Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 13 of 210
Found at i:4518600 original size:4 final size:4
Alignment explanation
Indices: 4518591--4518661 Score: 117
Period size: 4 Copynumber: 18.0 Consensus size: 4
4518581 ATTTTGTTAT
* *
4518591 ATAC ATAC ATAC ATAC ATGC AT-G ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
4518638 ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC
4518662 GGCCCGCCCG
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
3 2 0.03
4 61 0.97
ACGTcount: A:0.48, C:0.24, G:0.03, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:4518777 original size:4 final size:4
Alignment explanation
Indices: 4518768--4518832 Score: 112
Period size: 4 Copynumber: 16.2 Consensus size: 4
4518758 TAATTTTCAT
*
4518768 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ACAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
4518816 ACAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC A
4518833 CANNNNNNNN
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 57 1.00
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.22
Consensus pattern (4 bp):
ATAC
Found at i:4518947 original size:8 final size:8
Alignment explanation
Indices: 4518929--4519618 Score: 1042
Period size: 8 Copynumber: 86.5 Consensus size: 8
4518919 NNNNNNNNNG
*
4518929 ACATGCAT
1 ACATACAT
*
4518937 ACAGACAT
1 ACATACAT
*
4518945 ACAGACAT
1 ACATACAT
*
4518953 ACAGACAT
1 ACATACAT
*
4518961 ACATACAG
1 ACATACAT
* *
4518969 ATATACAG
1 ACATACAT
*
4518977 ACATACAG
1 ACATACAT
*
4518985 ACATACAG
1 ACATACAT
4518993 ACATACAT
1 ACATACAT
*
4519001 ACAGACAT
1 ACATACAT
*
4519009 ACAGACAT
1 ACATACAT
*
4519017 ACAGACAT
1 ACATACAT
*
4519025 ACAGACAT
1 ACATACAT
4519033 ACATACAT
1 ACATACAT
*
4519041 ACATACAG
1 ACATACAT
* *
4519049 ACATAGAG
1 ACATACAT
4519057 ACATACAT
1 ACATACAT
*
4519065 ACATACAG
1 ACATACAT
*
4519073 ACATACAG
1 ACATACAT
4519081 ACATACAT
1 ACATACAT
4519089 ACATACAT
1 ACATACAT
4519097 ACATACAT
1 ACATACAT
4519105 ACATACAT
1 ACATACAT
*
4519113 AC--ACAG
1 ACATACAT
*
4519119 ACATACAG
1 ACATACAT
4519127 ACATACAT
1 ACATACAT
4519135 ACATACAT
1 ACATACAT
4519143 ACATACAT
1 ACATACAT
4519151 ACATACAT
1 ACATACAT
4519159 ACATACAT
1 ACATACAT
*
4519167 ACATAAAT
1 ACATACAT
4519175 ACATACAT
1 ACATACAT
*
4519183 ACAGACAT
1 ACATACAT
*
4519191 ACATACAA
1 ACATACAT
4519199 ACATACAT
1 ACATACAT
*
4519207 ACATACAG
1 ACATACAT
4519215 ACATACAT
1 ACATACAT
4519223 ACATACAT
1 ACATACAT
*
4519231 ACATACAG
1 ACATACAT
4519239 ACATACAT
1 ACATACAT
4519247 ACATACAT
1 ACATACAT
*
4519255 ACATACAG
1 ACATACAT
4519263 ACATACAT
1 ACATACAT
4519271 ACATACAT
1 ACATACAT
*
4519279 ACATACAG
1 ACATACAT
4519287 ACATACAT
1 ACATACAT
4519295 ACATACAT
1 ACATACAT
*
4519303 ACATACAG
1 ACATACAT
4519311 ACATACAT
1 ACATACAT
4519319 ACATACAT
1 ACATACAT
*
4519327 ACATACAG
1 ACATACAT
4519335 ACATACAT
1 ACATACAT
4519343 ACATACAT
1 ACATACAT
*
4519351 ACATACAG
1 ACATACAT
4519359 ACATACAT
1 ACATACAT
4519367 ACATACAT
1 ACATACAT
*
4519375 ACATACAG
1 ACATACAT
4519383 ACATACAT
1 ACATACAT
4519391 ACATACAT
1 ACATACAT
4519399 ACATACAT
1 ACATACAT
*
4519407 ACATACAC
1 ACATACAT
*
4519415 ACATACAC
1 ACATACAT
*
4519423 ACATACAC
1 ACATACAT
4519431 ACATACAT
1 ACATACAT
*
4519439 ACATACAC
1 ACATACAT
4519447 ACATACAT
1 ACATACAT
4519455 ACATACAT
1 ACATACAT
4519463 ACATACAT
1 ACATACAT
4519471 ACATACAT
1 ACATACAT
4519479 ACATACAT
1 ACATACAT
4519487 ACATACAT
1 ACATACAT
4519495 ACATACAT
1 ACATACAT
4519503 ACATACAT
1 ACATACAT
4519511 ACATACAT
1 ACATACAT
4519519 ACATACAT
1 ACATACAT
4519527 ACATACAT
1 ACATACAT
4519535 ACATACAT
1 ACATACAT
4519543 ACATACAT
1 ACATACAT
4519551 ACATACAT
1 ACATACAT
4519559 ACATACAT
1 ACATACAT
4519567 ACATACAT
1 ACATACAT
4519575 ACATACAT
1 ACATACAT
4519583 ACATACAT
1 ACATACAT
4519591 ACATACAT
1 ACATACAT
*
4519599 GCATACAT
1 ACATACAT
4519607 ACATACAT
1 ACATACAT
4519615 ACAT
1 ACAT
4519619 CTTTTATAAT
Statistics
Matches: 635, Mismatches: 45, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
6 5 0.01
8 630 0.99
ACGTcount: A:0.50, C:0.25, G:0.04, T:0.21
Consensus pattern (8 bp):
ACATACAT
Found at i:4525134 original size:27 final size:27
Alignment explanation
Indices: 4525103--4525191 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
4525093 ACACGACTTT
*
4525103 CATTTCTTAGATCACCACAAAGGCTTC
1 CATTTCTTAGATTACCACAAAGGCTTC
* * * *
4525130 CATTTCTTAAATTTCCACAAAAGCTTT
1 CATTTCTTAGATTACCACAAAGGCTTC
* * *
4525157 CATTTCTTGGATTGCCACAAAGACTTC
1 CATTTCTTAGATTACCACAAAGGCTTC
4525184 CATTTCTT
1 CATTTCTT
4525192 TTGGCATGTT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.37
Consensus pattern (27 bp):
CATTTCTTAGATTACCACAAAGGCTTC
Found at i:4527355 original size:12 final size:12
Alignment explanation
Indices: 4527338--4527370 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
4527328 GTCTCAGCCT
4527338 GTGCCCGTGCTC
1 GTGCCCGTGCTC
4527350 GTGCCCGTGCTC
1 GTGCCCGTGCTC
4527362 GTGCCCGTG
1 GTGCCCGTG
4527371 TAACTCCCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.39, G:0.36, T:0.24
Consensus pattern (12 bp):
GTGCCCGTGCTC
Found at i:4528494 original size:25 final size:24
Alignment explanation
Indices: 4528395--4528499 Score: 104
Period size: 25 Copynumber: 4.2 Consensus size: 24
4528385 ATTCATGTAT
* *
4528395 GCTCATATGAGCTGTA-AACGGTAA
1 GCTCATTTGAGCTGAATAACGG-AA
*
4528419 GCTCCTTTGAGCTGAATAACGGAAA
1 GCTCATTTGAGCTGAATAACGG-AA
* *
4528444 GCTCATGTGAGTTGAATAACGAGAA
1 GCTCATTTGAGCTGAATAACG-GAA
* *
4528469 GCTCATTTGAGCTGAGTATCAGGAA
1 GCTCATTTGAGCTGAATAAC-GGAA
4528494 GCTCAT
1 GCTCAT
4528500 AAAAGCTGGA
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
24 13 0.19
25 52 0.78
26 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (24 bp):
GCTCATTTGAGCTGAATAACGGAA
Found at i:4544739 original size:29 final size:29
Alignment explanation
Indices: 4544606--4544951 Score: 199
Period size: 29 Copynumber: 11.9 Consensus size: 29
4544596 GTGTGCTAAA
* * * *
4544606 CGATGGTCATAACCGTCCTTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
** **
4544635 CGATGGTCGAAACCATCCCTTTTTGTAGTT
1 CGATGGTCGTCACCATCCCTTTTCATA-TT
4544665 -GATGGTCGTCACCATCCCTTTTCAT-TAT
1 CGATGGTCGTCACCATCCCTTTTCATAT-T
* * * * * *
4544693 CAATAGCCG-AAGCTATCCCTTTTCACATT
1 CGATGGTCGTCA-CCATCCCTTTTCATATT
**
4544722 CGATGGTCGTCACCATCCCTTTTTGT-TGT
1 CGATGGTCGTCACCATCCCTTTTCATAT-T
* * * *
4544751 CGATTGTCGTCACCGTCCCATTTCATAAT
1 CGATGGTCGTCACCATCCCTTTTCATATT
* * * *
4544780 CGATAG-C-TGAAGCTATCCCTTTTCACATT
1 CGATGGTCGT-CA-CCATCCCTTTTCATATT
**
4544809 CGATGGTCGTCACCATCCCTTTTTGT-TGT
1 CGATGGTCGTCACCATCCCTTTTCATAT-T
* * * *
4544838 CGATTGTCGTCACCGTCCCATTTCATAAT
1 CGATGGTCGTCACCATCCCTTTTCATATT
* * * *
4544867 CGATAG-C-TGAAGCTATCCCTTTTCACATT
1 CGATGGTCGT-CA-CCATCCCTTTTCATATT
*
4544896 CGATGGTCGTCACCATCCCTTTTCGT-TGT
1 CGATGGTCGTCACCATCCCTTTTCATAT-T
* *
4544925 CGATGGTCGTCACCATCGCATTTCATA
1 CGATGGTCGTCACCATCCCTTTTCATA
4544952 ATTGATAGCC
Statistics
Matches: 233, Mismatches: 64, Indels: 39
0.69 0.19 0.12
Matches are distributed among these distances:
27 3 0.01
28 9 0.04
29 211 0.91
30 8 0.03
31 2 0.01
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.36
Consensus pattern (29 bp):
CGATGGTCGTCACCATCCCTTTTCATATT
Found at i:4544987 original size:29 final size:29
Alignment explanation
Indices: 4544945--4545066 Score: 181
Period size: 29 Copynumber: 4.2 Consensus size: 29
4544935 CACCATCGCA
* * * *
4544945 TTTCATAATTGATAGCCGGAGCTATTCCT
1 TTTCATATTTGATAACCGAAGCTATCCCT
*
4544974 TTTCATATTTGATAGCCGAAGCTATCCCT
1 TTTCATATTTGATAACCGAAGCTATCCCT
* *
4545003 TTTCATATTCGATAACTGAAGCTATCCCT
1 TTTCATATTTGATAACCGAAGCTATCCCT
4545032 TTTCATATTTGATAACCGAAGCTATCCCT
1 TTTCATATTTGATAACCGAAGCTATCCCT
4545061 TTTCAT
1 TTTCAT
4545067 TGGTCGATGA
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 85 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.39
Consensus pattern (29 bp):
TTTCATATTTGATAACCGAAGCTATCCCT
Found at i:4545015 original size:87 final size:87
Alignment explanation
Indices: 4544625--4544978 Score: 537
Period size: 87 Copynumber: 4.1 Consensus size: 87
4544615 TAACCGTCCT
* ** * * *
4544625 TTTTCATATTCGATGGTCGAAACCATCCCTTTTTGTAGTTGATGGTCGTCACCATCCCTTTTCAT
1 TTTTCACATTCGATGGTCGTCACCATCCCTTTTTGTTGTCGATGGTCGTCACCATCCCATTTCAT
* *
4544690 TATCAATAGCCGAAGCTATCCC
66 AATCGATAGCCGAAGCTATCCC
* *
4544712 TTTTCACATTCGATGGTCGTCACCATCCCTTTTTGTTGTCGATTGTCGTCACCGTCCCATTTCAT
1 TTTTCACATTCGATGGTCGTCACCATCCCTTTTTGTTGTCGATGGTCGTCACCATCCCATTTCAT
*
4544777 AATCGATAGCTGAAGCTATCCC
66 AATCGATAGCCGAAGCTATCCC
* *
4544799 TTTTCACATTCGATGGTCGTCACCATCCCTTTTTGTTGTCGATTGTCGTCACCGTCCCATTTCAT
1 TTTTCACATTCGATGGTCGTCACCATCCCTTTTTGTTGTCGATGGTCGTCACCATCCCATTTCAT
*
4544864 AATCGATAGCTGAAGCTATCCC
66 AATCGATAGCCGAAGCTATCCC
* *
4544886 TTTTCACATTCGATGGTCGTCACCATCCCTTTTCGTTGTCGATGGTCGTCACCATCGCATTTCAT
1 TTTTCACATTCGATGGTCGTCACCATCCCTTTTTGTTGTCGATGGTCGTCACCATCCCATTTCAT
* * *
4544951 AATTGATAGCCGGAGCTATTCC
66 AATCGATAGCCGAAGCTATCCC
4544973 TTTTCA
1 TTTTCA
4544979 TATTTGATAG
Statistics
Matches: 248, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 248 1.00
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.37
Consensus pattern (87 bp):
TTTTCACATTCGATGGTCGTCACCATCCCTTTTTGTTGTCGATGGTCGTCACCATCCCATTTCAT
AATCGATAGCCGAAGCTATCCC
Found at i:4550263 original size:29 final size:29
Alignment explanation
Indices: 4550230--4550475 Score: 155
Period size: 29 Copynumber: 8.4 Consensus size: 29
4550220 GTGTGCTAAA
*
4550230 CGATGGTCTCACCTGTCCCTTTTCATATT
1 CGATGGTCTCACCTATCCCTTTTCATATT
* * ** **
4550259 CGATGATC-AAAATCATAACTTTTCATATT
1 CGATGGTCTCACCT-ATCCCTTTTCATATT
* ** * *
4550288 CCATGGTCGAAACTATCCCTTTTCATTAAT
1 CGATGGTCTCACCTATCCCTTTTCA-TATT
4550318 CGATGGTCATCACC-ATCCCTTTTCATAGTT
1 CGATGGTC-TCACCTATCCCTTTTCATA-TT
*
4550348 -GATGGTCATCACC-ATTCCTTTTCAT-TAT
1 CGATGGTC-TCACCTATCCCTTTTCATAT-T
* ** *
4550376 CGATAGTCAAAGCTATCCCTTTTCATATT
1 CGATGGTCTCACCTATCCCTTTTCATATT
* * ** *
4550405 CGATAGCCGAAGCTATCCCTTTTCATATT
1 CGATGGTCTCACCTATCCCTTTTCATATT
*
4550434 CGATGGTCGTCACC-ATTCCTTTTCATTATT
1 CGATGGTC-TCACCTATCCCTTTTCA-TATT
4550464 -GATGGTCGTCAC
1 CGATGGTC-TCAC
4550476 TGTACCGTTT
Statistics
Matches: 174, Mismatches: 32, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
27 1 0.01
28 5 0.03
29 133 0.76
30 33 0.19
31 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (29 bp):
CGATGGTCTCACCTATCCCTTTTCATATT
Found at i:4550368 original size:117 final size:116
Alignment explanation
Indices: 4550231--4550543 Score: 304
Period size: 117 Copynumber: 2.7 Consensus size: 116
4550221 TGTGCTAAAC
* *
4550231 GATGGTCTCACCTGTCCCTTTTCA-TATTCGAT-GATCAAA-ATCATAACTTTTCATATTCCATG
1 GATGGTCTCACCTGTCCCTTTTCATTA-TCGATAG-TCAAAGCT-ATAACTTTTCATATTCCATA
*
4550293 GTCGAAACTATCCCTTTTCATTAATCGATGGTCATCACCATCCCTTTTCA-TAGTT
63 GCCGAAACTATCCCTTTTCA-TAATCGATGGTCATCACCATCCCTTTTCATTA-TT
** *
4550348 GATGGTCATCACCAT-T-CCTTTTCATTATCGATAGTCAAAGCTATCCCTTTTCATATTCGATAG
1 GATGGTC-TCACC-TGTCCCTTTTCATTATCGATAGTCAAAGCTATAACTTTTCATATTCCATAG
* * * *
4550411 CCGAAGCTATCCCTTTTCATATTCGATGGTCGTCACCATTCCTTTTCATTATT
64 CCGAAACTATCCCTTTTCATAATCGATGGTCATCACCATCCCTTTTCATTATT
* * * ** ** *
4550464 GATGGTCGTCA-CTGTACCGTTTCATAATCGATA-TCCGGAGCTA-CCCTTTTCATATTCGATAG
1 GATGGTC-TCACCTGTCCCTTTTCATTATCGATAGT-CAAAGCTATAACTTTTCATATTCCATAG
4550526 CC-AAAGCTATCCCTTTTC
64 CCGAAA-CTATCCCTTTTC
4550544 TTATTTGATA
Statistics
Matches: 170, Mismatches: 16, Indels: 22
0.82 0.08 0.11
Matches are distributed among these distances:
114 3 0.02
115 36 0.21
116 59 0.35
117 61 0.36
118 10 0.06
119 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (116 bp):
GATGGTCTCACCTGTCCCTTTTCATTATCGATAGTCAAAGCTATAACTTTTCATATTCCATAGCC
GAAACTATCCCTTTTCATAATCGATGGTCATCACCATCCCTTTTCATTATT
Found at i:4550426 original size:58 final size:57
Alignment explanation
Indices: 4550277--4550574 Score: 166
Period size: 58 Copynumber: 5.1 Consensus size: 57
4550267 AAAATCATAA
* * * *
4550277 CTTTTCATATTCCATGGTCGAAACTATCCCTTTTCATTAATCGATGGTCATCA-CCATCC
1 CTTTTCATATTCGATGGTCG-AACTATCCCTTTTCATT-ATCGATAGTCA-AAGCTATCC
* *
4550336 CTTTTCATAGTT-GATGGTC-ATCACCATTCCTTTTCATTATCGATAGTCAAAGCTATCC
1 CTTTTCATA-TTCGATGGTCGA--ACTATCCCTTTTCATTATCGATAGTCAAAGCTATCC
* * * ** * *
4550394 CTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCA-TATTCGATGGTCGTCA-CCATTC
1 CTTTTCATATTCGATGGTCGAA-CTATCCCTTTTCATTA-TCGATAGTC-AAAGCTATCC
* * * * * **
4550452 CTTTTCATTATT-GATGGTCGTCACTGTACCGTTTCATAATCGATA-TCCGGAGCTA-CC
1 CTTTTCA-TATTCGATGGTCG-AACTATCCCTTTTCATTATCGATAGT-CAAAGCTATCC
* * * * *
4550509 CTTTTCATATTCGATAGCCAAAGCTATCCCTTTTC-TTATTTGATAG-CTGAAGCTATCC
1 CTTTTCATATTCGATGGTCGAA-CTATCCCTTTTCATTA-TCGATAGTC-AAAGCTATCC
4550567 CTTTTCAT
1 CTTTTCAT
4550575 TGGTCGATGA
Statistics
Matches: 182, Mismatches: 37, Indels: 41
0.70 0.14 0.16
Matches are distributed among these distances:
56 8 0.04
57 42 0.23
58 93 0.51
59 37 0.20
60 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (57 bp):
CTTTTCATATTCGATGGTCGAACTATCCCTTTTCATTATCGATAGTCAAAGCTATCC
Found at i:4550439 original size:87 final size:87
Alignment explanation
Indices: 4550245--4550523 Score: 246
Period size: 87 Copynumber: 3.2 Consensus size: 87
4550235 GTCTCACCTG
* ** * ** * * * *
4550245 TCCCTTTTCATATTCGATGATCAAAATCATAACTTTTCA-TATTCCATGGTCGAAACTATCCCTT
1 TCCCTTTTCATATTCGATGGTCATCACCATTCCTTTTCATTA-TCGATAGTCGAAACTATACCGT
* * *
4550309 TTCATTAATCGATGGTC-ATCA-CCA
65 TTCA-TAATCGATAGCCGA--AGCTA
* *
4550333 TCCCTTTTCATAGTT-GATGGTCATCACCATTCCTTTTCATTATCGATAGTC-AAAGCTATCCCT
1 TCCCTTTTCATA-TTCGATGGTCATCACCATTCCTTTTCATTATCGATAGTCGAAA-CTATACCG
*
4550396 TTTCATATTCGATAGCCGAAGCTA
64 TTTCATAATCGATAGCCGAAGCTA
* * * ** *
4550420 TCCCTTTTCATATTCGATGGTCGTCACCATTCCTTTTCATTATTGATGGTCGTCACTGTACCGTT
1 TCCCTTTTCATATTCGATGGTCATCACCATTCCTTTTCATTATCGATAGTCGAAACTATACCGTT
* *
4550485 TCATAATCGATATCCGGAGCTA
66 TCATAATCGATAGCCGAAGCTA
4550507 -CCCTTTTCATATTCGAT
1 TCCCTTTTCATATTCGAT
4550524 AGCCAAAGCT
Statistics
Matches: 161, Mismatches: 23, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
86 20 0.12
87 85 0.53
88 52 0.32
89 4 0.02
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (87 bp):
TCCCTTTTCATATTCGATGGTCATCACCATTCCTTTTCATTATCGATAGTCGAAACTATACCGTT
TCATAATCGATAGCCGAAGCTA
Found at i:4550548 original size:29 final size:29
Alignment explanation
Indices: 4550364--4550574 Score: 144
Period size: 29 Copynumber: 7.3 Consensus size: 29
4550354 CATCACCATT
*
4550364 CCTTTTCAT-TATCGATAGTCAAAGCTATC
1 CCTTTTCATAT-TCGATAGCCAAAGCTATC
*
4550393 CCTTTTCATATTCGATAGCCGAAGCTATC
1 CCTTTTCATATTCGATAGCCAAAGCTATC
* *** * *
4550422 CCTTTTCATATTCGATGGTCGTCA-CCATT
1 CCTTTTCATATTCGATAG-CCAAAGCTATC
* *** * *
4550451 CCTTTTCATTATT-GATGGTCGTCA-CTGTA
1 CCTTTTCA-TATTCGATAG-CCAAAGCTATC
* * * **
4550480 CCGTTTCATAATCGATATCCGGAGCTA-C
1 CCTTTTCATATTCGATAGCCAAAGCTATC
4550508 CCTTTTCATATTCGATAGCCAAAGCTATC
1 CCTTTTCATATTCGATAGCCAAAGCTATC
* * **
4550537 CCTTTTCTTATTTGATAGCTGAAGCTATC
1 CCTTTTCATATTCGATAGCCAAAGCTATC
4550566 CCTTTTCAT
1 CCTTTTCAT
4550575 TGGTCGATGA
Statistics
Matches: 146, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
28 27 0.18
29 112 0.77
30 7 0.05
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (29 bp):
CCTTTTCATATTCGATAGCCAAAGCTATC
Found at i:4561291 original size:16 final size:17
Alignment explanation
Indices: 4561270--4561302 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4561260 TTGAGCAAGT
*
4561270 ATAATG-TATTTGGTTA
1 ATAATGTTATTTAGTTA
4561286 ATAATGTTATTTAGTTA
1 ATAATGTTATTTAGTTA
4561303 TGAAATGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (17 bp):
ATAATGTTATTTAGTTA
Found at i:4567227 original size:41 final size:41
Alignment explanation
Indices: 4567154--4567262 Score: 112
Period size: 41 Copynumber: 2.7 Consensus size: 41
4567144 TTCAGGCTTA
* * ** * * *
4567154 AAGTCTAGCAGGCTTAAGGCCGGTGATGTAATTTAGACTTT
1 AAGTCCAGCAGGCTTAATGCCGGTGAAATAATTCAAACTCT
* *
4567195 ATGTCCAGCAGGCTTAATGCTGGTGAAATAATTCAAACTCT
1 AAGTCCAGCAGGCTTAATGCCGGTGAAATAATTCAAACTCT
*
4567236 AAGTCTAGCAGGC-TAATTGCCGGTGAA
1 AAGTCCAGCAGGCTTAA-TGCCGGTGAA
4567263 TTGAATCGGG
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
40 3 0.05
41 52 0.95
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (41 bp):
AAGTCCAGCAGGCTTAATGCCGGTGAAATAATTCAAACTCT
Found at i:4576859 original size:57 final size:57
Alignment explanation
Indices: 4576662--4577138 Score: 417
Period size: 57 Copynumber: 8.5 Consensus size: 57
4576652 ATGTAGGCAG
* * * * * * *
4576662 CCTTTTAATAGAGTTTGCCAC-AAGGCATTCATTTAACTGAGATAGCAACAAAGGCAT
1 CCTTTTAACAGAGATAGCCACAAAGGC-TTCCTTTAACAGAGATAGCCACAAAGGCTT
* * ** * * * *
4576719 CCTTTTAACAGAGATAGCAATAAAAACGTCCTTTTAACAGAGATAGACATAAAGGCAT
1 CCTTTTAACAGAGATAGCCACAAAGGCTTCC-TTTAACAGAGATAGCCACAAAGGCTT
* * * * *
4576777 CCTTTTAATAGAGATA-CCACAAAGGCGTCCTTTAACAGAGATCGCCATAAAGACTT
1 CCTTTTAACAGAGATAGCCACAAAGGCTTCCTTTAACAGAGATAGCCACAAAGGCTT
* ** * *
4576833 CCTTTTAACAGAGATCGCCACAAAGGCTTCCTTTTAATGGTGATCA-CCACAAAAGCTT
1 CCTTTTAACAGAGATAGCCACAAAGGCTTCC-TTTAACAGAGAT-AGCCACAAAGGCTT
* * * ** * * *
4576891 CATTTTAACAGAGATCGTCGGAAAGG-GTCCTTTGAATAGAGATAACCACAAAGGCTT
1 CCTTTTAACAGAGATAGCCACAAAGGCTTCCTTT-AACAGAGATAGCCACAAAGGCTT
* *
4576948 CC-TTT--CAGAGATAGCCACAAAGGCTTCCTTTTAACAGAGTTCA-CCGCAAAGGCTT
1 CCTTTTAACAGAGATAGCCACAAAGGCTTCC-TTTAACAGAGAT-AGCCACAAAGGCTT
*
4577003 CC-TTTAACAGAGATAGCCACAAAGGTTTCCTTT--CAGAGATAGCCACAAAGGCTT
1 CCTTTTAACAGAGATAGCCACAAAGGCTTCCTTTAACAGAGATAGCCACAAAGGCTT
* * *
4577057 CCTTTTAACAGAGTTCA-CCGCAAAGGCTTCCTTTAACAGTGATAGCCACAAAGGCTT
1 CCTTTTAACAGAGAT-AGCCACAAAGGCTTCCTTTAACAGAGATAGCCACAAAGGCTT
*
4577114 CC-TTT--CAGAGATAACCACAAAGGCT
1 CCTTTTAACAGAGATAGCCACAAAGGCT
4577139 CACTTTTATG
Statistics
Matches: 344, Mismatches: 58, Indels: 39
0.78 0.13 0.09
Matches are distributed among these distances:
53 2 0.01
54 49 0.14
55 52 0.15
56 54 0.16
57 107 0.31
58 80 0.23
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (57 bp):
CCTTTTAACAGAGATAGCCACAAAGGCTTCCTTTAACAGAGATAGCCACAAAGGCTT
Found at i:4576965 original size:26 final size:27
Alignment explanation
Indices: 4576678--4577138 Score: 294
Period size: 29 Copynumber: 16.4 Consensus size: 27
4576668 AATAGAGTTT
* *
4576678 GCCAC-AAGGCATTCATTTAACTGAGATA
1 GCCACAAAGGC-TTCCTTT-ACAGAGATA
* *
4576706 GCAACAAAGGCATCCTTTTAACAGAGATA
1 GCCACAAAGGCTTCC-TTT-ACAGAGATA
* * ** *
4576735 GCAATAAAAACGTCCTTTTAACAGAGATA
1 GCCACAAAGGCTTCC-TTT-ACAGAGATA
* * * *
4576764 GACATAAAGGCATCCTTTTAATAGAGATA
1 GCCACAAAGGCTTCC-TTT-ACAGAGATA
* *
4576793 -CCACAAAGGCGTCCTTTAACAGAGATC
1 GCCACAAAGGCTTCCTTT-ACAGAGATA
* * *
4576820 GCCATAAAGACTTCCTTTTAACAGAGATC
1 GCCACAAAGGCTTCC-TTT-ACAGAGATA
*
4576849 GCCACAAAGGCTTCCTTTTA-ATGGTGATCA
1 GCCACAAAGGCTTCC-TTTACA--GAGAT-A
* * *
4576879 -CCACAAAAGCTTCATTTTAACAGAGATC
1 GCCACAAAGGCTTC-CTTT-ACAGAGATA
* ** * *
4576907 GTCGGAAAGG-GTCCTTTGAATAGAGATA
1 GCCACAAAGGCTTCCTTT--ACAGAGATA
*
4576935 ACCACAAAGGCTTCCTTT-CAGAGATA
1 GCCACAAAGGCTTCCTTTACAGAGATA
*
4576961 GCCACAAAGGCTTCCTTTTAACAGAGTTCA
1 GCCACAAAGGCTTCC-TTT-ACAGAGAT-A
*
4576991 -CCGCAAAGGCTTCCTTTAACAGAGATA
1 GCCACAAAGGCTTCCTTT-ACAGAGATA
*
4577018 GCCACAAAGGTTTCCTTT-CAGAGATA
1 GCCACAAAGGCTTCCTTTACAGAGATA
*
4577044 GCCACAAAGGCTTCCTTTTAACAGAGTTCA
1 GCCACAAAGGCTTCC-TTT-ACAGAGAT-A
* *
4577074 -CCGCAAAGGCTTCCTTTAACAGTGATA
1 GCCACAAAGGCTTCCTTT-ACAGAGATA
4577101 GCCACAAAGGCTTCCTTT-CAGAGATA
1 GCCACAAAGGCTTCCTTTACAGAGATA
*
4577127 ACCACAAAGGCT
1 GCCACAAAGGCT
4577139 CACTTTTATG
Statistics
Matches: 352, Mismatches: 58, Indels: 48
0.77 0.13 0.10
Matches are distributed among these distances:
26 61 0.17
27 23 0.07
28 97 0.28
29 167 0.47
30 3 0.01
31 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (27 bp):
GCCACAAAGGCTTCCTTTACAGAGATA
Found at i:4577174 original size:83 final size:83
Alignment explanation
Indices: 4576751--4577146 Score: 442
Period size: 83 Copynumber: 4.7 Consensus size: 83
4576741 AAAACGTCCT
* * * * *
4576751 TTTAACAGAGATAGACATAAAGGCATCCTTTTAATAGAGATA-CCACAAAGGCGTCC-TTTAACA
1 TTTAACAGAGATAGCCACAAAGGCTTCC-TTT--CAGAGATAGCCACAAAGGCTTCCTTTTAACA
* * ** *
4576814 GAGATCGCCATAAAGACTTCC
63 GAGTTCACCGCAAAGGCTTCC
* * * * *
4576835 TTTTAACAGAGATCGCCACAAAGGCTTCCTTTTAATGGTGATCA-CCACAAAAGCTTCATTTTAA
1 -TTTAACAGAGATAGCCACAAAGGCTTCC-TTTCA--GAGAT-AGCCACAAAGGCTTCCTTTTAA
* ** * *
4576899 CAGAGATCGTCGGAAAGG-GTCC
61 CAGAGTTCACCGCAAAGGCTTCC
* *
4576921 TTTGAATAGAGATAACCACAAAGGCTTCCTTTCAGAGATAGCCACAAAGGCTTCCTTTTAACAGA
1 TTT-AACAGAGATAGCCACAAAGGCTTCCTTTCAGAGATAGCCACAAAGGCTTCCTTTTAACAGA
4576986 GTTCACCGCAAAGGCTTCC
65 GTTCACCGCAAAGGCTTCC
*
4577005 TTTAACAGAGATAGCCACAAAGGTTTCCTTTCAGAGATAGCCACAAAGGCTTCCTTTTAACAGAG
1 TTTAACAGAGATAGCCACAAAGGCTTCCTTTCAGAGATAGCCACAAAGGCTTCCTTTTAACAGAG
4577070 TTCACCGCAAAGGCTTCC
66 TTCACCGCAAAGGCTTCC
* *
4577088 TTTAACAGTGATAGCCACAAAGGCTTCCTTTCAGAGATAACCACAAAGGC-TCACTTTTA
1 TTTAACAGAGATAGCCACAAAGGCTTCCTTTCAGAGATAGCCACAAAGGCTTC-CTTTTA
4577147 TGGAAATGGC
Statistics
Matches: 271, Mismatches: 32, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
82 3 0.01
83 167 0.62
84 6 0.02
85 39 0.14
86 37 0.14
87 19 0.07
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (83 bp):
TTTAACAGAGATAGCCACAAAGGCTTCCTTTCAGAGATAGCCACAAAGGCTTCCTTTTAACAGAG
TTCACCGCAAAGGCTTCC
Found at i:4578043 original size:37 final size:37
Alignment explanation
Indices: 4577993--4578064 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
4577983 CTTGGTGTGT
* *
4577993 CATGCCTTCTTGGCGACGACCCTATTATCATGTTTGC
1 CATGCCTTCTTGGCGACGACCCTACTATCAAGTTTGC
* *
4578030 CATGCCTTTTTGGCGATGACCCTACTATCAAGTTT
1 CATGCCTTCTTGGCGACGACCCTACTATCAAGTTT
4578065 CCTTAGTACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (37 bp):
CATGCCTTCTTGGCGACGACCCTACTATCAAGTTTGC
Found at i:4584462 original size:28 final size:28
Alignment explanation
Indices: 4584422--4584479 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
4584412 CCTGAGCCCT
*
4584422 ACAGTGTGGGCCTTAGCCCGATACAATA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
*
4584450 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
4584478 AC
1 AC
4584480 CAATATAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAATA
Found at i:4584633 original size:26 final size:26
Alignment explanation
Indices: 4584586--4584640 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
4584576 AACACACCAA
* * *
4584586 TATTGTAGCAAAGTTACCAGTAATAG
1 TATTGCAGCAAAGCTACCAGTAAGAG
* *
4584612 TATTGCAGCAAAGCTGCTAGTAAGAG
1 TATTGCAGCAAAGCTACCAGTAAGAG
4584638 TAT
1 TAT
4584641 ATGTGGAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (26 bp):
TATTGCAGCAAAGCTACCAGTAAGAG
Found at i:4584973 original size:27 final size:27
Alignment explanation
Indices: 4584832--4584965 Score: 205
Period size: 27 Copynumber: 5.0 Consensus size: 27
4584822 AGGTATAACA
* *
4584832 GTCATTTTACCCTACGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
4584859 GTCATTTTACCTTACGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
4584886 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
4584913 GTCATTTTACCCTATGAGAGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
4584940 GTCATTTTACCCTATGGGGGTATTTC
1 GTCATTTTACCCTATGGGGGTATTTC
4584966 AATCATTTAT
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:4586990 original size:20 final size:18
Alignment explanation
Indices: 4586957--4587009 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
4586947 CTGAAACAAT
4586957 TATAAAAAAC-TAAAGAATA
1 TATAAAAAACTTAAA-AA-A
4586976 TATAAAAAACTTAAAAAA
1 TATAAAAAACTTAAAAAA
*
4586994 TAGAAAAAACTCTAAA
1 TATAAAAAACT-TAAA
4587010 CCCTAAACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 11 0.35
19 16 0.52
20 4 0.13
ACGTcount: A:0.68, C:0.08, G:0.04, T:0.21
Consensus pattern (18 bp):
TATAAAAAACTTAAAAAA
Found at i:4607773 original size:40 final size:40
Alignment explanation
Indices: 4607729--4607808 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
4607719 ACACGTTCAG
* * *
4607729 GGGTACTAAAGTGCAAAAAGGGGCATGTATGTGCAAACAT
1 GGGTACCAAAGTACAAAAAGGGGCACGTATGTGCAAACAT
* **
4607769 GGGTACCGAAGTACAATCAGGGGCACGTATGTGCAAACAT
1 GGGTACCAAAGTACAAAAAGGGGCACGTATGTGCAAACAT
4607809 TCAATAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (40 bp):
GGGTACCAAAGTACAAAAAGGGGCACGTATGTGCAAACAT
Found at i:4609742 original size:28 final size:28
Alignment explanation
Indices: 4609692--4609785 Score: 109
Period size: 28 Copynumber: 3.4 Consensus size: 28
4609682 TATACAGTAT
* **
4609692 CAGT-ACAGTGTGGGCCTTAGCCCCTTA
1 CAGTAACAGTGTGAGCCTTAGCCCAATA
* *
4609719 CAGTAACAGTGTGAGCTTTGGCCCAATA
1 CAGTAACAGTGTGAGCCTTAGCCCAATA
* *
4609747 TAGTAACAATGTGAGCCTTAGCCCAATA
1 CAGTAACAGTGTGAGCCTTAGCCCAATA
4609775 CAGTAATCAGT
1 CAGTAA-CAGT
4609786 ACAATGCAGT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 4 0.07
28 47 0.87
29 3 0.06
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (28 bp):
CAGTAACAGTGTGAGCCTTAGCCCAATA
Found at i:4609906 original size:26 final size:26
Alignment explanation
Indices: 4609877--4609927 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
4609867 CCAACACACC
*
4609877 AATATCGCAGCAAAGCTGCCAGTAAT
1 AATAACGCAGCAAAGCTGCCAGTAAT
4609903 AATAACGCAGCAAAGCTGCCAGTAA
1 AATAACGCAGCAAAGCTGCCAGTAA
4609928 CAGTATATGT
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:0.41, C:0.24, G:0.20, T:0.16
Consensus pattern (26 bp):
AATAACGCAGCAAAGCTGCCAGTAAT
Found at i:4610162 original size:27 final size:27
Alignment explanation
Indices: 4610112--4610338 Score: 230
Period size: 27 Copynumber: 8.4 Consensus size: 27
4610102 TTCATCATAA
* *
4610112 CAGTATTTTTACCCCTTC-AGGGGTACTT
1 CAGTAATTTTA-CCCTTCGA-GGGTATTT
*
4610140 CAGTCATTTTACCCTTCGAGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
**
4610167 CAGTAATTTTACCCTTTAAGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
* *
4610194 CAATAA-TTTACCCTTCGAGGGAATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
** * *
4610220 TGGTAATTTTACTCTTCGAGTGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
*
4610247 -TGTTAATTTTACCCTTCGAGGGTATTT
1 CAG-TAATTTTACCCTTCGAGGGTATTT
* *
4610274 C-GATAATTTTACCCTTTGAGTGTATTT
1 CAG-TAATTTTACCCTTCGAGGGTATTT
* *
4610301 TAGTAATTTTACCATTCGAGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
4610328 C-GATAATTTTA
1 CAG-TAATTTTA
4610339 TCCTATGGGA
Statistics
Matches: 166, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
26 22 0.13
27 133 0.80
28 11 0.07
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.44
Consensus pattern (27 bp):
CAGTAATTTTACCCTTCGAGGGTATTT
Found at i:4610353 original size:107 final size:107
Alignment explanation
Indices: 4610145--4610338 Score: 291
Period size: 107 Copynumber: 1.8 Consensus size: 107
4610135 TACTTCAGTC
*
4610145 ATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTTAAGGGTATTTCAATAATTTACCCTTC
1 ATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTTAAGGGTATTTCAATAATTTACCATTC
* *
4610210 GAGGGAATTTTGGTAATTTTACTCTTCGAGTGTATTTTGTTA
66 GAGGGAATTTCGATAATTTTACTCTTCGAGTGTATTTTGTTA
* * * *
4610252 ATTTTACCCTTCGAGGGTATTTC-GATAATTTTACCCTTTGAGTGTATTTTAGTAATTTTACCAT
1 ATTTTACCCTTCGAGGGTATTTCAG-TAATTTTACCCTTTAAGGGTATTTCAATAA-TTTACCAT
*
4610316 TCGAGGGTATTTCGATAATTTTA
64 TCGAGGGAATTTCGATAATTTTA
4610339 TCCTATGGGA
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
106 1 0.01
107 49 0.64
108 27 0.35
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.45
Consensus pattern (107 bp):
ATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTTAAGGGTATTTCAATAATTTACCATTC
GAGGGAATTTCGATAATTTTACTCTTCGAGTGTATTTTGTTA
Found at i:4610397 original size:53 final size:54
Alignment explanation
Indices: 4610320--4610446 Score: 168
Period size: 53 Copynumber: 2.4 Consensus size: 54
4610310 TACCATTCGA
* * * *
4610320 GGGTATTTCGATAATTTTATCCTAT-GGGATATTTCGATCATTCTACGTTATGG
1 GGGTATTTCGGTCATTTTACCCTATGGGGATATTTCGATCATTCTACCTTATGG
* * * *
4610373 GGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGGTCATTCTACCTTGTGG
1 GGGTATTTCGGTCATTTTACCCTATGGGGATATTTCGATCATTCTACCTTATGG
4610427 GGGTATTT-GGTCATTTTACC
1 GGGTATTTCGGTCATTTTACC
4610447 TAATTTAGGG
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 32 0.50
54 32 0.50
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.42
Consensus pattern (54 bp):
GGGTATTTCGGTCATTTTACCCTATGGGGATATTTCGATCATTCTACCTTATGG
Found at i:4610438 original size:26 final size:27
Alignment explanation
Indices: 4610349--4610447 Score: 146
Period size: 27 Copynumber: 3.7 Consensus size: 27
4610339 TCCTATGGGA
* *
4610349 TATTTCGATCATTCTACGTTATGGGGG
1 TATTTCGGTCATTCTACCTTATGGGGG
*
4610376 TATTTCGGTCATTCTACCCTATGGGGG
1 TATTTCGGTCATTCTACCTTATGGGGG
*
4610403 TATTTCGGTCATTCTACCTTGTGGGGG
1 TATTTCGGTCATTCTACCTTATGGGGG
*
4610430 TATTT-GGTCATTTTACCT
1 TATTTCGGTCATTCTACCT
4610448 AATTTAGGGT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
26 12 0.18
27 54 0.82
ACGTcount: A:0.15, C:0.18, G:0.24, T:0.42
Consensus pattern (27 bp):
TATTTCGGTCATTCTACCTTATGGGGG
Found at i:4625505 original size:11 final size:11
Alignment explanation
Indices: 4625489--4625519 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4625479 TTAATTATTT
4625489 TAAGTAAAATC
1 TAAGTAAAATC
4625500 TAAGTAAAATC
1 TAAGTAAAATC
*
4625511 TAAGCAAAA
1 TAAGTAAAA
4625520 AAAATTCCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.23
Consensus pattern (11 bp):
TAAGTAAAATC
Found at i:4630148 original size:44 final size:44
Alignment explanation
Indices: 4630066--4630517 Score: 188
Period size: 44 Copynumber: 10.4 Consensus size: 44
4630056 GATGCGGTCT
* *
4630066 GCTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTATGACTTTAATCC
* * * *
4630110 GCTCCACTACAACTTCAGGGAGATAGGAT-TATCGACTTTAATCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTAT-GACTTTAATCC
* * *
4630154 GCTCCACTGCAACCTT-AGAGTGATAAGAT-T-TG-CTTCTTCAGTCA
1 GCTCCACTGCAA-CTTCAGAGAGATAAGATCTATGAC-T-TT-AATCC
* * ** * * ** * *
4630198 GCCCCACCGTGACTTCAGGGGGATAAGA-CT-TGTTTTCTCAGTCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTATGACTT-T-AATCC
* * *
4630242 GCTCCACCT-CAACTTCAGGGAGATAAGACCTGATG-C---GATCC
1 GCTCCA-CTGCAACTTCAGAGAGATAAGATCT-ATGACTTTAATCC
* * * * * * *
4630283 ACTCTACTGTAACTTCATAGTGATAAGATCTGTTACTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTATGACTTTAATCC
* * * * *
4630327 GCTCCACTACAACTTCAGGGAGATAGGAT-TATCGACTTCAATCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTAT-GACTTTAATCC
* * * * *
4630371 ACTCCAGTGCAACTTCAGGGAGATAAGAT-T-TG-CTTCTTCAGTCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTATGAC-T-TT-AATCC
* ** * ***
4630415 GCCCCACTGTGACTTCA-AGGGGATAAGAT-T-TG-CTGCGATCC
1 GCTCCACTGCAACTTCAGA-GAGATAAGATCTATGACTTTAATCC
* * *
4630456 GCTCTACTGCAACTTCATAGAGATAAGATCTATAACTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTATGACTTTAATCC
*
4630500 GCTCCACTACAACTTCAG
1 GCTCCACTGCAACTTCAG
4630518 GAAGATAGGA
Statistics
Matches: 300, Mismatches: 81, Indels: 54
0.69 0.19 0.12
Matches are distributed among these distances:
40 3 0.01
41 50 0.17
42 6 0.02
43 16 0.05
44 217 0.72
45 6 0.02
47 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATCTATGACTTTAATCC
Found at i:4630388 original size:173 final size:173
Alignment explanation
Indices: 4630209--4630543 Score: 478
Period size: 173 Copynumber: 1.9 Consensus size: 173
4630199 CCCCACCGTG
* * *
4630209 ACTTCAGGGGGATAAGACTTG-TTTTCTCAGTCTGCTCCACCT-CAACTTC-AGGGAGATAAGAC
1 ACTTCAGGGAGATAAGACTTGCTTCT-TCAGTCTGCCCCA-CTGCAACTTCAAGGG-GATAAGAC
* * * *
4630271 CTGATGCGATCCACTCTACTGTAACTTCATAGTGATAAGATCTGTTACTTTAATCCGCTCCACTA
63 CTGATGCGATCCACTCTACTGCAACTTCATAGAGATAAGATCTATAACTTTAATCCGCTCCACTA
*
4630336 CAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCAGTGCA
128 CAACTTCAGGAAGATAGGATTATCGACTTCAATCTACTCCAGTGCA
* ** **
4630382 ACTTCAGGGAGATAAGATTTGCTTCTTCAGTCTGCCCCACTGTGACTTCAAGGGGATAAGATTTG
1 ACTTCAGGGAGATAAGACTTGCTTCTTCAGTCTGCCCCACTGCAACTTCAAGGGGATAAGACCTG
* *
4630447 CTGCGATCCGCTCTACTGCAACTTCATAGAGATAAGATCTATAACTTTAATCCGCTCCACTACAA
66 ATGCGATCCACTCTACTGCAACTTCATAGAGATAAGATCTATAACTTTAATCCGCTCCACTACAA
*
4630512 CTTCAGGAAGATAGGATTATCGGCTTCAATCT
131 CTTCAGGAAGATAGGATTATCGACTTCAATCT
4630544 GCTTACTTAC
Statistics
Matches: 143, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
172 2 0.01
173 134 0.94
174 7 0.05
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (173 bp):
ACTTCAGGGAGATAAGACTTGCTTCTTCAGTCTGCCCCACTGCAACTTCAAGGGGATAAGACCTG
ATGCGATCCACTCTACTGCAACTTCATAGAGATAAGATCTATAACTTTAATCCGCTCCACTACAA
CTTCAGGAAGATAGGATTATCGACTTCAATCTACTCCAGTGCA
Found at i:4630516 original size:217 final size:217
Alignment explanation
Indices: 4630066--4630483 Score: 576
Period size: 217 Copynumber: 1.9 Consensus size: 217
4630056 GATGCGGTCT
4630066 GCTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGA
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGA
* * *
4630131 GATAGGATTATCGACTTTAATCTGCTCCACTGCAACCTTAGAGTGATAAGATTTGCTTCTTCAGT
66 GATAGGATTATCGACTTCAATCTACTCCACTGCAACCTTAGAGAGATAAGATTTGCTTCTTCAGT
* * * * *
4630196 CAGCCCCACCGTGACTTCAGGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACCTCAACTTCAGG
131 CAGCCCCACCGTGACTTCAAGGGGATAAGACTTGTCTGCTCAGTCCGCTCCACCTCAACTTCAGA
* *
4630261 GAGATAAGACCTGATGCGATCC
196 GAGATAAGACCTGATACAATCC
* * * * *
4630283 ACTCTACTGTAACTTCATAGTGATAAGATCTGTTACTTTAATCCGCTCCACTACAACTTCAGGGA
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGA
* *
4630348 GATAGGATTATCGACTTCAATCTACTCCAGTGCAA-CTTCAGGGAGATAAGATTTGCTTCTTCAG
66 GATAGGATTATCGACTTCAATCTACTCCACTGCAACCTT-AGAGAGATAAGATTTGCTTCTTCAG
* * * * *
4630412 TCTGCCCCACTGTGACTTCAAGGGGATAAGATTTG-CTGC-GA-TCCGCTCTA-CTGCAACTTCA
130 TCAGCCCCACCGTGACTTCAAGGGGATAAGACTTGTCTGCTCAGTCCGCTCCACCT-CAACTTCA
*
4630473 TAGAGATAAGA
194 GAGAGATAAGA
4630484 TCTATAACTT
Statistics
Matches: 178, Mismatches: 21, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
213 2 0.01
214 24 0.13
215 1 0.01
216 5 0.03
217 146 0.82
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (217 bp):
GCTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGA
GATAGGATTATCGACTTCAATCTACTCCACTGCAACCTTAGAGAGATAAGATTTGCTTCTTCAGT
CAGCCCCACCGTGACTTCAAGGGGATAAGACTTGTCTGCTCAGTCCGCTCCACCTCAACTTCAGA
GAGATAAGACCTGATACAATCC
Found at i:4630673 original size:128 final size:129
Alignment explanation
Indices: 4630533--4630765 Score: 371
Period size: 128 Copynumber: 1.8 Consensus size: 129
4630523 TAGGATTATC
*
4630533 GGCTTCAATCTGCTTACTTACACTTGAAGATAAGATTCGCCAT-CTTCGATCTGCTCCGCTACTG
1 GGCTTAAATCTGCTTACTTACACTTGAAGATAAGATTCGCCATCCTT-GATCTGCTCCGCTACTG
* * *
4630597 CTTAGGGAGACAAGATCTGCAATTT-CCAGCCTATTCCACTACTGACTAGGGACATATGACTTGT
65 CTTAAGGAGACAAGATCTACAATTTCCCAACCTATTCCACTACTGACTAGGGACATATGACTTGT
* **
4630661 GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCTGTCCTTGATCTGCTCCGCTACTGC
1 GGCTTAAATCTGCTTACTTACACTTGAAGATAAGATTCGCCATCCTTGATCTGCTCCGCTACTGC
*
4630726 TTAAGGAGACAAGATCTATAATTTCCCAACCTATTCCACT
66 TTAAGGAGACAAGATCTACAATTTCCCAACCTATTCCACT
4630766 GCTGGTCAGG
Statistics
Matches: 95, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
128 78 0.82
129 17 0.18
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (129 bp):
GGCTTAAATCTGCTTACTTACACTTGAAGATAAGATTCGCCATCCTTGATCTGCTCCGCTACTGC
TTAAGGAGACAAGATCTACAATTTCCCAACCTATTCCACTACTGACTAGGGACATATGACTTGT
Found at i:4639995 original size:7 final size:7
Alignment explanation
Indices: 4639985--4640019 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
4639975 TTTTCATCAT
*
4639985 TTTTTTA
1 TTTTTCA
4639992 TTTTTCA
1 TTTTTCA
4639999 -TTTTCA
1 TTTTTCA
4640005 TTTTTCA
1 TTTTTCA
4640012 TTTTTCA
1 TTTTTCA
4640019 T
1 T
4640020 CCCTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTCA
Found at i:4640002 original size:13 final size:13
Alignment explanation
Indices: 4639986--4640016 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4639976 TTTCATCATT
4639986 TTTTTATTTTTCA
1 TTTTTATTTTTCA
*
4639999 TTTTCATTTTTCA
1 TTTTTATTTTTCA
4640012 TTTTT
1 TTTTT
4640017 CATCCCTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTATTTTTCA
Found at i:4640905 original size:22 final size:22
Alignment explanation
Indices: 4640866--4640907 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4640856 CCTTGGCCTC
*
4640866 TCCTTTTCTTTTTCCTTTTTTT
1 TCCTTTTCTTTCTCCTTTTTTT
4640888 TCCTTTTC-TTCTCTCTTTTT
1 TCCTTTTCTTTCTC-CTTTTT
4640908 CTCTCATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (22 bp):
TCCTTTTCTTTCTCCTTTTTTT
Found at i:4645910 original size:10 final size:11
Alignment explanation
Indices: 4645873--4645920 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
4645863 AATTTTAATA
*
4645873 ATAATATAAAT
1 ATAATATATAT
4645884 GATAATATATAT
1 -ATAATATATAT
4645896 ATAATA-ATAT
1 ATAATATATAT
* *
4645906 TTAATATATGT
1 ATAATATATAT
4645917 ATAA
1 ATAA
4645921 AATAGTATCG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
10 9 0.29
11 12 0.39
12 10 0.32
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (11 bp):
ATAATATATAT
Found at i:4645910 original size:21 final size:20
Alignment explanation
Indices: 4645886--4645924 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
4645876 ATATAAATGA
4645886 TAATATATATATAATAATATT
1 TAATATATATATAA-AATATT
*
4645907 TAATATATGTATAAAATA
1 TAATATATATATAAAATA
4645925 GTATCGTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (20 bp):
TAATATATATATAAAATATT
Found at i:4646053 original size:18 final size:17
Alignment explanation
Indices: 4646002--4646045 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
4645992 AATTACATAG
*
4646002 ATAAATATATGAACTAAT
1 ATAAATA-ATAAACTAAT
4646020 ATAAATAATAACACTAAT
1 ATAAATAATAA-ACTAAT
4646038 AT-AATAAT
1 ATAAATAAT
4646046 GATAACTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (17 bp):
ATAAATAATAAACTAAT
Found at i:4650418 original size:30 final size:30
Alignment explanation
Indices: 4650384--4650446 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
4650374 TTCACAATTT
* *
4650384 GATAGTCGAAGCTATCCATTTTCATAGATC
1 GATAGCCGAAGCCATCCATTTTCATAGATC
* *
4650414 GATAGCCGAAGCCATCCCTTTTCATAGTTC
1 GATAGCCGAAGCCATCCATTTTCATAGATC
4650444 GAT
1 GAT
4650447 GGTTGTCACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (30 bp):
GATAGCCGAAGCCATCCATTTTCATAGATC
Found at i:4650424 original size:85 final size:85
Alignment explanation
Indices: 4650281--4650439 Score: 210
Period size: 85 Copynumber: 1.9 Consensus size: 85
4650271 ATAGTTGACA
* * * * *
4650281 CATCCCTTTTCATAATTCCATAATCGAAGTTACCCCTTTTCATAGTTCGACAGCCGAAGCTATCC
1 CATCCCTTTTCACAATTCCATAATCGAAGCTACCCATTTTCATAGATCGACAGCCGAAGCCATCC
4650346 CCTTTCATAATTTTCCTCAC
66 CCTTTCATAATTTTCCTCAC
* ** * * *
4650366 CATCCTTTTTCACAATTTGATAGTCGAAGCTATCCATTTTCATAGATCGATAGCCGAAGCCATCC
1 CATCCCTTTTCACAATTCCATAATCGAAGCTACCCATTTTCATAGATCGACAGCCGAAGCCATCC
*
4650431 CTTTTCATA
66 CCTTTCATA
4650440 GTTCGATGGT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
85 62 1.00
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.35
Consensus pattern (85 bp):
CATCCCTTTTCACAATTCCATAATCGAAGCTACCCATTTTCATAGATCGACAGCCGAAGCCATCC
CCTTTCATAATTTTCCTCAC
Found at i:4650486 original size:29 final size:30
Alignment explanation
Indices: 4650425--4650498 Score: 114
Period size: 29 Copynumber: 2.5 Consensus size: 30
4650415 ATAGCCGAAG
* **
4650425 CCATCCCTTTTCATAGTTCGATGGTTGTCA
1 CCATCCCTTTTCATTGTTCGATGGTCATCA
4650455 CCATCCCTTTTCATTGTT-GATGGTCATCA
1 CCATCCCTTTTCATTGTTCGATGGTCATCA
4650484 CCATCCCTTTTCATT
1 CCATCCCTTTTCATT
4650499 ATCGATAGCC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 24 0.59
30 17 0.41
ACGTcount: A:0.16, C:0.30, G:0.12, T:0.42
Consensus pattern (30 bp):
CCATCCCTTTTCATTGTTCGATGGTCATCA
Found at i:4650518 original size:29 final size:30
Alignment explanation
Indices: 4650486--4650556 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 30
4650476 GGTCATCACC
* *
4650486 ATCCCTTTTCATTA-TCGATAGCCGAAGCT
1 ATCCCTTTTCATTATTCAATAGCCGAAGAT
*
4650515 ATCCCTTTTCA-TATTCAATAGCTGAAGAT
1 ATCCCTTTTCATTATTCAATAGCCGAAGAT
4650544 ATCCCTTTTCATT
1 ATCCCTTTTCATT
4650557 CTTCGATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.05
29 34 0.92
30 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATTATTCAATAGCCGAAGAT
Found at i:4660308 original size:41 final size:43
Alignment explanation
Indices: 4660227--4660319 Score: 120
Period size: 41 Copynumber: 2.2 Consensus size: 43
4660217 TCCTGGACGT
* *
4660227 GGTCTTACATATAATCACATATCGATACCAGTGTCCCAGACAG
1 GGTCTTACATATAATCAAATATCGATACCAATGTCCCAGACAG
* *
4660270 GGTCTTACATGA-AA-CAAATA-CGATGCCAATGTCCCAGACAT
1 GGTCTTACAT-ATAATCAAATATCGATACCAATGTCCCAGACAG
4660311 GGTCTTACA
1 GGTCTTACA
4660320 CGTAACACAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
41 27 0.60
42 5 0.11
43 12 0.27
44 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
GGTCTTACATATAATCAAATATCGATACCAATGTCCCAGACAG
Found at i:4664680 original size:49 final size:49
Alignment explanation
Indices: 4664607--4664700 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 49
4664597 TACCATGCAA
* * * * *
4664607 TGCTAAACTTGTTCTTCCATTATCTACACTTTTATTACTATTTATACAT
1 TGCTAAACTTATTCTTCCACTATCTACACTCTAATCACTATTTATACAT
*
4664656 TGCTAAACTTATTCTTCTACTATCTACACTCTAATCACTATTTAT
1 TGCTAAACTTATTCTTCCACTATCTACACTCTAATCACTATTTAT
4664701 CCCTTCTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.28, C:0.22, G:0.03, T:0.47
Consensus pattern (49 bp):
TGCTAAACTTATTCTTCCACTATCTACACTCTAATCACTATTTATACAT
Found at i:4664840 original size:23 final size:23
Alignment explanation
Indices: 4664810--4664854 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
4664800 ATCTTACACT
4664810 TAATTTAGGTTTGCTAATCCACA
1 TAATTTAGGTTTGCTAATCCACA
4664833 TAATTTAGGTTTGCTAATCCAC
1 TAATTTAGGTTTGCTAATCCAC
4664855 CCCAATACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (23 bp):
TAATTTAGGTTTGCTAATCCACA
Found at i:4667248 original size:14 final size:14
Alignment explanation
Indices: 4667229--4667275 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
4667219 GTGATTCTTC
4667229 TTCTTTTTCTTT-T
1 TTCTTTTTCTTTCT
*
4667242 TT-TCTTTCTTTCT
1 TTCTTTTTCTTTCT
4667255 TTCTTTTTCTTTCT
1 TTCTTTTTCTTTCT
4667269 TTCTTTT
1 TTCTTTT
4667276 GTTTGCACGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
12 8 0.27
13 5 0.17
14 17 0.57
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTCTTTTTCTTTCT
Found at i:4667251 original size:4 final size:4
Alignment explanation
Indices: 4667234--4667274 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
4667224 TCTTCTTCTT
*
4667234 TTTC TTTT TTTC TTTC TTTC TTTC -TT- TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
4667275 TGTTTGCACG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 4 0.12
4 29 0.88
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (4 bp):
TTTC
Found at i:4667252 original size:18 final size:18
Alignment explanation
Indices: 4667240--4667274 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
4667230 TCTTTTTCTT
4667240 TTTTTCTTTCTTTCTTTC
1 TTTTTCTTTCTTTCTTTC
4667258 TTTTTCTTTCTTTCTTT
1 TTTTTCTTTCTTTCTTT
4667275 TGTTTGCACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTCTTTCTTTCTTTC
Found at i:4671550 original size:27 final size:27
Alignment explanation
Indices: 4671219--4671549 Score: 319
Period size: 27 Copynumber: 12.3 Consensus size: 27
4671209 ATATAACAAC
* *
4671219 CATTTTACCCTATGAGGGTATTTTGGT
1 CATTTTACCCTATGGGGGTATTTCGGT
* * *
4671246 CATATTACCCTATGGGGGTCTTTCAGT
1 CATTTTACCCTATGGGGGTATTTCGGT
* * * *
4671273 CATTCTATCTTATGAGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCGGT
* * *
4671300 CATATTACCCTACGGGGGTTATTTTGGT
1 CATTTTACCCTATGGGGG-TATTTCGGT
* * *
4671328 CATTCTACCCTATGAGGGTATTTTGGT
1 CATTTTACCCTATGGGGGTATTTCGGT
* *
4671355 CATTTTACCCTAT-AGGGTATTTCAGT
1 CATTTTACCCTATGGGGGTATTTCGGT
* * * *
4671381 TATTCTATCTTAT-GGGGTATTTCAGGT
1 CATTTTACCCTATGGGGGTATTTC-GGT
* * * *
4671408 C-TTCTATCTTAT-GGGGTATTTCTGT
1 CATTTTACCCTATGGGGGTATTTCGGT
4671433 CATTTTACCCTATGGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCGGT
* * *
4671460 CATTTTACCTTATCGGGGTATTTTGGT
1 CATTTTACCCTATGGGGGTATTTCGGT
*
4671487 CATTTTACCCTATGGGGGTATTTCGAT
1 CATTTTACCCTATGGGGGTATTTCGGT
* * * *
4671514 TATTTTACCTTACGGGGGTATTTCGAT
1 CATTTTACCCTATGGGGGTATTTCGGT
4671541 CATTTTACC
1 CATTTTACC
4671550 TATTTTACGG
Statistics
Matches: 251, Mismatches: 49, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
25 3 0.01
26 58 0.23
27 168 0.67
28 22 0.09
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (27 bp):
CATTTTACCCTATGGGGGTATTTCGGT
Found at i:4676639 original size:17 final size:17
Alignment explanation
Indices: 4676605--4676637 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4676595 TCAAGGTCTC
*
4676605 CCTACAGTTTCCAGTTT
1 CCTACAGTTCCCAGTTT
4676622 CCTACAG-TCCCAGTTT
1 CCTACAGTTCCCAGTTT
4676638 TCTCTAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.18, C:0.33, G:0.12, T:0.36
Consensus pattern (17 bp):
CCTACAGTTCCCAGTTT
Found at i:4677594 original size:81 final size:81
Alignment explanation
Indices: 4677459--4677667 Score: 258
Period size: 81 Copynumber: 2.6 Consensus size: 81
4677449 AATTATCGGG
* * * * * *
4677459 GGTATGTTGGTCATTTTACCCTATGGGGGTATTTCGGTCATTCTATCCTATAGGGATATTTC-AG
1 GGTATTTTGGTCATTTTACCCTATGAGGGTATTTTGATCATTTTACCCTATAGGGATATTTCGA-
4677523 TAATTTTACCCTAAGGA
65 TAATTTTACCCTAAGGA
* * *
4677540 GGTATTTTGATCATTTTACCCTATGAGGGTATTTTGATCATTTTGCCCTATAGGGGTATTTCGAT
1 GGTATTTTGGTCATTTTACCCTATGAGGGTATTTTGATCATTTTACCCTATAGGGATATTTCGAT
* ** *
4677605 CATTTTACCCTGTGGG
66 AATTTTACCCTAAGGA
* * *
4677621 GGTATTTCGGTCATTTTACCCTATAAGGGTATTTTGACCATTTTACC
1 GGTATTTTGGTCATTTTACCCTATGAGGGTATTTTGATCATTTTACC
4677668 TATTTTAGGG
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 108 0.99
82 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (81 bp):
GGTATTTTGGTCATTTTACCCTATGAGGGTATTTTGATCATTTTACCCTATAGGGATATTTCGAT
AATTTTACCCTAAGGA
Found at i:4677662 original size:27 final size:27
Alignment explanation
Indices: 4677457--4677667 Score: 212
Period size: 27 Copynumber: 7.8 Consensus size: 27
4677447 GCAATTATCG
* * *
4677457 GGGGTATGTTGGTCATTTTACCCTATG
1 GGGGTATTTTGATCATTTTACCCTATA
* * * *
4677484 GGGGTATTTCGGTCATTCTATCCTATA
1 GGGGTATTTTGATCATTTTACCCTATA
* * *
4677511 GGGATA-TTTCAGTAATTTTACCCTA-A
1 GGGGTATTTTGA-TCATTTTACCCTATA
4677537 GGAGGTATTTTGATCATTTTACCCTAT-
1 GG-GGTATTTTGATCATTTTACCCTATA
*
4677564 GAGGGTATTTTGATCATTTTGCCCTATA
1 G-GGGTATTTTGATCATTTTACCCTATA
* * *
4677592 GGGGTATTTCGATCATTTTACCCTGTG
1 GGGGTATTTTGATCATTTTACCCTATA
* *
4677619 GGGGTATTTCGGTCATTTTACCCTATA
1 GGGGTATTTTGATCATTTTACCCTATA
* *
4677646 AGGGTATTTTGACCATTTTACC
1 GGGGTATTTTGATCATTTTACC
4677668 TATTTTAGGG
Statistics
Matches: 151, Mismatches: 27, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
26 5 0.03
27 140 0.93
28 6 0.04
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGGTATTTTGATCATTTTACCCTATA
Found at i:4682727 original size:17 final size:18
Alignment explanation
Indices: 4682685--4682727 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
4682675 TATGTGTGTT
*
4682685 GCCCGTGTGTGACACATC
1 GCCCGTGTGCGACACATC
*
4682703 -CCCATGTGCGACACA-C
1 GCCCGTGTGCGACACATC
4682719 GCCCGTGTG
1 GCCCGTGTG
4682728 GCCAGGCTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.16, C:0.37, G:0.28, T:0.19
Consensus pattern (18 bp):
GCCCGTGTGCGACACATC
Found at i:4684350 original size:30 final size:29
Alignment explanation
Indices: 4684308--4684410 Score: 102
Period size: 30 Copynumber: 3.5 Consensus size: 29
4684298 AGAATCAATC
* ** *
4684308 TGGGCCTGAGCCCTATACAATAGTAGTGTG
1 TGGGCCT-AGCCCAATACAATAACAGAGTG
*
4684338 TGGGCCATAGCCCAATACAGTAACAGAGTG
1 TGGGCC-TAGCCCAATACAATAACAGAGTG
*
4684368 TGGGCCTTAGCCCAATACAGTAAC--AGTG
1 TGGGCC-TAGCCCAATACAATAACAGAGTG
4684396 TGGGCCTTAGCCCAA
1 TGGGCC-TAGCCCAA
4684411 AATAGTATTC
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
28 19 0.29
30 46 0.70
31 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.21
Consensus pattern (29 bp):
TGGGCCTAGCCCAATACAATAACAGAGTG
Found at i:4684417 original size:28 final size:29
Alignment explanation
Indices: 4684335--4684410 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 29
4684325 CAATAGTAGT
*
4684335 GTGTGGGCCATAGCCCAATACAGTAACAGA
1 GTGTGGGCCTTAGCCCAATACAGTAACA-A
4684365 GTGTGGGCCTTAGCCCAATACAGTAAC-A
1 GTGTGGGCCTTAGCCCAATACAGTAACAA
4684393 GTGTGGGCCTTAGCCCAA
1 GTGTGGGCCTTAGCCCAA
4684411 AATAGTATTC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 19 0.42
30 26 0.58
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.20
Consensus pattern (29 bp):
GTGTGGGCCTTAGCCCAATACAGTAACAA
Found at i:4684582 original size:26 final size:26
Alignment explanation
Indices: 4684531--4684629 Score: 90
Period size: 26 Copynumber: 3.8 Consensus size: 26
4684521 CACCAATATT
* * *
4684531 GCAGCAAAGCTACCAGTAATAATAAC
1 GCAGCAAAGCTGCCAGTAACAGTAAC
*
4684557 GCAGCAAAGCTGCCAATAACAGTAAC
1 GCAGCAAAGCTGCCAGTAACAGTAAC
* * * * *
4684583 ACAGTAGAGCTGCCAGTATCTGTAAC
1 GCAGCAAAGCTGCCAGTAACAGTAAC
* * *
4684609 GCAACAAAGTTACCAGTAACA
1 GCAGCAAAGCTGCCAGTAACA
4684630 ATATTTGTGG
Statistics
Matches: 55, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.16
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAACAGTAAC
Found at i:4685810 original size:27 final size:27
Alignment explanation
Indices: 4685770--4686205 Score: 452
Period size: 27 Copynumber: 16.3 Consensus size: 27
4685760 GGCTTGGGCC
* *
4685770 GTAAAATTACTGAAATACCCTCAATGG
1 GTAAAATTATTGAAATACCCTCGATGG
* *
4685797 GTAAAAATATTGAAATACCCTCGATAG
1 GTAAAATTATTGAAATACCCTCGATGG
** * *
4685824 GTAAAATTATCAAAATACCCACGATAG
1 GTAAAATTATTGAAATACCCTCGATGG
* *
4685851 GTAAAACTACTGAAATACCCTCGATGG
1 GTAAAATTATTGAAATACCCTCGATGG
*
4685878 GTAAAATTATTGAAATACCCTCGATAG
1 GTAAAATTATTGAAATACCCTCGATGG
* *
4685905 GTAAAATTACTGAAATACCCTTGAT-G
1 GTAAAATTATTGAAATACCCTCGATGG
*** *
4685931 GTAAAATTACCAAAATACCCTCGATAG
1 GTAAAATTATTGAAATACCCTCGATGG
4685958 GTAAAATTATTGAAATACCCTCGATGG
1 GTAAAATTATTGAAATACCCTCGATGG
*
4685985 GTAAAATTATCGAAATACCCTCGATGG
1 GTAAAATTATTGAAATACCCTCGATGG
4686012 GTAAAATT-TCTGAAATACCC-CGATGG
1 GTAAAATTAT-TGAAATACCCTCGATGG
***
4686038 GTAAAATTACCAAAATACCCT-GATGG
1 GTAAAATTATTGAAATACCCTCGATGG
* * * *
4686064 GTAAAATAATCGGAATACCCTCGAAGG
1 GTAAAATTATTGAAATACCCTCGATGG
**
4686091 GTAAAATTA-CCAGAATACCCTCGATGG
1 GTAAAATTATTGA-AATACCCTCGATGG
*** * **
4686118 GTAAAATTACCAAAATACCCCCGAAAG
1 GTAAAATTATTGAAATACCCTCGATGG
* * *
4686145 GTAAAATAATCGAAATACCCTTGATGG
1 GTAAAATTATTGAAATACCCTCGATGG
** *
4686172 GTAAAATTACCGAAATA-CCTCTATAGG
1 GTAAAATTATTGAAATACCCTCGAT-GG
4686199 GTAAAAT
1 GTAAAAT
4686206 GACCGTTATA
Statistics
Matches: 346, Mismatches: 55, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
26 74 0.21
27 270 0.78
28 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (27 bp):
GTAAAATTATTGAAATACCCTCGATGG
Found at i:4685972 original size:107 final size:108
Alignment explanation
Indices: 4685770--4686205 Score: 533
Period size: 107 Copynumber: 4.1 Consensus size: 108
4685760 GGCTTGGGCC
* * * *
4685770 GTAAAATTA-CTGAAATACCCTCAATGGGTAAAAATATTGAAATACCCTCGATAGGTAAAATTAT
1 GTAAAATTATC-GAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCGATAGGTAAAATTAC
* * *
4685834 CAAAATACCCACGATAGGTAAAACTACTGAAATACCCTCGATGG
65 CAAAATACCCTCGATAGGTAAAATTACCGAAATACCCTCGATGG
* * *
4685878 GTAAAATTATTGAAATACCCTCGATAGGTAAAATTACTGAAATACCCTTGAT-GGTAAAATTACC
1 GTAAAATTATCGAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCGATAGGTAAAATTACC
**
4685942 AAAATACCCTCGATAGGTAAAATTATTGAAATACCCTCGATGG
66 AAAATACCCTCGATAGGTAAAATTACCGAAATACCCTCGATGG
* *
4685985 GTAAAATTATCGAAATACCCTCGATGGGTAAAATTTCTGAAATACCC-CGATGGGTAAAATTACC
1 GTAAAATTATCGAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCGATAGGTAAAATTACC
* * * * *
4686049 AAAATACCCT-GATGGGTAAAATAATCGGAATACCCTCGAAGG
66 AAAATACCCTCGATAGGTAAAATTACCGAAATACCCTCGATGG
* ** * * * *
4686091 GTAAAATTA-CCAGAATACCCTCGATGGGTAAAATTACCAAAATACCCCCGAAAGGTAAAATAAT
1 GTAAAATTATCGA-AATACCCTCGATGGGTAAAATTACTGAAATACCCTCGATAGGTAAAATTAC
* * * *
4686155 CGAAATACCCTTGATGGGTAAAATTACCGAAATA-CCTCTATAGG
65 CAAAATACCCTCGATAGGTAAAATTACCGAAATACCCTCGAT-GG
4686199 GTAAAAT
1 GTAAAAT
4686206 GACCGTTATA
Statistics
Matches: 289, Mismatches: 33, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
105 2 0.01
106 70 0.24
107 144 0.50
108 73 0.25
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (108 bp):
GTAAAATTATCGAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCGATAGGTAAAATTACC
AAAATACCCTCGATAGGTAAAATTACCGAAATACCCTCGATGG
Found at i:4686424 original size:26 final size:26
Alignment explanation
Indices: 4686389--4686483 Score: 109
Period size: 26 Copynumber: 3.7 Consensus size: 26
4686379 ACAAATATTG
*
4686389 TTACTAGCAGCTTTGTTGCGTTACTA
1 TTACTGGCAGCTTTGTTGCGTTACTA
* * *
4686415 ATACTGGCAGCTCTGTTGCGTTACTG
1 TTACTGGCAGCTTTGTTGCGTTACTA
* * *
4686441 TTACTGGCAGATTTGCTGCGTTATTA
1 TTACTGGCAGCTTTGTTGCGTTACTA
* *
4686467 TTATTGGTAGCTTTGTT
1 TTACTGGCAGCTTTGTT
4686484 ATGATATTGG
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (26 bp):
TTACTGGCAGCTTTGTTGCGTTACTA
Found at i:4686641 original size:28 final size:27
Alignment explanation
Indices: 4686600--4686706 Score: 70
Period size: 30 Copynumber: 3.7 Consensus size: 27
4686590 TGTATTGAAA
* *
4686600 ACTGTTTTGAGCTAAGGCCCACACTGCT
1 ACTGTATTGGGCTAAGGCCCACACT-CT
**
4686628 ACTGTATTGGGCTAAGGTTCACACTCTATT
1 ACTGTATTGGGCTAAGGCCCACACTC---T
* *
4686658 ACAGTATTGGGCTATGGCCCATACACTACT
1 ACTGTATTGGGCTAAGGCCC--ACACT-CT
* * *
4686688 ACTATATAGGGCTCAGGCC
1 ACTGTATTGGGCTAAGGCC
4686707 TAGGCTGATT
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
27 1 0.02
28 21 0.35
30 32 0.53
32 5 0.08
33 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (27 bp):
ACTGTATTGGGCTAAGGCCCACACTCT
Found at i:4694463 original size:41 final size:41
Alignment explanation
Indices: 4694336--4694469 Score: 130
Period size: 40 Copynumber: 3.3 Consensus size: 41
4694326 ACTATGTTTA
* *
4694336 GCACTTAGTGTGCGATTC-GAGATAACTTTGGCTATTTATG
1 GCACTTAGTGTGCGATACTGAGATAACTTTGGCTATATATG
* * * **
4694376 GCACTTAGTGTGC--TATTGGGAATAGCTTCAGCTATATATG
1 GCACTTAGTGTGCGATACTGAG-ATAACTTTGGCTATATATG
* * * *
4694416 GCACTTAGTGTGCGAGACTAAGATAACTTTGGCTATGTAAG
1 GCACTTAGTGTGCGATACTGAGATAACTTTGGCTATATATG
*
4694457 GCACTTACTGTGC
1 GCACTTAGTGTGC
4694470 TGGATTATAA
Statistics
Matches: 73, Mismatches: 17, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
38 1 0.01
39 2 0.03
40 41 0.56
41 26 0.36
42 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (41 bp):
GCACTTAGTGTGCGATACTGAGATAACTTTGGCTATATATG
Found at i:4695281 original size:34 final size:35
Alignment explanation
Indices: 4695218--4695288 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 35
4695208 CAATGATATT
* *
4695218 CAAATGTGGTTGTTTTTACATGTTATAATGTTGTC
1 CAAATGTGGTTGTCTTTACATGTTATAATGCTGTC
*
4695253 CAAATGTGGTTG-CTTTGCATG-TATTAATGCTGTC
1 CAAATGTGGTTGTCTTTACATGTTA-TAATGCTGTC
4695287 CA
1 CA
4695289 TTTTTGGTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 2 0.06
34 18 0.56
35 12 0.38
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.44
Consensus pattern (35 bp):
CAAATGTGGTTGTCTTTACATGTTATAATGCTGTC
Found at i:4695389 original size:69 final size:69
Alignment explanation
Indices: 4695278--4695406 Score: 163
Period size: 69 Copynumber: 1.9 Consensus size: 69
4695268 TGCATGTATT
* * **
4695278 AATGCTGTCCATTTTTGGTACGAATCTATTATGTCTGAATGTTAT-TAATGCTGTCCAAATTAGT
1 AATGCTGTCCATTTTTGGTACGAATCAATGATGTCCAAATGTT-TCTAATGCTGTCCAAATTAGT
4695342 GCGTA
65 GCGTA
* * *
4695347 AATGCTGTCCATTTTTGGTAC-AAGTCAATGCTGTCCAAATGTTTCTACTGTTGTCCAAAT
1 AATGCTGTCCATTTTTGGTACGAA-TCAATGATGTCCAAATGTTTCTAATGCTGTCCAAAT
4695407 ATTTGGGAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
68 3 0.06
69 48 0.94
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.40
Consensus pattern (69 bp):
AATGCTGTCCATTTTTGGTACGAATCAATGATGTCCAAATGTTTCTAATGCTGTCCAAATTAGTG
CGTA
Found at i:4712754 original size:40 final size:39
Alignment explanation
Indices: 4712693--4712824 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 39
4712683 TGTTTAGCTT
* * *
4712693 TTAGTGTACGATTCGTGATAGCTTCGGCTATTTATGGCAC
1 TTAGTGTGCGATT-GAGATAGCTTCGGCTATATATGGCAC
*
4712733 TTAGTGTGCGATTGGGAATAGCTTCGGCTATATATGGCAC
1 TTAGTGTGCGATTGAG-ATAGCTTCGGCTATATATGGCAC
* * * *
4712773 TTAGTGTGCGAGACTAAGATAGCTTCGGCTATGTAAGGCAC
1 TTAGTGTGC--GATTGAGATAGCTTCGGCTATATATGGCAC
4712814 TTAGTGTGCGA
1 TTAGTGTGCGA
4712825 GATTATAATA
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
39 4 0.05
40 43 0.53
41 30 0.37
42 4 0.05
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (39 bp):
TTAGTGTGCGATTGAGATAGCTTCGGCTATATATGGCAC
Found at i:4712813 original size:41 final size:41
Alignment explanation
Indices: 4712709--4712866 Score: 180
Period size: 41 Copynumber: 3.9 Consensus size: 41
4712699 TACGATTCGT
* **
4712709 GATAGCTTCGGCTATTTATGGCACTTAGTGTGC--GATTGG
1 GATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTAA
*
4712748 GAATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGACTAA
1 G-ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTAA
* *
4712790 GATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGATTATA
1 GATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTA-A
* *
4712832 -ATAGCTTCGGCTA-AGCGATGGCATTTAGTGTGCGA
1 GATAGCTTCGGCTATA--TATGGCACTTAGTGTGCGA
4712867 AACATTGAGT
Statistics
Matches: 102, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 31 0.30
41 49 0.48
42 21 0.21
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (41 bp):
GATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTAA
Found at i:4722767 original size:25 final size:24
Alignment explanation
Indices: 4722681--4722768 Score: 95
Period size: 24 Copynumber: 3.6 Consensus size: 24
4722671 CACCCCCAGT
*
4722681 TCGTGAGAGCATACTGATTACAGC
1 TCGTGAGAGCATACAGATTACAGC
* ** *
4722705 TTGTGAGAGCATACCTATTATAGC
1 TCGTGAGAGCATACAGATTACAGC
*
4722729 TCGTGAGAGTATACAGATTTACAGC
1 TCGTGAGAGCATACAGA-TTACAGC
* *
4722754 TCGGGTGAGCATACA
1 TCGTGAGAGCATACA
4722769 TGTACAGGAT
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
24 33 0.65
25 18 0.35
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (24 bp):
TCGTGAGAGCATACAGATTACAGC
Found at i:4725258 original size:20 final size:20
Alignment explanation
Indices: 4725209--4725263 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
4725199 CATAATAAAA
*
4725209 GTACCAAAGTACAAACAGGG
1 GTACCAAAGTACAATCAGGG
* ** *
4725229 GCACGTAAGTGCAATCAGGG
1 GTACCAAAGTACAATCAGGG
4725249 GTACCAAAGTACAAT
1 GTACCAAAGTACAAT
4725264 AATTTTCTAT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.20, G:0.25, T:0.15
Consensus pattern (20 bp):
GTACCAAAGTACAATCAGGG
Found at i:4727365 original size:19 final size:20
Alignment explanation
Indices: 4727327--4727366 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
4727317 CGACACATAT
4727327 ATTTCTTCTAAAAGTGAATA
1 ATTTCTTCTAAAAGTGAATA
*
4727347 ATTTCTTCTAACA-TGAATA
1 ATTTCTTCTAAAAGTGAATA
4727366 A
1 A
4727367 AATGGGTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (20 bp):
ATTTCTTCTAAAAGTGAATA
Found at i:4731927 original size:10 final size:10
Alignment explanation
Indices: 4731912--4731936 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4731902 TTAAATATTA
4731912 TTTTTTGGTT
1 TTTTTTGGTT
4731922 TTTTTTGGTT
1 TTTTTTGGTT
4731932 TTTTT
1 TTTTT
4731937 CTTTTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (10 bp):
TTTTTTGGTT
Found at i:4734635 original size:42 final size:42
Alignment explanation
Indices: 4734556--4734635 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
4734546 AATATAAAAA
* *
4734556 GAAGAATAAGAAGAAAAAATAAATAATAAAATAAAATAGCAC
1 GAAGAATAAAAAGAAAAAATAAATAATAAAAGAAAATAGCAC
4734598 GAAGAA-AAAAAGAAAAAATAAATAA-AATAAGAGAAATA
1 GAAGAATAAAAAGAAAAAATAAATAATAA-AAGA-AAATA
4734636 AATAAACAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 2 0.06
41 21 0.62
42 11 0.32
ACGTcount: A:0.72, C:0.03, G:0.12, T:0.12
Consensus pattern (42 bp):
GAAGAATAAAAAGAAAAAATAAATAATAAAAGAAAATAGCAC
Found at i:4735343 original size:22 final size:23
Alignment explanation
Indices: 4735289--4735344 Score: 60
Period size: 28 Copynumber: 2.3 Consensus size: 23
4735279 ACAGTATTAG
4735289 TACAGTGTGGGCCTTAGCCCATTATAA
1 TACAGTGTGGGCCTTAGCCC----TAA
4735316 TAACAGTGTGGGCCTTAGCCC-AA
1 T-ACAGTGTGGGCCTTAGCCCTAA
4735339 TACAGT
1 TACAGT
4735345 AATCAATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
22 5 0.18
23 3 0.11
27 1 0.04
28 19 0.68
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (23 bp):
TACAGTGTGGGCCTTAGCCCTAA
Found at i:4735477 original size:26 final size:26
Alignment explanation
Indices: 4735448--4735524 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
4735438 ACACCAATAT
* *
4735448 TGCAGCAAAGCTGCCAGTAATAGTGA
1 TGCAACAAAGCTGCCAGTAATAGTAA
*
4735474 TGCAACAAAGCTACCAGTAATAGTAA
1 TGCAACAAAGCTGCCAGTAATAGTAA
* * *
4735500 TACAACAAAGTTGCCAGTAACAGTA
1 TGCAACAAAGCTGCCAGTAATAGTA
4735525 TATGTGGCAC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (26 bp):
TGCAACAAAGCTGCCAGTAATAGTAA
Found at i:4735646 original size:2 final size:2
Alignment explanation
Indices: 4735639--4735666 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4735629 AGTAAGAGTC
4735639 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4735667 CATAGAGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4735736 original size:27 final size:27
Alignment explanation
Indices: 4735706--4735764 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
4735696 CAACTCCTAG
4735706 GGGTATAACAGTCATTTTACCCTATGA
1 GGGTATAACAGTCATTTTACCCTATGA
** * *
4735733 GGGTATTTCGGTCATTTTACCCTTTGA
1 GGGTATAACAGTCATTTTACCCTATGA
4735760 GGGTA
1 GGGTA
4735765 ATTTAGTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (27 bp):
GGGTATAACAGTCATTTTACCCTATGA
Found at i:4735773 original size:27 final size:27
Alignment explanation
Indices: 4735716--4735992 Score: 165
Period size: 27 Copynumber: 10.3 Consensus size: 27
4735706 GGGTATAACA
*
4735716 GTCATTTTACCCTATGAGGGT-ATTTCG
1 GTCATTTTACCCTTTGAGGGTAATTT-G
*
4735743 GTCATTTTACCCTTTGAGGGTAATTTA
1 GTCATTTTACCCTTTGAGGGTAATTTG
* * *
4735770 GTCATTTTACCTTTTGGGGGTAATTCG
1 GTCATTTTACCCTTTGAGGGTAATTTG
* * ** * **
4735797 ATCATTCTACCCTTCAAGTGTAATCCG
1 GTCATTTTACCCTTTGAGGGTAATTTG
* * **
4735824 GTCACTTTACCCTTCG-GCGGTAATTCA
1 GTCATTTTACCCTTTGAG-GGTAATTTG
* * * *
4735851 ATCACTTTACCCTCT-AGGGGTAATTCG
1 GTCATTTTACCCTTTGA-GGGTAATTTG
4735878 GTCATTTTA-CCTTTCG-GGGTAATTTG
1 GTCATTTTACCCTTT-GAGGGTAATTTG
* *
4735904 GTCATTTTACCC-TTCAGGGATAATTCG
1 GTCATTTTACCCTTTGAGGG-TAATTTG
** * *
4735931 GTCATTTT-CCTCTACGGGGGTAATTCG
1 GTCATTTTACC-CTTTGAGGGTAATTTG
* * *
4735958 GTGATTCTA-CCTTTCAGGAGTAATTTG
1 GTCATTTTACCCTTTGAGG-GTAATTTG
*
4735985 TTCATTTT
1 GTCATTTT
4735993 CCTGTTATTT
Statistics
Matches: 192, Mismatches: 45, Indels: 26
0.73 0.17 0.10
Matches are distributed among these distances:
26 34 0.18
27 150 0.78
28 8 0.04
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCTTTGAGGGTAATTTG
Found at i:4735791 original size:54 final size:54
Alignment explanation
Indices: 4735716--4735992 Score: 233
Period size: 54 Copynumber: 5.1 Consensus size: 54
4735706 GGGTATAACA
* * * * **
4735716 GTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTTTGAGGGTAATTTA
1 GTCATTTTACCCTTTGGGGGTAATTCGGTCATTTTACCCTTTCAGGGTAATTCG
* * * * *
4735770 GTCATTTTACCTTTTGGGGGTAATTCGATCATTCTACCC-TTCAAGTGTAATCCG
1 GTCATTTTACCCTTTGGGGGTAATTCGGTCATTTTACCCTTTC-AGGGTAATTCG
* * * ** * *
4735824 GTCACTTTACCCTTCGGCGGTAATTCAATCACTTTACCCTCT-AGGGGTAATTCG
1 GTCATTTTACCCTTTGGGGGTAATTCGGTCATTTTACCCTTTCA-GGGTAATTCG
* *
4735878 GTCATTTTA-CCTTTCGGGGTAATTTGGTCATTTTACCC-TTCAGGGATAATTCG
1 GTCATTTTACCCTTTGGGGGTAATTCGGTCATTTTACCCTTTCAGGG-TAATTCG
** * * *
4735931 GTCATTTT-CCTCTACGGGGGTAATTCGGTGATTCTA-CCTTTCAGGAGTAATTTG
1 GTCATTTTACC-CTTTGGGGGTAATTCGGTCATTTTACCCTTTCAGG-GTAATTCG
*
4735985 TTCATTTT
1 GTCATTTT
4735993 CCTGTTATTT
Statistics
Matches: 176, Mismatches: 38, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
52 4 0.02
53 44 0.25
54 126 0.72
55 2 0.01
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.40
Consensus pattern (54 bp):
GTCATTTTACCCTTTGGGGGTAATTCGGTCATTTTACCCTTTCAGGGTAATTCG
Found at i:4735953 original size:107 final size:108
Alignment explanation
Indices: 4735760--4735956 Score: 256
Period size: 107 Copynumber: 1.8 Consensus size: 108
4735750 TACCCTTTGA
* * *
4735760 GGGTAATTTAGTCATTTTACCTTTTGGGGGTAATTCGATCATTCTACCCTTCAAGTGTAATCCGG
1 GGGTAATTCAGTCATTTTACCTTTTCGGGGTAATTCGATCATTCTACCCTTCAAGGGTAATCCGG
*
4735825 TCACTTTACCCTTCGGCGGTAATTCAATCACTTTACCCTCTAG
66 TCACTTTACCCTACGGCGGTAATTCAATCACTTTACCCTCTAG
* * * * *
4735868 GGGTAATTCGGTCATTTTACC-TTTCGGGGTAATTTGGTCATTTTACCCTTC-AGGGATAATTCG
1 GGGTAATTCAGTCATTTTACCTTTTCGGGGTAATTCGATCATTCTACCCTTCAAGGG-TAATCCG
* *
4735931 GTCA-TTTTCCTCTACGGGGGTAATTC
65 GTCACTTTACC-CTACGGCGGTAATTC
4735957 GGTGATTCTA
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
106 8 0.11
107 49 0.64
108 19 0.25
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (108 bp):
GGGTAATTCAGTCATTTTACCTTTTCGGGGTAATTCGATCATTCTACCCTTCAAGGGTAATCCGG
TCACTTTACCCTACGGCGGTAATTCAATCACTTTACCCTCTAG
Found at i:4737630 original size:28 final size:29
Alignment explanation
Indices: 4737579--4737636 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
4737569 ATCAGTATAG
* *
4737579 TGTGGGCCTTAGCCCATTACAGTAA-CAA
1 TGTGGGCCTTAGCACAATACAGTAATCAA
* *
4737607 TGTGGGCCTTAGCATAATAGAGTAATCAA
1 TGTGGGCCTTAGCACAATACAGTAATCAA
4737636 T
1 T
4737637 ACAATGCAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (29 bp):
TGTGGGCCTTAGCACAATACAGTAATCAA
Found at i:4737771 original size:26 final size:26
Alignment explanation
Indices: 4737742--4737818 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 26
4737732 ACACCAATAT
*
4737742 TGCAGCAAAGCTGCCAGTAATAGTGA
1 TGCAGCAAAGCTGCCAGTAATAGTAA
* *
4737768 TGCAACAAAGCTACCAGTAATAGTAA
1 TGCAGCAAAGCTGCCAGTAATAGTAA
** * *
4737794 TATAGCAAAGGTGCCAGTAACAGTA
1 TGCAGCAAAGCTGCCAGTAATAGTA
4737819 TATGTTGCAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.19
Consensus pattern (26 bp):
TGCAGCAAAGCTGCCAGTAATAGTAA
Found at i:4738069 original size:54 final size:54
Alignment explanation
Indices: 4737993--4738108 Score: 180
Period size: 54 Copynumber: 2.1 Consensus size: 54
4737983 AGGGTATCAT
* *
4737993 AGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTTTGAGGGTAATTC
1 AGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTTCGAGGGTAATTC
*
4738047 AGTCATTTTACCC-ATCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTAATTT
1 AGTCATTTTACCCTAT-GAGGGTATTTCGATCATTTTACCCTTCGAGGGTAATTC
*
4738101 GGTCATTT
1 AGTCATTT
4738109 ACCAATGATT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
53 2 0.04
54 55 0.96
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.41
Consensus pattern (54 bp):
AGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTTCGAGGGTAATTC
Found at i:4738106 original size:27 final size:27
Alignment explanation
Indices: 4737994--4738108 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 27
4737984 GGGTATCATA
*
4737994 GTCATTTTACCCTAT-GGGGGTATTTCG
1 GTCATTTTACCCT-TCGAGGGTATTTCG
* * * *
4738021 ATCATTTTACCCTTTGAGGGTAATTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
4738048 GTCATTTTACCCATCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
4738075 ATCATTTTACCCTTCGAGGGTAATTT-G
1 GTCATTTTACCCTTCGAGGGT-ATTTCG
4738102 GTCATTT
1 GTCATTT
4738109 ACCAATGATT
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 69 0.93
28 4 0.05
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:4739711 original size:33 final size:32
Alignment explanation
Indices: 4739673--4739750 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 32
4739663 CCTAAGCTCT
4739673 ATACAGTATCAGTACAGTGTGGGCCTTAGCCCA
1 ATACAGTATCA-TACAGTGTGGGCCTTAGCCCA
*
4739706 TTACAG--T-A-ACAGTGTGGGCCTTAGCCCA
1 ATACAGTATCATACAGTGTGGGCCTTAGCCCA
4739734 ATACAGTAATCAATACA
1 ATACAGT-ATC-ATACA
4739751 ATGCAGTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
28 25 0.68
30 1 0.03
31 2 0.05
33 6 0.16
34 3 0.08
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (32 bp):
ATACAGTATCATACAGTGTGGGCCTTAGCCCA
Found at i:4739721 original size:28 final size:28
Alignment explanation
Indices: 4739682--4739742 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
4739672 TATACAGTAT
*
4739682 CAGT-ACAGTGTGGGCCTTAGCCCATTA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
4739709 CAGTAACAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
4739737 CAGTAA
1 CAGTAA
4739743 TCAATACAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:4740137 original size:27 final size:27
Alignment explanation
Indices: 4740107--4740408 Score: 338
Period size: 27 Copynumber: 11.2 Consensus size: 27
4740097 GTATAACAGC
* * *
4740107 CATTTTACCGTAT-GGGGGTATTTCGGT
1 CATTTTACCCT-TCGGGGGTAATTCAGT
* **
4740134 CATTTTACCCTTCGAGGGTAATTTTGT
1 CATTTTACCCTTCGGGGGTAATTCAGT
*
4740161 CATTTTACCCTTCGGGGGTAATTCAAT
1 CATTTTACCCTTCGGGGGTAATTCAGT
* * * **
4740188 GACTTTACCTTTCGGGGGTAATTTTGT
1 CATTTTACCCTTCGGGGGTAATTCAGT
4740215 CATTTTACCCTTCGGGGGTAATTCAGT
1 CATTTTACCCTTCGGGGGTAATTCAGT
* * *
4740242 CACTTTACCCTTAGGGGTTAATTCAGT
1 CATTTTACCCTTCGGGGGTAATTCAGT
* *
4740269 CACTTTACCCTTCGGGGGTAATTCGGT
1 CATTTTACCCTTCGGGGGTAATTCAGT
*
4740296 CATTTTACCCTTCGGGGGTAATTCGGT
1 CATTTTACCCTTCGGGGGTAATTCAGT
* *
4740323 CACTTTACCCTTAGGGGGTAATTCAGT
1 CATTTTACCCTTCGGGGGTAATTCAGT
* * * *
4740350 CACTTTACCCTTCGAGGATAATTCGGT
1 CATTTTACCCTTCGGGGGTAATTCAGT
**
4740377 CATTTTACCCTTTAGGGGTAATTCTA-T
1 CATTTTACCCTTCGGGGGTAATTC-AGT
4740404 CATTT
1 CATTT
4740409 GCCCATGATT
Statistics
Matches: 233, Mismatches: 40, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
26 1 0.00
27 232 1.00
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.39
Consensus pattern (27 bp):
CATTTTACCCTTCGGGGGTAATTCAGT
Found at i:4740249 original size:81 final size:81
Alignment explanation
Indices: 4740120--4740400 Score: 409
Period size: 81 Copynumber: 3.5 Consensus size: 81
4740110 TTTACCGTAT
* * ** * *
4740120 GGGGGTATTTCGGTCATTTTACCCTTCGAGGGTAATTTTGTCATTTTACCCTTCGGGGGTAATTC
1 GGGGGTAATTCGGTCATTTTACCCTTCGGGGGTAATTCAGTCACTTTACCCTTAGGGGGTAATTC
* * *
4740185 AATGACTTTACCTTTC
66 AGTCACTTTACCCTTC
** *
4740201 GGGGGTAATTTTGTCATTTTACCCTTCGGGGGTAATTCAGTCACTTTACCCTTAGGGGTTAATTC
1 GGGGGTAATTCGGTCATTTTACCCTTCGGGGGTAATTCAGTCACTTTACCCTTAGGGGGTAATTC
4740266 AGTCACTTTACCCTTC
66 AGTCACTTTACCCTTC
*
4740282 GGGGGTAATTCGGTCATTTTACCCTTCGGGGGTAATTCGGTCACTTTACCCTTAGGGGGTAATTC
1 GGGGGTAATTCGGTCATTTTACCCTTCGGGGGTAATTCAGTCACTTTACCCTTAGGGGGTAATTC
4740347 AGTCACTTTACCCTTC
66 AGTCACTTTACCCTTC
* * **
4740363 GAGGATAATTCGGTCATTTTACCCTTTAGGGGTAATTC
1 GGGGGTAATTCGGTCATTTTACCCTTCGGGGGTAATTC
4740401 TATCATTTGC
Statistics
Matches: 180, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 180 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.38
Consensus pattern (81 bp):
GGGGGTAATTCGGTCATTTTACCCTTCGGGGGTAATTCAGTCACTTTACCCTTAGGGGGTAATTC
AGTCACTTTACCCTTC
Found at i:4751964 original size:383 final size:383
Alignment explanation
Indices: 4751248--4751969 Score: 1066
Period size: 383 Copynumber: 1.9 Consensus size: 383
4751238 AAATTGATTC
* * *
4751248 TTATATAACTGCCCAAGTAGTCGAGATGAGAACTAATAGGATATAGATGGCATGCCATTATGGAA
1 TTATACAACTGCCCAAGTAGACGAGATGAGAACTAATAGGATATAGATGGCATGCCATTAAGGAA
* *
4751313 AATTTAGCCTGCTCTCTATTTTGAATACGCACTTCGGTGTTGTCATGTCTTGTTCTCAATACACA
66 AATTTAGCCTGCTCTCTATTTTGAATACACACTTCGGTGTTGTCATGTCTTGTTCACAATACACA
* * * ** * *
4751378 CATCGATGTTGTCTTGTTCTATATTTGCACTTTGGTGCATTACTATATTGTTTTCGTATATATTA
131 CATCAATGTTGTCCTATTCTATATTTGCACTTCAGTGCATTACTATATAGTTTTCGTATATACTA
** * *
4751443 TGCATTCTGTTAAGTCTACATTGGGCCTCTGCTGAATAATAAAATACAATGATAAAATAAAAAGT
196 TGCATTCTAATAAGTCTACATTGGGCCTCTACTGAATAATAAAAGACAATGATAAAATAAAAAGT
* * *
4751508 TACGGTGAGCAACTTCTGATGAAAAGTTCTTGTTACACAATGAGATGACAAGTAAAGGATTTTGA
261 TACGGTGAGCAAATTCTGATGAAAAGTTCTTATTACACAACGAGATGACAAGTAAAGGATTTTGA
*
4751573 TAACAATTTCTGTTAAATTGTGAAGTGATAATGTAGTGAATTATACTTATAAAAGTTT
326 TAACAATTTATGTTAAATTGTGAAGTGATAATGTAGTGAATTATACTTATAAAAGTTT
* * **
4751631 TTATACAATTGCCCAAGTAGACGAGATTAGAACTCGTAGGATATAGATGGCATGCCATTAAGGAA
1 TTATACAACTGCCCAAGTAGACGAGATGAGAACTAATAGGATATAGATGGCATGCCATTAAGGAA
* * * * * **
4751696 AATTTAGCGTGCTCTCTGTTTTGTATACACATTTCGGTGTTGTCATGTCTTGTTCAGAATACGTA
66 AATTTAGCCTGCTCTCTATTTTGAATACACACTTCGGTGTTGTCATGTCTTGTTCACAATACACA
* * * * * *
4751761 TATCAATGTTGTCCTATTTTTTATTTTCACTTCAGTGCATTACTGTATAGTTTTCGTATATCCTA
131 CATCAATGTTGTCCTATTCTATATTTGCACTTCAGTGCATTACTATATAGTTTTCGTATATACTA
* * *
4751826 TGCATTCTAATAAGTCTACATTGGGCCTCTATTGAATAATCAAAGATAATGATAAAATAAAAAGT
196 TGCATTCTAATAAGTCTACATTGGGCCTCTACTGAATAATAAAAGACAATGATAAAATAAAAAGT
* *
4751891 TATGGTGAGCAAATTCTGATGAAAAGTTCTTATTACACAACGAGATGACAAGTAAATGATTTTGA
261 TACGGTGAGCAAATTCTGATGAAAAGTTCTTATTACACAACGAGATGACAAGTAAAGGATTTTGA
4751956 TAACAATTTATGTT
326 TAACAATTTATGTT
4751970 TGTAACACTA
Statistics
Matches: 297, Mismatches: 42, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
383 297 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (383 bp):
TTATACAACTGCCCAAGTAGACGAGATGAGAACTAATAGGATATAGATGGCATGCCATTAAGGAA
AATTTAGCCTGCTCTCTATTTTGAATACACACTTCGGTGTTGTCATGTCTTGTTCACAATACACA
CATCAATGTTGTCCTATTCTATATTTGCACTTCAGTGCATTACTATATAGTTTTCGTATATACTA
TGCATTCTAATAAGTCTACATTGGGCCTCTACTGAATAATAAAAGACAATGATAAAATAAAAAGT
TACGGTGAGCAAATTCTGATGAAAAGTTCTTATTACACAACGAGATGACAAGTAAAGGATTTTGA
TAACAATTTATGTTAAATTGTGAAGTGATAATGTAGTGAATTATACTTATAAAAGTTT
Found at i:4752369 original size:21 final size:21
Alignment explanation
Indices: 4752343--4752382 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4752333 AACAGTCCAA
4752343 CAAAATCAAAATAGAAAAAAC
1 CAAAATCAAAATAGAAAAAAC
* *
4752364 CAAAATTAATATAGAAAAA
1 CAAAATCAAAATAGAAAAA
4752383 TTATAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.70, C:0.10, G:0.05, T:0.15
Consensus pattern (21 bp):
CAAAATCAAAATAGAAAAAAC
Found at i:4760090 original size:22 final size:22
Alignment explanation
Indices: 4760064--4760109 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
4760054 TGTTTAAATA
4760064 TGCTTAATAAGTTATTTTAATG
1 TGCTTAATAAGTTATTTTAATG
4760086 TGCTTAATAAGTTATTTTAATG
1 TGCTTAATAAGTTATTTTAATG
4760108 TG
1 TG
4760110 TTTATTGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.50
Consensus pattern (22 bp):
TGCTTAATAAGTTATTTTAATG
Found at i:4766035 original size:22 final size:23
Alignment explanation
Indices: 4766002--4766060 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
4765992 AGAATGATAC
*
4766002 ATGA-AAACTTAAAATAAT-TAT
1 ATGATAAATTTAAAATAATATAT
4766023 ATGATAAATTTAAAATAATAATAT
1 ATGATAAATTTAAAATAAT-ATAT
*
4766047 GTGATAAATTTAAA
1 ATGATAAATTTAAA
4766061 CAACATTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 13 0.39
24 16 0.48
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (23 bp):
ATGATAAATTTAAAATAATATAT
Found at i:4767039 original size:12 final size:13
Alignment explanation
Indices: 4767018--4767046 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
4767008 CCGAAAAGAA
4767018 AAAAATGAAAAAG
1 AAAAATGAAAAAG
4767031 AAAAA-GAAAAAG
1 AAAAATGAAAAAG
4767043 AAAA
1 AAAA
4767047 TCAAAATCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (13 bp):
AAAAATGAAAAAG
Found at i:4767052 original size:12 final size:12
Alignment explanation
Indices: 4767019--4767052 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4767009 CGAAAAGAAA
4767019 AAAATGAAAAAG
1 AAAATGAAAAAG
*
4767031 AAAAAGAAAAAG
1 AAAATGAAAAAG
*
4767043 AAAATCAAAA
1 AAAATGAAAA
4767053 TCCTCCCCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.06
Consensus pattern (12 bp):
AAAATGAAAAAG
Found at i:4768983 original size:23 final size:24
Alignment explanation
Indices: 4768934--4768986 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
4768924 TAATAAAAAA
*
4768934 AATAATACAACATAACTTTTAGGT
1 AATAATACAACATAACTTTTAGAT
*
4768958 AATAATACTA-ATAA-TTTTAGAAT
1 AATAATACAACATAACTTTTAG-AT
4768981 AATAAT
1 AATAAT
4768987 GCACAATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 6 0.23
23 11 0.42
24 9 0.35
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.36
Consensus pattern (24 bp):
AATAATACAACATAACTTTTAGAT
Found at i:4769322 original size:108 final size:109
Alignment explanation
Indices: 4769187--4769405 Score: 431
Period size: 108 Copynumber: 2.0 Consensus size: 109
4769177 TATATAATAA
4769187 TGGGATAACGAATATTAAAAAGAAAATATAAAACAACTTAATAAGGGTCAAATTTTAACTTAAAG
1 TGGGATAACGAATATTAAAAAGAAAATATAAAACAACTTAATAAGGGTCAAATTTTAACTTAAAG
4769252 CAGAATTAAAGGTAACAAATGGAAATAAATCATAATGCGGGGGC
66 CAGAATTAAAGGTAACAAATGGAAATAAATCATAATGCGGGGGC
4769296 TGGGATAACG-ATATTAAAAAGAAAATATAAAACAACTTAATAAGGGTCAAATTTTAACTTAAAG
1 TGGGATAACGAATATTAAAAAGAAAATATAAAACAACTTAATAAGGGTCAAATTTTAACTTAAAG
4769360 CAGAATTAAAGGTAACAAATGGAAATAAATCATAATGCGGGGGC
66 CAGAATTAAAGGTAACAAATGGAAATAAATCATAATGCGGGGGC
4769404 TG
1 TG
4769406 AAACGAGATA
Statistics
Matches: 110, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
108 100 0.91
109 10 0.09
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.23
Consensus pattern (109 bp):
TGGGATAACGAATATTAAAAAGAAAATATAAAACAACTTAATAAGGGTCAAATTTTAACTTAAAG
CAGAATTAAAGGTAACAAATGGAAATAAATCATAATGCGGGGGC
Found at i:4770271 original size:51 final size:51
Alignment explanation
Indices: 4770184--4770331 Score: 170
Period size: 51 Copynumber: 2.9 Consensus size: 51
4770174 AAGCAAGTAG
* *
4770184 GTGGCAGCCTTGCCATAATTTGAACCGTGGCCATTGAGGCCACTATAGCAAC
1 GTGGCAGCCTTGCCATAA-CTGAACCGTGGCAATTGAGGCCACTATAGCAAC
** * * *
4770236 GTGGCAGCCTTGCCACCACTGAACCGTGGCAATTGAAGCCAGTATAGGAAC
1 GTGGCAGCCTTGCCATAACTGAACCGTGGCAATTGAGGCCACTATAGCAAC
* * ** * *
4770287 TTGGGAGCCTTGCCATTGCTGAACCGTGGCATTTGAGGCCGCTAT
1 GTGGCAGCCTTGCCATAACTGAACCGTGGCAATTGAGGCCACTAT
4770332 GGAGTCGTGG
Statistics
Matches: 80, Mismatches: 16, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
51 64 0.80
52 16 0.20
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (51 bp):
GTGGCAGCCTTGCCATAACTGAACCGTGGCAATTGAGGCCACTATAGCAAC
Found at i:4773402 original size:4 final size:4
Alignment explanation
Indices: 4773393--4773485 Score: 159
Period size: 4 Copynumber: 23.2 Consensus size: 4
4773383 CATATTACAG
* * *
4773393 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAC GTAC GTAC
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
4773441 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
4773486 GGTTATTTGC
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 87 1.00
ACGTcount: A:0.25, C:0.03, G:0.26, T:0.46
Consensus pattern (4 bp):
GTAT
Found at i:4774072 original size:2 final size:2
Alignment explanation
Indices: 4774049--4774086 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
4774039 TATTTATAGG
* *
4774049 TA TA -A TA TA AA TA TA AA 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 TA TA TA T
4774087 CAAAGCAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:4774298 original size:25 final size:23
Alignment explanation
Indices: 4774270--4774328 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 23
4774260 ACATTTTAAA
4774270 AAATGAATTAATTAATTTCATGAGT
1 AAATGAATTAATTAATTTCAT-A-T
* *
4774295 AAATATAATT-ATTTATTTCATAT
1 AAAT-GAATTAATTAATTTCATAT
4774318 AAATGTAATTA
1 AAATG-AATTA
4774329 TTGATTTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
23 9 0.32
24 1 0.04
25 14 0.50
26 4 0.14
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (23 bp):
AAATGAATTAATTAATTTCATAT
Found at i:4774326 original size:23 final size:25
Alignment explanation
Indices: 4774270--4774335 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 25
4774260 ACATTTTAAA
4774270 AAATG-AATTAATTAATTTCATGAGT
1 AAATGTAATT-ATTAATTTCATGAGT
* *
4774295 AAATATAATTATTTATTTCAT-A-T
1 AAATGTAATTATTAATTTCATGAGT
*
4774318 AAATGTAATTATTGATTT
1 AAATGTAATTATTAATTT
4774336 ATGTGATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.47
24 1 0.03
25 14 0.39
26 4 0.11
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (25 bp):
AAATGTAATTATTAATTTCATGAGT
Found at i:4775544 original size:25 final size:23
Alignment explanation
Indices: 4775516--4775574 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 23
4775506 ACATTTTAAA
4775516 AAATGAATTAATTAATTTCATGAGT
1 AAATGAATTAATTAATTTCAT-A-T
* *
4775541 AAATATAATT-ATTTATTTCATAT
1 AAAT-GAATTAATTAATTTCATAT
4775564 AAATGTAATTA
1 AAATG-AATTA
4775575 TTGATTTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
23 9 0.32
24 1 0.04
25 14 0.50
26 4 0.14
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (23 bp):
AAATGAATTAATTAATTTCATAT
Found at i:4775572 original size:23 final size:25
Alignment explanation
Indices: 4775516--4775581 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 25
4775506 ACATTTTAAA
4775516 AAATG-AATTAATTAATTTCATGAGT
1 AAATGTAATT-ATTAATTTCATGAGT
* *
4775541 AAATATAATTATTTATTTCAT-A-T
1 AAATGTAATTATTAATTTCATGAGT
*
4775564 AAATGTAATTATTGATTT
1 AAATGTAATTATTAATTT
4775582 ATGTGATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.47
24 1 0.03
25 14 0.39
26 4 0.11
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (25 bp):
AAATGTAATTATTAATTTCATGAGT
Found at i:4779153 original size:15 final size:17
Alignment explanation
Indices: 4779132--4779173 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
4779122 TAACCTTCTA
4779132 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
4779148 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
4779164 AAAATTATAA
1 AAAATTATAA
4779174 TTTTATTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 12 0.55
16 2 0.09
17 8 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:4779165 original size:24 final size:23
Alignment explanation
Indices: 4779132--4779200 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 23
4779122 TAACCTTCTA
*
4779132 AAAATTATAAAAATATAAATTATT
1 AAAATAATAAAAATATAAATT-TT
*
4779156 AAAATAATAAAATTAT-AATTTT
1 AAAATAATAAAAATATAAATTTT
** *
4779178 ATTATCATAAAAATATATAATTT
1 AAAATAATAAAAATATA-AATTT
4779201 AATTTCAACC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
22 14 0.38
23 4 0.11
24 19 0.51
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAATAATAAAAATATAAATTTT
Found at i:4779194 original size:22 final size:23
Alignment explanation
Indices: 4779132--4779194 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
4779122 TAACCTTCTA
*
4779132 AAAATTATAAAAATATAAATTATT
1 AAAATAATAAAAATAT-AATTATT
*
4779156 AAAATAATAAAATTATAATT-TT
1 AAAATAATAAAAATATAATTATT
** *
4779178 ATTATCATAAAAATATA
1 AAAATAATAAAAATATA
4779195 TAATTTAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 15 0.45
23 4 0.12
24 14 0.42
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATAATAAAAATATAATTATT
Found at i:4781349 original size:11 final size:11
Alignment explanation
Indices: 4781333--4781357 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4781323 GTCAGATTCA
4781333 AATTTTAATTT
1 AATTTTAATTT
4781344 AATTTTAATTT
1 AATTTTAATTT
4781355 AAT
1 AAT
4781358 ATAAAATTAT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
AATTTTAATTT
Found at i:4790130 original size:18 final size:19
Alignment explanation
Indices: 4790102--4790137 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
4790092 TTTCTCATCC
4790102 ATTTAAATATTTAATTTAA
1 ATTTAAATATTTAATTTAA
4790121 ATTT-AATATTTAATTTA
1 ATTTAAATATTTAATTTA
4790138 GTATCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTAAATATTTAATTTAA
Found at i:4812202 original size:3 final size:3
Alignment explanation
Indices: 4812194--4812222 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4812184 CTAAAGCATG
4812194 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
4812223 GATGATGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4818471 original size:83 final size:83
Alignment explanation
Indices: 4818332--4818581 Score: 500
Period size: 83 Copynumber: 3.0 Consensus size: 83
4818322 TTTATCAAGA
4818332 TGTTGATGAGTGAAAAGAATAGGGTAATCCCTATTAATCTTATTGATTACCCTATTCTTGTTATG
1 TGTTGATGAGTGAAAAGAATAGGGTAATCCCTATTAATCTTATTGATTACCCTATTCTTGTTATG
4818397 GTATCAAGAGCCTAGGTT
66 GTATCAAGAGCCTAGGTT
4818415 TGTTGATGAGTGAAAAGAATAGGGTAATCCCTATTAATCTTATTGATTACCCTATTCTTGTTATG
1 TGTTGATGAGTGAAAAGAATAGGGTAATCCCTATTAATCTTATTGATTACCCTATTCTTGTTATG
4818480 GTATCAAGAGCCTAGGTT
66 GTATCAAGAGCCTAGGTT
4818498 TGTTGATGAGTGAAAAGAATAGGGTAATCCCTATTAATCTTATTGATTACCCTATTCTTGTTATG
1 TGTTGATGAGTGAAAAGAATAGGGTAATCCCTATTAATCTTATTGATTACCCTATTCTTGTTATG
4818563 GTATCAAGAGCCTAGGTT
66 GTATCAAGAGCCTAGGTT
4818581 T
1 T
4818582 CCCTTTTTAT
Statistics
Matches: 167, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 167 1.00
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (83 bp):
TGTTGATGAGTGAAAAGAATAGGGTAATCCCTATTAATCTTATTGATTACCCTATTCTTGTTATG
GTATCAAGAGCCTAGGTT
Found at i:4819092 original size:31 final size:31
Alignment explanation
Indices: 4819057--4819115 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
4819047 CGTAGGAATA
*
4819057 GGAAATATATATAATATATTCCTAAATAAAT
1 GGAAAGATATATAATATATTCCTAAATAAAT
*
4819088 GGAAAGATATATAATTTATTCCTAAATA
1 GGAAAGATATATAATATATTCCTAAATA
4819116 TATGCTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (31 bp):
GGAAAGATATATAATATATTCCTAAATAAAT
Found at i:4819159 original size:13 final size:13
Alignment explanation
Indices: 4819141--4819165 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4819131 ACGATAATAT
4819141 ATAATAATATCCC
1 ATAATAATATCCC
4819154 ATAATAATATCC
1 ATAATAATATCC
4819166 AAATCATGAG
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:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATAATATCCC
Found at i:4819497 original size:2 final size:2
Alignment explanation
Indices: 4819490--4819515 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4819480 AAGTAGGGAT
4819490 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
4819516 AGGATAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4820394 original size:31 final size:31
Alignment explanation
Indices: 4820358--4820458 Score: 112
Period size: 31 Copynumber: 3.3 Consensus size: 31
4820348 CTACATCATT
* * *
4820358 AGTCACTAAACTATGGGTAAGTTTTCATTTT
1 AGTCACTAAACTATGCGAAAGTTTTCATTTA
* * * *
4820389 GGTCACTGAACTATTCGAAAGTTTTTATTTA
1 AGTCACTAAACTATGCGAAAGTTTTCATTTA
* * *
4820420 AGTCACTAAAGTATTCAAAAGTTTTCATTTA
1 AGTCACTAAACTATGCGAAAGTTTTCATTTA
4820451 AGTCACTA
1 AGTCACTA
4820459 GGTTGTTAAG
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (31 bp):
AGTCACTAAACTATGCGAAAGTTTTCATTTA
Found at i:4825098 original size:20 final size:21
Alignment explanation
Indices: 4825073--4825116 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
4825063 TCAATTGAAT
4825073 AAATTA-TTAAAAAAATAAAA
1 AAATTATTTAAAAAAATAAAA
4825093 AAATTATTTAAAAAAATAAAA
1 AAATTATTTAAAAAAATAAAA
4825114 AAA
1 AAA
4825117 GATAGTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (21 bp):
AAATTATTTAAAAAAATAAAA
Found at i:4830692 original size:29 final size:29
Alignment explanation
Indices: 4830658--4830713 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
4830648 TTTGATTCTT
* *
4830658 TTTAATATTACATGGATTAAATTGATCCA
1 TTTAATAATACAGGGATTAAATTGATCCA
* *
4830687 TTTAATAATAGAGGGATTAATTTGATC
1 TTTAATAATACAGGGATTAAATTGATC
4830714 AAATCCCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (29 bp):
TTTAATAATACAGGGATTAAATTGATCCA
Found at i:4834556 original size:109 final size:108
Alignment explanation
Indices: 4834365--4834584 Score: 293
Period size: 109 Copynumber: 2.0 Consensus size: 108
4834355 AAAACCTCTT
* * * *
4834365 GAAGGATCCATGAACGGGAGTCAAGATCTGAAGAGCAGCATATCAATGAGAATTGGAGATCGGTT
1 GAAGGATCCATGAACGGGAGTCAAGATCTGAAGAGCAGCAGATCAAAGAGAATCGGAGATCGGAT
* * * *
4834430 CAAAGCATCGAAGCAGCTTCACTGATCGATACGAAGAGTGAGA
66 CAAAGCATCGAAACAGCTTCACGGATCGATACAAAGAGTAAGA
*
4834473 GAAGGATCCATTG-ACGGGAGTGAAGAGT-TCG-AGAGCAGCAGATCGAAAGAGAATCGGAGATC
1 GAAGGATCCA-TGAACGGGAGTCAAGA-TCT-GAAGAGCAGCAGATC-AAAGAGAATCGGAGATC
*
4834535 GGATCAAAGCATCGAAACAGCTTCACGGATCGATATAAAGAGTAAGA
62 GGATCAAAGCATCGAAACAGCTTCACGGATCGATACAAAGAGTAAGA
4834582 GAA
1 GAA
4834585 CCATGAATAC
Statistics
Matches: 98, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
108 35 0.36
109 63 0.64
ACGTcount: A:0.38, C:0.16, G:0.30, T:0.17
Consensus pattern (108 bp):
GAAGGATCCATGAACGGGAGTCAAGATCTGAAGAGCAGCAGATCAAAGAGAATCGGAGATCGGAT
CAAAGCATCGAAACAGCTTCACGGATCGATACAAAGAGTAAGA
Found at i:4844227 original size:11 final size:11
Alignment explanation
Indices: 4844213--4844252 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
4844203 GTTTTCTCCT
4844213 TATTTTGCTAC
1 TATTTTGCTAC
* *
4844224 TATTTTACTAT
1 TATTTTGCTAC
*
4844235 TATGTTGCTAC
1 TATTTTGCTAC
4844246 TATTTTG
1 TATTTTG
4844253 TTGTTATTAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.57
Consensus pattern (11 bp):
TATTTTGCTAC
Found at i:4844349 original size:11 final size:11
Alignment explanation
Indices: 4844333--4844366 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
4844323 TAATTTTGTT
4844333 ATTATATAAAA
1 ATTATATAAAA
4844344 ATTATATAAAA
1 ATTATATAAAA
*
4844355 ATAATATAAAA
1 ATTATATAAAA
4844366 A
1 A
4844367 ATTAATACGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATTATATAAAA
Done.