Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8279816
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 37
Found at i:4288645 original size:20 final size:21
Alignment explanation
Indices: 4288620--4288668 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
4288610 TCTGAGAGAT
4288620 GGAGAT-AGACGGATTTCGCC
1 GGAGATGAGACGGATTTCGCC
* *
4288640 GGAGATGGGGACGGATTTCGTC
1 GGAGAT-GAGACGGATTTCGCC
*
4288662 AGAGATG
1 GGAGATG
4288669 GGTGAGAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 1 0.04
22 17 0.71
ACGTcount: A:0.24, C:0.14, G:0.41, T:0.20
Consensus pattern (21 bp):
GGAGATGAGACGGATTTCGCC
Found at i:4288654 original size:22 final size:22
Alignment explanation
Indices: 4288627--4288670 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4288617 GATGGAGATA
*
4288627 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
*
4288649 GACGGATTTCGTCAGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
4288671 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCAGAGATGGG
Found at i:4288956 original size:41 final size:41
Alignment explanation
Indices: 4288837--4289015 Score: 164
Period size: 41 Copynumber: 4.4 Consensus size: 41
4288827 CGCTTTGAAA
* * *
4288837 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
* * ** * * *
4288878 ATTGAGTTGCGAAATT-AAGTATCGAGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
*
4288918 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
* ** * * * *
4288959 ACCGCGTTGCGATTTTCCA-AATTCGCATTGAGATAGTCAGT
1 ATCGCGTTGCGATTTTGTATTA-TCGCGTTGCGAAAGTCAGT
*
4289000 ATCGCATTGCGATTTT
1 ATCGCGTTGCGATTTT
4289016 TCAAATTCGC
Statistics
Matches: 110, Mismatches: 26, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
40 33 0.30
41 77 0.70
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (41 bp):
ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
Found at i:4288971 original size:20 final size:20
Alignment explanation
Indices: 4288857--4288970 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
4288847 GATTATGTAT
*
4288857 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* * * *
4288877 TATTGAGTTGCGAAATTAAG
1 TATCGCGTTGCGAAAGTCAG
*
4288897 TATCGAGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
** *
4288917 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
4288938 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
4288958 TACCGCGTTGCGA
1 TATCGCGTTGCGA
4288971 TTTTCCAAAT
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
19 3 0.04
20 57 0.75
21 14 0.18
22 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:4289021 original size:41 final size:41
Alignment explanation
Indices: 4288911--4289028 Score: 150
Period size: 41 Copynumber: 2.9 Consensus size: 41
4288901 GAGTTGCGAA
* * *
4288911 AGTCAGTATCGCGTTGCGATTTTGT--ATTATCGCGTTGCGAT
1 AGTCAGTATCGCGTTGCGATTTT-TCAAAT-TCGCATTGAGAT
* *
4288952 AGTCAGTACCGCGTTGCGATTTTCCAAATTCGCATTGAGAT
1 AGTCAGTATCGCGTTGCGATTTTTCAAATTCGCATTGAGAT
*
4288993 AGTCAGTATCGCATTGCGATTTTTCAAATTCGCATT
1 AGTCAGTATCGCGTTGCGATTTTTCAAATTCGCATT
4289029 ACGATTTACT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 65 0.97
42 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (41 bp):
AGTCAGTATCGCGTTGCGATTTTTCAAATTCGCATTGAGAT
Found at i:4289027 original size:21 final size:20
Alignment explanation
Indices: 4288965--4289052 Score: 70
Period size: 20 Copynumber: 4.3 Consensus size: 20
4288955 CAGTACCGCG
4288965 TTGCGATTTTCCAAATTCGCA
1 TTGCGATTTT-CAAATTCGCA
* ** *
4288986 TTGAGATAGTC-AGTATCGCA
1 TTGCGATTTTCAAAT-TCGCA
4289006 TTGCGATTTTTCAAATTCGCA
1 TTGCGA-TTTTCAAATTCGCA
* * **
4289027 TTACGATTTACTTATTCGCA
1 TTGCGATTTTCAAATTCGCA
4289047 TTGCGA
1 TTGCGA
4289053 ATTGGGAAAA
Statistics
Matches: 51, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
19 2 0.04
20 27 0.53
21 20 0.39
22 2 0.04
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCAAATTCGCA
Found at i:4289094 original size:21 final size:20
Alignment explanation
Indices: 4289042--4289094 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
4289032 ATTTACTTAT
4289042 TCGCATTGCGAATTGGGAAAA
1 TCGCATTGCGAATT-GGAAAA
**
4289063 TCGCAACGCGAAATTGGAAAA
1 TCGCATTGCG-AATTGGAAAA
4289084 TCGCATTGCGA
1 TCGCATTGCGA
4289095 TAATTATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 22 0.81
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (20 bp):
TCGCATTGCGAATTGGAAAA
Found at i:4293380 original size:5 final size:5
Alignment explanation
Indices: 4293370--4293398 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
4293360 CTATGCACAT
4293370 AACAA AACAA AACAA AACAA AACAA AACA
1 AACAA AACAA AACAA AACAA AACAA AACA
4293399 TCAGTAGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (5 bp):
AACAA
Found at i:4293956 original size:19 final size:19
Alignment explanation
Indices: 4293932--4293968 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4293922 AATCCTAATC
*
4293932 ATTAGGCTATAATTTAGGA
1 ATTAGGCTATAACTTAGGA
4293951 ATTAGGCTATAACTTAGG
1 ATTAGGCTATAACTTAGG
4293969 CAACTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (19 bp):
ATTAGGCTATAACTTAGGA
Found at i:4294029 original size:74 final size:74
Alignment explanation
Indices: 4293945--4294093 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
4293935 AGGCTATAAT
4293945 TTAGGAATTAGGCTATAACTTAGGCAACTAAATATACAATAGTAAATACAAAATATTTGGAGAAT
1 TTAGGAATTAGGCTATAACTTAGGCAACTAAATATACAATAGTAAATACAAAATATTTGGAGAAT
4294010 ATTTTGTAA
66 ATTTTGTAA
4294019 TTAGGAATTAGGCTATAACTTAGGCAACTAAATATACAATAGTAAATACAAAATATTTGGAGAAT
1 TTAGGAATTAGGCTATAACTTAGGCAACTAAATATACAATAGTAAATACAAAATATTTGGAGAAT
4294084 ATTTTGTAA
66 ATTTTGTAA
4294093 T
1 T
4294094 CTATCACTCT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (74 bp):
TTAGGAATTAGGCTATAACTTAGGCAACTAAATATACAATAGTAAATACAAAATATTTGGAGAAT
ATTTTGTAA
Found at i:4298462 original size:19 final size:19
Alignment explanation
Indices: 4298438--4298474 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4298428 AATCCTAATC
*
4298438 ATTAGGCTATAATTTAGGA
1 ATTAGGCTATAACTTAGGA
4298457 ATTAGGCTATAACTTAGG
1 ATTAGGCTATAACTTAGG
4298475 CAACTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (19 bp):
ATTAGGCTATAACTTAGGA
Found at i:4298535 original size:74 final size:74
Alignment explanation
Indices: 4298451--4298599 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
4298441 AGGCTATAAT
4298451 TTAGGAATTAGGCTATAACTTAGGCAACTAAATATACAATAGTAAATACAAAATATTTGGAGAAT
1 TTAGGAATTAGGCTATAACTTAGGCAACTAAATATACAATAGTAAATACAAAATATTTGGAGAAT
4298516 ATTTTGTAA
66 ATTTTGTAA
4298525 TTAGGAATTAGGCTATAACTTAGGCAACTAAATATACAATAGTAAATACAAAATATTTGGAGAAT
1 TTAGGAATTAGGCTATAACTTAGGCAACTAAATATACAATAGTAAATACAAAATATTTGGAGAAT
4298590 ATTTTGTAA
66 ATTTTGTAA
4298599 T
1 T
4298600 CTATCATATA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (74 bp):
TTAGGAATTAGGCTATAACTTAGGCAACTAAATATACAATAGTAAATACAAAATATTTGGAGAAT
ATTTTGTAA
Found at i:4299405 original size:21 final size:21
Alignment explanation
Indices: 4299380--4299425 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
4299370 TATTTTTTTA
4299380 AAAAATAAA-GAAAAATGCAAT
1 AAAAATAAATGAAAAATG-AAT
*
4299401 AAAAATAAATTAAAAATGAAT
1 AAAAATAAATGAAAAATGAAT
4299422 AAAA
1 AAAA
4299426 TTCAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (21 bp):
AAAAATAAATGAAAAATGAAT
Found at i:4299424 original size:10 final size:10
Alignment explanation
Indices: 4299380--4299438 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
4299370 TATTTTTTTA
*
4299380 AAAAATAAAG
1 AAAAATAAAT
*
4299390 AAAAATGCAAT
1 AAAAAT-AAAT
4299401 AAAAATAAATT
1 AAAAATAAA-T
*
4299412 AAAAATGAAT
1 AAAAATAAAT
* *
4299422 AAAATTCAAT
1 AAAAATAAAT
4299432 AAAAATA
1 AAAAATA
4299439 TAATGTAAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
10 22 0.56
11 17 0.44
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.20
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:4299985 original size:20 final size:19
Alignment explanation
Indices: 4299962--4300016 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
4299952 TTTACATTAT
4299962 ATTTTTATTGAATTTTATT-C
1 ATTTTTATT-AATTTT-TTGC
* *
4299982 ATTTTAATTCATTTTTTGC
1 ATTTTTATTAATTTTTTGC
*
4300001 ATTTTTATTTATTTTT
1 ATTTTTATTAATTTTT
4300017 AAAAAGTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 2 0.07
19 20 0.67
20 8 0.27
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.69
Consensus pattern (19 bp):
ATTTTTATTAATTTTTTGC
Found at i:4300016 original size:10 final size:10
Alignment explanation
Indices: 4299962--4300017 Score: 60
Period size: 10 Copynumber: 5.7 Consensus size: 10
4299952 TTTACATTAT
*
4299962 ATTTTTATTG
1 ATTTTTATTC
*
4299972 AATTTTATTC
1 ATTTTTATTC
*
4299982 ATTTTAATTC
1 ATTTTTATTC
*
4299992 ATTTTT-TGC
1 ATTTTTATTC
*
4300001 ATTTTTATTT
1 ATTTTTATTC
4300011 ATTTTTA
1 ATTTTTA
4300018 AAAAGTGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
9 8 0.22
10 29 0.78
ACGTcount: A:0.23, C:0.05, G:0.04, T:0.68
Consensus pattern (10 bp):
ATTTTTATTC
Found at i:4304658 original size:20 final size:21
Alignment explanation
Indices: 4304614--4304659 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
4304604 TATTTGAAAA
*
4304614 TTAAATAATTAAATTAAAATTT
1 TTAAATAA-TAAATTAAAATGT
*
4304636 TTAAATAA-AAATTAACATGT
1 TTAAATAATAAATTAAAATGT
4304656 TTAA
1 TTAA
4304660 TATTATGAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 14 0.64
22 8 0.36
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TTAAATAATAAATTAAAATGT
Found at i:4305016 original size:2 final size:2
Alignment explanation
Indices: 4304974--4305004 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4304964 TCTTTTATTA
4304974 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4305005 CTTAAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4311989 original size:31 final size:31
Alignment explanation
Indices: 4311943--4312002 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
4311933 AAACTTTTAA
4311943 ATATTAATTTCATATTTATCTTATTTTAAAT
1 ATATTAATTTCATATTTATCTTATTTTAAAT
* * * *
4311974 ATATTGATTTGATATTTCTCTTGTTTTAA
1 ATATTAATTTCATATTTATCTTATTTTAA
4312003 GTTAATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (31 bp):
ATATTAATTTCATATTTATCTTATTTTAAAT
Found at i:4312823 original size:16 final size:16
Alignment explanation
Indices: 4312802--4312832 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4312792 GTTATAATTT
*
4312802 TTTATTATACTTATTA
1 TTTATTATAATTATTA
4312818 TTTATTATAATTATT
1 TTTATTATAATTATT
4312833 TGAAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATTATAATTATTA
Found at i:4318642 original size:9 final size:8
Alignment explanation
Indices: 4318629--4318669 Score: 57
Period size: 9 Copynumber: 5.0 Consensus size: 8
4318619 AAAATACATT
4318629 ATTAAATA
1 ATTAAATA
4318637 ATTTAAATA
1 A-TTAAATA
4318646 ATTAAATAA
1 ATTAAAT-A
4318655 ATTAAAT-
1 ATTAAATA
4318662 ATTAAATA
1 ATTAAATA
4318670 TAATAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 7 0.23
8 7 0.23
9 16 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATTAAATA
Found at i:4318642 original size:33 final size:33
Alignment explanation
Indices: 4318605--4318669 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
4318595 ATTTTATATC
*
4318605 TTTAAAAAATT-AATAAAATACATTATTAAATAA
1 TTTAAAAAATTAAATAAAATA-AATATTAAATAA
* *
4318638 TTTAAATAATTAAATAAATTAAATATTAAATA
1 TTTAAAAAATTAAATAAAATAAATATTAAATA
4318670 TAATAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 20 0.71
34 8 0.29
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (33 bp):
TTTAAAAAATTAAATAAAATAAATATTAAATAA
Found at i:4318649 original size:17 final size:16
Alignment explanation
Indices: 4318628--4318680 Score: 70
Period size: 17 Copynumber: 3.2 Consensus size: 16
4318618 TAAAATACAT
*
4318628 TATTAAATAATTTAAA
1 TATTAAATAAATTAAA
4318644 TAATTAAATAAATTAAA
1 T-ATTAAATAAATTAAA
*
4318661 TATTAAATATAATAAAA
1 TATTAAATA-AATTAAA
4318678 TAT
1 TAT
4318681 ACCTTAAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
16 9 0.27
17 24 0.73
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TATTAAATAAATTAAA
Found at i:4318658 original size:26 final size:26
Alignment explanation
Indices: 4318611--4318679 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 26
4318601 TATCTTTAAA
4318611 AAAT-TAATAAAATACATTATTAAATAATT
1 AAATATAATAAAATA-A--ATTAAAT-ATT
* *
4318640 TAA-ATAATTAAATAAATTAAATATT
1 AAATATAATAAAATAAATTAAATATT
4318665 AAATATAATAAAATA
1 AAATATAATAAAATA
4318680 TACCTTAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
25 5 0.15
26 17 0.50
28 1 0.03
29 11 0.32
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (26 bp):
AAATATAATAAAATAAATTAAATATT
Found at i:4323157 original size:29 final size:29
Alignment explanation
Indices: 4323115--4323248 Score: 259
Period size: 29 Copynumber: 4.6 Consensus size: 29
4323105 TACCGGGGGT
4323115 AGGTCGCCATGCACGCCCGGCGACCAACC
1 AGGTCGCCATGCACGCCCGGCGACCAACC
*
4323144 AGGTCGCCATGCACGCCCGGCGCCCAACC
1 AGGTCGCCATGCACGCCCGGCGACCAACC
4323173 AGGTCGCCATGCACGCCCGGCGACCAACC
1 AGGTCGCCATGCACGCCCGGCGACCAACC
4323202 AGGTCGCCATGCACGCCCGGCGACCAACC
1 AGGTCGCCATGCACGCCCGGCGACCAACC
4323231 AGGTCGCCATGCACGCCC
1 AGGTCGCCATGCACGCCC
4323249 CTGCGACCTA
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 103 1.00
ACGTcount: A:0.19, C:0.46, G:0.28, T:0.07
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCGGCGACCAACC
Found at i:4323299 original size:30 final size:30
Alignment explanation
Indices: 4323263--4323372 Score: 175
Period size: 30 Copynumber: 3.7 Consensus size: 30
4323253 GACCTACCCC
4323263 ACGACCTCCATGCACGCCCATGCACGCCCA
1 ACGACCTCCATGCACGCCCATGCACGCCCA
* * *
4323293 ACGACCTCCATGCATGCCCAGGCACGTCCA
1 ACGACCTCCATGCACGCCCATGCACGCCCA
* *
4323323 ACGACCTCCGTGCACGGCCATGCACGCCCA
1 ACGACCTCCATGCACGCCCATGCACGCCCA
4323353 ACGACCTCCATGCACGCCCA
1 ACGACCTCCATGCACGCCCA
4323373 GCTCGCCAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 70 1.00
ACGTcount: A:0.23, C:0.47, G:0.19, T:0.11
Consensus pattern (30 bp):
ACGACCTCCATGCACGCCCATGCACGCCCA
Found at i:4324045 original size:21 final size:21
Alignment explanation
Indices: 4324020--4324063 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
4324010 AATTTAGTTA
4324020 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
4324041 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
4324062 AT
1 AT
4324064 ATTATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:4324077 original size:28 final size:28
Alignment explanation
Indices: 4324040--4324093 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
4324030 TAGTATAAAT
*
4324040 TATTAGTTTGTTAGTTTAAGTTATATTA
1 TATTAATTTGTTAGTTTAAGTTATATTA
4324068 TATTAATTTGTTAGTTTAAGTTATAT
1 TATTAATTTGTTAGTTTAAGTTATAT
4324094 ATTAGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (28 bp):
TATTAATTTGTTAGTTTAAGTTATATTA
Found at i:4327235 original size:60 final size:60
Alignment explanation
Indices: 4327161--4327511 Score: 607
Period size: 60 Copynumber: 5.8 Consensus size: 60
4327151 GTATTTATAA
*
4327161 GATTTAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
*
4327221 GACTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
*
4327281 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATT-TTTAATGATTTGATAGTAAT
* *
4327341 GACTTAGTAATGATTAGTAATAATGAAATTATTATCAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
*
4327401 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATT-TTTAATGATTTGATAGTAAT
*
4327461 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTT
4327512 TTGGTTCAAT
Statistics
Matches: 275, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
59 4 0.01
60 267 0.97
61 4 0.01
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.45
Consensus pattern (60 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
Found at i:4327530 original size:7 final size:7
Alignment explanation
Indices: 4327518--4327551 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
4327508 ATTTTTGGTT
4327518 CAATGAA
1 CAATGAA
4327525 CAATGAA
1 CAATGAA
4327532 CAATGAA
1 CAATGAA
4327539 CAATGAA
1 CAATGAA
4327546 CAATGA
1 CAATGA
4327552 TTTAGTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (7 bp):
CAATGAA
Found at i:4327578 original size:26 final size:26
Alignment explanation
Indices: 4327547--4327684 Score: 96
Period size: 26 Copynumber: 5.5 Consensus size: 26
4327537 AACAATGAAC
4327547 AATGATTTAGTAATAATCATTATAAA
1 AATGATTTAGTAATAATCATTATAAA
*
4327573 AATGA-TT--TAATAATGATT-T--A
1 AATGATTTAGTAATAATCATTATAAA
* * * * **
4327593 AAT-ATTTAATGATTTGATGATT-TAGT
1 AATGATTTAGT-A-ATAATCATTATAAA
**
4327619 AATGATTT-GATAATAATCATTATAGT
1 AATGATTTAG-TAATAATCATTATAAA
4327645 AATGATTTAGTAATAATCATTATAAA
1 AATGATTTAGTAATAATCATTATAAA
*
4327671 AATGATTTAATAAT
1 AATGATTTAGTAAT
4327685 GATTTAAATA
Statistics
Matches: 90, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
19 1 0.01
20 6 0.07
22 2 0.02
23 11 0.12
24 8 0.09
25 8 0.09
26 48 0.53
27 6 0.07
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (26 bp):
AATGATTTAGTAATAATCATTATAAA
Found at i:4327659 original size:98 final size:98
Alignment explanation
Indices: 4327547--4327765 Score: 404
Period size: 98 Copynumber: 2.2 Consensus size: 98
4327537 AACAATGAAC
4327547 AATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATG
1 AATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATG
*
4327612 ATTTAGTAATGATTTGATAATAATCATTATAGT
66 ATTTAGTAATGATTTGATAATAATCATTATAAT
4327645 AATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATG
1 AATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATG
4327710 ATTTAGTAATGATTTGATAATAATCATTATAAT
66 ATTTAGTAATGATTTGATAATAATCATTATAAT
*
4327743 AATGATTTTA-TAATAATTATTAT
1 AATGA-TTTAGTAATAATCATTAT
4327766 GTTATTATTT
Statistics
Matches: 118, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
98 114 0.97
99 4 0.03
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (98 bp):
AATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATG
ATTTAGTAATGATTTGATAATAATCATTATAAT
Found at i:4327745 original size:26 final size:26
Alignment explanation
Indices: 4327618--4327765 Score: 121
Period size: 26 Copynumber: 5.9 Consensus size: 26
4327608 GATGATTTAG
*
4327618 TAATGATTTGATAATAATCATTATAG
1 TAATGATTTGATAATAATCATTATAA
4327644 TAATGATTT-AGTAATAATCATTATAA
1 TAATGATTTGA-TAATAATCATTATAA
* * *
4327670 AAATGATTTAATAATGAT--TTA-AA
1 TAATGATTTGATAATAATCATTATAA
* * * * * * *
4327693 TATTTA-ATGAT-TTGATGATT-TAG
1 TAATGATTTGATAATAATCATTATAA
4327716 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
* *
4327742 TAATGATTTTATAATAATTATTAT
1 TAATGATTTGATAATAATCATTAT
4327766 GTTATTATTT
Statistics
Matches: 95, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
21 4 0.04
22 3 0.03
23 12 0.13
24 7 0.07
25 7 0.07
26 61 0.64
27 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (26 bp):
TAATGATTTGATAATAATCATTATAA
Found at i:4327926 original size:14 final size:13
Alignment explanation
Indices: 4327907--4327971 Score: 50
Period size: 14 Copynumber: 5.2 Consensus size: 13
4327897 TTTAAATATT
4327907 TAATGATTTGATAC
1 TAATGATTT-ATAC
4327921 TAATGA-TT-TAC
1 TAATGATTTATAC
*
4327932 TAAT--TAT-TAC
1 TAATGATTTATAC
4327942 TAATGATTTAATAC
1 TAATGATTT-ATAC
*
4327956 TAATTATTTGATAC
1 TAATGATTT-ATAC
4327970 TA
1 TA
4327972 GTAATTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 8 0.19
11 7 0.17
12 2 0.05
13 2 0.05
14 23 0.55
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
TAATGATTTATAC
Found at i:4327943 original size:10 final size:11
Alignment explanation
Indices: 4327918--4327951 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
4327908 AATGATTTGA
4327918 TACTAATGATT
1 TACTAATGATT
*
4327929 TACTAATTA-T
1 TACTAATGATT
4327939 TACTAATGATT
1 TACTAATGATT
4327950 TA
1 TA
4327952 ATACTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (11 bp):
TACTAATGATT
Found at i:4327961 original size:21 final size:21
Alignment explanation
Indices: 4327918--4327961 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4327908 AATGATTTGA
* *
4327918 TACTAATGATTTACTAATTAT
1 TACTAATGATTTAATAATAAT
*
4327939 TACTAATGATTTAATACTAAT
1 TACTAATGATTTAATAATAAT
4327960 TA
1 TA
4327962 TTTGATACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (21 bp):
TACTAATGATTTAATAATAAT
Found at i:4327978 original size:17 final size:17
Alignment explanation
Indices: 4327956--4327988 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4327946 GATTTAATAC
4327956 TAATTATTTGATACTAG
1 TAATTATTTGATACTAG
4327973 TAATTATTTGATACTA
1 TAATTATTTGATACTA
4327989 AACATCATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.48
Consensus pattern (17 bp):
TAATTATTTGATACTAG
Found at i:4330160 original size:15 final size:14
Alignment explanation
Indices: 4330137--4330167 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
4330127 TACAACACTA
4330137 AACTTTAATATAAT
1 AACTTTAATATAAT
4330151 AACTTATAATATAAT
1 AACTT-TAATATAAT
4330166 AA
1 AA
4330168 ACTAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:4330175 original size:16 final size:16
Alignment explanation
Indices: 4330142--4330188 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
4330132 CACTAAACTT
*
4330142 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
4330157 TAATATAATAAACTAA
1 TAATATAATAAACTAA
*
4330173 TAA-ACTAACAAACTAA
1 TAATA-TAATAAACTAA
4330189 ACTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:4330299 original size:32 final size:34
Alignment explanation
Indices: 4330224--4330305 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 34
4330214 CCAAACCCTT
* *
4330224 AAAC-AACTAATAAAATATTTTTTTATATAACTA
1 AAACTAACTAATAAACTATTTTTTCATATAACTA
4330257 AAACTAACTAATAAACTATTTTTTCATTATAA-T-
1 AAACTAACTAATAAACTATTTTTTCA-TATAACTA
*
4330290 ATACT-ACTAATAAACT
1 AAACTAACTAATAAACT
4330306 TACTAACTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
32 11 0.25
33 8 0.18
34 20 0.45
35 5 0.11
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (34 bp):
AAACTAACTAATAAACTATTTTTTCATATAACTA
Found at i:4330425 original size:46 final size:48
Alignment explanation
Indices: 4330346--4330437 Score: 120
Period size: 45 Copynumber: 2.0 Consensus size: 48
4330336 CAACAAACAA
*
4330346 ATATAACTTAACTATTTAACTACCAAAAACTAATTAAATAATTTTTTTT
1 ATATAACTTAACTATTTAACTACAAAAAACTAATT-AATAATTTTTTTT
*
4330395 ATATAAC-TAACTA-TTAAC-A-AAACAAACTAATTAATTATTTTTT
1 ATATAACTTAACTATTTAACTACAAA-AAACTAATTAATAATTTTTT
4330438 AACTATATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
45 12 0.30
46 10 0.25
47 5 0.12
48 6 0.15
49 7 0.17
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (48 bp):
ATATAACTTAACTATTTAACTACAAAAAACTAATTAATAATTTTTTTT
Found at i:4330448 original size:47 final size:48
Alignment explanation
Indices: 4330346--4330450 Score: 119
Period size: 47 Copynumber: 2.2 Consensus size: 48
4330336 CAACAAACAA
* *
4330346 ATATAACTTAACTATTTAACTACCAAAAACTAATTAAATAATTTTTTTT
1 ATATAAC-TAACTATTTAACTACAAAAAACTAATTAAATAATTTTTTCT
*
4330395 ATATAACTAACTA-TTAAC-A-AAACAAACTAATT-AATTATTTTTTAACT
1 ATATAACTAACTATTTAACTACAAA-AAACTAATTAAATAATTTTTT--CT
4330442 ATATAACTA
1 ATATAACTA
4330451 TCAAACATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
45 12 0.24
46 10 0.20
47 15 0.30
48 6 0.12
49 7 0.14
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (48 bp):
ATATAACTAACTATTTAACTACAAAAAACTAATTAAATAATTTTTTCT
Found at i:4330506 original size:41 final size:40
Alignment explanation
Indices: 4330418--4330506 Score: 90
Period size: 41 Copynumber: 2.2 Consensus size: 40
4330408 TTAACAAAAC
* *
4330418 AAACTAATTAATTATTTTTTAACTATATAACTATCAAACAT
1 AAACTAATTAAATAATTTTTAACTATATAACTAT-AAACAT
* * * *
4330459 ATACTAATTAAATAATTTTTAATTTATGTATACTAT-AACTT
1 AAACTAATTAAATAATTTTTAA-CTATATA-ACTATAAACAT
4330500 AAACTAA
1 AAACTAA
4330507 CAATCATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 29 0.74
42 5 0.13
43 5 0.13
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (40 bp):
AAACTAATTAAATAATTTTTAACTATATAACTATAAACAT
Found at i:4330571 original size:16 final size:18
Alignment explanation
Indices: 4330542--4330580 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
4330532 ACTAATTAAC
*
4330542 ATTTATAATAATAAACTA
1 ATTTATAATAATAAACAA
4330560 ATTTA-AAT-ATAAACAA
1 ATTTATAATAATAAACAA
4330576 ATTTA
1 ATTTA
4330581 CCTTATCTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
17 3 0.15
18 5 0.25
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTTATAATAATAAACAA
Found at i:4330626 original size:12 final size:12
Alignment explanation
Indices: 4330609--4330643 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
4330599 TTCTTACTTT
4330609 CCTTTCTTTCTC
1 CCTTTCTTTCTC
4330621 CCTTTCTTTCTC
1 CCTTTCTTTCTC
4330633 CCTTTCTTTCT
1 CCTTTCTTTCT
4330644 TTCTCGGCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (12 bp):
CCTTTCTTTCTC
Found at i:4330921 original size:50 final size:50
Alignment explanation
Indices: 4330804--4330911 Score: 177
Period size: 50 Copynumber: 2.2 Consensus size: 50
4330794 TAGGATCACA
*
4330804 TGGCATGC-TGTAGGCATGCAGCGGGGAGCAGGAGCACGTGAACTTATCT
1 TGGCATGCATGCAGGCATGCAGCGGGGAGCAGGAGCACGTGAACTTATCT
*
4330853 TGGCATGCATGCAGGCATGCAGCGGGGAGCAGGAGCACGTGAAGTTAT-T
1 TGGCATGCATGCAGGCATGCAGCGGGGAGCAGGAGCACGTGAACTTATCT
4330902 TGGC-TGCATG
1 TGGCATGCATG
4330912 TGCATGCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
48 6 0.11
49 13 0.23
50 37 0.66
ACGTcount: A:0.22, C:0.19, G:0.38, T:0.20
Consensus pattern (50 bp):
TGGCATGCATGCAGGCATGCAGCGGGGAGCAGGAGCACGTGAACTTATCT
Found at i:4330946 original size:13 final size:13
Alignment explanation
Indices: 4330928--4330954 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4330918 CATGGTCTCG
4330928 GGAGGAAGTGGAC
1 GGAGGAAGTGGAC
4330941 GGAGGAAGTGGAC
1 GGAGGAAGTGGAC
4330954 G
1 G
4330955 CTGGGGCGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.56, T:0.07
Consensus pattern (13 bp):
GGAGGAAGTGGAC
Found at i:4330992 original size:29 final size:29
Alignment explanation
Indices: 4330959--4331053 Score: 163
Period size: 29 Copynumber: 3.3 Consensus size: 29
4330949 TGGACGCTGG
4330959 GGCGACCTACAAGGTCGCCGGGACTACAT
1 GGCGACCTACAAGGTCGCCGGGACTACAT
4330988 GGCGACCTACAAGGTCGCCGGGACTACAT
1 GGCGACCTACAAGGTCGCCGGGACTACAT
** *
4331017 GGCGACCTACAAGGTCGCCCAGACTGCAT
1 GGCGACCTACAAGGTCGCCGGGACTACAT
4331046 GGCGACCT
1 GGCGACCT
4331054 CTCTATTGGC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.23, C:0.33, G:0.31, T:0.14
Consensus pattern (29 bp):
GGCGACCTACAAGGTCGCCGGGACTACAT
Found at i:4331082 original size:32 final size:32
Alignment explanation
Indices: 4331040--4331111 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
4331030 GTCGCCCAGA
* *
4331040 CTGCATGGCGACCTCTCTATTGGCTGGCTCGT
1 CTGCATGGCGACCTCTCCATTGGCTGGCTCAT
* *
4331072 TTGCATGGCGACCTCTCCGTTGGCTGGCTCAT
1 CTGCATGGCGACCTCTCCATTGGCTGGCTCAT
4331104 CTGCATGG
1 CTGCATGG
4331112 TGAGTATATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.10, C:0.31, G:0.29, T:0.31
Consensus pattern (32 bp):
CTGCATGGCGACCTCTCCATTGGCTGGCTCAT
Found at i:4331176 original size:24 final size:19
Alignment explanation
Indices: 4331126--4331163 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4331116 TATATGGCTT
4331126 GTATGGCTCGTCTGCATGG
1 GTATGGCTCGTCTGCATGG
4331145 GTATGGCTCGTCTGCATGG
1 GTATGGCTCGTCTGCATGG
4331164 TGAGTATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.21, G:0.37, T:0.32
Consensus pattern (19 bp):
GTATGGCTCGTCTGCATGG
Found at i:4342935 original size:20 final size:18
Alignment explanation
Indices: 4342894--4342936 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
4342884 ATAAAATTTT
*
4342894 AAAATAGACACAATCAAT
1 AAAATAGACACAATCAAA
*
4342912 AAAATAGATCATCAATTAAA
1 AAAATAGA-CA-CAATCAAA
4342932 AAAAT
1 AAAAT
4342937 CGGACTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 2 0.10
20 11 0.52
ACGTcount: A:0.63, C:0.12, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAATAGACACAATCAAA
Found at i:4346553 original size:30 final size:29
Alignment explanation
Indices: 4346519--4346585 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
4346509 GAATTTGGAT
*
4346519 CCAAATTTAATCAAAATTTCAATTTAGTCC
1 CCAAATTTAATCAAAA-TTCAATTTAATCC
4346549 CCAAATTTAATCAAAATTCAATTTAATCC
1 CCAAATTTAATCAAAATTCAATTTAATCC
*
4346578 TCAAATTT
1 CCAAATTT
4346586 TTAAGAGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 19 0.54
30 16 0.46
ACGTcount: A:0.42, C:0.19, G:0.01, T:0.37
Consensus pattern (29 bp):
CCAAATTTAATCAAAATTCAATTTAATCC
Found at i:4349070 original size:23 final size:23
Alignment explanation
Indices: 4349042--4349089 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
4349032 TATGTTTTTC
4349042 TTTAGATAAATTCATTTAATTCT
1 TTTAGATAAATTCATTTAATTCT
4349065 TTTAGATAAATTCATTTAATTCT
1 TTTAGATAAATTCATTTAATTCT
4349088 TT
1 TT
4349090 CTTTGTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.54
Consensus pattern (23 bp):
TTTAGATAAATTCATTTAATTCT
Found at i:4356072 original size:19 final size:19
Alignment explanation
Indices: 4356039--4356086 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
4356029 ATGACCAACA
** * *
4356039 AAATCGCAATTCGATTTCT
1 AAATCGCAACGCGATCTCC
4356058 AAATCGCAACGCGATCTCC
1 AAATCGCAACGCGATCTCC
4356077 AATATCGCAA
1 AA-ATCGCAA
4356087 ATCAGTTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCC
Found at i:4356127 original size:21 final size:21
Alignment explanation
Indices: 4356101--4356215 Score: 103
Period size: 21 Copynumber: 5.6 Consensus size: 21
4356091 GTTTCAAGAT
4356101 TCGCAACGCGATAATACATAA
1 TCGCAACGCGATAATACATAA
4356122 TCGCAACGCGATAATACATAA
1 TCGCAACGCGATAATACATAA
* * *
4356143 TCACAACGCGATTATGGC-T-A
1 TCGCAACGCGATAAT-ACATAA
* **
4356163 TCGCAACACGATTCTGAC-T-A
1 TCGCAACGCGATAAT-ACATAA
*
4356183 TCGCAACGCGATAATACAAAA
1 TCGCAACGCGATAATACATAA
* *
4356204 TCACAATGCGAT
1 TCGCAACGCGAT
4356216 TTTCAAAGCG
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
19 2 0.03
20 29 0.37
21 46 0.59
22 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.21
Consensus pattern (21 bp):
TCGCAACGCGATAATACATAA
Found at i:4356449 original size:36 final size:35
Alignment explanation
Indices: 4356384--4356462 Score: 115
Period size: 36 Copynumber: 2.3 Consensus size: 35
4356374 ATCAAATTAA
* *
4356384 ACGGGAAC-GGGAAAACTGTTTATGCTAAACGGGG
1 ACGGGGACGGGGAAAACCGTTTATGCTAAACGGGG
*
4356418 ACGGGGACGGGGAAAACCCGTTTATGTTAAACGGGG
1 ACGGGGACGGGGAAAA-CCGTTTATGCTAAACGGGG
4356454 ACGGGGACG
1 ACGGGGACG
4356463 AGTTTAGTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 7 0.17
35 7 0.17
36 26 0.65
ACGTcount: A:0.29, C:0.16, G:0.39, T:0.15
Consensus pattern (35 bp):
ACGGGGACGGGGAAAACCGTTTATGCTAAACGGGG
Found at i:4357263 original size:20 final size:20
Alignment explanation
Indices: 4357238--4357340 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
4357228 AAAATCGCAA
*
4357238 CGATAGTCAAATTCACGTTG
1 CGATAGTCAAATTCGCGTTG
** *
4357258 CGATAGTCATTTTCGTGTTG
1 CGATAGTCAAATTCGCGTTG
** *
4357278 CGATTTTC-ATTTCGCGTTG
1 CGATAGTCAAATTCGCGTTG
*
4357297 CGATAGTCAAATTCGCGTAG
1 CGATAGTCAAATTCGCGTTG
** *
4357317 CGATAGTCATTTTCGTGTTG
1 CGATAGTCAAATTCGCGTTG
4357337 CGAT
1 CGAT
4357341 TTTAAGTTTC
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
19 15 0.23
20 51 0.77
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (20 bp):
CGATAGTCAAATTCGCGTTG
Found at i:4357320 original size:39 final size:40
Alignment explanation
Indices: 4357238--4357340 Score: 109
Period size: 39 Copynumber: 2.6 Consensus size: 40
4357228 AAAATCGCAA
** * ** * *
4357238 CGATAGTCAAATTCACGTTGCGATAGTCATTTTCGTGTTG
1 CGATAGTCATTTTCGCGTTGCGATAGTCAAATTCGCGTAG
**
4357278 CGATTTTCA-TTTCGCGTTGCGATAGTCAAATTCGCGTAG
1 CGATAGTCATTTTCGCGTTGCGATAGTCAAATTCGCGTAG
*
4357317 CGATAGTCATTTTCGTGTTGCGAT
1 CGATAGTCATTTTCGCGTTGCGAT
4357341 TTTAAGTTTC
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
39 31 0.61
40 20 0.39
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (40 bp):
CGATAGTCATTTTCGCGTTGCGATAGTCAAATTCGCGTAG
Found at i:4359367 original size:19 final size:19
Alignment explanation
Indices: 4359345--4359450 Score: 91
Period size: 19 Copynumber: 5.8 Consensus size: 19
4359335 ACTATCGCAA
*
4359345 TGCGAATTTAGTTTCGCGT
1 TGCGATTTTAGTTTCGCGT
*
4359364 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTAGTTTCGCGT
*
4359383 TGCGCTTTTTA-TTTCGCGT
1 TGCG-ATTTTAGTTTCGCGT
*
4359402 TGCGA--TTA---TCCCGT
1 TGCGATTTTAGTTTCGCGT
*
4359416 TGCG-TTTTAAGTTTCGTGT
1 TGCGATTTT-AGTTTCGCGT
4359435 TGCGATTTTAAGTTTC
1 TGCGATTTT-AGTTTC
4359451 ATAAACTATT
Statistics
Matches: 71, Mismatches: 8, Indels: 15
0.76 0.09 0.16
Matches are distributed among these distances:
14 9 0.13
15 2 0.03
16 4 0.06
19 41 0.58
20 15 0.21
ACGTcount: A:0.11, C:0.17, G:0.25, T:0.47
Consensus pattern (19 bp):
TGCGATTTTAGTTTCGCGT
Found at i:4359903 original size:21 final size:21
Alignment explanation
Indices: 4359879--4360001 Score: 106
Period size: 21 Copynumber: 5.9 Consensus size: 21
4359869 ATTACATATC
4359879 CGTTCAAGAGGCCTCTCCTAT
1 CGTTCAAGAGGCCTCTCCTAT
*
4359900 CGTTCAAGAGGCCTCTCTTAT
1 CGTTCAAGAGGCCTCTCCTAT
* *
4359921 CGTTCAAGAGGCCCCT-ATCAT
1 CGTTCAAGAGGCCTCTCCT-AT
** * * *
4359942 CCCTCAAGAGTCCTCTCCCAC
1 CGTTCAAGAGGCCTCTCCTAT
* *
4359963 CGTTCAAGAGGCCCCT-GTCAT
1 CGTTCAAGAGGCCTCTCCT-AT
* *
4359984 CGTTGAAGAGGTCTCTCC
1 CGTTCAAGAGGCCTCTCC
4360002 CACCATTCAA
Statistics
Matches: 77, Mismatches: 21, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
20 1 0.01
21 76 0.99
ACGTcount: A:0.20, C:0.35, G:0.20, T:0.26
Consensus pattern (21 bp):
CGTTCAAGAGGCCTCTCCTAT
Found at i:4359949 original size:42 final size:42
Alignment explanation
Indices: 4359903--4360014 Score: 134
Period size: 42 Copynumber: 2.7 Consensus size: 42
4359893 CTCCTATCGT
** *
4359903 TCAAGAGGCCTCTCTTATCGTTCAAGAGGCCCCTATCATCCC
1 TCAAGAGGCCTCTCCCACCGTTCAAGAGGCCCCTATCATCCC
* * **
4359945 TCAAGAGTCCTCTCCCACCGTTCAAGAGGCCCCTGTCATCGT
1 TCAAGAGGCCTCTCCCACCGTTCAAGAGGCCCCTATCATCCC
* * *
4359987 TGAAGAGGTCTCTCCCACCATTCAAGAG
1 TCAAGAGGCCTCTCCCACCGTTCAAGAG
4360015 CCCGATTCAT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (42 bp):
TCAAGAGGCCTCTCCCACCGTTCAAGAGGCCCCTATCATCCC
Found at i:4360013 original size:21 final size:21
Alignment explanation
Indices: 4359878--4360014 Score: 71
Period size: 21 Copynumber: 6.5 Consensus size: 21
4359868 CATTACATAT
* *
4359878 CCGTTCAAGAGGCCTCTCCTA
1 CCGTTCAAGAGGTCTCTCCCA
* * **
4359899 TCGTTCAAGAGGCCTCTCTTA
1 CCGTTCAAGAGGTCTCTCCCA
* * * **
4359920 TCGTTCAAGAGGCCCCTATCA
1 CCGTTCAAGAGGTCTCTCCCA
*
4359941 TCC-CTCAAGA-GTCCTCTCCCA
1 -CCGTTCAAGAGGT-CTCTCCCA
* * **
4359962 CCGTTCAAGAGGCCCCTGTCA
1 CCGTTCAAGAGGTCTCTCCCA
* *
4359983 TCGTTGAAGAGGTCTCTCCCA
1 CCGTTCAAGAGGTCTCTCCCA
*
4360004 CCATTCAAGAG
1 CCGTTCAAGAG
4360015 CCCGATTCAT
Statistics
Matches: 87, Mismatches: 25, Indels: 8
0.73 0.21 0.07
Matches are distributed among these distances:
20 3 0.03
21 82 0.94
22 2 0.02
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (21 bp):
CCGTTCAAGAGGTCTCTCCCA
Found at i:4361410 original size:14 final size:14
Alignment explanation
Indices: 4361391--4361452 Score: 70
Period size: 14 Copynumber: 4.3 Consensus size: 14
4361381 TTGCTTGTTT
4361391 AATTGATTTGTAAA
1 AATTGATTTGTAAA
4361405 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* *
4361419 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
4361434 TATTGATGTGTAAA
1 AATTGATTTGTAAA
4361448 TAATT
1 -AATT
4361453 ATTATTTGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
14 26 0.67
15 13 0.33
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:4361424 original size:28 final size:29
Alignment explanation
Indices: 4361393--4361447 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
4361383 GCTTGTTTAA
*
4361393 TTGATTTG-TAAAAATTGATTTGTAAAAG
1 TTGATTTGTTAAAAATTGATGTGTAAAAG
* *
4361421 TTGATTTGTTTAATATTGATGTGTAAA
1 TTGATTTGTTAAAAATTGATGTGTAAA
4361448 TAATTATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (29 bp):
TTGATTTGTTAAAAATTGATGTGTAAAAG
Found at i:4361576 original size:20 final size:20
Alignment explanation
Indices: 4361551--4361604 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
4361541 AGGTACACTT
*
4361551 TCGCAACGCTAAA-CTCAAAA
1 TCGCAACGCGAAAGC-CAAAA
*
4361571 TCGCAATGCGAAAGCCAAAA
1 TCGCAACGCGAAAGCCAAAA
*
4361591 CCGCAACGCGAAAG
1 TCGCAACGCGAAAG
4361605 TCAATTCGCG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.43, C:0.30, G:0.19, T:0.09
Consensus pattern (20 bp):
TCGCAACGCGAAAGCCAAAA
Found at i:4361820 original size:74 final size:73
Alignment explanation
Indices: 4361607--4361844 Score: 228
Period size: 74 Copynumber: 3.2 Consensus size: 73
4361597 CGCGAAAGTC
* * * * * * * *
4361607 AATTCGCGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCGTTGTGATAGTCAAATACCCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTT-TAGTTGCGATAATCAAATTCGCGTTG
4361672 CGATAATCA
65 CGATAATCA
* * ** * * ** * *
4361681 AATTCACGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCG-TTA-CGATTTTTGAGT
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT-TTTTAGTT-GCGATAATC-AAATTCGCGT
4361744 TGCGATAATCA
63 TGCGATAATCA
*
4361755 AATTCGCGTTGCGATAGTCAAATTCGCGTTGTGATTTTTGAGTTGCGATAATCAAATTCGCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTT-AGTTGCGATAATCAAATTCGCGTTG
*
4361820 CGATAGTCA
65 CGATAATCA
*
4361829 AATTCGCGTTGTGATA
1 AATTCGCGTTGCGATA
4361845 TTAAAATGAA
Statistics
Matches: 127, Mismatches: 31, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
73 5 0.04
74 118 0.93
75 4 0.03
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (73 bp):
AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTAGTTGCGATAATCAAATTCGCGTTGC
GATAATCA
Found at i:4361839 original size:54 final size:54
Alignment explanation
Indices: 4361688--4361843 Score: 285
Period size: 54 Copynumber: 2.9 Consensus size: 54
4361678 TCAAATTCAC
* **
4361688 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTACGATTTTTGA
1 GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGTGATTTTTGA
4361742 GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGTGATTTTTGA
1 GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGTGATTTTTGA
4361796 GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGTGAT
1 GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGTGAT
4361844 ATTAAAATGA
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 99 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (54 bp):
GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGTGATTTTTGA
Found at i:4361851 original size:20 final size:20
Alignment explanation
Indices: 4361598--4361844 Score: 190
Period size: 20 Copynumber: 13.3 Consensus size: 20
4361588 AAACCGCAAC
*
4361598 GCGAAAGTC-AATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
* * *
4361617 GCGATAGTCTAATACGCTTT
1 GCGATAGTCAAATTCGCGTT
*
4361637 GCGAT--T----TTCTCGTT
1 GCGATAGTCAAATTCGCGTT
* * *
4361651 GTGATAGTCAAATACCCGTT
1 GCGATAGTCAAATTCGCGTT
* *
4361671 GCGATAATCAAATTCACGTT
1 GCGATAGTCAAATTCGCGTT
4361691 GCGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
4361711 GCGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
* * *
4361731 ACGAT--T----TTTGAGTT
1 GCGATAGTCAAATTCGCGTT
*
4361745 GCGATAATCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
4361765 GCGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
* * *
4361785 GTGAT--T----TTTGAGTT
1 GCGATAGTCAAATTCGCGTT
*
4361799 GCGATAATCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
4361819 GCGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
*
4361839 GTGATA
1 GCGATA
4361845 TTAAAATGAA
Statistics
Matches: 179, Mismatches: 30, Indels: 37
0.73 0.12 0.15
Matches are distributed among these distances:
14 29 0.16
16 3 0.02
18 3 0.02
19 8 0.04
20 136 0.76
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
GCGATAGTCAAATTCGCGTT
Found at i:4362074 original size:140 final size:140
Alignment explanation
Indices: 4361822--4362104 Score: 512
Period size: 140 Copynumber: 2.0 Consensus size: 140
4361812 TCGCGTTGCG
* *
4361822 ATAGTCAAATTCGCGTTGTGATATTAAAATGAATGTGTAATAAGTGATAACAACTGAACAAATCA
1 ATAGTCAAATTCGCGTTGCGATATTAAAATGAACGTGTAATAAGTGATAACAACTGAACAAATCA
*
4361887 TAGCAATGTTCAAACTCAAGTGACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTGACTAATACATACCTAACTGAAAATGTTAAAAGTTTACACATAA
4361952 AATACACATA
131 AATACACATA
* *
4361962 ATAGTCAAATTCGCGTTGCGATATTCAAATGAACGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCGTTGCGATATTAAAATGAACGTGTAATAAGTGATAACAACTGAACAAATCA
*
4362027 TAGCAATGTTCAAACTCAAGTTACTAATACATACCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTGACTAATACATACCTAACTGAAAATGTTAAAAGTTTACACATAA
4362092 AATACACATA
131 AATACACATA
4362102 ATA
1 ATA
4362105 CAACATTTGC
Statistics
Matches: 137, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 137 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTAAAATGAACGTGTAATAAGTGATAACAACTGAACAAATCA
TAGCAATGTTCAAACTCAAGTGACTAATACATACCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:4362185 original size:18 final size:18
Alignment explanation
Indices: 4362162--4362196 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4362152 AAGCCGGTTG
4362162 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
4362180 TGATTGCGATTTTGATT
1 TGATTGAGATTTTGATT
4362197 GCCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.03, G:0.23, T:0.54
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:4364479 original size:24 final size:24
Alignment explanation
Indices: 4364445--4364498 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
4364435 CTGAAGCATC
*
4364445 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
4364469 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
4364493 ATCAAA
1 ATCAAA
4364499 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:4371719 original size:17 final size:17
Alignment explanation
Indices: 4371697--4371735 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
4371687 AATACAAGCT
*
4371697 TAATATAATACAAAATA
1 TAATATAAAACAAAATA
*
4371714 TAATATAAAACAATATA
1 TAATATAAAACAAAATA
4371731 TAATA
1 TAATA
4371736 CGAAAAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (17 bp):
TAATATAAAACAAAATA
Found at i:4372369 original size:30 final size:34
Alignment explanation
Indices: 4372324--4372393 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 34
4372314 AATAGTTTTA
*
4372324 TATTTAGT--AAT-ATAATTATATAAATATTATT
1 TATTTAGTAAAATAATATTTATATAAATATTATT
* *
4372355 T-TTTATTAAAATAATATTTATATAATTATTATT
1 TATTTAGTAAAATAATATTTATATAAATATTATT
4372388 TATTTA
1 TATTTA
4372394 AATTTATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
30 5 0.16
31 1 0.03
32 3 0.09
33 19 0.59
34 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (34 bp):
TATTTAGTAAAATAATATTTATATAAATATTATT
Found at i:4373518 original size:21 final size:19
Alignment explanation
Indices: 4373494--4373535 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
4373484 TTGAAATTTG
4373494 TTTAAATATGAATATATATAA
1 TTTAAA-AT-AATATATATAA
*
4373515 TTTAAAATATTATATATAA
1 TTTAAAATAATATATATAA
4373534 TT
1 TT
4373536 AGAATATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 2 0.10
21 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTTAAAATAATATATATAA
Found at i:4373543 original size:18 final size:19
Alignment explanation
Indices: 4373506--4373547 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
4373496 TAAATATGAA
4373506 TATATATAATTTAAAATAT
1 TATATATAATTTAAAATAT
*
4373525 TATATATAA-TTAGAATAT
1 TATATATAATTTAAAATAT
4373543 TATAT
1 TATAT
4373548 TTATTTGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TATATATAATTTAAAATAT
Found at i:4374248 original size:21 final size:21
Alignment explanation
Indices: 4374179--4374248 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
4374169 GTCATCTCCA
*
4374179 CAGGGTTACATTCTTAGCCCT
1 CAGGGTTACATTCTTAGCCCG
*
4374200 CAGGGTTACATTCCTAGCCCG
1 CAGGGTTACATTCTTAGCCCG
*
4374221 CCA-GGTTATATGT-TTAGCCCG
1 -CAGGGTTACAT-TCTTAGCCCG
4374242 CAGGGTT
1 CAGGGTT
4374249 TTATGACACC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
20 2 0.05
21 37 0.88
22 3 0.07
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.30
Consensus pattern (21 bp):
CAGGGTTACATTCTTAGCCCG
Found at i:4374799 original size:34 final size:35
Alignment explanation
Indices: 4374756--4374827 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 35
4374746 AAATGTTTTT
4374756 AATATACAAATTATAGTATTCGAAATTTAAAATTA
1 AATATACAAATTATAGTATTCGAAATTTAAAATTA
* *
4374791 AATA-ACAAATTATGGTATTCGAAATTTAACATTA
1 AATATACAAATTATAGTATTCGAAATTTAAAATTA
4374825 AAT
1 AAT
4374828 TCAACTTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 31 0.89
35 4 0.11
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (35 bp):
AATATACAAATTATAGTATTCGAAATTTAAAATTA
Found at i:4374949 original size:14 final size:14
Alignment explanation
Indices: 4374930--4374959 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4374920 TTTTATCCTT
4374930 AACATATACATTAA
1 AACATATACATTAA
4374944 AACATATACATTAA
1 AACATATACATTAA
4374958 AA
1 AA
4374960 TCAATTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (14 bp):
AACATATACATTAA
Found at i:4375279 original size:14 final size:14
Alignment explanation
Indices: 4375260--4375295 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4375250 GTATTACTTC
**
4375260 AAAAAAATATTAGT
1 AAAAAAATATTAAA
4375274 AAAAAAATATTAAA
1 AAAAAAATATTAAA
4375288 AAAAAAAT
1 AAAAAAAT
4375296 TTCAACTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (14 bp):
AAAAAAATATTAAA
Found at i:4381378 original size:36 final size:35
Alignment explanation
Indices: 4381331--4381400 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
4381321 TGGAACTTTG
4381331 TTACTGATTTGTA-TTTCGTTTGACACTAGATTCAGT
1 TTACTGATTTGTATTTTC-TTTGA-ACTAGATTCAGT
*
4381367 TTACTGATTTGTATTTTCTTTGAATTAGATTCAG
1 TTACTGATTTGTATTTTCTTTGAACTAGATTCAG
4381401 CTATGGAAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 10 0.31
36 18 0.56
37 4 0.12
ACGTcount: A:0.23, C:0.11, G:0.16, T:0.50
Consensus pattern (35 bp):
TTACTGATTTGTATTTTCTTTGAACTAGATTCAGT
Found at i:4385878 original size:23 final size:23
Alignment explanation
Indices: 4385852--4385896 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4385842 CACCACAGCT
*
4385852 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
4385875 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
4385897 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:4386145 original size:149 final size:149
Alignment explanation
Indices: 4385875--4386178 Score: 572
Period size: 149 Copynumber: 2.0 Consensus size: 149
4385865 CGAAGTGCCC
* *
4385875 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTTCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
* *
4385940 CGTATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
4386005 CATATGTCCCAAAGAACCG
131 CATATGTCCCAAAGAACCG
4386024 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
4386089 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
4386154 CATATGTCCCAAAGAACCG
131 CATATGTCCCAAAGAACCG
4386173 CGTAGA
1 CGTAGA
4386179 CCCTCTACCC
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCAAAGAACCG
Found at i:4393089 original size:149 final size:149
Alignment explanation
Indices: 4392819--4393122 Score: 563
Period size: 149 Copynumber: 2.0 Consensus size: 149
4392809 CGAAGTACCC
*
4392819 CGTAGAATTGCACCGTAGTGCCATATAATGATGTACATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTACATAAGGACCACATAGAATTCCTTAAGAAT
** *
4392884 TGTATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
4392949 CATATGTCCCAAAGAACCG
131 CATATGTCCCAAAGAACCG
*
4392968 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTACATAAGGACCACATAGAATTCCTTAAGAAT
4393033 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
4393098 CATATGTCCCAAAGAACCG
131 CATATGTCCCAAAGAACCG
4393117 CGTAGA
1 CGTAGA
4393123 CCCTCTACCC
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTACATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCAAAGAACCG
Found at i:4397069 original size:31 final size:31
Alignment explanation
Indices: 4397023--4397082 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
4397013 TATATGGACT
* * *
4397023 TAATTGTTTTTTTTTACTAAGTTTGATGATG
1 TAATTGATTTCTTTTACAAAGTTTGATGATG
*
4397054 TAATTGATTTCTTTTAGAAAGTTTGATGA
1 TAATTGATTTCTTTTACAAAGTTTGATGA
4397083 ATTATTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.03, G:0.17, T:0.53
Consensus pattern (31 bp):
TAATTGATTTCTTTTACAAAGTTTGATGATG
Found at i:4400449 original size:31 final size:31
Alignment explanation
Indices: 4400335--4400454 Score: 109
Period size: 31 Copynumber: 3.7 Consensus size: 31
4400325 TTCAGTGAGC
* * *
4400335 TTAACGAGCAATGAGTTGAGCAATAAGTTTAT
1 TTAACGAGCAACGAGTCGAGCAA-AAATTTAT
*
4400367 TTAACGAGC-ACGAGTCGAGCAAAAATTTGACGACC
1 TTAACGAGCAACGAGTCGAGCAAAAATTT----A-T
* *
4400402 TTAATGAGCAACGAGTCGAGCAACAAATTTTT
1 TTAACGAGCAACGAGTCGAGCAA-AAATTTAT
4400434 TTAACGAG-AACGAGTCGAGCA
1 TTAACGAGCAACGAGTCGAGCA
4400455 CTGCACAACT
Statistics
Matches: 73, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
30 5 0.07
31 24 0.33
32 16 0.22
34 1 0.01
35 8 0.11
36 13 0.18
37 6 0.08
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (31 bp):
TTAACGAGCAACGAGTCGAGCAAAAATTTAT
Found at i:4415644 original size:20 final size:20
Alignment explanation
Indices: 4415619--4415656 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4415609 AGGGGCGAAC
* *
4415619 TTATAAAATTTTAGAAGAAT
1 TTATAAAACTTTAAAAGAAT
4415639 TTATAAAACTTTAAAAGA
1 TTATAAAACTTTAAAAGA
4415657 TAAAAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.37
Consensus pattern (20 bp):
TTATAAAACTTTAAAAGAAT
Found at i:4419520 original size:21 final size:20
Alignment explanation
Indices: 4419490--4419552 Score: 67
Period size: 19 Copynumber: 3.1 Consensus size: 20
4419480 ACATGTCATA
4419490 AAGG-CAGAGAAAATGGCTAC
1 AAGGACAGAGAAAA-GGCTAC
*
4419510 AAGGACAGAGAAAA-CCTAC
1 AAGGACAGAGAAAAGGCTAC
*
4419529 AAGGACGGAGAAAACGTGCTAC
1 AAGGACAGAGAAAA-G-GCTAC
4419551 AA
1 AA
4419553 AAACAGAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 17 0.47
20 4 0.11
21 9 0.25
22 6 0.17
ACGTcount: A:0.48, C:0.17, G:0.27, T:0.08
Consensus pattern (20 bp):
AAGGACAGAGAAAAGGCTAC
Found at i:4419852 original size:13 final size:12
Alignment explanation
Indices: 4419836--4419867 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
4419826 CATTATGATT
4419836 TAATATTAATAAA
1 TAATATTAA-AAA
4419849 TAATATTAAAAA
1 TAATATTAAAAA
4419861 TAATATT
1 TAATATT
4419868 TTGTATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATATTAAAAA
Found at i:4430287 original size:23 final size:23
Alignment explanation
Indices: 4430261--4430313 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
4430251 AATTACACGA
4430261 AGTGCCACGTAGAATTGCACCGG
1 AGTGCCACGTAGAATTGCACCGG
* *
4430284 AGTGCCGCGTAGAATTGCACCGT
1 AGTGCCACGTAGAATTGCACCGG
4430307 AGTGCCA
1 AGTGCCA
4430314 TATAATAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.26, G:0.30, T:0.19
Consensus pattern (23 bp):
AGTGCCACGTAGAATTGCACCGG
Found at i:4431462 original size:64 final size:64
Alignment explanation
Indices: 4431342--4431482 Score: 169
Period size: 64 Copynumber: 2.2 Consensus size: 64
4431332 GAATGCATGC
* * * *
4431342 CTTATGCATCGATGCACTAATTGCATTCAATGTTTCCTTATTAATGGGATGCATCGATGCACTA
1 CTTATGCATCGATGCACAAATTGCATTCAATGTTTCATTATTAAAGAGATGCATCGATGCACTA
* * *
4431406 CTTATGCATCGATGCACAAATTGCATTCGATGTATTTATT-TTAAA-AGAGTGTATCGATGCACT
1 CTTATGCATCGATGCACAAATTGCATTCAATGT-TTCATTATTAAAGAGA-TGCATCGATGCACT
4431469 A
64 A
**
4431470 CCAATGCATCGAT
1 CTTATGCATCGAT
4431483 ACACCTTCAA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
63 2 0.03
64 60 0.91
65 4 0.06
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (64 bp):
CTTATGCATCGATGCACAAATTGCATTCAATGTTTCATTATTAAAGAGATGCATCGATGCACTA
Found at i:4436347 original size:23 final size:23
Alignment explanation
Indices: 4436321--4436384 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
4436311 CAGCTCATAT
*
4436321 AATTACACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
4436344 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
4436367 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
4436385 TATAATAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:4436571 original size:103 final size:103
Alignment explanation
Indices: 4436400--4436617 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
4436390 TAATGTCCAT
* *
4436400 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
4436465 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
4436503 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
4436568 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
4436606 AATGACCACATA
1 AAGGACCACATA
4436618 AACCCTCGAC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:4437463 original size:64 final size:64
Alignment explanation
Indices: 4437355--4437575 Score: 245
Period size: 64 Copynumber: 3.5 Consensus size: 64
4437345 TAATGAAGGT
* * * * *
4437355 ATGCATCGATGCACTACTGATGCATCGGTGCA-TAAAATGTATTCGATGTTGT-ATTATTACTGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-AATTGCATTCGATGTT-TCATTATTAATGG
4437418 G
64 G
* *
4437419 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGG
* * **
4437483 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGT-TTCATTATTAATGGG
**
4437546 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
4437576 ACACCTTCAA
Statistics
Matches: 136, Mismatches: 15, Indels: 12
0.83 0.09 0.07
Matches are distributed among these distances:
63 4 0.03
64 126 0.93
65 6 0.04
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGG
Found at i:4449264 original size:23 final size:23
Alignment explanation
Indices: 4449222--4449277 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
4449212 TGATAGAAAA
*
4449222 ATAAAAT-TAAAAAATAAAA-TG
1 ATAAAATCAAAAAAATAAAATTG
*
4449243 ATAAAATCAAAAAAATTGAAATTG
1 ATAAAATCAAAAAAA-TAAAATTG
*
4449267 A-ATAATCAAAA
1 ATAAAATCAAAA
4449278 TAGAAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 7 0.24
22 6 0.21
23 13 0.45
24 3 0.10
ACGTcount: A:0.68, C:0.04, G:0.05, T:0.23
Consensus pattern (23 bp):
ATAAAATCAAAAAAATAAAATTG
Found at i:4449739 original size:5 final size:5
Alignment explanation
Indices: 4449731--4449757 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
4449721 AAAATAAAAC
4449731 AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AA
4449758 ATGAATAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:4451642 original size:2 final size:2
Alignment explanation
Indices: 4451637--4451675 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4451627 ATATTCATAC
4451637 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4451676 ATAAAAGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4451846 original size:15 final size:15
Alignment explanation
Indices: 4451828--4451858 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4451818 AAATTCTAAA
4451828 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
4451843 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
4451858 T
1 T
4451859 TCATCTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:4452645 original size:24 final size:19
Alignment explanation
Indices: 4452591--4452634 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
4452581 ACTTATTATT
4452591 TCACCAGTATAAAATTAAA
1 TCACCAGTATAAAATTAAA
4452610 TCACCAGTATAAAATTAAA
1 TCACCAGTATAAAATTAAA
4452629 TCACCA
1 TCACCA
4452635 ATGTCAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (19 bp):
TCACCAGTATAAAATTAAA
Found at i:4458574 original size:50 final size:49
Alignment explanation
Indices: 4458495--4458623 Score: 134
Period size: 50 Copynumber: 2.6 Consensus size: 49
4458485 CACCCTTAGT
* * **
4458495 AGTAAAGCGCGCCCCT-ACACCGCGTTATACGATGATTTGGCGCCACGTA
1 AGTATAGCGCGCCCCTGA-ACCGCGCTATACGATGAGCTGGCGCCACGTA
* * *
4458544 AGTATAGCGCGCCCCCTGAACCGCGCTATACGGTGAGCTGGCGTCACGTG
1 AGTATAGCGCG-CCCCTGAACCGCGCTATACGATGAGCTGGCGCCACGTA
* * *
4458594 GGTATAGCGCGGCCCCTGCAGCGCGCTATA
1 AGTATAGCGC-GCCCCTGAACCGCGCTATA
4458624 TGCCACGTAG
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
49 10 0.15
50 55 0.82
51 2 0.03
ACGTcount: A:0.20, C:0.32, G:0.29, T:0.19
Consensus pattern (49 bp):
AGTATAGCGCGCCCCTGAACCGCGCTATACGATGAGCTGGCGCCACGTA
Found at i:4464693 original size:20 final size:19
Alignment explanation
Indices: 4464665--4464703 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
4464655 CCTTAAAAAG
*
4464665 AGAGTATTTGAGAGAAATTT
1 AGAGAATTTGAGA-AAATTT
4464685 AGAGAATTTGAGAAAATTT
1 AGAGAATTTGAGAAAATTT
4464704 GGTGTGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (19 bp):
AGAGAATTTGAGAAAATTT
Found at i:4464869 original size:50 final size:51
Alignment explanation
Indices: 4464815--4464941 Score: 166
Period size: 51 Copynumber: 2.5 Consensus size: 51
4464805 AGATATATAG
* * * * * **
4464815 GTATAGCGCGCTACAGGGGCCGCGCTATA-CCCATGTGGCGCCAGCTCATC
1 GTATAGCGCGGTGCAGGGGACGCGCTATACCCCACGTAGCGCCAAATCATC
4464865 GTATAGCGCGGTGCAGGGGACGCGCTATACCCCACGTAGCGCCAAATCATC
1 GTATAGCGCGGTGCAGGGGACGCGCTATACCCCACGTAGCGCCAAATCATC
* *
4464916 GTATAGCGTGGTGCAGGGGGCGCGCT
1 GTATAGCGCGGTGCAGGGGACGCGCT
4464942 TTACTGCTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 26 0.39
51 41 0.61
ACGTcount: A:0.19, C:0.30, G:0.34, T:0.17
Consensus pattern (51 bp):
GTATAGCGCGGTGCAGGGGACGCGCTATACCCCACGTAGCGCCAAATCATC
Found at i:4466057 original size:2 final size:2
Alignment explanation
Indices: 4466050--4466090 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4466040 CACTATCTAA
4466050 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4466091 AATAGAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4466212 original size:2 final size:2
Alignment explanation
Indices: 4466205--4466237 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4466195 CATAACTTTA
4466205 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4466238 GTTTAGTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4490631 original size:19 final size:19
Alignment explanation
Indices: 4490607--4490643 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4490597 TTTGTACATG
4490607 GTATAGGGAGTAATGATAT
1 GTATAGGGAGTAATGATAT
*
4490626 GTATAGTGAGTAATGATA
1 GTATAGGGAGTAATGATA
4490644 AAATTGGACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.30, T:0.32
Consensus pattern (19 bp):
GTATAGGGAGTAATGATAT
Found at i:4491754 original size:59 final size:59
Alignment explanation
Indices: 4491685--4491816 Score: 185
Period size: 59 Copynumber: 2.2 Consensus size: 59
4491675 TATCATTGAC
* **
4491685 CACCTAACTATTTACCATTTTTACT-TTAACCGCCGCTTTTTCAATTTTATCAAACGGGT
1 CACCTAACTATTTACCATTTTTA-TGTTAACCACCAATTTTTCAATTTTATCAAACGGGT
* * * *
4491744 CACCTAACTATTTACCCTTTTTATGTTAACCACCAATTTTTCAATTTTGTTAATCGGGT
1 CACCTAACTATTTACCATTTTTATGTTAACCACCAATTTTTCAATTTTATCAAACGGGT
4491803 CACCTAACTATTTA
1 CACCTAACTATTTA
4491817 AATCTTGTCA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
58 1 0.02
59 64 0.98
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.42
Consensus pattern (59 bp):
CACCTAACTATTTACCATTTTTATGTTAACCACCAATTTTTCAATTTTATCAAACGGGT
Found at i:4492738 original size:65 final size:64
Alignment explanation
Indices: 4492648--4492807 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 64
4492638 GTTATAATAT
** * * *
4492648 TTTAAAATATAAAATATGGTACATTTCAGTTCAATAAAATTAGAACGATGAAGATAATTTA-TCA
1 TTTAAAATATGTAA-ATGATACATTTCAGTTCAATAAAATTAGAACAATGAAGACAATTTACT-A
4492712 A
64 A
* * *
4492713 TTTAAAATATGTAAAATGATGCATTTCAATTCAATAAAATTAGAATAATGAAGACAATTTACTAA
1 TTTAAAATATGT-AAATGATACATTTCAGTTCAATAAAATTAGAACAATGAAGACAATTTACTAA
*
4492778 TTTGAAATATGTAAATGATACATTTCAGTT
1 TTTAAAATATGTAAATGATACATTTCAGTT
4492808 ATGACATATT
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 16 0.20
65 63 0.77
66 3 0.04
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (64 bp):
TTTAAAATATGTAAATGATACATTTCAGTTCAATAAAATTAGAACAATGAAGACAATTTACTAA
Found at i:4493001 original size:16 final size:16
Alignment explanation
Indices: 4492980--4493010 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4492970 TATTATCATT
*
4492980 AATTATATATATTATA
1 AATTATATAGATTATA
4492996 AATTATATAGATTAT
1 AATTATATAGATTAT
4493011 GTTATGTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
AATTATATAGATTATA
Found at i:4493567 original size:23 final size:23
Alignment explanation
Indices: 4493518--4493567 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
4493508 AATGTTGTAT
* * *
4493518 TTTAATTAAATTACATTTAGATT
1 TTTAACTAAATTACAATTAGATG
* *
4493541 TTTAACTAAATTATAATTATATG
1 TTTAACTAAATTACAATTAGATG
4493564 TTTA
1 TTTA
4493568 GTACTTTATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (23 bp):
TTTAACTAAATTACAATTAGATG
Found at i:4503366 original size:24 final size:24
Alignment explanation
Indices: 4503339--4503534 Score: 189
Period size: 24 Copynumber: 8.1 Consensus size: 24
4503329 TTTCAATGTA
**
4503339 TTTTAGGTTGGAGTGGTTTAAGGTTT
1 TTTTAGGTTAAAGTGGTTTAAGG--T
* *
4503365 TTTTAGGTTAAAATGGTTTAGGGT
1 TTTTAGGTTAAAGTGGTTTAAGGT
* * *
4503389 TTTTAGATGAAAGTTGTTTAAGGCT
1 TTTTAGGTTAAAGTGGTTTAAGG-T
* * * *
4503414 TTTAAGGTTAAATTGGTTTTAGGG
1 TTTTAGGTTAAAGTGGTTTAAGGT
* * *
4503438 TTTTAAGTTAAAATGGTTT-AGGG
1 TTTTAGGTTAAAGTGGTTTAAGGT
*
4503461 TTTTAGGTTAAAGTGGTTTAGGGTT
1 TTTTAGGTTAAAGTGGTTTAAGG-T
*
4503486 TTTTAGGTTAAA-TGGTTTAGGGT
1 TTTTAGGTTAAAGTGGTTTAAGGT
*
4503509 TTTTAAGTTAAAGTGGTTTAAGGT
1 TTTTAGGTTAAAGTGGTTTAAGGT
4503533 TT
1 TT
4503535 AATTTTAAAA
Statistics
Matches: 141, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
23 33 0.23
24 59 0.42
25 30 0.21
26 19 0.13
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.47
Consensus pattern (24 bp):
TTTTAGGTTAAAGTGGTTTAAGGT
Found at i:4503739 original size:24 final size:24
Alignment explanation
Indices: 4503712--4503764 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
4503702 GGTTATAGGG
4503712 GTTTACGG-GTTTTTAAGATTTAAA
1 GTTTA-GGAGTTTTTAAGATTTAAA
* * *
4503736 GTTTAGGATTTTTTAGGATTTAAG
1 GTTTAGGAGTTTTTAAGATTTAAA
4503760 GTTTA
1 GTTTA
4503765 AGGTTAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (24 bp):
GTTTAGGAGTTTTTAAGATTTAAA
Found at i:4503882 original size:26 final size:27
Alignment explanation
Indices: 4503817--4503997 Score: 130
Period size: 28 Copynumber: 6.8 Consensus size: 27
4503807 CTAAATGGAA
*
4503817 AAATAATTAGAAAATACACA-TACACTG
1 AAAT-ATTAGAAAATACACATTACATTG
*
4503844 AAAAATATTAGAAAATACA-ATTGCATTG
1 --AAATATTAGAAAATACACATTACATTG
4503872 AAATATTAGAAACA-ATCACA-TACATTG
1 AAATATTAGAAA-ATA-CACATTACATTG
* *
4503899 AAATATTAGAAATTA-AGATTACATTG
1 AAATATTAGAAAATACACATTACATTG
* *
4503925 AAATATTAG-AAATGCAC-TTACATTA
1 AAATATTAGAAAATACACATTACATTG
* * **
4503950 AAATAGTATAAAA-ACAC-GCACAATTTTG
1 AAATATTAGAAAATACACATTAC-A--TTG
4503978 AAATATTAGAAAA-ACACATT
1 AAATATTAGAAAATACACATT
4503998 TATAGAAAAT
Statistics
Matches: 121, Mismatches: 19, Indels: 24
0.74 0.12 0.15
Matches are distributed among these distances:
25 24 0.20
26 34 0.28
27 23 0.19
28 36 0.30
29 4 0.03
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.28
Consensus pattern (27 bp):
AAATATTAGAAAATACACATTACATTG
Found at i:4503905 original size:27 final size:26
Alignment explanation
Indices: 4503846--4503937 Score: 91
Period size: 26 Copynumber: 3.5 Consensus size: 26
4503836 ATACACTGAA
*
4503846 AAATATTAGAAA--ATACAATTGCATTG
1 AAATATTAGAAATCA-ACAA-TACATTG
4503872 AAATATTAGAAA-CAATCACATACATTG
1 AAATATTAGAAATCAA-CA-ATACATTG
* * *
4503899 AAATATTAGAAATTAAGATTACATTG
1 AAATATTAGAAATCAACAATACATTG
4503925 AAATATTAGAAAT
1 AAATATTAGAAAT
4503938 GCACTTACAT
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
26 33 0.57
27 22 0.38
28 3 0.05
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (26 bp):
AAATATTAGAAATCAACAATACATTG
Found at i:4505543 original size:16 final size:17
Alignment explanation
Indices: 4505502--4505546 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
4505492 CATAGATAGA
*
4505502 AGTATATGTTTGCTATG
1 AGTATATGTGTGCTATG
*
4505519 ATTTATATGTGTGC-ATG
1 A-GTATATGTGTGCTATG
4505536 AGTATATGTGT
1 AGTATATGTGT
4505547 TGACATGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 9 0.38
17 5 0.21
18 10 0.42
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.47
Consensus pattern (17 bp):
AGTATATGTGTGCTATG
Found at i:4506222 original size:96 final size:96
Alignment explanation
Indices: 4506039--4506223 Score: 284
Period size: 96 Copynumber: 1.9 Consensus size: 96
4506029 AGAGTCGAGG
* *
4506039 ATTACCTATGTCTTTCGGGACATATGGACAAGATTACCTATGTCATTCGGGACATATGTACATGA
1 ATTACCTATGTCTTTCGGGACATATGGACAAGATTACCTATGTCATTCGGGACATATGAACAAGA
**
4506104 TTACCTATGTCATTCGGGACATATGGACAAA
66 TTACCTATGTCATTCGAAACATATGGACAAA
* *
4506135 ATTACCTATGTCTTTCGGGACATATGGACATA-ATTACCTATGTCCTTCGGGGCATATGAACAAG
1 ATTACCTATGTCTTTCGGGACATATGGACA-AGATTACCTATGTCATTCGGGACATATGAACAAG
4506199 ATTACCTATGTTC-TTCGAAACATAT
65 ATTACCTATG-TCATTCGAAACATAT
4506224 AGATAGGTCC
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
96 78 0.96
97 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (96 bp):
ATTACCTATGTCTTTCGGGACATATGGACAAGATTACCTATGTCATTCGGGACATATGAACAAGA
TTACCTATGTCATTCGAAACATATGGACAAA
Found at i:4506223 original size:32 final size:32
Alignment explanation
Indices: 4506038--4506209 Score: 256
Period size: 32 Copynumber: 5.4 Consensus size: 32
4506028 AAGAGTCGAG
*
4506038 GATTACCTATGTCTTTCGGGACATATGGACAA
1 GATTACCTATGTCATTCGGGACATATGGACAA
* *
4506070 GATTACCTATGTCATTCGGGACATATGTACAT
1 GATTACCTATGTCATTCGGGACATATGGACAA
4506102 GATTACCTATGTCATTCGGGACATATGGACAA
1 GATTACCTATGTCATTCGGGACATATGGACAA
* *
4506134 AATTACCTATGTCTTTCGGGACATATGGACATA
1 GATTACCTATGTCATTCGGGACATATGGACA-A
* * *
4506167 -ATTACCTATGTCCTTCGGGGCATATGAACAA
1 GATTACCTATGTCATTCGGGACATATGGACAA
4506198 GATTACCTATGT
1 GATTACCTATGT
4506210 TCTTCGAAAC
Statistics
Matches: 128, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
31 1 0.01
32 126 0.98
33 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (32 bp):
GATTACCTATGTCATTCGGGACATATGGACAA
Found at i:4508703 original size:14 final size:14
Alignment explanation
Indices: 4508684--4508720 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
4508674 TTATATGCTT
4508684 TGATACATGCTATA
1 TGATACATGCTATA
4508698 TGATACATGCTATA
1 TGATACATGCTATA
4508712 TGATACATG
1 TGATACATG
4508721 TGAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (14 bp):
TGATACATGCTATA
Found at i:4509999 original size:8 final size:8
Alignment explanation
Indices: 4509986--4510019 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
4509976 CAGATAGATC
4509986 AGTTTGAG
1 AGTTTGAG
4509994 AGTTTGAG
1 AGTTTGAG
**
4510002 AGAATGAG
1 AGTTTGAG
4510010 AGTTTGAG
1 AGTTTGAG
4510018 AG
1 AG
4510020 AGTGTAAGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.29
Consensus pattern (8 bp):
AGTTTGAG
Found at i:4510011 original size:16 final size:16
Alignment explanation
Indices: 4509990--4510020 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4509980 TAGATCAGTT
4509990 TGAGAGTTTGAGAGAA
1 TGAGAGTTTGAGAGAA
4510006 TGAGAGTTTGAGAGA
1 TGAGAGTTTGAGAGA
4510021 GTGTAAGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.39, T:0.26
Consensus pattern (16 bp):
TGAGAGTTTGAGAGAA
Found at i:4510340 original size:170 final size:170
Alignment explanation
Indices: 4510113--4510505 Score: 434
Period size: 170 Copynumber: 2.3 Consensus size: 170
4510103 TAACCAATAA
* * * ** * * ** *
4510113 TATGTTTGATGGGGCGGGACACTATGGCATGACAAAGATTCTTTGGAAAAGGTAAAAGCT-CTTC
1 TATGTTTGATGGGACGAGACACTATGACATGGTAGAGATTCTCTAAAAAAGGTAAAAG-TGCTTA
* * * * * * * *
4510177 TTAT-AGGATGCGCCTTCCCTTTTCATCATAGATTTTCTGCATTTTTCATTTAATAATAGCCCCA
65 TTATGA-GACGCACCTTCCATTTTCATCAGAAATTTTCTGCATTCTTCAGTTAATAATAGCCCAA
*
4510241 AATGAT-TCCCCCTGTC-AGAGAACTATTCACGCCAACATCTAT
129 AATGATGTCCCCC-GTCGAGA-AACTATTCACGCCAACACCTAT
* * *
4510283 TATGTTTGATGGGATGAGACACTATTACATGGTAGAGATTCTCTAAAAAATGTAAAAGTGCTTAT
1 TATGTTTGATGGGACGAGACACTATGACATGGTAGAGATTCTCTAAAAAAGGTAAAAGTGCTTAT
* *
4510348 TGTGAGACGCACCTTCCATTTTCGTCAGAAATTTTCTGCATTCTTCAGTTAATAATAGCCCAAAA
66 TATGAGACGCACCTTCCATTTTCATCAGAAATTTTCTGCATTCTTCAGTTAATAATAGCCCAAAA
* * * *
4510413 TGATGTCTCTCGTCGGGAAACTATTCACGTCAACACCTAT
131 TGATGTCCCCCGTCGAGAAACTATTCACGCCAACACCTAT
* * * *
4510453 TATGTTTGATGGGGCGAGACATTATGGCTTGGTAGAGATTCTCTAAAAAAGGT
1 TATGTTTGATGGGACGAGACACTATGACATGGTAGAGATTCTCTAAAAAAGGT
4510506 GAAACGTTTC
Statistics
Matches: 184, Mismatches: 35, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
169 1 0.01
170 176 0.96
171 7 0.04
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (170 bp):
TATGTTTGATGGGACGAGACACTATGACATGGTAGAGATTCTCTAAAAAAGGTAAAAGTGCTTAT
TATGAGACGCACCTTCCATTTTCATCAGAAATTTTCTGCATTCTTCAGTTAATAATAGCCCAAAA
TGATGTCCCCCGTCGAGAAACTATTCACGCCAACACCTAT
Found at i:4510627 original size:169 final size:170
Alignment explanation
Indices: 4510227--4510635 Score: 418
Period size: 170 Copynumber: 2.4 Consensus size: 170
4510217 ATTTTTCATT
* * * * * *
4510227 TAATAATAGCCCCAAATGAT-TCCCCCTGTC-AGAGAACTATTCACGCCAACATCTATTATGTTT
1 TAATAATAGCCCAAAATGATGTCTCTC-GTCGGGA-AACTATTCACGTCAACACCTATTATGTTT
* * *
4510290 GATGGGATGAGACACTATTACATGGTAGAGATTCTCTAAAAAATGTAAAAGTGCTTATTGTGAGA
64 GATGGGACGAGACACTATGACATGGTAGAGATTCTCTAAAAAAGGTAAAAGTGCTTATTGTGAGA
* * * * *
4510355 CGCACCTTCCATTTTCGTCAGAAATTTTCTGCATTCTTCAGT
129 CACACATTCCATTTTCGTCAGAAATTCTCTGCAATCTTCAGC
4510397 TAATAATAGCCCAAAATGATGTCTCTCGTCGGGAAACTATTCACGTCAACACCTATTATGTTTGA
1 TAATAATAGCCCAAAATGATGTCTCTCGTCGGGAAACTATTCACGTCAACACCTATTATGTTTGA
* * * * * *
4510462 TGGGGCGAGACATTATGGCTTGGTAGAGATTCTCTAAAAAAGGTGAAACGTTTCTTA-TG-GA-A
66 TGGGACGAGACACTATGACATGGTAGAGATTCTCTAAAAAAGGT-AAAAG-TGCTTATTGTGAGA
* * * *
4510524 TACACATTCCCTTTTCGTTAGAGATTCTCTGCAATCTTCAGC
129 CACACATTCCATTTTCGTCAGAAATTCTCTGCAATCTTCAGC
*** * * * * * *
4510566 TAATAATATTTCTAAATGATGTCAT-TCGTCGGGGAACTATTTATGTTAAC-CCTTGTTATGTTT
1 TAATAATAGCCCAAAATGATGTC-TCTCGTCGGGAAACTATTCACGTCAACACC-TATTATGTTT
4510629 GATGGGA
64 GATGGGA
4510636 AAACACTATG
Statistics
Matches: 199, Mismatches: 34, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
168 2 0.01
169 89 0.45
170 91 0.46
171 12 0.06
172 5 0.03
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (170 bp):
TAATAATAGCCCAAAATGATGTCTCTCGTCGGGAAACTATTCACGTCAACACCTATTATGTTTGA
TGGGACGAGACACTATGACATGGTAGAGATTCTCTAAAAAAGGTAAAAGTGCTTATTGTGAGACA
CACATTCCATTTTCGTCAGAAATTCTCTGCAATCTTCAGC
Done.