Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001838.1 Hibiscus syriacus cultivar Beakdansim tig00003721_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: 3924084
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 18
Found at i:1667606 original size:24 final size:24
Alignment explanation
Indices: 1667574--1667630 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
1667564 CCTTGCCAGC
* *
1667574 TGTCCTTTTATTAAAAGATCTTTT
1 TGTCCTTTTATAAAAAGATATTTT
*
1667598 TGTCCTTTTATAAAAATATATTTT
1 TGTCCTTTTATAAAAAGATATTTT
1667622 TGTCCTTTT
1 TGTCCTTTT
1667631 CTGTGCTAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.56
Consensus pattern (24 bp):
TGTCCTTTTATAAAAAGATATTTT
Found at i:1670289 original size:18 final size:17
Alignment explanation
Indices: 1670268--1670303 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
1670258 CAAAGAAATT
1670268 AAATAAAATAATAAGTAA
1 AAATAAAATAATAA-TAA
*
1670286 AAATAATATAATAATAA
1 AAATAAAATAATAATAA
1670303 A
1 A
1670304 CGATGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
AAATAAAATAATAATAA
Found at i:1672243 original size:84 final size:84
Alignment explanation
Indices: 1672147--1672429 Score: 323
Period size: 84 Copynumber: 3.4 Consensus size: 84
1672137 TGACATATAG
* * * * * * * * *
1672147 CCCTTCTTGCCTTGAGCTAAGCTGTAAATGATGTGACTTTGAGCTGAGTGCAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGTTGCAAATGATATGTCTTAGAGCTGAGCGTAGTCGAACTCGAAG
* * *
1672212 GTCTTTGGTTGGCAGATAG
66 GTCTTTTGTTGGCAAATAA
* * * * * *
1672231 CCCTTCTCGCCTTAAGCTGTGTTGCAAATGATCTGTCTTAGATCTGAGCGTAGTCAAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGTTGCAAATGATATGTCTTAGAGCTGAGCGTAGTCGAACTCGAAG
* *
1672296 GTCTTTTATTGGAAAATAA
66 GTCTTTTGTTGGCAAATAA
** * *
1672315 CAATTCTTGCCTTGAGATATGTTGCAAATGATATGTCTTGGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGTTGCAAATGATATGTCTTAGAGCTGAGCGTAGTCGAACTCGAAG
*
1672380 GTATTTTGTTGGCAAATAA
66 GTCTTTTGTTGGCAAATAA
**
1672399 CCCTTCTTGCCTTGAGCTATGTCACAAATGA
1 CCCTTCTTGCCTTGAGCTATGTTGCAAATGA
1672430 ACACGATATC
Statistics
Matches: 162, Mismatches: 37, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
84 162 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (84 bp):
CCCTTCTTGCCTTGAGCTATGTTGCAAATGATATGTCTTAGAGCTGAGCGTAGTCGAACTCGAAG
GTCTTTTGTTGGCAAATAA
Found at i:1672656 original size:124 final size:123
Alignment explanation
Indices: 1672431--1673203 Score: 1046
Period size: 124 Copynumber: 6.2 Consensus size: 123
1672421 CACAAATGAA
* * * *
1672431 CACGATAT-CCTTCATCGTGAAGTTGAAATCATGGAGGGCCCATTCGTTGTGAAGTTGAGCCTTG
1 CACGAT-TCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCC-TTCGTTGTGAAGTTGAGCCTTG
* * *
1672495 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTGAATATGAATATTGCTGGTGGG
64 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAAATGAATATTGCTGGTGAG
* * *
1672555 CACGATTCCATTCGTCGTGAAGTTGAAACCGTGGATGGCTCCTTCTTTGTGAAGTTGATCCTTGA
1 CACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGC-CCTTCGTTGTGAAGTTGAGCCTTGA
* * * * *
1672620 ATTGGATATCATTCGTCATGAAGTTGAAATCTAATCTAAAAATGAATGTTACTGGTGAG
65 ATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAAATGAATATTGCTGGTGAG
* * *
1672679 CACGATTACATTCGTCGTGAAGTTGAAACCGTGGATGGCCTCTTCCTTGTGAAGTTGAGCCTTGA
1 CACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCC-CTTCGTTGTGAAGTTGAGCCTTGA
* **
1672744 ATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAAATGAATGTTATTGGTGAG
65 ATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAAATGAATATTGCTGGTGAG
* *
1672803 CATGATTCCCTTCGTCGTGATGTTGAAACCGTGGATGGACCCTTCGTTGTGAAGTTGAGCCTTGA
1 CACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGG-CCCTTCGTTGTGAAGTTGAGCCTTGA
* * *
1672868 ATTGGATATCCTTCGTCGTGAAGTTGAAATCTAATCTAAAGATGAATATTGCTGGTTAG
65 ATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAAATGAATATTGCTGGTGAG
* * * * *
1672927 AACGATTCCCTTTGTCGTGAAGTTGAAATCGTGGATGACCCATTCGTTATGAAGTTGAGCCTTGA
1 CACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCC-TTCGTTGTGAAGTTGAGCCTTGA
* * *
1672992 ATTGGATA-CCATTCGTCGTGAATTTGAAATCCAATCTAAATATGAATGTTGCTGGTGAG
65 ATTGGATATCC-TTCGTCGTGAAGTTGAAATCCAATCTAAAAATGAATATTGCTGGTGAG
* * * * *
1673051 CACAATTCCCTTCGTTGTGAAGTTGAAACAGTGGATGGCCCCTTTGTTGTGAAGTTTAGCCTTGA
1 CACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGG-CCCTTCGTTGTGAAGTTGAGCCTTGA
* ** *
1673116 ATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATATTTTTGGTGAA
65 ATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAAATGAATATTGCTGGTGAG
** *
1673175 CATAATTCCCTTCATCGTGAAGTTGAAAC
1 CACGATTCCCTTCGTCGTGAAGTTGAAAC
1673204 TGACTCTGAA
Statistics
Matches: 577, Mismatches: 64, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
123 7 0.01
124 561 0.97
125 9 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (123 bp):
CACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCTTCGTTGTGAAGTTGAGCCTTGAA
TTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAAATGAATATTGCTGGTGAG
Found at i:1673137 original size:372 final size:372
Alignment explanation
Indices: 1672439--1673203 Score: 1156
Period size: 372 Copynumber: 2.1 Consensus size: 372
1672429 AACACGATAT
* *
1672439 CCTTCATCGTGAAGTTGAAATCATGGAGGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCATCGTGAAGTTGAAACCATGGAGGACCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATA
* * * *
1672504 TCCTTCGTCGTGAAGTTGAAATCCAATCTGAATATGAATATTGCTGGTGGGCACGATTCCATTCG
66 TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATATTGCTGGTGAGAACGATTCCATTCG
* * * * *
1672569 TCGTGAAGTTGAAACCGTGGATGGCTCCTTCTTTGTGAAGTTGATCCTTGAATTGGATATCATTC
131 TCGTGAAGTTGAAACCGTGGATGACTCCTTCGTTATGAAGTTGAGCCTTGAATTGGATACCATTC
* *
1672634 GTCATGAAGTTGAAATCTAATCTAAAAATGAATGTTACTGGTGAGCACGATTACATTCGTCGTGA
196 GTCATGAAGTTGAAATCCAATCTAAAAATGAATGTTACTGGTGAGCACAATTACATTCGTCGTGA
* *
1672699 AGTTGAAACCGTGGATGGCCTCTTCCTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTG
261 AGTTGAAACAGTGGATGGCCCCTTCCTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTG
* * *
1672764 AAGTTGAAATCCAATCTAAAAATGAATGTTATTGGTGAGCATGATTC
326 AAGTTGAAATCCAATCTAAAAATGAATATTATTGGTGAACATAATTC
* * *
1672811 CCTTCGTCGTGATGTTGAAACCGTGGATGGACCC-TTCGTTGTGAAGTTGAGCCTTGAATTGGAT
1 CCTTCATCGTGAAGTTGAAACCATGGA-GGACCCATTCGTTGTGAAGTTGAGCCTTGAATTGGAT
* * * *
1672875 ATCCTTCGTCGTGAAGTTGAAATCTAATCTAAAGATGAATATTGCTGGTTAGAACGATTCCCTTT
65 ATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATATTGCTGGTGAGAACGATTCCATTC
*
1672940 GTCGTGAAGTTGAAATCGTGGATGAC-CCATTCGTTATGAAGTTGAGCCTTGAATTGGATACCAT
130 GTCGTGAAGTTGAAACCGTGGATGACTCC-TTCGTTATGAAGTTGAGCCTTGAATTGGATACCAT
* * * * * * *
1673004 TCGTCGTGAATTTGAAATCCAATCTAAATATGAATGTTGCTGGTGAGCACAATTCCCTTCGTTGT
194 TCGTCATGAAGTTGAAATCCAATCTAAAAATGAATGTTACTGGTGAGCACAATTACATTCGTCGT
** *
1673069 GAAGTTGAAACAGTGGATGGCCCCTTTGTTGTGAAGTTTAGCCTTGAATTGGATATCCTTCGTCG
259 GAAGTTGAAACAGTGGATGGCCCCTTCCTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCG
* *
1673134 TGAAGTTGAAATCCAATCTAAAGATGAATATTTTTGGTGAACATAATTC
324 TGAAGTTGAAATCCAATCTAAAAATGAATATTATTGGTGAACATAATTC
1673183 CCTTCATCGTGAAGTTGAAAC
1 CCTTCATCGTGAAGTTGAAAC
1673204 TGACTCTGAA
Statistics
Matches: 351, Mismatches: 40, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
371 2 0.01
372 344 0.98
373 5 0.01
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (372 bp):
CCTTCATCGTGAAGTTGAAACCATGGAGGACCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATA
TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATATTGCTGGTGAGAACGATTCCATTCG
TCGTGAAGTTGAAACCGTGGATGACTCCTTCGTTATGAAGTTGAGCCTTGAATTGGATACCATTC
GTCATGAAGTTGAAATCCAATCTAAAAATGAATGTTACTGGTGAGCACAATTACATTCGTCGTGA
AGTTGAAACAGTGGATGGCCCCTTCCTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTG
AAGTTGAAATCCAATCTAAAAATGAATATTATTGGTGAACATAATTC
Found at i:1677659 original size:20 final size:21
Alignment explanation
Indices: 1677615--1677670 Score: 96
Period size: 20 Copynumber: 2.7 Consensus size: 21
1677605 ATTTTATACT
*
1677615 TATGCACCGATGCACCATGGG
1 TATGCATCGATGCACCATGGG
1677636 TATGCATCGATGCACCAT-GG
1 TATGCATCGATGCACCATGGG
1677656 TATGCATCGATGCAC
1 TATGCATCGATGCAC
1677671 TGACGCTTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 17 0.50
21 17 0.50
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (21 bp):
TATGCATCGATGCACCATGGG
Found at i:1683373 original size:20 final size:21
Alignment explanation
Indices: 1683348--1683408 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
1683338 TTGTGCTTCA
1683348 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-AG
* *
1683368 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAAAG
*
1683390 TGCATCGATACACCATGAA
1 TGCATCGATACACCTTGAA
1683409 GGTGTACCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
20 11 0.32
21 8 0.24
22 13 0.38
23 2 0.06
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (21 bp):
TGCATCGATACACCTTGAAAG
Found at i:1683395 original size:22 final size:21
Alignment explanation
Indices: 1683367--1683445 Score: 79
Period size: 22 Copynumber: 3.7 Consensus size: 21
1683357 ACACCTAACA
1683367 GTGCATCGATGCATCCTTGAAT
1 GTGCATCGATGCA-CCTTGAAT
* * *
1683389 GTGCATCGATACACCATGAAG
1 GTGCATCGATGCACCTTGAAT
* *
1683410 GTGTACCGATGCACGCCTTGAAT
1 GTGCATCGATGCA--CCTTGAAT
1683433 GTG-ATCGATGCAC
1 GTGCATCGATGCAC
1683446 AAGGCCATGC
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
20 1 0.02
21 16 0.35
22 20 0.43
23 9 0.20
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (21 bp):
GTGCATCGATGCACCTTGAAT
Found at i:1685032 original size:21 final size:21
Alignment explanation
Indices: 1684990--1685033 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1684980 ACCCCGGGAG
*
1684990 CTAGCTCTTCACTAGCTGCTC
1 CTAGCTCTTCACTAGCTCCTC
*
1685011 CTAGCTCTTCTCGT-GCTCCTC
1 CTAGCTCTTCAC-TAGCTCCTC
1685032 CT
1 CT
1685034 CCTCCTCCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.09, C:0.41, G:0.14, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACTAGCTCCTC
Found at i:1685631 original size:2 final size:2
Alignment explanation
Indices: 1685624--1685656 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1685614 CAGCTTAAGC
1685624 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1685657 TTAAAATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1686279 original size:57 final size:56
Alignment explanation
Indices: 1686191--1686299 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 56
1686181 GATGCACATA
* * *
1686191 CCATGCATCGATGCACTGAGGATTTTATGAAAACATCGAATGTATTTGATGCACCAG
1 CCATGCATCGATGCACTCAGGATTTTATG-AAACATCGAATGCACTTGATGCACCAG
* *
1686248 CCATGCATCGATGCACTCTGGCTATTT-TGAAACATCGAATGCACTTGATGCA
1 CCATGCATCGATGCACTCAGGAT-TTTATGAAACATCGAATGCACTTGATGCA
1686300 TCGATGCACT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 21 0.46
57 22 0.48
58 3 0.07
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (56 bp):
CCATGCATCGATGCACTCAGGATTTTATGAAACATCGAATGCACTTGATGCACCAG
Found at i:1686308 original size:17 final size:19
Alignment explanation
Indices: 1686280--1686328 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1686270 TATTTTGAAA
1686280 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
1686298 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
1686317 CACCGATGCACT
1 CATCGATGCACT
1686329 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:1688971 original size:48 final size:48
Alignment explanation
Indices: 1688900--1688993 Score: 179
Period size: 48 Copynumber: 2.0 Consensus size: 48
1688890 TCCATGAACA
1688900 TCACGTTTTTCATTCTTTCTTAATTTTTATCATTTATTACCAAAGGTG
1 TCACGTTTTTCATTCTTTCTTAATTTTTATCATTTATTACCAAAGGTG
*
1688948 TCACGTTTTTCATTCTTTCTTAATTTTTATCATTTATTGCCAAAGG
1 TCACGTTTTTCATTCTTTCTTAATTTTTATCATTTATTACCAAAGG
1688994 ATGTTGGTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.22, C:0.17, G:0.09, T:0.52
Consensus pattern (48 bp):
TCACGTTTTTCATTCTTTCTTAATTTTTATCATTTATTACCAAAGGTG
Found at i:1689533 original size:108 final size:109
Alignment explanation
Indices: 1689358--1689555 Score: 267
Period size: 108 Copynumber: 1.8 Consensus size: 109
1689348 CTTCATCCTA
* *
1689358 TCCTTTCCTTCCCCAATTTTAAAATATCAAATATCCATGTTTTGCTCTACTCTTTCTTTAATTCA
1 TCCTTTCCTTCCCCAATCTTAAAATATCAAATATCCATGTTTTGCTATACTCTTTCTTTAATTCA
1689423 CCATTATAATCTAA-ATTAAAAATCACCACTTCTTCTTTATCTCG
66 CCATTATAATC-AAGATTAAAAATCACCACTTCTTCTTTATCTCG
* * * * * **
1689467 TCCTTTTCTTCCCCAATCTTAAGCAT-T-AAATCTCCATGTTTTGCTATGCTTTTTCTTTGGTTC
1 TCCTTTCCTTCCCCAATCTTAA-AATATCAAATATCCATGTTTTGCTATACTCTTTCTTTAATTC
*
1689530 ACCATTATAATCAAGATTTAAAATCA
65 ACCATTATAATCAAGATTAAAAATCA
1689556 ATACAAAATT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
107 2 0.03
108 52 0.68
109 21 0.27
110 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.05, T:0.43
Consensus pattern (109 bp):
TCCTTTCCTTCCCCAATCTTAAAATATCAAATATCCATGTTTTGCTATACTCTTTCTTTAATTCA
CCATTATAATCAAGATTAAAAATCACCACTTCTTCTTTATCTCG
Found at i:1691393 original size:24 final size:24
Alignment explanation
Indices: 1691364--1691410 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1691354 GGGAGTCATT
1691364 ATCTTTATCTT-TAGAGAATTTGTC
1 ATCTTTAT-TTCTAGAGAATTTGTC
*
1691388 ATCTTTATTTCTAGAGAGTTTGT
1 ATCTTTATTTCTAGAGAATTTGT
1691411 TAGGGAGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.51
Consensus pattern (24 bp):
ATCTTTATTTCTAGAGAATTTGTC
Found at i:1694464 original size:42 final size:42
Alignment explanation
Indices: 1694439--1694557 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
1694429 ATTATGATGG
*
1694439 CTATTTGATGAGGCTGGTGCTTCATTCACTTCATTACAATTA
1 CTATTTGATGAGGCTGGTTCTTCATTCACTTCATTACAATTA
* ** * *
1694481 TTATTTGATGAGATTGCTTCTTCATTCACTTCATTACAATTT
1 CTATTTGATGAGGCTGGTTCTTCATTCACTTCATTACAATTA
1694523 CTATTTGATGAGGCTGGTTCTTCATTCACTTCATT
1 CTATTTGATGAGGCTGGTTCTTCATTCACTTCATT
1694558 CTGAGAACCA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.45
Consensus pattern (42 bp):
CTATTTGATGAGGCTGGTTCTTCATTCACTTCATTACAATTA
Found at i:1697491 original size:23 final size:23
Alignment explanation
Indices: 1697473--1697556 Score: 123
Period size: 23 Copynumber: 3.7 Consensus size: 23
1697463 CTCGTATAAA
1697473 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
**
1697496 TGCACCGAAGTGCCGTGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
1697519 TGTACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
1697542 TGCACCAAAGTGCCA
1 TGCACCGAAGTGCCA
1697557 TATAAAATGT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.29, C:0.25, G:0.27, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:1699355 original size:18 final size:18
Alignment explanation
Indices: 1699332--1699420 Score: 124
Period size: 18 Copynumber: 4.9 Consensus size: 18
1699322 AGGGATTATC
*
1699332 AGTGGTCTTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
1699350 AGTGGTCTTTCGGGATAT
1 AGTGGTCCTTCGGGACAT
*
1699368 AGTGGTCCTTCGGAACAT
1 AGTGGTCCTTCGGGACAT
1699386 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
1699404 AGTGGTCATTCGAGACA
1 AGTGGTCCTTCGGGACA
1699421 AATATTCAGT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.30
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1706271 original size:18 final size:18
Alignment explanation
Indices: 1706242--1706311 Score: 106
Period size: 18 Copynumber: 3.9 Consensus size: 18
1706232 AGGGATTATC
1706242 AGTGGT-CTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
1706259 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
1706277 AGTGGTCCTTTGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
1706295 AGTGGTCATTCGAGACA
1 AGTGGTCCTTCGGGACA
1706312 AATATTTAGT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
17 6 0.12
18 42 0.88
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.29
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1713206 original size:20 final size:21
Alignment explanation
Indices: 1713169--1713208 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1713159 ACTTTTTTCT
1713169 TTAGGGGTATCGATACCCTCC
1 TTAGGGGTATCGATACCCTCC
1713190 TTAGGGGTATC-ATACCCTC
1 TTAGGGGTATCGATACCCTC
1713209 ATTGCATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.30
Consensus pattern (21 bp):
TTAGGGGTATCGATACCCTCC
Found at i:1713725 original size:133 final size:133
Alignment explanation
Indices: 1713487--1713754 Score: 536
Period size: 133 Copynumber: 2.0 Consensus size: 133
1713477 TTCCATCACT
1713487 TTGTATCTCTTAATTAAGTTGAGGACAAGTCAAATTAATCCTTAGAATTTCAAAAACCTTTATAT
1 TTGTATCTCTTAATTAAGTTGAGGACAAGTCAAATTAATCCTTAGAATTTCAAAAACCTTTATAT
1713552 ATCAAAATTTTATTTCTAAACTCTTAATAGAAATTCCTTTCTAATTCTTTCTTCTTGATGTTTTA
66 ATCAAAATTTTATTTCTAAACTCTTAATAGAAATTCCTTTCTAATTCTTTCTTCTTGATGTTTTA
1713617 AGC
131 AGC
1713620 TTGTATCTCTTAATTAAGTTGAGGACAAGTCAAATTAATCCTTAGAATTTCAAAAACCTTTATAT
1 TTGTATCTCTTAATTAAGTTGAGGACAAGTCAAATTAATCCTTAGAATTTCAAAAACCTTTATAT
1713685 ATCAAAATTTTATTTCTAAACTCTTAATAGAAATTCCTTTCTAATTCTTTCTTCTTGATGTTTTA
66 ATCAAAATTTTATTTCTAAACTCTTAATAGAAATTCCTTTCTAATTCTTTCTTCTTGATGTTTTA
1713750 AGC
131 AGC
1713753 TT
1 TT
1713755 ATATAAGCTT
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 135 1.00
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (133 bp):
TTGTATCTCTTAATTAAGTTGAGGACAAGTCAAATTAATCCTTAGAATTTCAAAAACCTTTATAT
ATCAAAATTTTATTTCTAAACTCTTAATAGAAATTCCTTTCTAATTCTTTCTTCTTGATGTTTTA
AGC
Found at i:1714019 original size:126 final size:126
Alignment explanation
Indices: 1713880--1714132 Score: 506
Period size: 126 Copynumber: 2.0 Consensus size: 126
1713870 AGAAGAAGGC
1713880 TTCCAGAAATCTCCCAAAACCCACATGTATAACTCTTATTTAAAGGGAAAAAATATCCTTAAGCT
1 TTCCAGAAATCTCCCAAAACCCACATGTATAACTCTTATTTAAAGGGAAAAAATATCCTTAAGCT
1713945 GAAAAGACTAATTATTACCCCTTTAATTATCCATCTATGCTATTTAATCCATCACAAAAAT
66 GAAAAGACTAATTATTACCCCTTTAATTATCCATCTATGCTATTTAATCCATCACAAAAAT
1714006 TTCCAGAAATCTCCCAAAACCCACATGTATAACTCTTATTTAAAGGGAAAAAATATCCTTAAGCT
1 TTCCAGAAATCTCCCAAAACCCACATGTATAACTCTTATTTAAAGGGAAAAAATATCCTTAAGCT
1714071 GAAAAGACTAATTATTACCCCTTTAATTATCCATCTATGCTATTTAATCCATCACAAAAAT
66 GAAAAGACTAATTATTACCCCTTTAATTATCCATCTATGCTATTTAATCCATCACAAAAAT
1714132 T
1 T
1714133 CTTTACTTAA
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 127 1.00
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (126 bp):
TTCCAGAAATCTCCCAAAACCCACATGTATAACTCTTATTTAAAGGGAAAAAATATCCTTAAGCT
GAAAAGACTAATTATTACCCCTTTAATTATCCATCTATGCTATTTAATCCATCACAAAAAT
Found at i:1717771 original size:24 final size:24
Alignment explanation
Indices: 1717738--1717790 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1717728 AAGGACTAAA
* *
1717738 TAAAAAAACATAAA-TTTACAGGAT
1 TAAAAAAACA-AAAGCTTAAAGGAT
*
1717762 TAAAACAACAAAAGCTTAAAGGAT
1 TAAAAAAACAAAAGCTTAAAGGAT
1717786 TAAAA
1 TAAAA
1717791 TAATAAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.21
Consensus pattern (24 bp):
TAAAAAAACAAAAGCTTAAAGGAT
Found at i:1717820 original size:54 final size:52
Alignment explanation
Indices: 1717726--1717830 Score: 129
Period size: 54 Copynumber: 2.0 Consensus size: 52
1717716 CTTAGTAAAA
* * * *
1717726 TAAAGGACTAAATAAAAAAACATAAATTTACAGGATTAAAACAACAAAAGCT
1 TAAAGGACTAAATAAAAAAACAGAAAATTAAAGGACTAAAACAACAAAAGCT
* * *
1717778 TAAAGGATTAAAATAATAAAAACAGAAAATTAAAGGACTAAAATAGCAAAAGC
1 TAAAGGACT-AAATAA-AAAAACAGAAAATTAAAGGACTAAAACAACAAAAGC
1717831 ATATAGTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
52 8 0.18
53 6 0.14
54 30 0.68
ACGTcount: A:0.61, C:0.10, G:0.11, T:0.18
Consensus pattern (52 bp):
TAAAGGACTAAATAAAAAAACAGAAAATTAAAGGACTAAAACAACAAAAGCT
Found at i:1719411 original size:3 final size:3
Alignment explanation
Indices: 1719403--1719427 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1719393 CAAAAATTTG
1719403 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
1719428 TATTATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1719432 original size:3 final size:3
Alignment explanation
Indices: 1719426--1719455 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1719416 AATAATAATA
1719426 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1719456 TAAATAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1719877 original size:18 final size:18
Alignment explanation
Indices: 1719854--1719889 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1719844 CGTATACCCA
1719854 TACGTATACGAGGTATAG
1 TACGTATACGAGGTATAG
1719872 TACGTATACGAGGTATAG
1 TACGTATACGAGGTATAG
1719890 ATGTTACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (18 bp):
TACGTATACGAGGTATAG
Found at i:1719977 original size:21 final size:23
Alignment explanation
Indices: 1719953--1720003 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
1719943 TTCATTTTAT
*
1719953 AAAACATTTAAT-ACTTAAA-AG
1 AAAACATATAATAACTTAAATAG
*
1719974 AAAACATATATTAACTTAAATAG
1 AAAACATATAATAACTTAAATAG
1719997 ACAAACA
1 A-AAACA
1720004 AAAAGAGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.40
22 7 0.28
23 3 0.12
24 5 0.20
ACGTcount: A:0.59, C:0.12, G:0.04, T:0.25
Consensus pattern (23 bp):
AAAACATATAATAACTTAAATAG
Found at i:1720451 original size:59 final size:59
Alignment explanation
Indices: 1720385--1720623 Score: 390
Period size: 59 Copynumber: 4.1 Consensus size: 59
1720375 AAATTAAATA
* *
1720385 GGAAATTCATACAATTAGTATGATTTCCTTATCATTTTAGCACACGAAGTTCCCTATCT
1 GGAAATTCATACAATTAGTATGATTTCCTTATCTTTTTAGCACACGAAGTGCCCTATCT
* *
1720444 GGAAATTCATACACTTAGTATGATTTTCTTATCTTTTTAGCACACGAAGTGCCCTATCT
1 GGAAATTCATACAATTAGTATGATTTCCTTATCTTTTTAGCACACGAAGTGCCCTATCT
* *
1720503 GGAAATTCATACACTTAGTATGATTTCTTTATCTTTTTAGCACACGAAGTGCCCTATCT
1 GGAAATTCATACAATTAGTATGATTTCCTTATCTTTTTAGCACACGAAGTGCCCTATCT
* *
1720562 GGAAATTCATA-AACTTAGTATGATTTCCTTATCTTTTTAGCACACAAAGTGCCTTATCT
1 GGAAATTCATACAA-TTAGTATGATTTCCTTATCTTTTTAGCACACGAAGTGCCCTATCT
1720621 GGA
1 GGA
1720624 CATAACCCAT
Statistics
Matches: 169, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
58 1 0.01
59 168 0.99
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (59 bp):
GGAAATTCATACAATTAGTATGATTTCCTTATCTTTTTAGCACACGAAGTGCCCTATCT
Found at i:1721600 original size:12 final size:12
Alignment explanation
Indices: 1721583--1721610 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1721573 CTGGTTGACT
1721583 TCTTCCTCTACC
1 TCTTCCTCTACC
1721595 TCTTCCTCTACC
1 TCTTCCTCTACC
1721607 TCTT
1 TCTT
1721611 TGAGAAACCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.46, G:0.00, T:0.46
Consensus pattern (12 bp):
TCTTCCTCTACC
Found at i:1730855 original size:31 final size:31
Alignment explanation
Indices: 1730820--1730909 Score: 112
Period size: 31 Copynumber: 2.9 Consensus size: 31
1730810 AAGGACCTAC
1730820 CCATATGT-TCCGAAGAACATAGGTAACCTGT
1 CCATATGTCT-CGAAGAACATAGGTAACCTGT
* * **
1730851 CCATATGTCTCGAGGGACATAGGTAAAATGT
1 CCATATGTCTCGAAGAACATAGGTAACCTGT
1730882 CCATATGTCTCGAA-AGACATAGGTAACC
1 CCATATGTCTCGAAGA-ACATAGGTAACC
1730910 CTCGACTCTT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
31 48 0.98
32 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (31 bp):
CCATATGTCTCGAAGAACATAGGTAACCTGT
Found at i:1744669 original size:22 final size:25
Alignment explanation
Indices: 1744642--1744710 Score: 65
Period size: 26 Copynumber: 2.8 Consensus size: 25
1744632 TTTTTGTCGT
1744642 ATTTAAATTTA-AT-TTAC-AAATA
1 ATTTAAATTTAGATATTACTAAATA
1744664 ATTT-AATTTAGATAATTACTAAATA
1 ATTTAAATTTAGAT-ATTACTAAATA
** *
1744689 ATATTAAACATAAATATTACTA
1 AT-TTAAATTTAGATATTACTA
1744711 GTCTTATTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 6 0.16
22 6 0.16
24 4 0.11
25 7 0.18
26 9 0.24
27 6 0.16
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (25 bp):
ATTTAAATTTAGATATTACTAAATA
Found at i:1746110 original size:10 final size:9
Alignment explanation
Indices: 1746095--1746142 Score: 50
Period size: 8 Copynumber: 5.6 Consensus size: 9
1746085 TCCATTTGTA
1746095 ATAATAATAT
1 ATAAT-ATAT
1746105 ATAATA-AT
1 ATAATATAT
1746113 -TAATATAT
1 ATAATATAT
1746121 ATAATA-AT
1 ATAATATAT
1746129 AT-ATATAT
1 ATAATATAT
1746137 ACTAAT
1 A-TAAT
1746143 CATAGCACTC
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
7 8 0.24
8 11 0.33
9 7 0.21
10 7 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (9 bp):
ATAATATAT
Found at i:1746134 original size:14 final size:14
Alignment explanation
Indices: 1746093--1746142 Score: 66
Period size: 14 Copynumber: 3.5 Consensus size: 14
1746083 CCTCCATTTG
1746093 TAATAATA-ATATA
1 TAATAATATATATA
1746106 TAATAATTAATATATA
1 TAATAA-T-ATATATA
1746122 TAATAATATATATA
1 TAATAATATATATA
*
1746136 TACTAAT
1 TAATAAT
1746143 CATAGCACTC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
13 6 0.18
14 14 0.42
15 2 0.06
16 11 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
TAATAATATATATA
Found at i:1750435 original size:5 final size:5
Alignment explanation
Indices: 1750425--1750463 Score: 60
Period size: 5 Copynumber: 7.4 Consensus size: 5
1750415 GGATCGAATG
1750425 GACTC GACTC GAGCTC GACTC GACTC GAGCTC GACTC GA
1 GACTC GACTC GA-CTC GACTC GACTC GA-CTC GACTC GA
1750464 GTTCTTAACG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 22 0.69
6 10 0.31
ACGTcount: A:0.21, C:0.36, G:0.26, T:0.18
Consensus pattern (5 bp):
GACTC
Found at i:1750446 original size:16 final size:16
Alignment explanation
Indices: 1750425--1750463 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
1750415 GGATCGAATG
1750425 GACTCGACTCGAGCTC
1 GACTCGACTCGAGCTC
1750441 GACTCGACTCGAGCTC
1 GACTCGACTCGAGCTC
1750457 GACTCGA
1 GACTCGA
1750464 GTTCTTAACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.21, C:0.36, G:0.26, T:0.18
Consensus pattern (16 bp):
GACTCGACTCGAGCTC
Found at i:1750464 original size:11 final size:10
Alignment explanation
Indices: 1750425--1750463 Score: 60
Period size: 11 Copynumber: 3.7 Consensus size: 10
1750415 GGATCGAATG
1750425 GACTCGACTC
1 GACTCGACTC
1750435 GAGCTCGACTC
1 GA-CTCGACTC
1750446 GACTCGAGCTC
1 GACTCGA-CTC
1750457 GACTCGA
1 GACTCGA
1750464 GTTCTTAACG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 7 0.26
11 20 0.74
ACGTcount: A:0.21, C:0.36, G:0.26, T:0.18
Consensus pattern (10 bp):
GACTCGACTC
Found at i:1751958 original size:27 final size:25
Alignment explanation
Indices: 1751923--1751976 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
1751913 AGTTCTCTCC
* *
1751923 TTTATTTTATGTTTCAAGTTTTTGATT
1 TTTACTTTAT-TTTCAA-TATTTGATT
*
1751950 TTTACTTTATTTTTAATATTTGATT
1 TTTACTTTATTTTCAATATTTGATT
1751975 TT
1 TT
1751977 AAATATGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.42
26 5 0.21
27 9 0.38
ACGTcount: A:0.20, C:0.04, G:0.07, T:0.69
Consensus pattern (25 bp):
TTTACTTTATTTTCAATATTTGATT
Found at i:1768085 original size:152 final size:152
Alignment explanation
Indices: 1767809--1768108 Score: 564
Period size: 152 Copynumber: 2.0 Consensus size: 152
1767799 ATTGCTTTAT
*
1767809 TGTTTGGTATTACAACCCTTTGGTTTCATCATTCTGATTTCTCTACTTTTCTATATGTTTGTTAT
1 TGTTTGGTATTACAACCCCTTGGTTTCATCATTCTGATTTCTCTACTTTTCTATATGTTTGTTAT
1767874 TTTACCACTTCAACCATACATTTCTCAAATACTTGTTATGCAACTATTATGTAACCTACTTTGGG
66 TTTACCACTTCAACCATACATTTCTCAAATACTTGTTATGCAACTATTATGTAACCTACTTTGGG
*
1767939 AGCTTTATTGTGATGTTCTATA
131 AGCATTATTGTGATGTTCTATA
*
1767961 TGTTTGTTATTACAACCCCTTGGTTTCATCATTCTGATTTCTCTACTTTTCTATATGTTTGTTAT
1 TGTTTGGTATTACAACCCCTTGGTTTCATCATTCTGATTTCTCTACTTTTCTATATGTTTGTTAT
*
1768026 TTTACCACTTCAACCATACATTTCTCAAATACTTGTTATGCAACTCTTATGTAACCTACTTTGGG
66 TTTACCACTTCAACCATACATTTCTCAAATACTTGTTATGCAACTATTATGTAACCTACTTTGGG
1768091 AGCATTATTGTGATGTTC
131 AGCATTATTGTGATGTTC
1768109 GGGGTCGAAG
Statistics
Matches: 144, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
152 144 1.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (152 bp):
TGTTTGGTATTACAACCCCTTGGTTTCATCATTCTGATTTCTCTACTTTTCTATATGTTTGTTAT
TTTACCACTTCAACCATACATTTCTCAAATACTTGTTATGCAACTATTATGTAACCTACTTTGGG
AGCATTATTGTGATGTTCTATA
Found at i:1769726 original size:3 final size:3
Alignment explanation
Indices: 1769720--1769775 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
1769710 TTATCGTTTT
** *
1769720 TTA TTA TTA TTA TTA TTA TTA TCG TTA -TC TTA TTA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1769766 TTTA TTA TTA
1 -TTA TTA TTA
1769776 CATTTTTTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 3 0.07
3 38 0.86
4 3 0.07
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1769760 original size:28 final size:28
Alignment explanation
Indices: 1769710--1769767 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
1769700 TCCGGTTTTT
*
1769710 TTATCGTTTTTTATTATTATTATTATTA
1 TTATCGTTTCTTATTATTATTATTATTA
1769738 TTATCGTTATCTTATTATT-TTATTATTA
1 TTATCGTT-TCTTATTATTATTATTATTA
1769766 TT
1 TT
1769768 TATTATTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.67
Consensus pattern (28 bp):
TTATCGTTTCTTATTATTATTATTATTA
Found at i:1777497 original size:37 final size:36
Alignment explanation
Indices: 1777448--1777577 Score: 115
Period size: 37 Copynumber: 3.5 Consensus size: 36
1777438 CTTGAGATCG
1777448 TTTCTC-AAAAACAAACTTTGTCTCGCTTGAGACAAT
1 TTTCTCTAAAAACAAA-TTTGTCTCGCTTGAGACAAT
** *
1777484 TTTCTCTAAAAACAAATGTTGTCTCATTTGAGACTA-
1 TTTCTCTAAAAACAAAT-TTGTCTCGCTTGAGACAAT
* *
1777520 TATCT-T-AAAGCAAATTTCGTCTCGCTTGAGACATCAT
1 TTTCTCTAAAAACAAATTT-GTCTCGCTTGAGACA--AT
*
1777557 TTTCTCTCATAATACAAATTT
1 TTTCTCT-A-AAAACAAATTT
1777578 CAAGGTTGTT
Statistics
Matches: 73, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
33 2 0.03
34 20 0.27
35 1 0.01
36 12 0.16
37 28 0.38
38 1 0.01
41 9 0.12
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (36 bp):
TTTCTCTAAAAACAAATTTGTCTCGCTTGAGACAAT
Found at i:1777652 original size:30 final size:30
Alignment explanation
Indices: 1777616--1777712 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
1777606 ATATCACTTG
*
1777616 AAAAAAAATCTTTGAGTTTGTTCCTTTTAA
1 AAAAAAAATCTTTGAGTTTGTTTCTTTTAA
* *
1777646 AAAAAAAATCTTTGAGATAGTTTCTTTTAA
1 AAAAAAAATCTTTGAGTTTGTTTCTTTTAA
* * *
1777676 AACAAAAATCTTTGAGTATGTTTCTTTTGA
1 AAAAAAAATCTTTGAGTTTGTTTCTTTTAA
*
1777706 AACAAAA
1 AAAAAAA
1777713 TTTTATCTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.39
Consensus pattern (30 bp):
AAAAAAAATCTTTGAGTTTGTTTCTTTTAA
Found at i:1777752 original size:64 final size:64
Alignment explanation
Indices: 1777679--1778068 Score: 460
Period size: 64 Copynumber: 6.0 Consensus size: 64
1777669 CTTTTAAAAC
*
1777679 AAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTATTAAAGACAATTTCTCTTGAA
1 AAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTATTAAAGACAATTTCTTTTGAA
* * * * ** * * *
1777743 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGATAGTTTCTTTTAAA
1 AAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTAT-TAAAGACAATTTCTTTT-GA
1777808 A
64 A
1777809 CAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTATTAAAGACAATTTCTTTTGAA
1 -AAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTATTAAAGACAATTTCTTTTGAA
* * * * * * ** *
1777874 AAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTCTTAAGATAGCTTCTTTTAAA
1 AAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTAT-TAAAGACAATTTCTTTT-GA
1777939 A
64 A
* *
1777940 CAAAAATCTTTGAGTATATTTCTTTTGAAACAAAATTTTATCTATTAAAGACCATTTCTTTTG-A
1 -AAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTATTAAAGACAATTTCTTTTGAA
* * * * ** *
1778004 AAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCT-CTCGAGACAACTTCTTTTGAA
1 AAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTATTAAAGACAATTTCTTTTGAA
1778067 AA
1 AA
1778069 TACCAACCTT
Statistics
Matches: 271, Mismatches: 48, Indels: 15
0.81 0.14 0.04
Matches are distributed among these distances:
62 14 0.05
63 41 0.15
64 81 0.30
65 27 0.10
66 29 0.11
67 79 0.29
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (64 bp):
AAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTATTAAAGACAATTTCTTTTGAA
Found at i:1777818 original size:131 final size:131
Alignment explanation
Indices: 1777657--1778048 Score: 716
Period size: 131 Copynumber: 3.0 Consensus size: 131
1777647 AAAAAAATCT
1777657 TTGAGATAGTTTCTTTTAAAACAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTA
1 TTGAGATAGTTTCTTTTAAAACAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTA
*
1777722 TTAAAGACAATTTCTCTTGAAAAAAATCTTTGAGTTTGTTT-CTTTGGAAACAAAATTTTGTCTC
66 TTAAAGACAATTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCCTTT-GAAACAAAATTTTGTCTC
1777786 TC
130 TC
1777788 TTGAGATAGTTTCTTTTAAAACAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTA
1 TTGAGATAGTTTCTTTTAAAACAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTA
1777853 TTAAAGACAATTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCT
66 TTAAAGACAATTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCT
1777918 C
131 C
* * *
1777919 TTAAGATAGCTTCTTTTAAAACAAAAATCTTTGAGTATATTTCTTTTGAAACAAAATTTTATCTA
1 TTGAGATAGTTTCTTTTAAAACAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTA
*
1777984 TTAAAGACCATTTCTTTTG-AAAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCT
66 TTAAAGACAATTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCT
1778048 C
131 C
1778049 GAGACAACTT
Statistics
Matches: 255, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
130 46 0.18
131 205 0.80
132 4 0.02
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (131 bp):
TTGAGATAGTTTCTTTTAAAACAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTA
TTAAAGACAATTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCT
C
Found at i:1778248 original size:15 final size:15
Alignment explanation
Indices: 1778225--1778268 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
1778215 TTTTGAGTCG
*
1778225 TTTCACTTGAAACAT
1 TTTCTCTTGAAACAT
1778240 TTTCTCTTGAAACAT
1 TTTCTCTTGAAACAT
*
1778255 TTTCTCTTAAAACA
1 TTTCTCTTGAAACA
1778269 AGATCATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (15 bp):
TTTCTCTTGAAACAT
Found at i:1778576 original size:63 final size:62
Alignment explanation
Indices: 1778478--1778595 Score: 159
Period size: 63 Copynumber: 1.9 Consensus size: 62
1778468 GAAACAAAAC
*
1778478 AAACATCTTTGAGATCAATTCCCTTTAAACGAATTTTGTCTCATTCGAGACAGTTTTCCTTT
1 AAACATCTTTGAGATCAATTCCCTTTAAACAAATTTTGTCTCATTCGAGACAGTTTTCCTTT
* * *
1778540 AAACAATCTTTGAG-TC-ATTTCCTTTGAAACAAAATTTTGTCTCTTTTGAGACAGTT
1 AAAC-ATCTTTGAGATCAATTCCCTTT-AAAC-AAATTTTGTCTCATTCGAGACAGTT
1778596 GCTTTTGAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
61 8 0.16
62 10 0.20
63 31 0.63
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.41
Consensus pattern (62 bp):
AAACATCTTTGAGATCAATTCCCTTTAAACAAATTTTGTCTCATTCGAGACAGTTTTCCTTT
Found at i:1778828 original size:46 final size:45
Alignment explanation
Indices: 1778676--1779168 Score: 327
Period size: 46 Copynumber: 11.5 Consensus size: 45
1778666 CATAACTCCT
*
1778676 TTAGATGACCAGATCTCCTCATCACGTATGAGCCGTGTCATTC-CC
1 TTAGATGACCAGATCTCCTCATCACGTAGGAGCCGTGTCA-TCACC
*
1778721 ---CA-GACCAGATCTCCTCATCACGTAGGAGCCGTGTCA--ACC
1 TTAGATGACCAGATCTCCTCATCACGTAGGAGCCGTGTCATCACC
* * * * *
1778760 ATAGATAACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACC
1 TTAGATGACCAGATC-TCCTCATCACGTAGGAGCCGTGTCATCACC
*
1778805 TTTAGATGACCAGATCTCCTCATCACGTATGAGCCGTGTCATTC-CC
1 -TTAGATGACCAGATCTCCTCATCACGTAGGAGCCGTGTCA-TCACC
*
1778851 ---CA-GACCAGATCTCCTCATCACGTAGGAGCCGTGTCA--ACC
1 TTAGATGACCAGATCTCCTCATCACGTAGGAGCCGTGTCATCACC
* * * * *
1778890 ATAGATAACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACC
1 TTAGATGACCAGATC-TCCTCATCACGTAGGAGCCGTGTCATCACC
* * * *
1778935 TTTAGATGGCCAG-CCGTCCTCATCATGTAGGAACCGTGTCATC-CC
1 -TTAGATGACCAGATC-TCCTCATCACGTAGGAGCCGTGTCATCACC
* * * *
1778980 ---CA-GACCAGATCTCTTCATCACGTATGAGTCGTGTCA-C-CC
1 TTAGATGACCAGATCTCCTCATCACGTAGGAGCCGTGTCATCACC
* * * *
1779019 -TAGATAACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACC
1 TTAGATGACCAGATC-TCCTCATCACGTAGGAGCCGTGTCATCACC
* * * *
1779063 TTTAGAT-AGCCAGAACTCTTCATCACGTATGAGTCGTGTCATTC-CC
1 -TTAGATGA-CCAGATCTCCTCATCACGTAGGAGCCGTGTCA-TCACC
* * *
1779109 -----CGACCAGATCTCTTCATCACGTATGAGCCGTGTCA-C-CC
1 TTAGATGACCAGATCTCCTCATCACGTAGGAGCCGTGTCATCACC
* *
1779147 TTAGATGACCAGACCTCTTCAT
1 TTAGATGACCAGATCTCCTCAT
1779169 TGCGTATGAG
Statistics
Matches: 358, Mismatches: 52, Indels: 78
0.73 0.11 0.16
Matches are distributed among these distances:
38 3 0.01
39 7 0.02
40 55 0.15
41 71 0.20
42 31 0.09
43 72 0.20
44 2 0.01
45 9 0.03
46 102 0.28
47 6 0.02
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (45 bp):
TTAGATGACCAGATCTCCTCATCACGTAGGAGCCGTGTCATCACC
Found at i:1778906 original size:130 final size:130
Alignment explanation
Indices: 1778673--1779158 Score: 766
Period size: 130 Copynumber: 3.8 Consensus size: 130
1778663 AACCATAACT
1778673 CCTTTAGATGACCAGATCTCCTCATCACGTATGAGCCGTGTCATTCCCCAGACCAGATCTCCTCA
1 CCTTTAGATGACCAGATCTCCTCATCACGTATGAGCCGTGTCATTCCCCAGACCAGATCTCCTCA
1778738 TCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCA
66 TCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCA
1778803 CCTTTAGATGACCAGATCTCCTCATCACGTATGAGCCGTGTCATTCCCCAGACCAGATCTCCTCA
1 CCTTTAGATGACCAGATCTCCTCATCACGTATGAGCCGTGTCATTCCCCAGACCAGATCTCCTCA
1778868 TCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCA
66 TCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCA
* * * * * *
1778933 CCTTTAGATGGCCAG-CCGTCCTCATCATGTAGGAACCGTGTCA-TCCCCAGACCAGATCTCTTC
1 CCTTTAGATGACCAGATC-TCCTCATCACGTATGAGCCGTGTCATTCCCCAGACCAGATCTCCTC
* * *
1778996 ATCACGTATGAGTCGTGTC-ACCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
65 ATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
1779060 A
130 A
* * * *
1779061 CCTTTAGAT-AGCCAGAACTCTTCATCACGTATGAGTCGTGTCATTCCCC-GACCAGATCTCTTC
1 CCTTTAGATGA-CCAGATCTCCTCATCACGTATGAGCCGTGTCATTCCCCAGACCAGATCTCCTC
* * * *
1779124 ATCACGTATGAGCCGTGTCACCCTTAGATGACCAG
65 ATCACGTAGGAGCCGTGTCAACCATAGATAACCAG
1779159 ACCTCTTCAT
Statistics
Matches: 331, Mismatches: 20, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
128 110 0.33
129 55 0.17
130 166 0.50
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (130 bp):
CCTTTAGATGACCAGATCTCCTCATCACGTATGAGCCGTGTCATTCCCCAGACCAGATCTCCTCA
TCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCA
Found at i:1778926 original size:84 final size:83
Alignment explanation
Indices: 1778682--1779143 Score: 271
Period size: 89 Copynumber: 5.4 Consensus size: 83
1778672 TCCTTTAGAT
* * **
1778682 GACCAGATCTCCTCATCACGTATGAGCCGTGTCATTCCCCAG--ACCAGATCTCCTCATCACGTA
1 GACCAGATCTCCTCATCACGTAGGAGCCGTGTCATACCATAGATACCAGATCTCCTCATCACGTA
*
1778745 GGAGCCGTGTCAACCATA
66 GGAGCCGTGTCAACCACA
* * * *
1778763 GATAACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGACCAGATCTCCTCA
1 G---ACCAGATC-TCCTCATCACGTAGGAGCCGTGTCAT-ACC-ATAGAT-ACCAGATCTCCTCA
* * *
1778827 TCACGTATGAGCCGTGTCATTCCCCA
59 TCACGTAGGAGCCGTGTCA-ACCACA
*
1778853 GACCAGATCTCCTCATCACGTAGGAGCCGTGTCA-ACCATAGATAACCAG-CCGTCCTCATCACG
1 GACCAGATCTCCTCATCACGTAGGAGCCGTGTCATACCATAGAT-ACCAGATC-TCCTCATCACG
* * *
1778916 TAGGAACCGTGTTATCACCTTTAGA
64 TAGGAGCCGTGTCA--ACC---ACA
* * * * ** *
1778941 TGGCCAG-CCGTCCTCATCATGTAGGAACCGTGTCAT-CCCCAG--ACCAGATCTCTTCATCACG
1 -GACCAGATC-TCCTCATCACGTAGGAGCCGTGTCATACCATAGATACCAGATCTCCTCATCACG
* * * *
1779002 TATGAGTCGTGTCACCCTAGA
64 TAGGAGCCGTGTCAACC-ACA
* * * * * * *
1779023 TAACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATAGCCAGAACTCTTCATC
1 -GACCAGATC-TCCTCATCACGTAGGAGCCGTGTCAT-ACC-ATAGATA-CCAGATCTCCTCATC
* * * *
1779087 ACGTATGAGTCGTGTCATTCC-CC
61 ACGTAGGAGCCGTGTCA-ACCACA
* *
1779110 GACCAGATCTCTTCATCACGTATGAGCCGTGTCA
1 GACCAGATCTCCTCATCACGTAGGAGCCGTGTCA
1779144 CCCTTAGATG
Statistics
Matches: 300, Mismatches: 53, Indels: 51
0.74 0.13 0.13
Matches are distributed among these distances:
81 1 0.00
82 36 0.12
83 2 0.01
84 64 0.21
85 9 0.03
86 53 0.18
87 31 0.10
88 34 0.11
89 66 0.22
90 4 0.01
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (83 bp):
GACCAGATCTCCTCATCACGTAGGAGCCGTGTCATACCATAGATACCAGATCTCCTCATCACGTA
GGAGCCGTGTCAACCACA
Found at i:1779353 original size:3 final size:3
Alignment explanation
Indices: 1779347--1779408 Score: 74
Period size: 3 Copynumber: 21.0 Consensus size: 3
1779337 TTATCGTTTT
** *
1779347 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCG TTA -TC TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1779393 TTA TTA TTTA TTA TTA
1 TTA TTA -TTA TTA TTA
1779409 CATTTTTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 3 0.06
3 44 0.88
4 3 0.06
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1782259 original size:81 final size:81
Alignment explanation
Indices: 1782124--1782289 Score: 235
Period size: 81 Copynumber: 2.0 Consensus size: 81
1782114 CTAAGGAGGC
* * * * * *
1782124 AATGCTTAGTATACATGAGGGAGAGGATGGTGTATTGGTGGGCAAAACCCATAAATAAACTACTG
1 AATGCTTAGTATACACGAGGGAGAGGATGGCGCATTAGTGAGAAAAACCCATAAATAAACTACTG
1782189 GGTATCGATGAGGTTG
66 GGTATCGATGAGGTTG
* * *
1782205 AATGCTTAGTATACACGAGGGAGAATG-TGGCGCATTAGTGAGAAAAATCCATAAATAAACTATT
1 AATGCTTAGTATACACGAGGGAG-AGGATGGCGCATTAGTGAGAAAAACCCATAAATAAACTACT
1782269 GGGTATCGATGAGGTTG
65 GGGTATCGATGAGGTTG
1782286 AATG
1 AATG
1782290 TGAGCACACA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
81 73 0.97
82 2 0.03
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (81 bp):
AATGCTTAGTATACACGAGGGAGAGGATGGCGCATTAGTGAGAAAAACCCATAAATAAACTACTG
GGTATCGATGAGGTTG
Found at i:1783014 original size:34 final size:33
Alignment explanation
Indices: 1782929--1783027 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
1782919 ATTTGGCAAG
1782929 TTGGAAAATTCATCTTGGTTGGTGGCCAACTTA
1 TTGGAAAATTCATCTTGGTTGGTGGCCAACTTA
* *
1782962 TTGGAAATTTCATCTTGGTTGGTGGTCAACTTA
1 TTGGAAAATTCATCTTGGTTGGTGGCCAACTTA
* *
1782995 TTGGAAAATTCATATTTGGTAGGTGGCCAACTT
1 TTGGAAAATTCAT-CTTGGTTGGTGGCCAACTT
1783028 TGCACATGAG
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 43 0.73
34 16 0.27
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.38
Consensus pattern (33 bp):
TTGGAAAATTCATCTTGGTTGGTGGCCAACTTA
Found at i:1787708 original size:33 final size:33
Alignment explanation
Indices: 1787666--1787760 Score: 147
Period size: 33 Copynumber: 2.9 Consensus size: 33
1787656 TGGCTAGTTG
1787666 GAAAATTCATCTTGGTTGGTGGCCAACTTATTA
1 GAAAATTCATCTTGGTTGGTGGCCAACTTATTA
* *
1787699 GAAATTTCATCTTGGTTGGTGGCCAACTTATTG
1 GAAAATTCATCTTGGTTGGTGGCCAACTTATTA
*
1787732 GAAAATTCATCTTTGGTAGG-GGCCAACTT
1 GAAAATTCATC-TTGGTTGGTGGCCAACTT
1787761 TTCACATGGA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 50 0.88
34 7 0.12
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (33 bp):
GAAAATTCATCTTGGTTGGTGGCCAACTTATTA
Found at i:1787778 original size:37 final size:34
Alignment explanation
Indices: 1787664--1787785 Score: 124
Period size: 33 Copynumber: 3.6 Consensus size: 34
1787654 TTTGGCTAGT
* * *
1787664 TGGAAAATTCATC-TTGGTTGGTGGCCAACTTAT
1 TGGAAATTTCATCTTTGGTAGGTGGCCAACTTAA
* * *
1787697 TAGAAATTTCATC-TTGGTTGGTGGCCAACTTAT
1 TGGAAATTTCATCTTTGGTAGGTGGCCAACTTAA
*
1787730 TGGAAAATTCATCTTTGGTAGG-GGCCAACTTTTCACA
1 TGGAAATTTCATCTTTGGTAGGTGGCCAAC--TT-A-A
1787767 TGGAAATTTCATCTTTGGT
1 TGGAAATTTCATCTTTGGT
1787786 CTCTAAAATA
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
33 49 0.64
34 7 0.09
35 2 0.03
36 1 0.01
37 18 0.23
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.38
Consensus pattern (34 bp):
TGGAAATTTCATCTTTGGTAGGTGGCCAACTTAA
Found at i:1794009 original size:24 final size:24
Alignment explanation
Indices: 1793964--1794021 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
1793954 AATATAAAAC
* *
1793964 GAACATGTTCGTGAACATATAAAT
1 GAACATGTTCATGAACAAATAAAT
* *
1793988 GAATATGTTCATGTACAAATAAAT
1 GAACATGTTCATGAACAAATAAAT
1794012 GAACATGTTC
1 GAACATGTTC
1794022 GCAAACATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (24 bp):
GAACATGTTCATGAACAAATAAAT
Found at i:1794580 original size:120 final size:120
Alignment explanation
Indices: 1794354--1794619 Score: 387
Period size: 120 Copynumber: 2.2 Consensus size: 120
1794344 GGATTATGCT
* *
1794354 AAAA-TGATAGTTTAGGTACTAAATGCGTTAAGTTTTGAACAGTGGGTACTAAAATGAAACAAAA
1 AAAATTGATAGTTTAGGTACTAAATGCGTTAAGTTTTGAACAATGGGTACAAAAATGAAACAAAA
1794418 AATAAACATTAGGTATGGTTTAGAAAAATTAAAAGTTTAAGTACTAAAACAGACA
66 AATAAACATTAGGTATGGTTTAGAAAAATTAAAAGTTTAAGTACTAAAACAGACA
* * * *
1794473 AAAACTT-ATAGTTTAGGTATTAAATGTGTTATGTTTT-AACAATGGGTACAAAAATGAAATAAA
1 AAAA-TTGATAGTTTAGGTACTAAATGCGTTAAGTTTTGAACAATGGGTACAAAAATGAAACAAA
* * *
1794536 AACTAAACATT-GGATATGGTTTTGAAAAAATTAAAAGTTTAAGTACTAAAACAGACC
65 AAATAAACATTAGG-TATGGTTTAG-AAAAATTAAAAGTTTAAGTACTAAAACAGACA
*
1794593 AAAATTGATAGTTTAGGTGCTAAATGC
1 AAAATTGATAGTTTAGGTACTAAATGC
1794620 ACGGTATACC
Statistics
Matches: 130, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
118 2 0.02
119 48 0.37
120 79 0.61
121 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.17, T:0.30
Consensus pattern (120 bp):
AAAATTGATAGTTTAGGTACTAAATGCGTTAAGTTTTGAACAATGGGTACAAAAATGAAACAAAA
AATAAACATTAGGTATGGTTTAGAAAAATTAAAAGTTTAAGTACTAAAACAGACA
Found at i:1802984 original size:26 final size:26
Alignment explanation
Indices: 1802955--1803012 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
1802945 GGTCATTCCG
*
1802955 ACCATAATATACATAAGGTTGTGCCC
1 ACCATAATACACATAAGGTTGTGCCC
*
1802981 ACCATAATACATATAAGGTTGTGCCC
1 ACCATAATACACATAAGGTTGTGCCC
1803007 ACCATA
1 ACCATA
1803013 TGCACTTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (26 bp):
ACCATAATACACATAAGGTTGTGCCC
Found at i:1805572 original size:11 final size:11
Alignment explanation
Indices: 1805556--1805583 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
1805546 ATCATCTTTC
1805556 AAATTTTCTCA
1 AAATTTTCTCA
1805567 AAATTTTCTCA
1 AAATTTTCTCA
1805578 AAATTT
1 AAATTT
1805584 CTATTTGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.46
Consensus pattern (11 bp):
AAATTTTCTCA
Found at i:1810172 original size:2 final size:2
Alignment explanation
Indices: 1810165--1810196 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1810155 CATTTTATCC
1810165 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1810197 TTCCTTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1813935 original size:37 final size:35
Alignment explanation
Indices: 1813847--1813970 Score: 111
Period size: 33 Copynumber: 3.6 Consensus size: 35
1813837 GACCGGTACC
1813847 AAATAAAAAT-A-AA-ATTAATA-AAATATATATAA
1 AAATAAAAATAATAATATTAATATAAATA-ATATAA
*
1813879 TAAATAAAAA-AA-AAT-TTAATATAACATAAAATAA
1 -AAATAAAAATAATAATATTAATATAA-ATAATATAA
1813913 AAATAAAAATGAATAATATTAATATAATATAATAT-A
1 AAATAAAAAT-AATAATATTAATATAA-ATAATATAA
*
1813949 TAATAAAAACTATATAATATTA
1 AAATAAAAA-TA-ATAATATTA
1813971 TATTTTCAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 16
0.79 0.04 0.16
Matches are distributed among these distances:
33 27 0.35
34 7 0.09
35 5 0.06
36 13 0.17
37 25 0.32
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.31
Consensus pattern (35 bp):
AAATAAAAATAATAATATTAATATAAATAATATAA
Found at i:1814179 original size:36 final size:36
Alignment explanation
Indices: 1814103--1814368 Score: 259
Period size: 36 Copynumber: 7.3 Consensus size: 36
1814093 ACCCCTTTTT
* * *
1814103 TATATATTATACGTTTTCAAAACTGTTTT-AAAAAC
1 TATATATTATATGTTTTCAAAATTATTTTAAAAAAC
1814138 TATATATTATATGTTTTCAAAATTATTTTAAAAAAC
1 TATATATTATATGTTTTCAAAATTATTTTAAAAAAC
* * *
1814174 TATATATTATAAGTTTTTATAATTATTTTTAAAAAAAC
1 TATATATTATATGTTTTCAAAATTA-TTTT-AAAAAAC
* * **
1814212 TATATACTATACGTTTTCAAAATCGTTTTAAAAAAC
1 TATATATTATATGTTTTCAAAATTATTTTAAAAAAC
* * ***
1814248 TATATATTATACGTCTTCAAAACCGTTTTAAAAAAC
1 TATATATTATATGTTTTCAAAATTATTTTAAAAAAC
* * *
1814284 TATATATTATAT-ATTTCAAAGTTATTTT-AAAAAT
1 TATATATTATATGTTTTCAAAATTATTTTAAAAAAC
* * * **
1814318 TATATATTATACGTTTTTTAAAAATAAATTTCCAAAAAC
1 TATATATTATA--TGTTTTCAAAAT-TATTTTAAAAAAC
1814357 TATATATTATAT
1 TATATATTATAT
1814369 ATATTTTCAA
Statistics
Matches: 194, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
34 16 0.08
35 36 0.19
36 80 0.41
37 16 0.08
38 30 0.15
39 16 0.08
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (36 bp):
TATATATTATATGTTTTCAAAATTATTTTAAAAAAC
Found at i:1814228 original size:74 final size:71
Alignment explanation
Indices: 1814103--1814367 Score: 275
Period size: 74 Copynumber: 3.7 Consensus size: 71
1814093 ACCCCTTTTT
* *
1814103 TATATATTATACGTTTTCAAAACTGTTTT-AAAAACTATATATTATATGTTTTCAAAATTATTTT
1 TATATATTATACGTTTTTAAAACAGTTTTAAAAAACTATATATTATA-GTTTTCAAAATTATTTT
1814167 AAAAAAC
65 AAAAAAC
* ** * * **
1814174 TATATATTATAAGTTTTTATAATTATTTTTAAAAAAACTATATACTATACGTTTTCAAAATCGTT
1 TATATATTATACGTTTTTA-AAACAGTTTT-AAAAAACTATATATTATA-GTTTTCAAAATTATT
1814239 TTAAAAAAC
63 TTAAAAAAC
* * * *
1814248 TATATATTATACGTCTTCAAAACCGTTTTAAAAAACTATATATTATA-TATTTCAAAGTTATTTT
1 TATATATTATACGTTTTTAAAACAGTTTTAAAAAACTATATATTATAGT-TTTCAAAATTATTTT
*
1814312 -AAAAAT
65 AAAAAAC
* * **
1814318 TATATATTATACGTTTTTTAAAAATAAATTTCCAAAAACTATATATTATA
1 TATATATTATACG-TTTTT-AAAA-CAGTTTTAAAAAACTATATATTATA
1814368 TATATTTTCA
Statistics
Matches: 158, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
70 19 0.12
71 32 0.20
72 27 0.17
73 26 0.16
74 54 0.34
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (71 bp):
TATATATTATACGTTTTTAAAACAGTTTTAAAAAACTATATATTATAGTTTTCAAAATTATTTTA
AAAAAC
Found at i:1826470 original size:239 final size:238
Alignment explanation
Indices: 1826038--1826513 Score: 835
Period size: 239 Copynumber: 2.0 Consensus size: 238
1826028 TAACCAAACC
*
1826038 TCAAGTCTATATTAAAAAGACGATAGCCCAACGGAACTGGTTAAACAAATAATCGATCTTGGGCA
1 TCAAGTCTATATTAAAAAGACGATAGCCCAACGGAACTGGTCAAACAAATAATCGATCTTGGGCA
1826103 GAGGATATTTATTTTTGACTATGAGCTTGTTCAGTTTCTGGTAGTCAATACAAAGTCTCAATGTC
66 GAGGATATTTATTTTTGACTATGAGCTTGTTCAGTTTCTGGTAGTCAATACAAAGTCTCAATGTC
1826168 CTATCATTCTTCTTGACAAAGAGAAATAGAGCACCATCAGTGAAACATTTGGGTAGAATGAATCC
131 CTATCATTCTTCTTGACAAAGAGAAATAGAGCACCATCAGTGAAACATTTGGGTAGAATGAATCC
1826233 CTTATCAAATACCTTATGAAGTTGAACTTTCAATTCTTTAAGT
196 CTTATCAAATACCTTATGAAGTTGAACTTTCAATTCTTTAAGT
1826276 TCAAGTCTATATTAAAAAAGACGATAGCCCAACGGAACTGGTCAAACAAATAATCGATCTTGGGC
1 TCAAGTCTATATT-AAAAAGACGATAGCCCAACGGAACTGGTCAAACAAATAATCGATCTTGGGC
* * *
1826341 AGAGGATATTTATTTTTGACTGTGAGCTTGTTCAGTTTTTGGTAGTCAATACAGAGTCTCAATGT
65 AGAGGATATTTATTTTTGACTATGAGCTTGTTCAGTTTCTGGTAGTCAATACAAAGTCTCAATGT
* * ** * *
1826406 CCTATCCTTCTTCTTGACAAAGAGAATTAGAGCACCATTGGTGAAACGTTTGGGTCGAATGAATC
130 CCTATCATTCTTCTTGACAAAGAGAAATAGAGCACCATCAGTGAAACATTTGGGTAGAATGAATC
* *
1826471 CCTTATCCAATACCTTATGAAGTTGGACTTTCAATTCTTTAAG
195 CCTTATCAAATACCTTATGAAGTTGAACTTTCAATTCTTTAAG
1826514 CTCCTTAGAG
Statistics
Matches: 225, Mismatches: 12, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
238 13 0.06
239 212 0.94
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (238 bp):
TCAAGTCTATATTAAAAAGACGATAGCCCAACGGAACTGGTCAAACAAATAATCGATCTTGGGCA
GAGGATATTTATTTTTGACTATGAGCTTGTTCAGTTTCTGGTAGTCAATACAAAGTCTCAATGTC
CTATCATTCTTCTTGACAAAGAGAAATAGAGCACCATCAGTGAAACATTTGGGTAGAATGAATCC
CTTATCAAATACCTTATGAAGTTGAACTTTCAATTCTTTAAGT
Found at i:1832231 original size:15 final size:16
Alignment explanation
Indices: 1832198--1832236 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
1832188 GTGCAAATCT
*
1832198 GGGTACCCGGATTTTC
1 GGGTACCCGGATTTCC
1832214 GGGTACCC-GATTTCC
1 GGGTACCCGGATTTCC
1832229 GGGTACCC
1 GGGTACCC
1832237 AGAACTTCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.13, C:0.31, G:0.31, T:0.26
Consensus pattern (16 bp):
GGGTACCCGGATTTCC
Found at i:1832247 original size:17 final size:15
Alignment explanation
Indices: 1832198--1832249 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
1832188 GTGCAAATCT
* *
1832198 GGGTACCCGGATTTTC
1 GGGTACCC-GACTTCC
*
1832214 GGGTACCCGATTTCC
1 GGGTACCCGACTTCC
1832229 GGGTACCCAGAACTTCC
1 GGGTACCC-G-ACTTCC
1832246 GGGT
1 GGGT
1832250 CGTCGATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
15 14 0.44
16 9 0.28
17 9 0.28
ACGTcount: A:0.15, C:0.29, G:0.31, T:0.25
Consensus pattern (15 bp):
GGGTACCCGACTTCC
Found at i:1832339 original size:15 final size:15
Alignment explanation
Indices: 1832291--1832343 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
1832281 ATGTTACGGA
1832291 TACCCGGTAATCGGG
1 TACCCGGTAATCGGG
* **
1832306 TACCCAGATTTTGCGGG
1 TACCC-GGTAAT-CGGG
1832323 TACCCGGTAATCGGG
1 TACCCGGTAATCGGG
1832338 TACCCG
1 TACCCG
1832344 ATACCCGGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
15 15 0.50
16 6 0.20
17 9 0.30
ACGTcount: A:0.19, C:0.28, G:0.30, T:0.23
Consensus pattern (15 bp):
TACCCGGTAATCGGG
Found at i:1838340 original size:22 final size:22
Alignment explanation
Indices: 1838306--1838349 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1838296 GAGTCGTGTT
* *
1838306 TGTTAAGAGTAACAAAAGAATG
1 TGTTAAAAATAACAAAAGAATG
1838328 TGTTAAAAATAACAAAAGAATG
1 TGTTAAAAATAACAAAAGAATG
1838350 ATTTGTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.18, T:0.23
Consensus pattern (22 bp):
TGTTAAAAATAACAAAAGAATG
Found at i:1843281 original size:39 final size:39
Alignment explanation
Indices: 1843227--1843393 Score: 174
Period size: 39 Copynumber: 4.3 Consensus size: 39
1843217 GGACCTGCAA
*
1843227 TAAGGACTTACCCTGTGCACAAAGCAGATGAGCCTATAG
1 TAAGGACTTACCCTGTGCACAAAGCAGATGAGCCTACAG
*
1843266 TAAGGACTTACCCTGTGCACAAAGCAGATGAGCCTGCAG
1 TAAGGACTTACCCTGTGCACAAAGCAGATGAGCCTACAG
* * ** * * *
1843305 TAAGGACTTACCCTGAGCATAAAGTTGAGGACCCTACGG
1 TAAGGACTTACCCTGTGCACAAAGCAGATGAGCCTACAG
* * * * * * *
1843344 TACA-AACTTACCCTGAGCACAAAGCCGAGGAGCATGCGG
1 TA-AGGACTTACCCTGTGCACAAAGCAGATGAGCCTACAG
1843383 TAAGGACTTAC
1 TAAGGACTTAC
1843394 AAGTCATAGA
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
38 1 0.01
39 106 0.98
40 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (39 bp):
TAAGGACTTACCCTGTGCACAAAGCAGATGAGCCTACAG
Found at i:1843314 original size:78 final size:78
Alignment explanation
Indices: 1843220--1843393 Score: 197
Period size: 78 Copynumber: 2.2 Consensus size: 78
1843210 AACATATGGA
* * * * * * *
1843220 CCTGCAATAAGGACTTACCCTGTGCACAAAGCAGATGAGCCTATAGTA-AGGACTTACCCTGTGC
1 CCTGCAGTAAGGACTTACCCTGAGCACAAAGCAGAGGACCCTACAGTACA-AACTTACCCTGAGC
*
1843284 ACAAAGCAGATGAG
65 ACAAAGCAGAGGAG
* ** *
1843298 CCTGCAGTAAGGACTTACCCTGAGCATAAAGTTGAGGACCCTACGGTACAAACTTACCCTGAGCA
1 CCTGCAGTAAGGACTTACCCTGAGCACAAAGCAGAGGACCCTACAGTACAAACTTACCCTGAGCA
*
1843363 CAAAGCCGAGGAG
66 CAAAGCAGAGGAG
* *
1843376 CATGCGGTAAGGACTTAC
1 CCTGCAGTAAGGACTTAC
1843394 AAGTCATAGA
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
78 79 0.99
79 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.18
Consensus pattern (78 bp):
CCTGCAGTAAGGACTTACCCTGAGCACAAAGCAGAGGACCCTACAGTACAAACTTACCCTGAGCA
CAAAGCAGAGGAG
Found at i:1844205 original size:15 final size:15
Alignment explanation
Indices: 1844187--1844224 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
1844177 CAGGTCGGAT
1844187 CGGATCGGTCAGACA
1 CGGATCGGTCAGACA
1844202 CGGATCGGTCAGACA
1 CGGATCGGTCAGACA
1844217 CGGATCGG
1 CGGATCGG
1844225 GTCAAGCAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.24, C:0.26, G:0.37, T:0.13
Consensus pattern (15 bp):
CGGATCGGTCAGACA
Found at i:1847847 original size:20 final size:21
Alignment explanation
Indices: 1847822--1847868 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
1847812 TATTGTGGTC
*
1847822 ATTTCTAGTCG-TTGGGGATG
1 ATTTCTAGCCGTTTGGGGATG
1847842 ATTTCTAGCCGTTTGGGGATG
1 ATTTCTAGCCGTTTGGGGATG
*
1847863 TTTTCT
1 ATTTCT
1847869 CTACAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.13, C:0.13, G:0.30, T:0.45
Consensus pattern (21 bp):
ATTTCTAGCCGTTTGGGGATG
Found at i:1848393 original size:98 final size:98
Alignment explanation
Indices: 1848224--1848468 Score: 420
Period size: 98 Copynumber: 2.5 Consensus size: 98
1848214 AAAACTTGTT
* *
1848224 TTTGCTCAAATTCTAGTTTATTGGACTTTGAATTATTTTTTAAAACTTTGAACGAATTCAATTAA
1 TTTGCTCAAATTCTAGTTTATTGGACTTTGAATTATTTTTGAAAACTTTGAACAAATTCAATTAA
*
1848289 GTCCAAAAACATTTTTCCTTAATTTGTTATA-A
66 GTCCAAAAACATTTTGCCTTAATTTGTTATATA
1848321 CTTTGCTCAAATTCTAGTTTATTGGACTTTGAATTATTTTTGAAAACTTTGAACAAATTCAATTA
1 -TTTGCTCAAATTCTAGTTTATTGGACTTTGAATTATTTTTGAAAACTTTGAACAAATTCAATTA
*
1848386 AGTCCAAAAATATTTTGCCTTAATTTGTTATATA
65 AGTCCAAAAACATTTTGCCTTAATTTGTTATATA
* *
1848420 TTTGCTCAAATTCTAGTTTATTGGACTTTAAATTATTTATGAAAACTTT
1 TTTGCTCAAATTCTAGTTTATTGGACTTTGAATTATTTTTGAAAACTTT
1848469 TGAAAACTCT
Statistics
Matches: 140, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
98 139 0.99
99 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.46
Consensus pattern (98 bp):
TTTGCTCAAATTCTAGTTTATTGGACTTTGAATTATTTTTGAAAACTTTGAACAAATTCAATTAA
GTCCAAAAACATTTTGCCTTAATTTGTTATATA
Found at i:1849674 original size:14 final size:14
Alignment explanation
Indices: 1849655--1849685 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1849645 CCGACGAACT
1849655 TGATGCCACAAGCC
1 TGATGCCACAAGCC
1849669 TGATGCCACAAGCC
1 TGATGCCACAAGCC
1849683 TGA
1 TGA
1849686 CACCCACACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.32, G:0.23, T:0.16
Consensus pattern (14 bp):
TGATGCCACAAGCC
Found at i:1854071 original size:30 final size:30
Alignment explanation
Indices: 1854035--1854100 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
1854025 TGAAGCACAA
1854035 TTCAATGACTTCTTCGAGCTCCCTTGGGAG
1 TTCAATGACTTCTTCGAGCTCCCTTGGGAG
1854065 TTCAATGACTTCTTCGAGCTCCCTTGGGAG
1 TTCAATGACTTCTTCGAGCTCCCTTGGGAG
1854095 TTCAAT
1 TTCAAT
1854101 TCCGGCTCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (30 bp):
TTCAATGACTTCTTCGAGCTCCCTTGGGAG
Found at i:1854272 original size:19 final size:19
Alignment explanation
Indices: 1854248--1854302 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
1854238 ATGACCAACA
*
1854248 AAATCGCAATGCGATCTTT
1 AAATCGCAACGCGATCTTT
1854267 AAATCGCAACGCGATCTTT
1 AAATCGCAACGCGATCTTT
1854286 AAATCGCAACGCGATCT
1 AAATCGCAACGCGATCT
1854303 CTATCGCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (19 bp):
AAATCGCAACGCGATCTTT
Found at i:1854349 original size:20 final size:20
Alignment explanation
Indices: 1854326--1854400 Score: 132
Period size: 20 Copynumber: 3.8 Consensus size: 20
1854316 GTTTCCAGAT
*
1854326 TCGCAATGCGATTTTGACTA
1 TCGCAACGCGATTTTGACTA
1854346 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTTTGACTA
1854366 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTTTGACTA
*
1854386 TCGCAATGCGATTTT
1 TCGCAACGCGATTTT
1854401 CAAAGCGCCA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (20 bp):
TCGCAACGCGATTTTGACTA
Found at i:1854995 original size:38 final size:39
Alignment explanation
Indices: 1854944--1855073 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 39
1854934 ATCGCAACGT
1854944 GATTTT-AGTTTCGCGTTGCGATTTTCATTTCGCGTTGC
1 GATTTTCAGTTTCGCGTTGCGATTTTCATTTCGCGTTGC
** *
1854982 GATTTTCA-TTTCGCGTTGCGATAGTCAAATTCGCGTTGC
1 GATTTTCAGTTTCGCGTTGCGATTTTC-ATTTCGCGTTGC
* ** * * *
1855021 AATAGTCATTTTCGTGTTGCGATTTTCATTTTCGTGTTGC
1 GATTTTCAGTTTCGCGTTGCGATTTTCA-TTTCGCGTTGC
*
1855061 GATTTTAAGTTTC
1 GATTTTCAGTTTC
1855074 AGAAACTATT
Statistics
Matches: 72, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
38 22 0.31
39 18 0.25
40 32 0.44
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.46
Consensus pattern (39 bp):
GATTTTCAGTTTCGCGTTGCGATTTTCATTTCGCGTTGC
Found at i:1855073 original size:20 final size:19
Alignment explanation
Indices: 1854952--1855066 Score: 131
Period size: 20 Copynumber: 5.9 Consensus size: 19
1854942 GTGATTTTAG
1854952 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
1854971 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
**
1854990 TTTCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATTTTC-A
* * **
1855010 ATTCGCGTTGCAATAGTCA
1 TTTCGCGTTGCGATTTTCA
*
1855029 TTTTCGTGTTGCGATTTTCA
1 -TTTCGCGTTGCGATTTTCA
*
1855049 TTTTCGTGTTGCGATTTT
1 -TTTCGCGTTGCGATTTT
1855067 AAGTTTCAGA
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
19 36 0.42
20 49 0.58
ACGTcount: A:0.14, C:0.18, G:0.22, T:0.46
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:1855463 original size:205 final size:205
Alignment explanation
Indices: 1855106--1855522 Score: 825
Period size: 205 Copynumber: 2.0 Consensus size: 205
1855096 ATTGAAACTT
*
1855106 GAATGAATTGCATTACTTCAACCAAAAAAACAAAGACAAATACGAAATTCATAGTGTTGCAAATT
1 GAATAAATTGCATTACTTCAACCAAAAAAACAAAGACAAATACGAAATTCATAGTGTTGCAAATT
1855171 TAAGTTTGAAGAATAAACTACTACTACTCTTTATGTTTATTATTGTTTTTGGTATATCTTCACAG
66 TAAGTTTGAAGAATAAACTACTACTACTCTTTATGTTTATTATTGTTTTTGGTATATCTTCACAG
1855236 TGTAGTTTTTGGTATATCTAACTTGGTATGTTTATTATTTTTGTAGAACTTTTTTTCGGCTCAAT
131 TGTAGTTTTTGGTATATCTAACTTGGTATGTTTATTATTTTTGTAGAACTTTTTTTCGGCTCAAT
1855301 TGACCTTAAG
196 TGACCTTAAG
1855311 GAATAAATTGCATTACTTCAACCAAAAAAACAAAGACAAATACGAAATTCATAGTGTTGCAAATT
1 GAATAAATTGCATTACTTCAACCAAAAAAACAAAGACAAATACGAAATTCATAGTGTTGCAAATT
1855376 TAAGTTTGAAGAATAAACTACTACTACTCTTTATGTTTATTATTGTTTTTGGTATATCTTCACAG
66 TAAGTTTGAAGAATAAACTACTACTACTCTTTATGTTTATTATTGTTTTTGGTATATCTTCACAG
1855441 TGTAGTTTTTGGTATATCTAACTTGGTATGTTTATTATTTTTGTAGAACTTTTTTTCGGCTCAAT
131 TGTAGTTTTTGGTATATCTAACTTGGTATGTTTATTATTTTTGTAGAACTTTTTTTCGGCTCAAT
1855506 TGACCTTAAG
196 TGACCTTAAG
1855516 GAATAAA
1 GAATAAA
1855523 ATAAGCCTAG
Statistics
Matches: 211, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
205 211 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (205 bp):
GAATAAATTGCATTACTTCAACCAAAAAAACAAAGACAAATACGAAATTCATAGTGTTGCAAATT
TAAGTTTGAAGAATAAACTACTACTACTCTTTATGTTTATTATTGTTTTTGGTATATCTTCACAG
TGTAGTTTTTGGTATATCTAACTTGGTATGTTTATTATTTTTGTAGAACTTTTTTTCGGCTCAAT
TGACCTTAAG
Found at i:1857207 original size:20 final size:20
Alignment explanation
Indices: 1857184--1857252 Score: 120
Period size: 20 Copynumber: 3.5 Consensus size: 20
1857174 GAAACTTAAA
*
1857184 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGGAAATGACT
1857204 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
1857224 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
*
1857244 ATCGTAACG
1 ATCGCAACG
1857253 GGATAATCGC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:1857316 original size:19 final size:19
Alignment explanation
Indices: 1857294--1857330 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1857284 CGTGAATTTA
*
1857294 GTTTCGCGTTGCGATTTTG
1 GTTTCGAGTTGCGATTTTG
1857313 GTTTCGAGTTGCGATTTT
1 GTTTCGAGTTGCGATTTT
1857331 CTCGTTGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.08, C:0.14, G:0.30, T:0.49
Consensus pattern (19 bp):
GTTTCGAGTTGCGATTTTG
Found at i:1857342 original size:33 final size:33
Alignment explanation
Indices: 1857295--1857374 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
1857285 GTGAATTTAG
* *
1857295 TTTCGCGTTGCGATTTTGGTTTCG-AGTTGCGAT
1 TTTCTCGTTGCGATTTTGATTTCGCA-TTGCGAT
*
1857328 TTTCTCGTTGCGATTTTTATTTCGCATTGCGAT
1 TTTCTCGTTGCGATTTTGATTTCGCATTGCGAT
* *
1857361 TATCTTGTTGCGAT
1 TTTCTCGTTGCGAT
1857375 AGTCAAATTC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
33 40 0.98
34 1 0.02
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (33 bp):
TTTCTCGTTGCGATTTTGATTTCGCATTGCGAT
Found at i:1857392 original size:20 final size:20
Alignment explanation
Indices: 1857367--1857414 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1857357 CGATTATCTT
1857367 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCAAATTCGC
**
1857387 GTTGCGATAGTCATTTTCGC
1 GTTGCGATAGTCAAATTCGC
1857407 GTTGCGAT
1 GTTGCGAT
1857415 TTTAAGTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
GTTGCGATAGTCAAATTCGC
Found at i:1857424 original size:20 final size:20
Alignment explanation
Indices: 1857382--1857444 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
1857372 GATAGTCAAA
** * *
1857382 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATTTTAAGT
1857402 TTCGCGTTGCGATTTTAAGT
1 TTCGCGTTGCGATTTTAAGT
*
1857422 TTCGTGTTGCGATTTTAAGT
1 TTCGCGTTGCGATTTTAAGT
1857442 TTC
1 TTC
1857445 AGAAACTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.14, C:0.16, G:0.24, T:0.46
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTAAGT
Found at i:1857996 original size:42 final size:42
Alignment explanation
Indices: 1857950--1858041 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
1857940 TCTCCTATCG
*
1857950 TTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCACCT
1 TTCAAGAGGCCCCTATCATCCCTCAAGAGGT-CCCTCCCACCA
* ** *
1857992 TTCAAGAGGCCCCTGTCATCGTTGAAGAGGTCCCTCCCACCA
1 TTCAAGAGGCCCCTATCATCCCTCAAGAGGTCCCTCCCACCA
1858034 TTCAAGAG
1 TTCAAGAG
1858042 CCCGATTCAC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 42 0.95
43 2 0.05
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.22
Consensus pattern (42 bp):
TTCAAGAGGCCCCTATCATCCCTCAAGAGGTCCCTCCCACCA
Found at i:1858019 original size:21 final size:21
Alignment explanation
Indices: 1857919--1858026 Score: 92
Period size: 21 Copynumber: 5.1 Consensus size: 21
1857909 GCTTGACTCA
1857919 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
1857940 TCT-CCTATCGTTCAAGAGGCC
1 CCTGTC-ATCGTTCAAGAGGCC
* ** *
1857961 CCTATCATCCCTCAAGAGTCC
1 CCTGTCATCGTTCAAGAGGCC
** * *
1857982 CCTCCCACCTTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
1858003 CCTGTCATCGTTGAAGAGGTC
1 CCTGTCATCGTTCAAGAGGCC
1858024 CCT
1 CCT
1858027 CCCACCATTC
Statistics
Matches: 66, Mismatches: 19, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
20 1 0.02
21 64 0.97
22 1 0.02
ACGTcount: A:0.19, C:0.37, G:0.19, T:0.25
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:1858040 original size:21 final size:21
Alignment explanation
Indices: 1857972--1858041 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
1857962 CTATCATCCC
*
1857972 TCAAGA-GTCCCCTCCCACCTT
1 TCAAGAGGT-CCCTCCCACCAT
* ** * *
1857993 TCAAGAGGCCCCTGTCATCGT
1 TCAAGAGGTCCCTCCCACCAT
*
1858014 TGAAGAGGTCCCTCCCACCAT
1 TCAAGAGGTCCCTCCCACCAT
1858035 TCAAGAG
1 TCAAGAG
1858042 CCCGATTCAC
Statistics
Matches: 36, Mismatches: 12, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
21 35 0.97
22 1 0.03
ACGTcount: A:0.23, C:0.37, G:0.19, T:0.21
Consensus pattern (21 bp):
TCAAGAGGTCCCTCCCACCAT
Found at i:1858475 original size:18 final size:18
Alignment explanation
Indices: 1858452--1858486 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1858442 AAGCCGGTTG
*
1858452 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
1858470 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
1858487 GCCTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:1860821 original size:24 final size:24
Alignment explanation
Indices: 1860770--1860821 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1860760 ATCTGAGTAT
** *
1860770 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
1860794 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
1860818 TGAC
1 TGAC
1860822 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:1861599 original size:20 final size:20
Alignment explanation
Indices: 1861576--1861672 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
1861566 TAGTTGCGAC
1861576 AGTCAGAATCGCGTTGCAAT
1 AGTCAGAATCGCGTTGCAAT
* *
1861596 AGTCAGAATCACGTTGCGAT
1 AGTCAGAATCGCGTTGCAAT
* * *
1861616 AGTCAGAATCGAGTTACGATT
1 AGTCAGAATCGCGTTGC-AAT
** * *
1861637 ATGT-ATTATCGTGTTGCGAT
1 A-GTCAGAATCGCGTTGCAAT
1861657 AGTCAGAATCGCGTTG
1 AGTCAGAATCGCGTTG
1861673 TGATTATGTA
Statistics
Matches: 58, Mismatches: 16, Indels: 6
0.73 0.20 0.08
Matches are distributed among these distances:
19 2 0.03
20 43 0.74
21 11 0.19
22 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (20 bp):
AGTCAGAATCGCGTTGCAAT
Found at i:1861688 original size:21 final size:21
Alignment explanation
Indices: 1861633--1861697 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
1861623 ATCGAGTTAC
*
1861633 GATTATGTATTATCGTGTTGC
1 GATTATGTATTATCGTGTTGT
** *
1861654 GA-TA-GTCAGAATCGCGTTGT
1 GATTATGT-ATTATCGTGTTGT
1861674 GATTATGTATTATCGTGTTGT
1 GATTATGTATTATCGTGTTGT
1861695 GAT
1 GAT
1861698 AGTCAGAATC
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
19 2 0.06
20 13 0.38
21 17 0.50
22 2 0.06
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (21 bp):
GATTATGTATTATCGTGTTGT
Found at i:1861713 original size:41 final size:41
Alignment explanation
Indices: 1861608--1861716 Score: 166
Period size: 41 Copynumber: 2.7 Consensus size: 41
1861598 TCAGAATCAC
*
1861608 GTTGCGATAGTCAGAATCGA-GTTACGATTATGTATTATCGT
1 GTTGCGATAGTCAGAATC-ACGTTGCGATTATGTATTATCGT
* *
1861649 GTTGCGATAGTCAGAATCGCGTTGTGATTATGTATTATCGT
1 GTTGCGATAGTCAGAATCACGTTGCGATTATGTATTATCGT
*
1861690 GTTGTGATAGTCAGAATCACGTTGCGA
1 GTTGCGATAGTCAGAATCACGTTGCGA
1861717 ATCTGGAAAC
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.36
Consensus pattern (41 bp):
GTTGCGATAGTCAGAATCACGTTGCGATTATGTATTATCGT
Found at i:1862727 original size:218 final size:218
Alignment explanation
Indices: 1862344--1862781 Score: 831
Period size: 218 Copynumber: 2.0 Consensus size: 218
1862334 GCTTCTTATA
1862344 TTTGCAAGCTTGCCAAAATTGCTACCACTGAGATTGTCTCCTCCAAGGTAAAATGGCTGGAGTTT
1 TTTGCAAGCTTGCCAAAATTGCTACCACTGAGATTGTCTCCTCCAAGGTAAAATGGCTGGAGTTT
*
1862409 CTTGTTCCTTTTGTTGCACTGGAGTTGATAGCATACATTTAGAACTAGAAAACATGTTCTCACCT
66 CTTGTTCCTTTTGTTGCACTGAAGTTGATAGCATACATTTAGAACTAGAAAACATGTTCTCACCT
1862474 ATATATGCTCAGGATTTTGGCATGAATTAGGTTGTCGTACCAACTTTTTGCACCCTCTCTTAGTA
131 ATATATGCTCAGGATTTTGGCATGAATTAGGTTGTCGTACCAACTTTTTGCACCCTCTCTTAGTA
1862539 ACCGTTCAATTTAGGACTGACTT
196 ACCGTTCAATTTAGGACTGACTT
*
1862562 TTTGCAAGCTTGCCAAAATTGCTACCGCTGAGATTGTCTCCTCCAAGGTAAAATGGCTGGAGTTT
1 TTTGCAAGCTTGCCAAAATTGCTACCACTGAGATTGTCTCCTCCAAGGTAAAATGGCTGGAGTTT
*
1862627 CTTGTTCCTTTTGTTGCAGTGAAGTTGATAGCATACATTTAGAACTAGAAAACATGTTCTCACCT
66 CTTGTTCCTTTTGTTGCACTGAAGTTGATAGCATACATTTAGAACTAGAAAACATGTTCTCACCT
*
1862692 ATATATGCTCAGGATTTTGGCATGAATTGGGTTGTCGTACCAACTTTTTGCACCCTCTCTTAGTA
131 ATATATGCTCAGGATTTTGGCATGAATTAGGTTGTCGTACCAACTTTTTGCACCCTCTCTTAGTA
*
1862757 ACCGTTCAATTTTGGACTGACTT
196 ACCGTTCAATTTAGGACTGACTT
1862780 TT
1 TT
1862782 AGGCTTTTAA
Statistics
Matches: 215, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
218 215 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (218 bp):
TTTGCAAGCTTGCCAAAATTGCTACCACTGAGATTGTCTCCTCCAAGGTAAAATGGCTGGAGTTT
CTTGTTCCTTTTGTTGCACTGAAGTTGATAGCATACATTTAGAACTAGAAAACATGTTCTCACCT
ATATATGCTCAGGATTTTGGCATGAATTAGGTTGTCGTACCAACTTTTTGCACCCTCTCTTAGTA
ACCGTTCAATTTAGGACTGACTT
Found at i:1870871 original size:18 final size:18
Alignment explanation
Indices: 1870848--1870888 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1870838 AAGCAAACTA
1870848 CTTGAATTTATT-TGCAGT
1 CTTGAATTT-TTGTGCAGT
1870866 CTTGAATTTTTGTGCAGT
1 CTTGAATTTTTGTGCAGT
1870884 CTTGA
1 CTTGA
1870889 GTGGTTATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.49
Consensus pattern (18 bp):
CTTGAATTTTTGTGCAGT
Found at i:1883768 original size:22 final size:21
Alignment explanation
Indices: 1883740--1883781 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
1883730 AAATATATTT
* *
1883740 TATATAACTCACTATATTTTAA
1 TATATAAATCA-TAAATTTTAA
1883762 TATATAAATCATAAATTTTA
1 TATATAAATCATAAATTTTA
1883782 TTTATTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (21 bp):
TATATAAATCATAAATTTTAA
Found at i:1884343 original size:55 final size:52
Alignment explanation
Indices: 1884259--1884408 Score: 156
Period size: 55 Copynumber: 2.8 Consensus size: 52
1884249 CATATTATTA
* * *
1884259 AAAAAAATGGCATACTTGAATAAAACTGGATCGACATAAATTTAATTGGTTAT
1 AAAAAAATGGCA-ATTTAAATAAAACTGGATCGACATAAATTTAATCGGTTAT
* * *
1884312 CCAAAAAAATGACAGATTTAAATAAAACTGGATTGAAATAAATTTAATCGGTTAT
1 --AAAAAAATGGCA-ATTTAAATAAAACTGGATCGACATAAATTTAATCGGTTAT
* ** **
1884367 TAAAAAATGGCAAGTTTAAATGGAACTAAATCGACATAAATT
1 AAAAAAATGGCAA-TTTAAATAAAACTGGATCGACATAAATT
1884409 CGATCAGTTT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
52 1 0.01
53 32 0.41
55 46 0.58
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.29
Consensus pattern (52 bp):
AAAAAAATGGCAATTTAAATAAAACTGGATCGACATAAATTTAATCGGTTAT
Found at i:1889567 original size:36 final size:36
Alignment explanation
Indices: 1889527--1889600 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
1889517 ATTGCAATAT
* * *
1889527 ATATT-TAAAAATTATAAAATTTTAAAAGAA-AAGCAG
1 ATATTATAAAAAATA-AAAATATGAAAAGAATAAG-AG
1889563 ATATTATAAAAAATAAAAATATGAAAAGAATAAGAG
1 ATATTATAAAAAATAAAAATATGAAAAGAATAAGAG
1889599 AT
1 AT
1889601 TAAAAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 22 0.67
37 11 0.33
ACGTcount: A:0.62, C:0.01, G:0.09, T:0.27
Consensus pattern (36 bp):
ATATTATAAAAAATAAAAATATGAAAAGAATAAGAG
Found at i:1891158 original size:19 final size:19
Alignment explanation
Indices: 1891108--1891149 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
1891098 TACATAAGTC
1891108 TAATAAAGAACAATTTAAT
1 TAATAAAGAACAATTTAAT
1891127 TAATAAAGAACAATTTAAT
1 TAATAAAGAACAATTTAAT
1891146 TAAT
1 TAAT
1891150 GCATAACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (19 bp):
TAATAAAGAACAATTTAAT
Found at i:1892466 original size:14 final size:14
Alignment explanation
Indices: 1892433--1892467 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
1892423 TATTTATATT
*
1892433 TTCTAATATTTTTA
1 TTCTAATATTTTAA
1892447 TCTCTAATATTTTAA
1 T-TCTAATATTTTAA
1892462 TTCTAA
1 TTCTAA
1892468 CATAATGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (14 bp):
TTCTAATATTTTAA
Found at i:1898510 original size:17 final size:16
Alignment explanation
Indices: 1898490--1898521 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1898480 ATGAGCTAAT
1898490 TTTTTTAATAAAAAAAC
1 TTTTTTAA-AAAAAAAC
1898507 TTTTTTAAAAAAAAA
1 TTTTTTAAAAAAAAA
1898522 TTAAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTTTTAAAAAAAAAC
Found at i:1899870 original size:44 final size:44
Alignment explanation
Indices: 1899751--1899956 Score: 306
Period size: 44 Copynumber: 4.7 Consensus size: 44
1899741 ATACCATGAG
*
1899751 TGGCACCTTTCTGCCCATAATGCACCGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
** *
1899795 TTACAAC-TTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* *
1899838 TGGCACCTTTCTACCAATAATGCACCATTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* *
1899882 TGGCACATTTCTGCCAATAATGCACTGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * *
1899926 TGACACCTTTCTTCCAATAATGAACCGTTAT
1 TGGCACCTTTCTGCCAATAATGCACCGTTAT
1899957 TATAAGCAAA
Statistics
Matches: 143, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
43 39 0.27
44 104 0.73
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (44 bp):
TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
Found at i:1899887 original size:25 final size:24
Alignment explanation
Indices: 1899815--1899887 Score: 57
Period size: 25 Copynumber: 3.2 Consensus size: 24
1899805 TGCCAATAAT
1899815 GCACCGTTATGCATTTTCATTTATG
1 GCACC-TTATGCATTTTCATTTATG
** * *
1899840 GCACCTT-T-C--TACCAATAAT-
1 GCACCTTATGCATTTTCATTTATG
1899859 GCACCATTATGCATTTTCATTTATG
1 GCACC-TTATGCATTTTCATTTATG
1899884 GCAC
1 GCAC
1899888 ATTTCTGCCA
Statistics
Matches: 34, Mismatches: 8, Indels: 12
0.63 0.15 0.22
Matches are distributed among these distances:
19 5 0.15
20 8 0.24
21 1 0.03
22 2 0.06
23 1 0.03
24 8 0.24
25 9 0.26
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (24 bp):
GCACCTTATGCATTTTCATTTATG
Found at i:1904350 original size:11 final size:11
Alignment explanation
Indices: 1904334--1904358 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1904324 AATCATCTCA
1904334 ATTAAACCCAT
1 ATTAAACCCAT
1904345 ATTAAACCCAT
1 ATTAAACCCAT
1904356 ATT
1 ATT
1904359 TCTTTCATAT
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:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (11 bp):
ATTAAACCCAT
Found at i:1904586 original size:44 final size:44
Alignment explanation
Indices: 1904532--1904752 Score: 291
Period size: 44 Copynumber: 5.0 Consensus size: 44
1904522 ATACCATGAG
*
1904532 TGGCACCTTTCTGCCCATAATGCACCATTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCATTATGCATTTTCATTTA
* * *
1904576 TGGCATCTTTCTACCAATAATGCACCGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCATTATGCATTTTCATTTA
* * * *
1904620 TGACACCTTTCTGTCAATAATGCACCTTTATGCTTTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCATTATGCATTTTCATTTA
** * * *
1904664 TTACACATTTCTGCCAATAATTCA-CAGTTATGAATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCA-TTATGCATTTTCATTTA
* *
1904708 TGGCACCTTTCTACCAATAATGCACCGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCATTATGCATTTTCATTTA
1904752 T
1 T
1904753 TTCGGTAACA
Statistics
Matches: 151, Mismatches: 24, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
43 1 0.01
44 149 0.99
45 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (44 bp):
TGGCACCTTTCTGCCAATAATGCACCATTATGCATTTTCATTTA
Found at i:1906807 original size:140 final size:140
Alignment explanation
Indices: 1906555--1906834 Score: 499
Period size: 140 Copynumber: 2.0 Consensus size: 140
1906545 TTACCATGTT
* *
1906555 GCGTCATCCTCTCTTTGCTGCCATATCCACCAGTTTCTTCCATGTCATTTCTCGTTGCTCTACAA
1 GCGTCATCCTCTCTTTGCGGCCACATCCACCAGTTTCTTCCATGTCATTTCTCGTTGCTCTACAA
1906620 CCTCTTGTCCTCTGGCTTCTTTCTCTGCAAACTCTCTCTGACACTCATCGAACAACTCTGCATCC
66 CCTCTTGTCCTCTGGCTTCTTTCTCTGCAAACTCTCTCTGACACTCATCGAACAACTCTGCATCC
1906685 ATTTCCATGA
131 ATTTCCATGA
* * *
1906695 GCGTCATCCTCTCTTTGCGGCCACGTCCGCCAGTTTCTTCCATGTCATTTCTCGTTGCTCTTCAA
1 GCGTCATCCTCTCTTTGCGGCCACATCCACCAGTTTCTTCCATGTCATTTCTCGTTGCTCTACAA
1906760 CCTCTTG-CGCTCTGGCTTCTTTCTCTGCAAACTCTCTCTGACACTCATCGAACAACTCTGCATC
66 CCTCTTGTC-CTCTGGCTTCTTTCTCTGCAAACTCTCTCTGACACTCATCGAACAACTCTGCATC
1906824 CATTTCCATGA
130 CATTTCCATGA
1906835 ACATCTTCTG
Statistics
Matches: 134, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
139 1 0.01
140 133 0.99
ACGTcount: A:0.16, C:0.35, G:0.13, T:0.36
Consensus pattern (140 bp):
GCGTCATCCTCTCTTTGCGGCCACATCCACCAGTTTCTTCCATGTCATTTCTCGTTGCTCTACAA
CCTCTTGTCCTCTGGCTTCTTTCTCTGCAAACTCTCTCTGACACTCATCGAACAACTCTGCATCC
ATTTCCATGA
Found at i:1907161 original size:26 final size:26
Alignment explanation
Indices: 1907132--1907182 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
1907122 CAGCACAATA
1907132 GAAAGCCTATTAATAAAGCGAGCTTT
1 GAAAGCCTATTAATAAAGCGAGCTTT
*
1907158 GAAAGCTTATTAATAAAGCGAGCTT
1 GAAAGCCTATTAATAAAGCGAGCTT
1907183 ATTAACAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (26 bp):
GAAAGCCTATTAATAAAGCGAGCTTT
Found at i:1907183 original size:17 final size:17
Alignment explanation
Indices: 1907161--1907195 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1907151 GAGCTTTGAA
*
1907161 AGCTTATTAATAAAGCG
1 AGCTTATTAACAAAGCG
1907178 AGCTTATTAACAAAGCG
1 AGCTTATTAACAAAGCG
1907195 A
1 A
1907196 ACAAAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (17 bp):
AGCTTATTAACAAAGCG
Found at i:1908746 original size:144 final size:144
Alignment explanation
Indices: 1908525--1908900 Score: 342
Period size: 144 Copynumber: 2.6 Consensus size: 144
1908515 ATCTAGCACA
* * * * * * * ** ***
1908525 TAGCAACAATTCAACATTCCAAAATCCAGAATACTAGTGGTTGCTAAAGATGACCGATTGCTCAA
1 TAGCAACAATTCAACATTCCACAATTCAAAATACAACTGGTTCCTAAAGGTGATTGACAACTCAA
* * ** * * * **
1908590 ACCATTAAAATTAGCATAATCAGAGTGACATATCCAAAAGACA-AGCCCTTAAATGTTCATATTA
66 GCTATTGGAATTAGCATAATCAGAGTGACATATCCAAAAGAAATAGACCTCAAA-GTTCATAAGA
*
1908654 TTTATCTTCACACCC
130 TTTATCATCACACCC
* * * *
1908669 TAGCAACAATTCAACTTTCCACAATTGAGAATACAACTGGTTCCTAAAGGTGATTGACTACT-AT
1 TAGCAACAATTCAACATTCCACAATTCAAAATACAACTGGTTCCTAAAGGTGATTGACAACTCA-
* ** * *
1908733 AGCTATTGGAATTAGCATACTTGGAGTGACATATTCAAAAGAAATATACCTCAAAGTTCATAAGA
65 AGCTATTGGAATTAGCATAATCAGAGTGACATATCCAAAAGAAATAGACCTCAAAGTTCATAAGA
*
1908798 TTTATCATCACATCC
130 TTTATCATCACACCC
* * * * * * * *
1908813 TAGCAACAATTCAAGATTCGACAGTTCAAAATGCCATTGGTTCTTAACGGTGATTGACAACTCAA
1 TAGCAACAATTCAACATTCCACAATTCAAAATACAACTGGTTCCTAAAGGTGATTGACAACTCAA
* *
1908878 GCTATTGGAATTTGCAAAATCAG
66 GCTATTGGAATTAGCATAATCAG
1908901 TGAAGCATTC
Statistics
Matches: 184, Mismatches: 45, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
143 1 0.01
144 175 0.95
145 8 0.04
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (144 bp):
TAGCAACAATTCAACATTCCACAATTCAAAATACAACTGGTTCCTAAAGGTGATTGACAACTCAA
GCTATTGGAATTAGCATAATCAGAGTGACATATCCAAAAGAAATAGACCTCAAAGTTCATAAGAT
TTATCATCACACCC
Found at i:1910995 original size:38 final size:38
Alignment explanation
Indices: 1910951--1911025 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
1910941 TCATTAAACA
*
1910951 TTTTTAT-ATTTTCAATTTTATTAAA-AAAATTATATAAT
1 TTTTTATGAATTT-AATTTTATTAAAGAAAA-TATATAAT
*
1910989 TTTTTATGAATTTAATTTTTTTAAAGAAAATATATAA
1 TTTTTATGAATTTAATTTTATTAAAGAAAATATATAA
1911026 ATATTTTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 25 0.76
39 8 0.24
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (38 bp):
TTTTTATGAATTTAATTTTATTAAAGAAAATATATAAT
Found at i:1911555 original size:18 final size:18
Alignment explanation
Indices: 1911532--1911582 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
1911522 ATTTTGATTC
1911532 TTTTCCTTTGCTTTTAAT
1 TTTTCCTTTGCTTTTAAT
1911550 TTTTCCTTTGCTTTTAAT
1 TTTTCCTTTGCTTTTAAT
*
1911568 TTTTCTTTTGCTTTT
1 TTTTCCTTTGCTTTT
1911583 GATTCTTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.08, C:0.16, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTTCCTTTGCTTTTAAT
Found at i:1914552 original size:15 final size:15
Alignment explanation
Indices: 1914532--1914562 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1914522 CAAAAAATAG
1914532 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
1914547 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
1914562 A
1 A
1914563 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:1914758 original size:20 final size:20
Alignment explanation
Indices: 1914722--1914759 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1914712 ATCCTATTCC
**
1914722 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
1914742 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
1914760 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:1921013 original size:19 final size:21
Alignment explanation
Indices: 1920970--1921015 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
1920960 TAGAAGGTAA
1920970 AATTATTT-TTTTATCATATT
1 AATTATTTATTTTATCATATT
1920990 -A-TATTTATTTTAT-AT-TT
1 AATTATTTATTTTATCATATT
1921007 AATTATTTA
1 AATTATTTA
1921016 ACCAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 2 0.09
18 8 0.35
19 13 0.57
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTATTTATTTTATCATATT
Found at i:1924814 original size:21 final size:22
Alignment explanation
Indices: 1924788--1924883 Score: 76
Period size: 21 Copynumber: 4.5 Consensus size: 22
1924778 ACCCATCTAG
1924788 GGGTATCGATACAT-TCAAAGA
1 GGGTATCGATACATGTCAAAGA
* *
1924809 GGGTATTGATACATGTTAAAGA
1 GGGTATCGATACATGTCAAAGA
* * * *
1924831 -AGTATTGATACCTAG-C-AAGG
1 GGGTATCGATACAT-GTCAAAGA
**
1924851 GGGTATCGATACATGTTTAAG-
1 GGGTATCGATACATGTCAAAGA
1924872 GGGTATCGATAC
1 GGGTATCGATAC
1924884 TTGCTGCACA
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
20 4 0.07
21 46 0.77
22 10 0.17
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.28
Consensus pattern (22 bp):
GGGTATCGATACATGTCAAAGA
Found at i:1924883 original size:42 final size:42
Alignment explanation
Indices: 1924786--1924883 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
1924776 GTACCCATCT
* *
1924786 AGGGGTATCGATACATTCAAAGAGGGTATTGATACATGTTAA
1 AGGGGTATCGATACATGCAAAGAGGGTATCGATACATGTTAA
** * * * *
1924828 AGAAGTATTGATACCTAGC-AAGGGGGTATCGATACATGTTTA
1 AGGGGTATCGATACAT-GCAAAGAGGGTATCGATACATGTTAA
1924870 AGGGGTATCGATAC
1 AGGGGTATCGATAC
1924884 TTGCTGCACA
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.28
Consensus pattern (42 bp):
AGGGGTATCGATACATGCAAAGAGGGTATCGATACATGTTAA
Found at i:1926863 original size:12 final size:12
Alignment explanation
Indices: 1926846--1926870 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1926836 ATGATGGTTC
1926846 TCCAACGTCATG
1 TCCAACGTCATG
1926858 TCCAACGTCATG
1 TCCAACGTCATG
1926870 T
1 T
1926871 GTATTTACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (12 bp):
TCCAACGTCATG
Found at i:1932716 original size:113 final size:112
Alignment explanation
Indices: 1932516--1932743 Score: 350
Period size: 113 Copynumber: 2.0 Consensus size: 112
1932506 TACAATCTTA
1932516 ATATTTAAATTACCTCAATAATAACAGGAAGACTAATGTGTTTTTCACGATCAAACATAAAAAAG
1 ATATTTAAATTACCTCAATAATAACAGGAAGACTAATGTGTTTTTCACGATCAAACATAAAAAAG
*
1932581 GACATGGGATACCACACCCATGATTGCAGAAGAAGGAGATATGTGTCG
66 GACATGGGATACCACACACATGATTGCAGAA-AAGGAGATATGTGTCG
* * *
1932629 ATATTTAAATTACCTCAATAATAACAGGAATACTAATGTG-TTTTCACTATCGAACATAAAAAAA
1 ATATTTAAATTACCTCAATAATAACAGGAAGACTAATGTGTTTTTCACGATCAAACAT-AAAAAA
* * * * *
1932693 TGATATGTGATACCACACACATGATTGTAGAAAAGGAGATATTTGTCG
65 GGACATGGGATACCACACACATGATTGCAGAAAAGGAGATATGTGTCG
1932741 ATA
1 ATA
1932744 GCTTTTTTTT
Statistics
Matches: 105, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
112 33 0.31
113 72 0.69
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (112 bp):
ATATTTAAATTACCTCAATAATAACAGGAAGACTAATGTGTTTTTCACGATCAAACATAAAAAAG
GACATGGGATACCACACACATGATTGCAGAAAAGGAGATATGTGTCG
Found at i:1934164 original size:14 final size:13
Alignment explanation
Indices: 1934137--1934161 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1934127 ACCTGGTTAG
1934137 TTTTTATTTTTTA
1 TTTTTATTTTTTA
1934150 TTTTTATTTTTT
1 TTTTTATTTTTT
1934162 TATATATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:1934362 original size:15 final size:15
Alignment explanation
Indices: 1934342--1934433 Score: 94
Period size: 15 Copynumber: 5.9 Consensus size: 15
1934332 AAAAACCGGG
1934342 TATCGGGTACCCGAT
1 TATCGGGTACCCGAT
*
1934357 TATCGGGTACCCGAAA
1 TATCGGGTACCCG-AT
*
1934373 AATCTGGGTACCCGAT
1 TATC-GGGTACCCGAT
* *
1934389 TACCGGGTACCCGCAA
1 TATCGGGTACCCG-AT
*
1934405 AATCCGGGTACCCGAT
1 TAT-CGGGTACCCGAT
*
1934421 TACCGGGTACCCG
1 TATCGGGTACCCG
1934434 TAACATCCGG
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
15 32 0.52
16 11 0.18
17 19 0.31
ACGTcount: A:0.24, C:0.30, G:0.26, T:0.20
Consensus pattern (15 bp):
TATCGGGTACCCGAT
Done.