices: 891741--891786 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
891731 ATGTATTGAG
*
891741 TAATTTATACTCAAATTATCT
1 TAATTTATACTCAAATCATCT
* *
891762 TAATATTATTCTCAAATCATTT
1 TAAT-TTATACTCAAATCATCT
891784 TAA
1 TAA
891787 AAAATATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (21 bp):
TAATTTATACTCAAATCATCT
Found at i:893335 original size:21 final size:21
Alignment explanation
Indices: 893311--893360 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
893301 CACTGAAGTG
* *
893311 CCACATATTTGTCCCGAAGGA
1 CCACATAATTATCCCGAAGGA
* *
893332 CCACATAATTATCTCGGAGGA
1 CCACATAATTATCCCGAAGGA
893353 CCACATAA
1 CCACATAA
893361 AACCCTCGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (21 bp):
CCACATAATTATCCCGAAGGA
Found at i:893862 original size:19 final size:22
Alignment explanation
Indices: 893814--893863 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
893804 TACCCCTCCA
*
893814 GTACCGATACTTCCCTTCAAGG
1 GTACCGATACCTCCCTTCAAGG
*
893836 GTATCGATACCT-CCTT-AA-G
1 GTACCGATACCTCCCTTCAAGG
893855 GTACCGATA
1 GTACCGATA
893864 TCGATTTGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 9 0.36
20 2 0.08
21 4 0.16
22 10 0.40
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (22 bp):
GTACCGATACCTCCCTTCAAGG
Found at i:893942 original size:20 final size:20
Alignment explanation
Indices: 893919--893991 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 20
893909 CATCATCTTG
*
893919 GTATCGATACTACCGTCACA
1 GTATCGATACTACCTTCACA
*
893939 GTATCGATACT-CTCTTCAACCG
1 GTATCGATACTAC-CTTC-A-CA
*
893961 GTATCGATACTACCCTTTACA
1 GTATCGATACTA-CCTTCACA
893982 GTATCGATAC
1 GTATCGATAC
893992 CCTCTTCAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
19 1 0.02
20 14 0.32
21 12 0.27
22 13 0.30
23 3 0.07
24 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (20 bp):
GTATCGATACTACCTTCACA
Found at i:893967 original size:22 final size:22
Alignment explanation
Indices: 893939--894012 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
893929 TACCGTCACA
893939 GTATCGATACTCTCTTCAACCG
1 GTATCGATACTCTCTTCAACCG
* * *
893961 GTATCGATACTACCCTT-TA-CA
1 GTATCGATACT-CTCTTCAACCG
* *
893982 GTATCGATACCCTCTTCAACTG
1 GTATCGATACTCTCTTCAACCG
*
894004 GTATTGATA
1 GTATCGATA
894013 GTACCCTTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
20 4 0.10
21 12 0.30
22 20 0.50
23 4 0.10
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.34
Consensus pattern (22 bp):
GTATCGATACTCTCTTCAACCG
Found at i:893997 original size:43 final size:43
Alignment explanation
Indices: 893918--894020 Score: 145
Period size: 43 Copynumber: 2.4 Consensus size: 43
893908 CCATCATCTT
* *
893918 GGTATCGATACTA-CCGTCACAGTATCGATACTCTCTTCAACC
1 GGTATCGATACTACCCTTCACAGTATCGATACCCTCTTCAACC
* *
893960 GGTATCGATACTACCCTTTACAGTATCGATACCCTCTTCAACT
1 GGTATCGATACTACCCTTCACAGTATCGATACCCTCTTCAACC
* *
894003 GGTATTGATAGTACCCTT
1 GGTATCGATACTACCCTT
894021 AATACTTACA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
42 13 0.24
43 41 0.76
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (43 bp):
GGTATCGATACTACCCTTCACAGTATCGATACCCTCTTCAACC
Found at i:894564 original size:13 final size:13
Alignment explanation
Indices: 894546--894581 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
894536 ACGAGAAGAG
*
894546 GAAGGAAAATAAA
1 GAAGGAAAAGAAA
894559 GAAGGAAAAGAAA
1 GAAGGAAAAGAAA
894572 GAAGGAAAAG
1 GAAGGAAAAG
894582 CTTTCAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.03
Consensus pattern (13 bp):
GAAGGAAAAGAAA
Found at i:900804 original size:19 final size:21
Alignment explanation
Indices: 900757--900807 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 21
900747 TACCCCTCCA
*
900757 GTATCGATACTTCCCTTCAAG
1 GTATCGATACCTCCCTTCAAG
900778 GATATCGATACCT-CCTT-AAG
1 G-TATCGATACCTCCCTTCAAG
900798 GTATCGATAC
1 GTATCGATAC
900808 TGATTAGGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 9 0.32
20 4 0.14
21 5 0.18
22 10 0.36
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (21 bp):
GTATCGATACCTCCCTTCAAG
Found at i:900878 original size:20 final size:20
Alignment explanation
Indices: 900840--900892 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
900830 ATCTTAAAAA
*
900840 TGGTATCGATACCATCCTCT
1 TGGTATCGATACCACCCTCT
* *
900860 TGGTATCGATACTACCCTCA
1 TGGTATCGATACCACCCTCT
**
900880 AAGTATCGATACC
1 TGGTATCGATACC
900893 CTCTTCAACT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.30
Consensus pattern (20 bp):
TGGTATCGATACCACCCTCT
Found at i:900910 original size:22 final size:22
Alignment explanation
Indices: 900882--900956 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
900872 TACCCTCAAA
900882 GTATCGATACCCTCTTCAACTG
1 GTATCGATACCCTCTTCAACTG
*
900904 GTATCGATATTACCCT-TT-AA--A
1 GTATCG--A-TACCCTCTTCAACTG
*
900925 GTATTGATACCCTCTTCAACTG
1 GTATCGATACCCTCTTCAACTG
*
900947 GTATTGATAC
1 GTATCGATAC
900957 TACCCTTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
18 6 0.14
19 3 0.07
20 2 0.05
21 5 0.12
22 16 0.37
23 2 0.05
24 3 0.07
25 6 0.14
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (22 bp):
GTATCGATACCCTCTTCAACTG
Found at i:900939 original size:43 final size:43
Alignment explanation
Indices: 900860--900963 Score: 165
Period size: 43 Copynumber: 2.4 Consensus size: 43
900850 ACCATCCTCT
900860 TGGTATCGATACTACCC-TCAAAGTATCGATACCCTCTTCAAC
1 TGGTATCGATACTACCCTTCAAAGTATCGATACCCTCTTCAAC
* * *
900902 TGGTATCGATATTACCCTTTAAAGTATTGATACCCTCTTCAAC
1 TGGTATCGATACTACCCTTCAAAGTATCGATACCCTCTTCAAC
*
900945 TGGTATTGATACTACCCTT
1 TGGTATCGATACTACCCTT
900964 AATACTTACA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 16 0.29
43 40 0.71
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.35
Consensus pattern (43 bp):
TGGTATCGATACTACCCTTCAAAGTATCGATACCCTCTTCAAC
Found at i:909773 original size:2 final size:2
Alignment explanation
Indices: 909766--909849 Score: 168
Period size: 2 Copynumber: 42.0 Consensus size: 2
909756 CATGGTAGTT
909766 CA CA CA CA CA CA CA 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 CA CA CA CA CA CA CA
909808 CA CA CA CA CA CA CA 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 CA CA CA CA CA CA CA
909850 TATAACAGAT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:910292 original size:17 final size:18
Alignment explanation
Indices: 910272--910324 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
910262 AAAATAGGAA
910272 TTTTTAG-AAAAGTTAAC
1 TTTTTAGTAAAAGTTAAC
* *
910289 TTTTTGGTCAAAGTTAAC
1 TTTTTAGTAAAAGTTAAC
* *
910307 TTTTTGGTCAAAGTTAAC
1 TTTTTAGTAAAAGTTAAC
910325 GGTAAACACT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
17 6 0.18
18 27 0.82
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.43
Consensus pattern (18 bp):
TTTTTAGTAAAAGTTAAC
Found at i:910301 original size:18 final size:18
Alignment explanation
Indices: 910280--910324 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
910270 AATTTTTAGA
910280 AAAGTTAACTTTTTGGTC
1 AAAGTTAACTTTTTGGTC
910298 AAAGTTAACTTTTTGGTC
1 AAAGTTAACTTTTTGGTC
910316 AAAGTTAAC
1 AAAGTTAAC
910325 GGTAAACACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (18 bp):
AAAGTTAACTTTTTGGTC
Found at i:930467 original size:11 final size:11
Alignment explanation
Indices: 930451--930483 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
930441 GTTTGGATGA
930451 GAAAAATTATG
1 GAAAAATTATG
930462 GAAAAATTATG
1 GAAAAATTATG
*
930473 GCAAAATTATG
1 GAAAAATTATG
930484 TAATTTCTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.52, C:0.03, G:0.18, T:0.27
Consensus pattern (11 bp):
GAAAAATTATG
Found at i:932388 original size:16 final size:16
Alignment explanation
Indices: 932362--932400 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
932352 AACTTTCATA
* *
932362 TTTCATTTTCATATTCT
1 TTTC-TTTTCAGATACT
932379 TTTCTTTTCAGATACT
1 TTTCTTTTCAGATACT
932395 TTTCTT
1 TTTCTT
932401 AACTTTCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.15, C:0.18, G:0.03, T:0.64
Consensus pattern (16 bp):
TTTCTTTTCAGATACT
Found at i:934531 original size:14 final size:14
Alignment explanation
Indices: 934512--934558 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
934502 ACTGCCCTAC
934512 CTGTTGACCGTTGA
1 CTGTTGACCGTTGA
934526 CTGTTGACC---GA
1 CTGTTGACCGTTGA
*
934537 CTGTTAACCGTTGA
1 CTGTTGACCGTTGA
934551 CT-TTGACC
1 CTGTTGACC
934559 AAAAAGTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
11 10 0.36
13 5 0.18
14 13 0.46
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (14 bp):
CTGTTGACCGTTGA
Found at i:934541 original size:25 final size:24
Alignment explanation
Indices: 934512--934558 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
934502 ACTGCCCTAC
*
934512 CTGTTGACCGTTGACTGTTGACCGA
1 CTGTTAACCGTTGACT-TTGACCGA
934537 CTGTTAACCGTTGACTTTGACC
1 CTGTTAACCGTTGACTTTGACC
934559 AAAAAGTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (24 bp):
CTGTTAACCGTTGACTTTGACCGA
Found at i:934709 original size:128 final size:129
Alignment explanation
Indices: 934544--934803 Score: 366
Period size: 129 Copynumber: 2.0 Consensus size: 129
934534 CGACTGTTAA
*
934544 CCGTTGACTTTGACCAAAAAGTCAAAATTTTCTAAAAGTCATATTTTATGTTTTT-GACGTCCTG
1 CCGTTGACTTTGACAAAAAAGTCAAAATTTTCTAAAAGTCATATTTTATGTTTTTCGACGTCCTG
* * * * * *
934608 AGTCCGATTTCGAAG-TCTGTTTTTCCAAATTCT-ATCCCGAAAGCCTCAAAATTCTCAGTCAAA
66 AATCCGAATCCGAAGTTC-GTTTTTCCAAATT-TGAACCCGAAAGCCTCAAAATTATAAGTCAAA
934671 C
129 C
*
934672 CCGTTGACTTTGACAAAAAAGTC-AAATTTTTTGAAAAGTCATATTTTATGTTTTTCGACGTCCT
1 CCGTTGACTTTGACAAAAAAGTCAAAATTTTCT-AAAAGTCATATTTTATGTTTTTCGACGTCCT
* * *
934736 GAATCTGAATCCGAAGTTCGTTTTTCCAAATTTGAACTCGAAAGCCTCCAAATTATAAGTCAAAC
65 GAATCCGAATCCGAAGTTCGTTTTTCCAAATTTGAACCCGAAAGCCTCAAAATTATAAGTCAAAC
934801 CCG
1 CCG
934804 AACATGCGTA
Statistics
Matches: 117, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
127 8 0.07
128 45 0.38
129 62 0.53
130 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.35
Consensus pattern (129 bp):
CCGTTGACTTTGACAAAAAAGTCAAAATTTTCTAAAAGTCATATTTTATGTTTTTCGACGTCCTG
AATCCGAATCCGAAGTTCGTTTTTCCAAATTTGAACCCGAAAGCCTCAAAATTATAAGTCAAAC
Found at i:935465 original size:31 final size:31
Alignment explanation
Indices: 935429--935503 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
935419 TTGAGATGTG
935429 TTCTTAGGTAGGCCTCGTGGCCCCAAAAACT
1 TTCTTAGGTAGGCCTCGTGGCCCCAAAAACT
* *
935460 TTCTTAGATAGGCCTCGTGGCCCCGAAAACT
1 TTCTTAGGTAGGCCTCGTGGCCCCAAAAACT
*
935491 TTCTTGGGTAGGC
1 TTCTTAGGTAGGC
935504 TCTCAGGTCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.28
Consensus pattern (31 bp):
TTCTTAGGTAGGCCTCGTGGCCCCAAAAACT
Found at i:941759 original size:13 final size:13
Alignment explanation
Indices: 941741--941770 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
941731 TTTTGACTGT
941741 CCCGACTACCCGA
1 CCCGACTACCCGA
*
941754 CCCGACTAGCCGA
1 CCCGACTACCCGA
941767 CCCG
1 CCCG
941771 TTAACTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.53, G:0.20, T:0.07
Consensus pattern (13 bp):
CCCGACTACCCGA
Found at i:947607 original size:54 final size:54
Alignment explanation
Indices: 947497--947659 Score: 177
Period size: 54 Copynumber: 3.0 Consensus size: 54
947487 GGCACTAAAA
* * * *
947497 GTGCATTTCACCGAATTCATCCTACGTGGATGAATAACCGTTTCA-TCACTAAGT
1 GTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTAT-AGACACTATGT
* *
947551 GTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCATATAGAAACTATGT
1 GTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTATAGACACTATGT
* * * * * *
947605 GTGCAAATCCACGGAATTTATCATGA-GTTGATGAATAACCGTATAGGCACTATGT
1 GTGC-ATTTCACGGAATTCATCCT-ACGTGGATGAATAACCGTATAGACACTATGT
947660 ATATAAATCC
Statistics
Matches: 92, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
53 1 0.01
54 50 0.54
55 40 0.43
56 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (54 bp):
GTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTATAGACACTATGT
Found at i:948186 original size:54 final size:54
Alignment explanation
Indices: 947601--948178 Score: 615
Period size: 54 Copynumber: 10.7 Consensus size: 54
947591 TATAGAAACT
* * * * *
947601 ATGTGTGCAAATCCACGGAATTTATCATGAGTTGATGAATAACCGTATAGGCACT
1 ATGTGTGC-AACCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACG
* ** * * * *
947656 ATGTATATAAATCCACGGAATTCATCAT--GTTGATAAATAACCGTATAGGCACG
1 ATGTGT-GCAACCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACG
* * * * * *
947709 AAGTGTGAAATCCACGGAATTCATCATGAGTTGATGAATAATCGTACAAGCACG
1 ATGTGTGCAACCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACG
* * * *
947763 ATGTCTACAACCCAC-ATAATTCATCATGAGTTGATGAATAAACGTACAAGCACG
1 ATGTGTGCAACCCACGA-AATTCATCATGAGTTGATGAATAACCGTACAGGCACG
* * *
947817 ATGTGTGCAACCCACGAAATTCATAATGAGTTGATGACTAATCGTACAGGCACG
1 ATGTGTGCAACCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACG
* * ** * ** *
947871 AAGTGTACAACCCATAAAATTCTTCATGAGTTGATGAATAATTGTACAAGCACG
1 ATGTGTGCAACCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACG
* * * * * *
947925 ATGTGTACAACCCACAAAATTCATTATGAGTTGATGAATAACCGTACATGAATG
1 ATGTGTGCAACCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACG
* * * * *
947979 ATGTGCGCAACCTACTG-AATTCATCATGAGTTGATGAGTAACCATACAGGTACG
1 ATGTGTGCAACCCAC-GAAATTCATCATGAGTTGATGAATAACCGTACAGGCACG
* * *
948033 ATATGTGCAACCCACGGAATTCAACATGAGTTGATGAATAACCGTACAGGCACG
1 ATGTGTGCAACCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACG
* * * * *
948087 ATGTATGCAACCCACGGAATTCATCATGAGTTGATGAATAACCATACAGGTACA
1 ATGTGTGCAACCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACG
*
948141 ATGCGTGCAACCCACGAAATTCATCATGAGTTGATGAA
1 ATGTGTGCAACCCACGAAATTCATCATGAGTTGATGAA
948179 CTACCATATA
Statistics
Matches: 446, Mismatches: 70, Indels: 15
0.84 0.13 0.03
Matches are distributed among these distances:
52 20 0.04
53 28 0.06
54 374 0.84
55 24 0.05
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (54 bp):
ATGTGTGCAACCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACG
Found at i:948517 original size:81 final size:81
Alignment explanation
Indices: 948420--948661 Score: 240
Period size: 81 Copynumber: 3.0 Consensus size: 81
948410 GTGCCTTTGA
* * *
948420 GGCCTAACTGTGCATTTAACAGAAATGTGTCAATTATGCCAATTAGATGAACAGTTAAAGATCGT
1 GGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAATTAGATAAACAGTTAAAGACCGT
*
948485 TGAGTAAAAG-ATAAAT
66 GGAGTAAAAGAAT-AAT
* * * * ** *
948501 GGCCTAACTGTGCATTTGGCAAAAATGTGTCAATTATGCTAGTTAGATAAATGGTTAAATACCGT
1 GGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAATTAGATAAACAGTTAAAGACCGT
948566 GGAGTAAAAGAATAAT
66 GGAGTAAAAGAATAAT
* * * * * * * *
948582 GGACTAGCTGTGTAATTGACAGAAAAGTGTCAAATATG-CAAGTTAGATTAAA-AGCTAAATACC
1 GGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAA-TTAGA-TAAACAGTTAAAGACC
*
948645 TTTGG-GTAAAAGAATAA
64 -GTGGAGTAAAAGAATAA
948662 AGGAATTATA
Statistics
Matches: 133, Mismatches: 24, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
80 1 0.01
81 123 0.92
82 9 0.07
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (81 bp):
GGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAATTAGATAAACAGTTAAAGACCGT
GGAGTAAAAGAATAAT
Found at i:951634 original size:21 final size:20
Alignment explanation
Indices: 951603--951676 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 20
951593 ATTAGCTTAG
*
951603 TAGTATTGATACTGATTCAA
1 TAGTATCGATACTGATTCAA
* * *
951623 TCAGTATCGATACCGA-TGAGG
1 T-AGTATCGATACTGATTCA-A
**
951644 TAGTATTAATACTGATTCAA
1 TAGTATCGATACTGATTCAA
951664 TTAGTATCGATAC
1 -TAGTATCGATAC
951677 CGATGAGGTA
Statistics
Matches: 39, Mismatches: 11, Indels: 7
0.68 0.19 0.12
Matches are distributed among these distances:
20 14 0.36
21 25 0.64
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.35
Consensus pattern (20 bp):
TAGTATCGATACTGATTCAA
Found at i:951648 original size:41 final size:41
Alignment explanation
Indices: 951602--951696 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
951592 AATTAGCTTA
*
951602 GTAGTATTGATACTGATTCAATCAGTATCGATACCGATGAG
1 GTAGTATTAATACTGATTCAATCAGTATCGATACCGATGAG
*
951643 GTAGTATTAATACTGATTCAATTAGTATCGATACCGATGAG
1 GTAGTATTAATACTGATTCAATCAGTATCGATACCGATGAG
*
951684 GTAGTATCAATAC
1 GTAGTATTAATAC
951697 CATGGAAAGG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.33
Consensus pattern (41 bp):
GTAGTATTAATACTGATTCAATCAGTATCGATACCGATGAG
Found at i:951655 original size:20 final size:20
Alignment explanation
Indices: 951625--951697 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
951615 TGATTCAATC
*
951625 AGTATCGATACCGATGAGGT
1 AGTATCAATACCGATGAGGT
* * * **
951645 AGTATTAATACTGATTCAATT
1 AGTATCAATACCGA-TGAGGT
*
951666 AGTATCGATACCGATGAGGT
1 AGTATCAATACCGATGAGGT
951686 AGTATCAATACC
1 AGTATCAATACC
951698 ATGGAAAGGG
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 25 0.64
21 14 0.36
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (20 bp):
AGTATCAATACCGATGAGGT
Found at i:952249 original size:54 final size:56
Alignment explanation
Indices: 952135--952273 Score: 160
Period size: 54 Copynumber: 2.6 Consensus size: 56
952125 ATTACCAAAT
* * * * *
952135 AGGCACTAAGTGTG-TATTTCACAGAATTCATCCTACGTGGATGAATAACCGTTTC
1 AGGCACTAAGTGTGCTATTTCACAGAATTCAACCTACGTGGATGAACAAACGATAC
*
952190 A-GCACTAAGTGTGCT-TTTCACGGAATTCAACCTACGTGGATGAACAAAC-ATAC
1 AGGCACTAAGTGTGCTATTTCACAGAATTCAACCTACGTGGATGAACAAACGATAC
* * * *
952243 AGGCACTACGTGTGCAAATCCACAGAATTCA
1 AGGCACTAAGTGTGCTATTTCACAGAATTCA
952274 TCAGGAGTTG
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
53 3 0.04
54 54 0.77
55 13 0.19
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (56 bp):
AGGCACTAAGTGTGCTATTTCACAGAATTCAACCTACGTGGATGAACAAACGATAC
Found at i:952456 original size:54 final size:54
Alignment explanation
Indices: 952240--952963 Score: 840
Period size: 54 Copynumber: 13.4 Consensus size: 54
952230 TGAACAAACA
* * * * * *
952240 TACAGGCACTACGTGTGCAAATCCACAGAATTCATCAGGAGTTGATGAATAACCA
1 TACAGGCACGATGTGTGC-AACCCACAAAATTCATCATGAGTTGATGAATAACCG
** ** * * * *
952295 TACAATCATTATGTGTGTAAATCCACAGAATTCACCATGAGTTGATGAATAACCG
1 TACAGGCACGATGTGTG-CAACCCACAAAATTCATCATGAGTTGATGAATAACCG
** * ***
952350 TACACACACTG-TGTGTGCAAATCCATGGAATTCATCATGAGTTGATGAATAACCG
1 TACAGGCAC-GATGTGTGC-AACCCACAAAATTCATCATGAGTTGATGAATAACCG
* * * ** * *
952405 TACATGAATGATGTACGCAACCCACAAAATTCATCATGAGTTTATGAATAACCA
1 TACAGGCACGATGTGTGCAACCCACAAAATTCATCATGAGTTGATGAATAACCG
** ** *
952459 TACAAACACGATGTGTGCAACCCACGGAATTCATCATGAGTTGATGAATAACCT
1 TACAGGCACGATGTGTGCAACCCACAAAATTCATCATGAGTTGATGAATAACCG
* ** * *
952513 TACAGGCACGATGTGTGCATCCCACGGAATTAATCATGAGTTGATGAATAATCG
1 TACAGGCACGATGTGTGCAACCCACAAAATTCATCATGAGTTGATGAATAACCG
* * * *
952567 TATAGACACGATGTGTGCAACCCACATAATTCTTCATGAGTTGATGAATAACCG
1 TACAGGCACGATGTGTGCAACCCACAAAATTCATCATGAGTTGATGAATAACCG
* * *
952621 TACAAGCACGATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAATAATCG
1 TACAGGCACGATGTGTGCAACCCACAAAATTCATCATGAGTTGATGAATAACCG
* * *
952675 TACAGGCACGATGTGTGTAACCCACAAAATTCATCATTAGTTGATGAATAATCG
1 TACAGGCACGATGTGTGCAACCCACAAAATTCATCATGAGTTGATGAATAACCG
*
952729 TACAGGCACGATGTGTGCAACCCACGAAATTCATCATGAGTTGATGAATAACCG
1 TACAGGCACGATGTGTGCAACCCACAAAATTCATCATGAGTTGATGAATAACCG
* **
952783 TACATGCACGATGTGTGCAACCCATGAAATTCATCATGAGTTGATGAATAACCG
1 TACAGGCACGATGTGTGCAACCCACAAAATTCATCATGAGTTGATGAATAACCG
* * ** *
952837 TACAGGAACGATGTATGCAACCCACGGAATTCATCATGAGTTGATGAATAACCT
1 TACAGGCACGATGTGTGCAACCCACAAAATTCATCATGAGTTGATGAATAACCG
* *
952891 TATAGGCACGATGTGTGCAACCCACATAATTCATCATGAGTTGATGAACT-ACCG
1 TACAGGCACGATGTGTGCAACCCACAAAATTCATCATGAGTTGATGAA-TAACCG
* * *
952945 TATAGGCACTACGTGTGCA
1 TACAGGCACGATGTGTGCA
952964 TATTCTTAAA
Statistics
Matches: 582, Mismatches: 82, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
54 480 0.82
55 102 0.18
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (54 bp):
TACAGGCACGATGTGTGCAACCCACAAAATTCATCATGAGTTGATGAATAACCG
Found at i:953248 original size:68 final size:68
Alignment explanation
Indices: 953112--953248 Score: 161
Period size: 68 Copynumber: 2.0 Consensus size: 68
953102 AAAGATTAAT
* * *
953112 GGCCTAACTGTGCATTTTACAAAAAGATGTCAATTATGCCAGTTAGAAGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTTACAAAAAGATGTCAAGTATGCCAGTTAGAAGAAAGGCTAAGTACCGT
953177 TGA
66 TGA
* * * * * *
953180 GGCCTAATTGTGC-TTTTGACAGAAAGGTGTCAAGTATGCCAGTTAGATGAATGGTTAAAG-ACC
1 GGCCTAACTGTGCATTTT-ACAAAAAGATGTCAAGTATGCCAGTTAGAAGAAAGGCT-AAGTACC
953243 GTTGA
64 GTTGA
953248 G
1 G
953249 TAAAAGATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
67 4 0.07
68 51 0.88
69 3 0.05
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (68 bp):
GGCCTAACTGTGCATTTTACAAAAAGATGTCAAGTATGCCAGTTAGAAGAAAGGCTAAGTACCGT
TGA
Found at i:953373 original size:81 final size:80
Alignment explanation
Indices: 953194--953425 Score: 259
Period size: 81 Copynumber: 2.9 Consensus size: 80
953184 TAATTGTGCT
* * * * * *
953194 TTTGACAGAAAGGTGTCAAGTATGCCAGTTAGATGAATGGTTAAAGACCGTTGAGTAAAAGATAA
1 TTTGACAGAAAGATGTCAAATATGCCAGTTAGATAAATGGTTAAATACCTTTGAGTAAAAAATAA
*
953259 ATGGCCTAACTATGCA
66 A-GGACTAACTATGCA
* * * *
953275 TTTGGCATAAAGTTGTCAATTATGCCAGTTAGATAAATGGTTAAATACCTTTGAGTAAAATAATA
1 TTTGACAGAAAGATGTCAAATATGCCAGTTAGATAAATGGTTAAATACCTTTGAGTAAAA-AATA
*
953340 AAGGACTAGCTATGCA
65 AAGGACTAACTATGCA
* * * * * *
953356 TTTGACAGAAAAATGTCAAATATTCAAGTTAGATTAAA-GGCTAAATACATTTGGGTAAAAGAAT
1 TTTGACAGAAAGATGTCAAATATGCCAGTTAGA-TAAATGGTTAAATACCTTTGAGTAAAA-AAT
953420 AAAGGA
64 AAAGGA
953426 ATTATAATGT
Statistics
Matches: 128, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
81 119 0.93
82 9 0.07
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (80 bp):
TTTGACAGAAAGATGTCAAATATGCCAGTTAGATAAATGGTTAAATACCTTTGAGTAAAAAATAA
AGGACTAACTATGCA
Found at i:954740 original size:25 final size:25
Alignment explanation
Indices: 954712--954768 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
954702 AGGATGGTTG
*
954712 CTACAACAATACTACTCGGCGTGAA
1 CTACAACAACACTACTCGGCGTGAA
*
954737 CTACAACAACACTACTCGGTGTGAA
1 CTACAACAACACTACTCGGCGTGAA
954762 CTACAAC
1 CTACAAC
954769 CCTTGGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.37, C:0.30, G:0.14, T:0.19
Consensus pattern (25 bp):
CTACAACAACACTACTCGGCGTGAA
Found at i:959667 original size:31 final size:29
Alignment explanation
Indices: 959629--959689 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 29
959619 TAGACTTTAG
*
959629 CTAATTCCTCTAAATTTTGGACTACCTCTAA
1 CTAATTCCTCTAAAATTTGGA-TA-CTCTAA
959660 CTAATTCCTCTAAAATTTGGATACTCTAA
1 CTAATTCCTCTAAAATTTGGATACTCTAA
959689 C
1 C
959690 AGTAGAGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 7 0.24
30 2 0.07
31 20 0.69
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (29 bp):
CTAATTCCTCTAAAATTTGGATACTCTAA
Found at i:964319 original size:32 final size:30
Alignment explanation
Indices: 964260--964317 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
964250 TCGAACTTAT
964260 ATTTTGATATAACAAATATTTGTAAAATTG
1 ATTTTGATATAACAAATATTTGTAAAATTG
*
964290 ATTTTGGATTTAATCAAATATTT-TAAAA
1 ATTTT-GATATAA-CAAATATTTGTAAAA
964318 ATAATTCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 5 0.20
31 11 0.44
32 9 0.36
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (30 bp):
ATTTTGATATAACAAATATTTGTAAAATTG
Found at i:964436 original size:20 final size:20
Alignment explanation
Indices: 964394--964443 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
964384 TTTAAGTTAA
* *
964394 TTAAAACATGTTTAAAGTGT
1 TTAAAATATGTTTAAACTGT
964414 TTAAAATATGTTTAAAACT-T
1 TTAAAATATGTTT-AAACTGT
*
964434 TTAAATTATG
1 TTAAAATATG
964444 AAAAACATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (20 bp):
TTAAAATATGTTTAAACTGT
Found at i:964522 original size:20 final size:20
Alignment explanation
Indices: 964497--964562 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
964487 TATTGTTCAT
964497 AGTTTGGAAACTTTTGTAAA
1 AGTTTGGAAACTTTTGTAAA
* *
964517 AGTTTGAAAATTTTTGTAAA
1 AGTTTGGAAACTTTTGTAAA
* *
964537 GAGTTTCGAAACTTTTGTAAG
1 -AGTTTGGAAACTTTTGTAAA
964558 AGTTT
1 AGTTT
964563 CAAAATTTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 23 0.59
21 16 0.41
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.42
Consensus pattern (20 bp):
AGTTTGGAAACTTTTGTAAA
Found at i:964563 original size:20 final size:20
Alignment explanation
Indices: 964497--964572 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
964487 TATTGTTCAT
* *
964497 AGTTTGGAAACTTTTGTAAA
1 AGTTTCGAAACTTTTGTAAG
*
964517 AGTTT-GAAAATTTTTGTAAAG
1 AGTTTCG-AAACTTTTGT-AAG
964538 AGTTTCGAAACTTTTGTAAG
1 AGTTTCGAAACTTTTGTAAG
*
964558 AGTTTC-AAAATTTTG
1 AGTTTCGAAACTTTTG
964573 CACCCTGAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
19 9 0.18
20 23 0.47
21 16 0.33
22 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.42
Consensus pattern (20 bp):
AGTTTCGAAACTTTTGTAAG
Found at i:970879 original size:33 final size:33
Alignment explanation
Indices: 970842--970907 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
970832 GATTTCTATT
970842 CCGCATGCTTTTTGACAAAATAATAAATCCTAA
1 CCGCATGCTTTTTGACAAAATAATAAATCCTAA
* * *
970875 CCGCATGCTTTTTGGCAGAATAATATATCCTAA
1 CCGCATGCTTTTTGACAAAATAATAAATCCTAA
970908 TCACATACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (33 bp):
CCGCATGCTTTTTGACAAAATAATAAATCCTAA
Found at i:972097 original size:32 final size:33
Alignment explanation
Indices: 972051--972126 Score: 93
Period size: 32 Copynumber: 2.3 Consensus size: 33
972041 TGCAAAAGAT
972051 ATAAATATCA-AAATTAAAAAATTAAT-AAAATA
1 ATAAATAT-ATAAATTAAAAAATTAATAAAAATA
** *
972083 ATAAATATATAAATTATGAAATTAATAAAAATT
1 ATAAATATATAAATTAAAAAATTAATAAAAATA
*
972116 ATATATATATA
1 ATAAATATATA
972127 TATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 1 0.03
32 22 0.58
33 15 0.39
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (33 bp):
ATAAATATATAAATTAAAAAATTAATAAAAATA
Done.