Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 234 of 235
Found at i:78179885 original size:29 final size:29
Alignment explanation
Indices: 78179853--78179915 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
78179843 AAAAATTTAG
* *
78179853 CTTTTAAGGGCCCAAAATTTTTTTACCTA
1 CTTTTAAGGGACCAAAATTTTTTTACCAA
* *
78179882 CTTTTAAGGGACCTAAATTTTTTTCCCAA
1 CTTTTAAGGGACCAAAATTTTTTTACCAA
78179911 CTTTT
1 CTTTT
78179916 GAGGAATCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.44
Consensus pattern (29 bp):
CTTTTAAGGGACCAAAATTTTTTTACCAA
Found at i:78179926 original size:29 final size:29
Alignment explanation
Indices: 78179853--78179927 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
78179843 AAAAATTTAG
** * *
78179853 CTTTTAAGGGCCCAAAATTTTTTTACCTA
1 CTTTTAAGGAACCTAAATTTTTTTACCAA
* *
78179882 CTTTTAAGGGACCTAAATTTTTTTCCCAA
1 CTTTTAAGGAACCTAAATTTTTTTACCAA
* *
78179911 CTTTTGAGGAATCTAAA
1 CTTTTAAGGAACCTAAA
78179928 ACTACATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (29 bp):
CTTTTAAGGAACCTAAATTTTTTTACCAA
Found at i:78180704 original size:20 final size:19
Alignment explanation
Indices: 78180681--78180730 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
78180671 TATGCAAATT
*
78180681 AAAAAATATATAATTTTTAA
1 AAAAAATATATAA-ATTTAA
* *
78180701 AAAAAATCTCTTAAATTTAA
1 AAAAAATAT-ATAAATTTAA
78180721 AAAAAATATA
1 AAAAAATATA
78180731 AATCAATTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAAATATATAAATTTAA
Found at i:78180858 original size:30 final size:31
Alignment explanation
Indices: 78180822--78180880 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
78180812 CTTTTCTTCG
78180822 TTTCTCCCTC-A-AACAAAGAAAGTAAACCCA
1 TTTCTCCCTCAACAACAAA-AAAGTAAACCCA
* *
78180852 TTTCTCCTTCAACAACAAAAAATTAAACC
1 TTTCTCCCTCAACAACAAAAAAGTAAACC
78180881 TAGAAATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.36
31 10 0.40
32 6 0.24
ACGTcount: A:0.44, C:0.29, G:0.03, T:0.24
Consensus pattern (31 bp):
TTTCTCCCTCAACAACAAAAAAGTAAACCCA
Found at i:78184345 original size:27 final size:27
Alignment explanation
Indices: 78184297--78184360 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
78184287 AAATATTCTC
78184297 TAAATTAAT-AAATATTACTTTATCGA
1 TAAATTAATAAAATATTACTTTATCGA
78184323 TAAATTAATAAAATATTTA-TTTATCGA
1 TAAATTAATAAAATA-TTACTTTATCGA
*
78184350 TAAACTAATAA
1 TAAATTAATAA
78184361 CCTTGATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
26 9 0.26
27 23 0.66
28 3 0.09
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (27 bp):
TAAATTAATAAAATATTACTTTATCGA
Found at i:78184544 original size:18 final size:18
Alignment explanation
Indices: 78184523--78184563 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
78184513 TATGTATTGT
78184523 TTTTTTTATTTTT-ATACA
1 TTTTTTTATTTTTAATA-A
*
78184541 TTTTATTATTTTTAATAA
1 TTTTTTTATTTTTAATAA
78184559 TTTTT
1 TTTTT
78184564 AAAAAATTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTTTATTTTTAATAA
Found at i:78189578 original size:12 final size:12
Alignment explanation
Indices: 78189561--78189599 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
78189551 CACAATTACA
78189561 TTAAAATCTACT
1 TTAAAATCTACT
*
78189573 TTAAAAT-TACA
1 TTAAAATCTACT
78189584 TTAAAATCTACT
1 TTAAAATCTACT
78189596 TTAA
1 TTAA
78189600 TATAAGGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (12 bp):
TTAAAATCTACT
Found at i:78189584 original size:23 final size:23
Alignment explanation
Indices: 78189554--78189599 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
78189544 TGGACAACAC
78189554 AATTACATTAAAATCTACTTTAA
1 AATTACATTAAAATCTACTTTAA
78189577 AATTACATTAAAATCTACTTTAA
1 AATTACATTAAAATCTACTTTAA
78189600 TATAAGGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (23 bp):
AATTACATTAAAATCTACTTTAA
Found at i:78189589 original size:11 final size:11
Alignment explanation
Indices: 78189554--78189590 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
78189544 TGGACAACAC
78189554 AATTACATTAA
1 AATTACATTAA
*
78189565 AATCTACTTTAA
1 AAT-TACATTAA
78189577 AATTACATTAA
1 AATTACATTAA
78189588 AAT
1 AAT
78189591 CTACTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (11 bp):
AATTACATTAA
Found at i:78192071 original size:12 final size:12
Alignment explanation
Indices: 78192050--78192083 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
78192040 TATATATTTT
*
78192050 AAAATTATATAA
1 AAAATAATATAA
78192062 AAAATAATATAA
1 AAAATAATATAA
*
78192074 AAATTAATAT
1 AAAATAATAT
78192084 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:78198373 original size:3 final size:3
Alignment explanation
Indices: 78198365--78198864 Score: 210
Period size: 3 Copynumber: 169.0 Consensus size: 3
78198355 TTCTAATACC
* * *
78198365 ATT ATT ATT ACT ACTT CT- ATT ATT ATT ATT ATT ATT ATT -TT ACT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* ** * * **
78198409 ATT ATT ATT TTT CGT ACAT ATAT ATT ATT ATT -TGT ATT TTT ATT AGA
1 ATT ATT ATT ATT ATT A-TT AT-T ATT ATT ATT AT-T ATT ATT ATT ATT
** ** * * * * *
78198456 ATT AAC GCT CTT ATT ATT ACT ATT ATT ATT CCTT -TT ACT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
* * * * *
78198501 ATT ATT ATT ACT ATT ATT ACT ATT -TT TTT ATGT -TC ATT TTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
* * * * *
78198545 ATT AAT ATT ATT ATT A-T AAT CTT ATT -TT ATT ACT ATT ATC ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * ** * *
78198590 TTT A-A ATT ATT GTT ACT ATT ATT CTT -TT ACC ATT -TA ATAC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
* * * * * **
78198633 ATT ACT ATT TTT GTT ATT GTT ATT ATT ACT ATTT ATT ATT ACC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
* *
78198679 ATT ATT ACT ATT ACTT -TT ACTT -TT ATTT ACT ATT ATT A-T ATT ATT
1 ATT ATT ATT ATT A-TT ATT A-TT ATT A-TT ATT ATT ATT ATT ATT ATT
* * * *
78198724 A-T ATT ATT A-T ATT ATT TTT ATT TTCT ATT ACT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
* * * * * * *
78198768 ATT ACT AAT ATT AAT ATT CTT ATT ATT ACT ATT ATT ATT ATC ATT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
78198816 ATT ATT ATT -TT -TT ACT ATT ATT GTT ATT ATT ATT AAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
78198862 ATT
1 ATT
78198865 GTTCTCATTA
Statistics
Matches: 357, Mismatches: 110, Indels: 60
0.68 0.21 0.11
Matches are distributed among these distances:
2 32 0.09
3 302 0.85
4 23 0.06
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:78198709 original size:10 final size:10
Alignment explanation
Indices: 78198678--78198740 Score: 50
Period size: 8 Copynumber: 6.8 Consensus size: 10
78198668 TTATTACCAT
78198678 TATTA-TTAC
1 TATTATTTAC
78198687 TATTACTTTTAC
1 TATTA--TTTAC
*
78198699 TTTTATTTAC
1 TATTATTTAC
78198709 TATTA-TTA-
1 TATTATTTAC
78198717 TATTA-TTA-
1 TATTATTTAC
78198725 TATTA-TTA-
1 TATTATTTAC
78198733 TATTATTT
1 TATTATTT
78198741 TTATTTTCTA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
8 21 0.44
9 10 0.21
10 9 0.19
12 8 0.17
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.63
Consensus pattern (10 bp):
TATTATTTAC
Found at i:78204869 original size:46 final size:44
Alignment explanation
Indices: 78204810--78204924 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
78204800 ACAGGACAGA
* *
78204810 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
78204856 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
78204900 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
78204925 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:78204905 original size:44 final size:45
Alignment explanation
Indices: 78204810--78204943 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
78204800 ACAGGACAGA
* *
78204810 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
78204856 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
78204900 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
78204944 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:78207935 original size:62 final size:62
Alignment explanation
Indices: 78207854--78208029 Score: 246
Period size: 61 Copynumber: 2.8 Consensus size: 62
78207844 GCAAATCAGT
* *
78207854 AGGGGTTGCAGAAAGACGTGAAGAGGCAGCAAAGTAGTTGCCGAAAAAAATATAATAGCAGC
1 AGGGGTTGCAGAGAGACGTGAAGAGGCAGCAAAGCAGTTGCCGAAAAAAATATAATAGCAGC
* * *
78207916 AGGGGTTGCAGAGATACGTGAAGAGGCAGCAAAGCAGTTG-CAAAAAAAAAATAATAGCAGC
1 AGGGGTTGCAGAGAGACGTGAAGAGGCAGCAAAGCAGTTGCCGAAAAAAATATAATAGCAGC
* * * * *
78207977 AAGGGTTGCAAAGAGACGTGAAGAGACAGCAAAACAGTTACCCGAAAAAAATA
1 AGGGGTTGCAGAGAGACGTGAAGAGGCAGCAAAGCAGTT-GCCGAAAAAAATA
78208030 ATAGCGGTAG
Statistics
Matches: 99, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
61 53 0.54
62 37 0.37
63 9 0.09
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.13
Consensus pattern (62 bp):
AGGGGTTGCAGAGAGACGTGAAGAGGCAGCAAAGCAGTTGCCGAAAAAAATATAATAGCAGC
Found at i:78209999 original size:15 final size:16
Alignment explanation
Indices: 78209979--78210011 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
78209969 AATTTTGTAT
*
78209979 TATTTT-AATATTAAA
1 TATTTTAAAGATTAAA
78209994 TATTTTAAAGATTAAA
1 TATTTTAAAGATTAAA
78210010 TA
1 TA
78210012 ACATTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TATTTTAAAGATTAAA
Found at i:78210390 original size:23 final size:23
Alignment explanation
Indices: 78210340--78210390 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
78210330 ATATAGGTGG
* * *
78210340 TCATGGGTGGGTGGTAGATTTGT
1 TCATGGGTGGGTGGTAAATCTAT
*
78210363 CCATGGGTGGGTGGTAAATCTAT
1 TCATGGGTGGGTGGTAAATCTAT
78210386 TCATG
1 TCATG
78210391 TCCGTGAGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.18, C:0.10, G:0.37, T:0.35
Consensus pattern (23 bp):
TCATGGGTGGGTGGTAAATCTAT
Found at i:78210940 original size:4 final size:4
Alignment explanation
Indices: 78210931--78210957 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
78210921 ATTGTTTATC
78210931 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
78210958 CCAGAGTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:78211305 original size:97 final size:98
Alignment explanation
Indices: 78211087--78211368 Score: 415
Period size: 98 Copynumber: 2.9 Consensus size: 98
78211077 TCAATCATGG
* * *
78211087 TATTATGCTTAGATGCTTGTATTAAACATTTGAATTGCATTAATTATGTTTTTTTTTACTTAAAT
1 TATTATGCTTAGATGCTTGTATTGAACATTTGAACTGCATTAATTATGTTTTTTTTTACTTAGAT
* *
78211152 -CCTTTATGCTAACTCATTTTGCATCGATTATGA
66 GCCTTTGTGGTAACTCA-TTTGCATCGATTATGA
* * * * *
78211185 TATTATGCTTAAATGCTTGTATTGAACATTTGAACTGCATCAATTATG-TTTTCTTTACATGGAT
1 TATTATGCTTAGATGCTTGTATTGAACATTTGAACTGCATTAATTATGTTTTTTTTTACTTAGAT
**
78211249 GCCTTTGTGGTAACTCATTTGCATCGATTATTC
66 GCCTTTGTGGTAACTCATTTGCATCGATTATGA
* *
78211282 TATTATGCTTAGATGCTTGTATTGAACATTTGAGCTGTATTAATTATGTTTTTTTTTACTTAGAT
1 TATTATGCTTAGATGCTTGTATTGAACATTTGAACTGCATTAATTATGTTTTTTTTTACTTAGAT
78211347 GCCTTTGTGGTAACTCATTTGC
66 GCCTTTGTGGTAACTCATTTGC
78211369 CTCTTTTTAA
Statistics
Matches: 163, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
97 70 0.43
98 93 0.57
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.48
Consensus pattern (98 bp):
TATTATGCTTAGATGCTTGTATTGAACATTTGAACTGCATTAATTATGTTTTTTTTTACTTAGAT
GCCTTTGTGGTAACTCATTTGCATCGATTATGA
Found at i:78212447 original size:44 final size:44
Alignment explanation
Indices: 78212370--78212460 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 44
78212360 GTAGGTCAAA
* * *
78212370 TAATATTAAAATAACCTACATTAATCAGGGTTTAAGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGAAAAC
* *
78212414 TAATATTAAAATAACTTACACTAATTAGAGTTTAAGTGGAAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGAAAAC
78212458 TAA
1 TAA
78212461 AAACAGAGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGAAAAC
Found at i:78215958 original size:19 final size:18
Alignment explanation
Indices: 78215923--78215971 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 18
78215913 GTTTCACATC
*
78215923 TCATTTCATCATTTCATAT
1 TCATTTC-TCATCTCATAT
78215942 TACATTTCTCATCTCATAT
1 T-CATTTCTCATCTCATAT
78215961 TCATTTCTCAT
1 TCATTTCTCAT
78215972 TTTTTCCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 10 0.36
19 12 0.43
20 6 0.21
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (18 bp):
TCATTTCTCATCTCATAT
Found at i:78215996 original size:43 final size:43
Alignment explanation
Indices: 78215946--78216031 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
78215936 TCATATTACA
* *
78215946 TTTCTCATCTCATATTCATTTCTCATTTTTTCCATTTCAATAT
1 TTTCTCATCTCATATTCATTTCTCATCTTTACCATTTCAATAT
*
78215989 TTTCTCATCTCGTATTCATTTCTCATCTTTACCATTTCAATAT
1 TTTCTCATCTCATATTCATTTCTCATCTTTACCATTTCAATAT
78216032 CAATCATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.21, C:0.24, G:0.01, T:0.53
Consensus pattern (43 bp):
TTTCTCATCTCATATTCATTTCTCATCTTTACCATTTCAATAT
Found at i:78221083 original size:46 final size:46
Alignment explanation
Indices: 78221018--78221235 Score: 242
Period size: 46 Copynumber: 4.7 Consensus size: 46
78221008 TTATCTTTGA
* * * * * *
78221018 CATGATGCCATAGTGTCTTTCAACTACAGTCTTACTA-ATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATAGTCTTAC-ACA-TTTCATAT
* *** * *
78221064 CATGTTGCCATGGTATCTTTCAACCATGGTCTTTTTCATTTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATAGTCTTACACA-TTTCATAT
*
78221111 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATAT
*
78221157 CAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATAT
* * *
78221203 CAGGTTGCCATAGTATCTTTCAACCATGGTCTT
1 CATGTTGCCATGGTATCTTTCAACCATAGTCTT
78221236 TTTCAACCAT
Statistics
Matches: 152, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
46 114 0.75
47 38 0.25
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATAT
Found at i:78221126 original size:47 final size:46
Alignment explanation
Indices: 78221067--78221235 Score: 257
Period size: 46 Copynumber: 3.7 Consensus size: 46
78221057 TTTCTGTCAT
*** * * *
78221067 GTTGCCATGGTATCTTTCAACCATGGTCTTTTTCATTTTCCTGTCAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
78221114 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
*
78221160 GTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
*
78221206 GTTGCCATAGTATCTTTCAACCATGGTCTT
1 GTTGCCATGGTATCTTTCAACCATGGTCTT
78221236 TTTCAACCAT
Statistics
Matches: 113, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
46 81 0.72
47 32 0.28
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
Found at i:78221243 original size:62 final size:62
Alignment explanation
Indices: 78221164--78221297 Score: 214
Period size: 62 Copynumber: 2.2 Consensus size: 62
78221154 TATCAGGTTG
* * *
78221164 CCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGTTGCCATAGTATCTTTCAA
1 CCATGGTCTTTTTCAACCATAGTCTTACACATTTCATATCAGGCTGCCATAGTATCTTTCAA
* * *
78221226 CCATGGTCTTTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTCTCTTTCAA
1 CCATGGTCTTTTTCAACCATAGTCTTACACATTTCATATCAGGCTGCCATAGTATCTTTCAA
78221288 CCATGGTCTT
1 CCATGGTCTT
78221298 ACACATTTCA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 66 1.00
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.37
Consensus pattern (62 bp):
CCATGGTCTTTTTCAACCATAGTCTTACACATTTCATATCAGGCTGCCATAGTATCTTTCAA
Found at i:78221246 original size:16 final size:16
Alignment explanation
Indices: 78221220--78221251 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
78221210 CCATAGTATC
78221220 TTTCAACCATGGTCTT
1 TTTCAACCATGGTCTT
78221236 TTTCAACCATGGTCTT
1 TTTCAACCATGGTCTT
78221252 ACACATTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.44
Consensus pattern (16 bp):
TTTCAACCATGGTCTT
Found at i:78221279 original size:46 final size:46
Alignment explanation
Indices: 78221226--78221313 Score: 167
Period size: 46 Copynumber: 1.9 Consensus size: 46
78221216 TATCTTTCAA
*
78221226 CCATGGTCTTTTTCAACCATGGTCTTACACATTTCATATCAGGCTG
1 CCATGGTCTCTTTCAACCATGGTCTTACACATTTCATATCAGGCTG
78221272 CCATGGTCTCTTTCAACCATGGTCTTACACATTTCATATCAG
1 CCATGGTCTCTTTCAACCATGGTCTTACACATTTCATATCAG
78221314 AGAGCACACT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (46 bp):
CCATGGTCTCTTTCAACCATGGTCTTACACATTTCATATCAGGCTG
Found at i:78221307 original size:108 final size:108
Alignment explanation
Indices: 78221118--78221313 Score: 347
Period size: 108 Copynumber: 1.8 Consensus size: 108
78221108 TGTCATGTTG
*
78221118 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCA
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCA
78221183 TAGTCTTACACATTTCATATCAGGTTGCCATAGTATCTTTCAA
66 TAGTCTTACACATTTCATATCAGGTTGCCATAGTATCTTTCAA
* * *
78221226 CCATGGTCTTTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTCTCTTTCAACCA
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCA
*
78221291 TGGTCTTACACATTTCATATCAG
66 TAGTCTTACACATTTCATATCAG
78221314 AGAGCACACT
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 83 1.00
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (108 bp):
CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCA
TAGTCTTACACATTTCATATCAGGTTGCCATAGTATCTTTCAA
Found at i:78241486 original size:43 final size:43
Alignment explanation
Indices: 78241416--78241531 Score: 155
Period size: 43 Copynumber: 2.7 Consensus size: 43
78241406 CAACCCCAAA
*
78241416 ATTAATCACAA-ATGAATCACTTAAAGTTCATC-AAAAATACAT
1 ATTAATCACAATCTGAATCACTT-AAGTTCATCTAAAAATACAT
* * *
78241458 ATTTGATCACAATCTGAATCACTTAAGTTCATCTGAAAATATAT
1 A-TTAATCACAATCTGAATCACTTAAGTTCATCTAAAAATACAT
*
78241502 ATTAATCACAATCTGAATCACTCAAGTTCA
1 ATTAATCACAATCTGAATCACTTAAGTTCA
78241532 ACGAAATTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
42 1 0.02
43 45 0.69
44 19 0.29
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (43 bp):
ATTAATCACAATCTGAATCACTTAAGTTCATCTAAAAATACAT
Found at i:78252351 original size:25 final size:24
Alignment explanation
Indices: 78252323--78252378 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
78252313 CTTAAAAAGA
78252323 TTAAAAAAATT-AAAATAAATGTTT
1 TTAAAAAAATTGAAAATAAAT-TTT
*
78252347 CTT-AACAAATTGAAAATAAATTTT
1 -TTAAAAAAATTGAAAATAAATTTT
78252371 TTAAAAAA
1 TTAAAAAA
78252379 TATGTATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 2 0.07
24 14 0.52
25 11 0.41
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (24 bp):
TTAAAAAAATTGAAAATAAATTTT
Found at i:78252553 original size:23 final size:23
Alignment explanation
Indices: 78252521--78252565 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
78252511 TAATAGTGAA
*
78252521 AACAACAAGAAAATAGCAAAAAC
1 AACAACAAGAAAACAGCAAAAAC
* *
78252544 AACAATAAGAAAACAGTAAAAA
1 AACAACAAGAAAACAGCAAAAA
78252566 AATTATTTTT
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:0.71, C:0.13, G:0.09, T:0.07
Consensus pattern (23 bp):
AACAACAAGAAAACAGCAAAAAC
Found at i:78253451 original size:100 final size:101
Alignment explanation
Indices: 78253258--78253459 Score: 379
Period size: 100 Copynumber: 2.0 Consensus size: 101
78253248 AAACATTTGA
78253258 TTGTTAAATTGCACATATCTTAGTGTTATTTAAGTATAAATATTTTTTTAATGTATTTTCAATTT
1 TTGTTAAATTGCACATATCTTAGTGTTATTTAAGTATAAATATTTTTTTAATGTATTTTCAATTT
*
78253323 GTTGGAAAGCATTTATTTTAATGCTTTTAGTGCATT
66 GTTGGAAAACATTTATTTTAATGCTTTTAGTGCATT
*
78253359 TTGTTAAATTGCACATATTTTAGTGTTATTTAAGTATAAATATTTTTTT-ATGTATTTTCAATTT
1 TTGTTAAATTGCACATATCTTAGTGTTATTTAAGTATAAATATTTTTTTAATGTATTTTCAATTT
78253423 GTTGGAAAACATTTATTTTAATGCTTTTAGTGCATT
66 GTTGGAAAACATTTATTTTAATGCTTTTAGTGCATT
78253459 T
1 T
78253460 AATGTATTAT
Statistics
Matches: 99, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
100 51 0.52
101 48 0.48
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.52
Consensus pattern (101 bp):
TTGTTAAATTGCACATATCTTAGTGTTATTTAAGTATAAATATTTTTTTAATGTATTTTCAATTT
GTTGGAAAACATTTATTTTAATGCTTTTAGTGCATT
Found at i:78255837 original size:31 final size:30
Alignment explanation
Indices: 78255802--78255867 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 30
78255792 TTCAAAATTT
* *
78255802 TAAAAATAAAAAGACTAAAATTGACCGAATC
1 TAAAAATAAAAAGACTAAAATT-ACCCAAAC
* *
78255833 TAAAAATAAAATGACTAATATTACCCAAAC
1 TAAAAATAAAAAGACTAAAATTACCCAAAC
78255863 TAAAA
1 TAAAA
78255868 TACCAAGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 11 0.35
31 20 0.65
ACGTcount: A:0.59, C:0.14, G:0.06, T:0.21
Consensus pattern (30 bp):
TAAAAATAAAAAGACTAAAATTACCCAAAC
Found at i:78263028 original size:31 final size:32
Alignment explanation
Indices: 78262956--78263028 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 32
78262946 TTATCGACAA
78262956 AACTAAAATAATAAATATTAAAGAATTAATATT
1 AACTAAAATAAT-AATATTAAAGAATTAATATT
*
78262989 AACATAAAATAAT-A-ATTAAATAATTAAATATT
1 AAC-TAAAATAATAATATTAAAGAATT-AATATT
*
78263021 ATCTAAAA
1 AACTAAAA
78263029 AATCGAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
31 15 0.42
32 9 0.25
33 3 0.08
34 9 0.25
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (32 bp):
AACTAAAATAATAATATTAAAGAATTAATATT
Found at i:78263495 original size:36 final size:36
Alignment explanation
Indices: 78263448--78263521 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
78263438 ATCAGAAGAA
78263448 AAAATCTAATTTGTCTTTCACTCATCGGAAAGAGAT
1 AAAATCTAATTTGTCTTTCACTCATCGGAAAGAGAT
78263484 AAAATCTAATTTGTCTTTCACTCATCGGAAAGAGAT
1 AAAATCTAATTTGTCTTTCACTCATCGGAAAGAGAT
78263520 AA
1 AA
78263522 GAGTGACATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (36 bp):
AAAATCTAATTTGTCTTTCACTCATCGGAAAGAGAT
Found at i:78265866 original size:3 final size:3
Alignment explanation
Indices: 78265851--78265880 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
78265841 GAACATGAAC
*
78265851 ATG ATG GTG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
78265881 GTGGTGATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:78265893 original size:9 final size:9
Alignment explanation
Indices: 78265851--78265889 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
78265841 GAACATGAAC
78265851 ATGATGGTG
1 ATGATGGTG
*
78265860 ATGATGATG
1 ATGATGGTG
*
78265869 ATGATGATG
1 ATGATGGTG
*
78265878 ATGGTGGTG
1 ATGATGGTG
78265887 ATG
1 ATG
78265890 GTGGCATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.41, T:0.33
Consensus pattern (9 bp):
ATGATGGTG
Found at i:78272546 original size:13 final size:14
Alignment explanation
Indices: 78272524--78272555 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
78272514 ACGGAGGAAA
78272524 ATTA-TTTTATTG-
1 ATTATTTTTATTGT
78272536 ATTATTTTTATTGT
1 ATTATTTTTATTGT
78272550 ATTATT
1 ATTATT
78272556 CATGGTTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.22
13 8 0.44
14 6 0.33
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (14 bp):
ATTATTTTTATTGT
Found at i:78277170 original size:90 final size:90
Alignment explanation
Indices: 78277016--78277191 Score: 289
Period size: 90 Copynumber: 2.0 Consensus size: 90
78277006 GTACCCGGAT
* *
78277016 TACAAAAGCAACATATGTTGGATGGAAAAGACCATTCAGAACTTATCATTTACGAGTTATATGTT
1 TACAAAAGCAACATATGTTGGATGGAAAAGACCATTCAAAACTTATCATTTACGAGTTACATGTT
* *
78277081 ATTTGTTGCATTAATTTTGTAGGAC
66 ATTCGTCGCATTAATTTTGTAGGAC
* * *
78277106 TACAAAAGCAACGTATGTTGGATGGAAACGACCATTCAAAACTTATCATTTATGAGTTACATGTT
1 TACAAAAGCAACATATGTTGGATGGAAAAGACCATTCAAAACTTATCATTTACGAGTTACATGTT
78277171 ATTCGTCGCATTAATTTTGTA
66 ATTCGTCGCATTAATTTTGTA
78277192 ACCTCAACTC
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 79 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (90 bp):
TACAAAAGCAACATATGTTGGATGGAAAAGACCATTCAAAACTTATCATTTACGAGTTACATGTT
ATTCGTCGCATTAATTTTGTAGGAC
Found at i:78285631 original size:31 final size:30
Alignment explanation
Indices: 78285563--78285652 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 30
78285553 ATTTTACATG
*
78285563 AATTTTAATTTGGTGTAATTATATATATAA
1 AATTTTAATTTGGTTTAATTATATATATAA
* * *
78285593 AACTTTAATTATGGTTTAAATATATACT-TGA
1 AATTTTAATT-TGGTTTAATTATATA-TATAA
* *
78285624 AATTTTAATTTTGATTTAATTATACATAT
1 AATTTTAA-TTTGGTTTAATTATATATAT
78285653 TTAAAAAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
30 10 0.21
31 35 0.73
32 3 0.06
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (30 bp):
AATTTTAATTTGGTTTAATTATATATATAA
Found at i:78285777 original size:30 final size:31
Alignment explanation
Indices: 78285742--78285800 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
78285732 GATATTAAAT
*
78285742 TAAAATTGGATCAAATTAAAATTT-TATGTA
1 TAAAATTGGATAAAATTAAAATTTATATGTA
*
78285772 TAAAATTGTATAAAATTAAAATTTATATG
1 TAAAATTGGATAAAATTAAAATTTATATG
78285801 ATGATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (31 bp):
TAAAATTGGATAAAATTAAAATTTATATGTA
Found at i:78285793 original size:16 final size:16
Alignment explanation
Indices: 78285738--78285798 Score: 56
Period size: 16 Copynumber: 4.0 Consensus size: 16
78285728 AAATGATATT
* *
78285738 AAATTAAAATTGGATC
1 AAATTAAAATTGTATA
*
78285754 AAATTAAAATTTTAT-
1 AAATTAAAATTGTATA
**
78285769 GTA-TAAAATTGTATA
1 AAATTAAAATTGTATA
78285784 AAATTAAAATT-TATA
1 AAATTAAAATTGTATA
78285799 TGATGATAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
14 10 0.28
15 6 0.17
16 20 0.56
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (16 bp):
AAATTAAAATTGTATA
Found at i:78287707 original size:24 final size:24
Alignment explanation
Indices: 78287675--78287727 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
78287665 GCTTCTTATG
78287675 GTGTGGGTTGAATGTTAGAGATAA
1 GTGTGGGTTGAATGTTAGAGATAA
*
78287699 GTGTGGGTTGAATGTTAGAGATGA
1 GTGTGGGTTGAATGTTAGAGATAA
78287723 GTGTG
1 GTGTG
78287728 TGAGGTACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.34
Consensus pattern (24 bp):
GTGTGGGTTGAATGTTAGAGATAA
Found at i:78288704 original size:16 final size:16
Alignment explanation
Indices: 78288685--78288727 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
78288675 TAAAAATAAT
78288685 TTAAAATATAAATTTA
1 TTAAAATATAAATTTA
*
78288701 TTAATATATATATATTTA
1 TTAA-A-ATATAAATTTA
*
78288719 TTAATATAT
1 TTAAAATAT
78288728 GTAAAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.35
17 1 0.04
18 14 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAAAATATAAATTTA
Found at i:78288711 original size:18 final size:18
Alignment explanation
Indices: 78288690--78288732 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
78288680 ATAATTTAAA
78288690 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
78288708 ATATATATTTATTAATAT
1 ATATAAATTTATTAATAT
*
78288726 ATGTAAA
1 ATATAAA
78288733 AACAACTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:78288832 original size:19 final size:20
Alignment explanation
Indices: 78288808--78288854 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
78288798 CATCCAAACA
*
78288808 CCAGAAAAGTAAGTCA-TTT
1 CCAGAAAAGGAAGTCATTTT
*
78288827 CCAGAAAAGGAATTCATTTT
1 CCAGAAAAGGAAGTCATTTT
78288847 CCAGAAAA
1 CCAGAAAA
78288855 TATTTTACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (20 bp):
CCAGAAAAGGAAGTCATTTT
Found at i:78294403 original size:5 final size:5
Alignment explanation
Indices: 78294393--78294467 Score: 150
Period size: 5 Copynumber: 15.0 Consensus size: 5
78294383 TAAGCTGACA
78294393 TCACT TCACT TCACT TCACT TCACT TCACT TCACT TCACT TCACT TCACT
1 TCACT TCACT TCACT TCACT TCACT TCACT TCACT TCACT TCACT TCACT
78294443 TCACT TCACT TCACT TCACT TCACT
1 TCACT TCACT TCACT TCACT TCACT
78294468 AGTATAGTAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 70 1.00
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (5 bp):
TCACT
Found at i:78299359 original size:12 final size:12
Alignment explanation
Indices: 78299342--78299368 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
78299332 GAAAATAGGG
78299342 TTTTAGCGGCGT
1 TTTTAGCGGCGT
78299354 TTTTAGCGGCGT
1 TTTTAGCGGCGT
78299366 TTT
1 TTT
78299369 ATCAAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:78299447 original size:40 final size:39
Alignment explanation
Indices: 78299402--78299603 Score: 201
Period size: 41 Copynumber: 5.0 Consensus size: 39
78299392 TAAAACATAA
*
78299402 AGCAATAGCGGCG-TTTCACCAAAAACGCCGCTAAAA-ACAG
1 AGCAATAGCGGCGCTTTCA--AAAAACGCCGCTAAAAGTC-G
**
78299442 AGCAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGTCG
1 AGCAATAGCGGCGCTTTC-AAAAAACGCCGCTAAAAGTCG
* *
78299482 AAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAGTCGG
1 -AGCAATAGCGGCGCTTTC-AAAAAACGCCGCTAAAAGTC-G
* *
78299524 AGCATTAGCGGCGCTTTCAATAAAATGCCGCTAAAAGTCGG
1 AGCAATAGCGGCGCTTTCAA-AAAACGCCGCTAAAAGTC-G
* * * *
78299565 AGCATTAACGTCGCTTTCGATAAAACGCCGCTAAAAGTC
1 AGCAATAGCGGCGCTTTC-AAAAAACGCCGCTAAAAGTC
78299604 ATATTACTCC
Statistics
Matches: 144, Mismatches: 11, Indels: 13
0.86 0.07 0.08
Matches are distributed among these distances:
40 30 0.21
41 112 0.78
42 2 0.01
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (39 bp):
AGCAATAGCGGCGCTTTCAAAAAACGCCGCTAAAAGTCG
Found at i:78299507 original size:41 final size:41
Alignment explanation
Indices: 78299423--78299603 Score: 258
Period size: 41 Copynumber: 4.4 Consensus size: 41
78299413 CGTTTCACCA
* * *
78299423 AAAACGCCGCTAAAA-AC-AGAGCAATAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAGTCGA-AGCATTAGCGGCGCTTTCGAT
78299463 AAAACGCCGCTAAAAGTCGAAGCATTAGCGGCGCTTTCGAT
1 AAAACGCCGCTAAAAGTCGAAGCATTAGCGGCGCTTTCGAT
* *
78299504 AAAACGCCGCTAAAAGTCGGAGCATTAGCGGCGCTTTCAAT
1 AAAACGCCGCTAAAAGTCGAAGCATTAGCGGCGCTTTCGAT
* * * *
78299545 AAAATGCCGCTAAAAGTCGGAGCATTAACGTCGCTTTCGAT
1 AAAACGCCGCTAAAAGTCGAAGCATTAGCGGCGCTTTCGAT
78299586 AAAACGCCGCTAAAAGTC
1 AAAACGCCGCTAAAAGTC
78299604 ATATTACTCC
Statistics
Matches: 129, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
40 15 0.12
41 113 0.88
42 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGTCGAAGCATTAGCGGCGCTTTCGAT
Found at i:78299686 original size:37 final size:37
Alignment explanation
Indices: 78299645--78299717 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
78299635 AATCATGAAC
78299645 ACTAAACTATAACCTCTAAAAACC-TAAACCCCAAAAT
1 ACTAAACTATAACCTCT-AAAACCTTAAACCCCAAAAT
*
78299682 ACTAAACTATAACTTCTAAAACCTTAAACCCCAAAA
1 ACTAAACTATAACCTCTAAAACCTTAAACCCCAAAA
78299718 AACATCACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 6 0.18
37 28 0.82
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.21
Consensus pattern (37 bp):
ACTAAACTATAACCTCTAAAACCTTAAACCCCAAAAT
Found at i:78299884 original size:15 final size:15
Alignment explanation
Indices: 78299840--78299890 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
78299830 CGGTTTAATA
*
78299840 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* * *
78299854 TCTATAGTTTAGGGT
1 TTTATGGTTTAAGGT
78299869 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
78299884 TTAATGG
1 TTTATGG
78299891 CCATGGGTAT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:78300429 original size:8 final size:8
Alignment explanation
Indices: 78300418--78300488 Score: 96
Period size: 8 Copynumber: 9.4 Consensus size: 8
78300408 ACTCAAAAAA
78300418 TAAAAATT
1 TAAAAATT
78300426 TAAAAATT
1 TAAAAATT
78300434 TAAAAATT
1 TAAAAATT
78300442 TAAAAA-T
1 TAAAAATT
78300449 TAAAAA-T
1 TAAAAATT
78300456 T-AAAATT
1 TAAAAATT
* *
78300463 AAAAAAAT
1 TAAAAATT
78300471 TAAAAA-T
1 TAAAAATT
78300478 TAAAAATT
1 TAAAAATT
78300486 TAA
1 TAA
78300489 TATTTTAATC
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
6 4 0.07
7 17 0.30
8 36 0.63
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
TAAAAATT
Found at i:78300430 original size:15 final size:15
Alignment explanation
Indices: 78300412--78300488 Score: 104
Period size: 15 Copynumber: 5.1 Consensus size: 15
78300402 AAATAAACTC
*
78300412 AAAAAATAAAAATTT
1 AAAAATTAAAAATTT
78300427 AAAAATTTAAAAATTT
1 AAAAA-TTAAAAATTT
78300443 AAAAATTAAAAA-TT
1 AAAAATTAAAAATTT
*
78300457 -AAAATTAAAAAAATT
1 AAAAATT-AAAAATTT
78300472 AAAAATTAAAAATTT
1 AAAAATTAAAAATTT
78300487 AA
1 AA
78300489 TATTTTAATC
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
13 6 0.11
14 7 0.12
15 23 0.41
16 20 0.36
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAAATTAAAAATTT
Found at i:78300485 original size:7 final size:7
Alignment explanation
Indices: 78300412--78300485 Score: 87
Period size: 7 Copynumber: 10.0 Consensus size: 7
78300402 AAATAAACTC
*
78300412 AAAAAAT
1 AAAAATT
78300419 AAAAATTT
1 AAAAA-TT
78300427 AAAAATTT
1 AAAAA-TT
78300435 AAAAATTT
1 AAAAA-TT
78300443 AAAAATT
1 AAAAATT
78300450 AAAAATT
1 AAAAATT
78300457 -AAAATT
1 AAAAATT
78300463 AAAAAAATT
1 --AAAAATT
78300472 AAAAATT
1 AAAAATT
78300479 AAAAATT
1 AAAAATT
78300486 TAATATTTTA
Statistics
Matches: 62, Mismatches: 1, Indels: 8
0.87 0.01 0.11
Matches are distributed among these distances:
6 6 0.10
7 28 0.45
8 22 0.35
9 6 0.10
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AAAAATT
Found at i:78300523 original size:21 final size:22
Alignment explanation
Indices: 78300497--78300537 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
78300487 AATATTTTAA
*
78300497 TCAATATTT-TAATTAAAAAGT
1 TCAATATTTAAAATTAAAAAGT
78300518 TCAATATTTAAAATTAAAAA
1 TCAATATTTAAAATTAAAAA
78300538 AAATTCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (22 bp):
TCAATATTTAAAATTAAAAAGT
Found at i:78300704 original size:41 final size:41
Alignment explanation
Indices: 78300619--78300696 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
78300609 AAAAAAAATT
* *
78300619 AAAATTAATCAATAGTGGCGTTTTTAAGTAAAACGCCACAA
1 AAAATTAAGCAATAATGGCGTTTTTAAGTAAAACGCCACAA
*
78300660 AAAATTAAGCTATAATGGCGTTTTT-AGTGAAAACGCC
1 AAAATTAAGCAATAATGGCGTTTTTAAGT-AAAACGCC
78300697 GTTAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 3 0.09
41 30 0.91
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (41 bp):
AAAATTAAGCAATAATGGCGTTTTTAAGTAAAACGCCACAA
Found at i:78311054 original size:23 final size:23
Alignment explanation
Indices: 78311028--78311072 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
78311018 TATATACTAA
**
78311028 ATATATATTTTTTATTTTTAATC
1 ATATATACATTTTATTTTTAATC
*
78311051 ATATTTACATTTTATTTTTAAT
1 ATATATACATTTTATTTTTAAT
78311073 TTTAATATAA
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:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATATACATTTTATTTTTAATC
Found at i:78311149 original size:41 final size:40
Alignment explanation
Indices: 78311088--78311173 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
78311078 TATAATCACT
* *
78311088 TTTTATTATATTTTTAATTTGTATATTGTTTTAAGAATTG
1 TTTTAGTATATTTTTAATTTGTATATTATTTTAAGAATTG
* * * * *
78311128 TTTTAGTATCATTTTTTATTTGTTTCTTATTTTAATATTTG
1 TTTTAGTAT-ATTTTTAATTTGTATATTATTTTAAGAATTG
78311169 TTTTA
1 TTTTA
78311174 AATGTATTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.23, C:0.02, G:0.08, T:0.66
Consensus pattern (40 bp):
TTTTAGTATATTTTTAATTTGTATATTATTTTAAGAATTG
Found at i:78311964 original size:12 final size:12
Alignment explanation
Indices: 78311942--78311977 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
78311932 AACAAAAAAT
78311942 TGAAGTAAATAAG
1 TGAA-TAAATAAG
78311955 TGAATAAATAAG
1 TGAATAAATAAG
*
78311967 TGAGTAAATAA
1 TGAATAAATAA
78311978 CTAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (12 bp):
TGAATAAATAAG
Found at i:78312372 original size:9 final size:9
Alignment explanation
Indices: 78312358--78312390 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
78312348 TTGAGTTGAT
78312358 TCGATTAAC
1 TCGATTAAC
*
78312367 TCGATTAAT
1 TCGATTAAC
78312376 TCGATTAAC
1 TCGATTAAC
78312385 TCGATT
1 TCGATT
78312391 CGAATAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (9 bp):
TCGATTAAC
Found at i:78312379 original size:18 final size:18
Alignment explanation
Indices: 78312356--78312390 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
78312346 ATTTGAGTTG
78312356 ATTCGATTAACTCGATTA
1 ATTCGATTAACTCGATTA
78312374 ATTCGATTAACTCGATT
1 ATTCGATTAACTCGATT
78312391 CGAATAATTC
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:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (18 bp):
ATTCGATTAACTCGATTA
Found at i:78312408 original size:7 final size:7
Alignment explanation
Indices: 78312396--78312420 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
78312386 CGATTCGAAT
78312396 AATTCGA
1 AATTCGA
78312403 AATTCGA
1 AATTCGA
78312410 AATTCGA
1 AATTCGA
78312417 AATT
1 AATT
78312421 TTTTTCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (7 bp):
AATTCGA
Found at i:78313840 original size:62 final size:62
Alignment explanation
Indices: 78313743--78313866 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
78313733 AGAATTATAA
78313743 GTATCGAAAAGTAAGATGTTTATCTTGTTTGACTATCGTGTGTGCTTTTGGTGCTAAATGGT
1 GTATCGAAAAGTAAGATGTTTATCTTGTTTGACTATCGTGTGTGCTTTTGGTGCTAAATGGT
78313805 GTATCGAAAAGTAAGATGTTTATCTTGTTTGACTATCGTGTGTGCTTTTGGTGCTAAATGGT
1 GTATCGAAAAGTAAGATGTTTATCTTGTTTGACTATCGTGTGTGCTTTTGGTGCTAAATGGT
78313867 TTCTTTGACA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.42
Consensus pattern (62 bp):
GTATCGAAAAGTAAGATGTTTATCTTGTTTGACTATCGTGTGTGCTTTTGGTGCTAAATGGT
Found at i:78314200 original size:24 final size:24
Alignment explanation
Indices: 78314168--78314220 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
78314158 GCTTCTTATG
78314168 GTGTGGGTTGAATGTTAGAGATAA
1 GTGTGGGTTGAATGTTAGAGATAA
*
78314192 GTGTGGGTTGAATGTTAGAGATGA
1 GTGTGGGTTGAATGTTAGAGATAA
78314216 GTGTG
1 GTGTG
78314221 TGAGGTACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.34
Consensus pattern (24 bp):
GTGTGGGTTGAATGTTAGAGATAA
Found at i:78314371 original size:104 final size:104
Alignment explanation
Indices: 78314186--78314396 Score: 395
Period size: 104 Copynumber: 2.0 Consensus size: 104
78314176 TGAATGTTAG
*
78314186 AGATAAGTGTGGGTTGAATGTTAGAGATGAGTGTGTGAGGTACTCAAATCCTATGGAAAATTATT
1 AGATAAGTGTGGGTTGAATGCTAGAGATGAGTGTGTGAGGTACTCAAATCCTATGGAAAATTATT
78314251 CCTCTAGGCTTTATGACTCTTATGGTGAGTTTCAACGTC
66 CCTCTAGGCTTTATGACTCTTATGGTGAGTTTCAACGTC
* *
78314290 AGATGAGTGTGGGTTGAATGCTAGAGATGAGTGTGTGAGGTACTCAAATCTTATGGAAAATTATT
1 AGATAAGTGTGGGTTGAATGCTAGAGATGAGTGTGTGAGGTACTCAAATCCTATGGAAAATTATT
78314355 CCTCTAGGCTTTATGACTCTTATGGTGAGTTTCAACGTC
66 CCTCTAGGCTTTATGACTCTTATGGTGAGTTTCAACGTC
78314394 AGA
1 AGA
78314397 GGCGTGAAGA
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (104 bp):
AGATAAGTGTGGGTTGAATGCTAGAGATGAGTGTGTGAGGTACTCAAATCCTATGGAAAATTATT
CCTCTAGGCTTTATGACTCTTATGGTGAGTTTCAACGTC
Found at i:78314728 original size:94 final size:95
Alignment explanation
Indices: 78314546--78314739 Score: 363
Period size: 94 Copynumber: 2.0 Consensus size: 95
78314536 TTAACTTATA
*
78314546 TTCTTCCACATTATAAGCCTATTTTTATCAGGTGTGAATACTTTGTCTTCTCTAACTTCTTTTAA
1 TTCTTCCACATTATAAGCCTATGTTTATCAGGTGTGAATAC-TTGTCTTCTCTAACTTCTTTTAA
78314611 CTTTTTGGATAATTATTCCAGACAACTTCCT
65 CTTTTTGGATAATTATTCCAGACAACTTCCT
78314642 TTCTTCCACATTATAAGCCTATGTTTATCAGGTGTGAATAC-TGTCTTCTCTAACTTCTTTTAAC
1 TTCTTCCACATTATAAGCCTATGTTTATCAGGTGTGAATACTTGTCTTCTCTAACTTCTTTTAAC
78314706 TTTTTGGATAATTATTCCAGACAACTTCCT
66 TTTTTGGATAATTATTCCAGACAACTTCCT
78314736 TTCT
1 TTCT
78314740 GCGCTTTTGC
Statistics
Matches: 97, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
94 57 0.59
96 40 0.41
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.45
Consensus pattern (95 bp):
TTCTTCCACATTATAAGCCTATGTTTATCAGGTGTGAATACTTGTCTTCTCTAACTTCTTTTAAC
TTTTTGGATAATTATTCCAGACAACTTCCT
Found at i:78315402 original size:18 final size:18
Alignment explanation
Indices: 78315381--78315423 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
78315371 ATAATTTAAA
78315381 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
78315399 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
78315417 ATGTAAA
1 ATATAAA
78315424 AACAACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:78315545 original size:19 final size:19
Alignment explanation
Indices: 78315499--78315545 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
78315489 CATCCAAACA
*
78315499 CCAGAAAAGTAAGTCATTT
1 CCAGAAAAGTAAATCATTT
*
78315518 CTAGAAAAAG-AAATCATTTT
1 CCAG-AAAAGTAAATCA-TTT
78315538 CCAGAAAA
1 CCAGAAAA
78315546 TATTTTACTG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.49, C:0.15, G:0.13, T:0.23
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:78316777 original size:14 final size:15
Alignment explanation
Indices: 78316738--78316778 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
78316728 CTAAATTCAG
78316738 AATAAAT-AAATGTT
1 AATAAATAAAATGTT
*
78316752 AAAAATATAAAAT-TT
1 AATAA-ATAAAATGTT
78316767 AATAAATAAAAT
1 AATAAATAAAAT
78316779 ATTGGGCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 11 0.48
15 8 0.35
16 4 0.17
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (15 bp):
AATAAATAAAATGTT
Found at i:78325462 original size:18 final size:18
Alignment explanation
Indices: 78325439--78325498 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
78325429 AGGTGAACAC
*
78325439 TTTTATGATTTTTAAT-TT
1 TTTTAT-ATTTTTAATAAT
* *
78325457 TTTTATAATTTAAATAAT
1 TTTTATATTTTTAATAAT
78325475 TTTTATAATTTTTAATAAT
1 TTTTAT-ATTTTTAATAAT
78325494 ATTTT
1 -TTTT
78325499 TATAAATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
17 7 0.21
18 13 0.38
19 10 0.29
20 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTATATTTTTAATAAT
Found at i:78325476 original size:20 final size:20
Alignment explanation
Indices: 78325455--78325503 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
78325445 GATTTTTAAT
78325455 TTTTTTATAA-TTTAAATAA
1 TTTTTTATAATTTTAAATAA
*
78325474 -TTTTTATAATTTTTAATAA
1 TTTTTTATAATTTTAAATAA
78325493 TATTTTTATAA
1 T-TTTTTATAA
78325504 ATATAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 9 0.35
19 8 0.31
21 9 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTATAATTTTAAATAA
Found at i:78325482 original size:9 final size:9
Alignment explanation
Indices: 78325456--78325503 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
78325446 ATTTTTAATT
78325456 TTTTTATAA
1 TTTTTATAA
**
78325465 TTTAAATAA
1 TTTTTATAA
78325474 TTTTTATAA
1 TTTTTATAA
78325483 TTTTTAATAATA
1 TTTTT-AT-A-A
78325495 TTTTTATAA
1 TTTTTATAA
78325504 ATATAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
9 20 0.62
10 3 0.09
11 3 0.09
12 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:78332884 original size:20 final size:20
Alignment explanation
Indices: 78332859--78332922 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 20
78332849 GCTATTTTTT
78332859 AAAATATTTAATATATGTAA
1 AAAATATTTAATATATGTAA
78332879 AAAATACTTATAA-ATAT-T-A
1 AAAATA-TT-TAATATATGTAA
78332898 AAAATATTTAATATATGTATA
1 AAAATATTTAATATATGTA-A
78332919 AAAA
1 AAAA
78332923 ATACTTATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
17 3 0.08
18 6 0.16
19 8 0.21
20 7 0.18
21 11 0.29
22 3 0.08
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (20 bp):
AAAATATTTAATATATGTAA
Found at i:78332938 original size:22 final size:22
Alignment explanation
Indices: 78332876--78332938 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
78332866 TTAATATATG
78332876 TAAAAAATACTTATAAA---TA
1 TAAAAAATACTTATAAATTGTA
*
78332895 TTAAAAATA-TT-TAATATATGTA
1 TAAAAAATACTTATAA-AT-TGTA
78332917 TAAAAAATACTTATAAATTGTA
1 TAAAAAATACTTATAAATTGTA
78332939 ACACCCTTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
17 3 0.09
18 3 0.09
19 8 0.23
22 14 0.40
23 4 0.11
24 3 0.09
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (22 bp):
TAAAAAATACTTATAAATTGTA
Found at i:78334499 original size:6 final size:6
Alignment explanation
Indices: 78334488--78334513 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
78334478 TAATTCATAC
78334488 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
78334514 CATCCTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:78334848 original size:38 final size:39
Alignment explanation
Indices: 78334764--78334898 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
78334754 ACCAATATGG
*
78334764 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
78334803 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
78334841 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATTTAG-TGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAA--TAGTTGA
*
78334882 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
78334899 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 35 0.47
40 3 0.04
41 16 0.21
42 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:78337279 original size:18 final size:18
Alignment explanation
Indices: 78337253--78337443 Score: 151
Period size: 18 Copynumber: 10.6 Consensus size: 18
78337243 AATTGATCGG
* *
78337253 TTATCCAGTAATAGTCAA
1 TTATTCAGTAACAGTCAA
*
78337271 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAGTCA-A
*
78337289 -TATTCAGTAACTA-TTAA
1 TTATTCAGTAAC-AGTCAA
*
78337306 GTTATTCAGTAGCAGTC-A
1 -TTATTCAGTAACAGTCAA
* *
78337324 TTCATTCAGTAACAATCAG
1 TT-ATTCAGTAACAGTCAA
*
78337343 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * *
78337361 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
78337379 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
* *
78337398 -TATCCAATAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
78337415 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
78337433 TTATTCAGTAA
1 TTATTCAGTAA
78337444 TAATCAGTTA
Statistics
Matches: 138, Mismatches: 23, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
17 19 0.14
18 104 0.75
19 15 0.11
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:78337334 original size:54 final size:54
Alignment explanation
Indices: 78337265--78337455 Score: 167
Period size: 54 Copynumber: 3.5 Consensus size: 54
78337255 ATCCAGTAAT
*
78337265 AGTCAATTATTCAGTAA-AATCAGATATTCAGTAACT-ATTAAGTTATTCAGTAGC
1 AGTCAATTATTCAGTAACAATCAGATATTCAGTAA-TGATCAA-TTATTCAGTAGC
* **
78337319 AGTC-ATTCATTCAGTAACAATCAGTTATTCAGTAATGATCAATTATTCAGTAAT
1 AGTCAATT-ATTCAGTAACAATCAGATATTCAGTAATGATCAATTATTCAGTAGC
* * * * * * * * *
78337373 ATTCAGTTATTCAGTAACAGTCTA-ATATCCAATAA-CAGTCAATTATCCGGTAAC
1 AGTCAATTATTCAGTAACAATC-AGATATTCAGTAATGA-TCAATTATTCAGTAGC
* *
78337427 AGTCAATTATTCAGTAATAATCAGTTATT
1 AGTCAATTATTCAGTAACAATCAGATATT
78337456 TTATACCTTT
Statistics
Matches: 110, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
53 5 0.05
54 82 0.75
55 23 0.21
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.36
Consensus pattern (54 bp):
AGTCAATTATTCAGTAACAATCAGATATTCAGTAATGATCAATTATTCAGTAGC
Found at i:78337381 original size:72 final size:71
Alignment explanation
Indices: 78337267--78337455 Score: 211
Period size: 72 Copynumber: 2.6 Consensus size: 71
78337257 CCAGTAATAG
* * * *
78337267 TCAATTATTCAGTAAAATCAGA-TATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-ATTCATT
1 TCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAACAGTCTAAT-ATC
*
78337330 CAGTAACAA
63 CAATAACAA
* *
78337339 TCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAATATCCA
1 TCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAATATCCA
*
78337404 ATAACAG
65 ATAACAA
* * * *
78337411 TCAATTATCCGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
78337456 TTATACCTTT
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
72 83 0.84
73 16 0.16
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (71 bp):
TCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAATATCCAA
TAACAA
Found at i:78337569 original size:6 final size:6
Alignment explanation
Indices: 78337560--78337590 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
78337550 CCGAAGCCGG
*
78337560 AACAGT AACAGT AACAGT AACAGT AGCAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
78337591 CGGTACACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:78337678 original size:45 final size:45
Alignment explanation
Indices: 78337629--78337868 Score: 363
Period size: 45 Copynumber: 5.3 Consensus size: 45
78337619 ATCCGGAATA
* * * *
78337629 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
78337674 GTAACGGTAACAGTAACAATATTCCACACACAAAGTACCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
78337719 GTAACGGTAACAGTAACAATATTCGACACACACAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
78337764 GTAACGGTAACAGTAACAATATCCGACACACAAAGTGCCGAATCA
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
78337809 GTAACGGTAGCAGTAACAATATTCGACACACAAAGTGCCAAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
78337854 GTAACAGTAGCAGTA
1 GTAACGGTAACAGTA
78337869 GCGGTAACAG
Statistics
Matches: 179, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 179 1.00
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.18
Consensus pattern (45 bp):
GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:78338288 original size:5 final size:5
Alignment explanation
Indices: 78338278--78338316 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
78338268 ATTAATCATA
* *
78338278 ATTCC ATTCC ATTCC ATTCC ATTCC ATTCA ATTCA ATTC
1 ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTC
78338317 AAATTCACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTCC
Found at i:78338750 original size:9 final size:9
Alignment explanation
Indices: 78338732--78338766 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
78338722 TTTCTTTTTC
*
78338732 ATTTCTTTT
1 ATTTCATTT
78338741 ATTTCATTT
1 ATTTCATTT
78338750 ATTT-ATTT
1 ATTTCATTT
78338758 ATTTCATTT
1 ATTTCATTT
78338767 CTTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTCATTT
Found at i:78338756 original size:13 final size:13
Alignment explanation
Indices: 78338732--78338774 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
78338722 TTTCTTTTTC
*
78338732 ATTTCTTTTATTT
1 ATTTCATTTATTT
78338745 CATTT-ATTTATTT
1 -ATTTCATTTATTT
*
78338758 ATTTCATTTCTTT
1 ATTTCATTTATTT
78338771 ATTT
1 ATTT
78338775 TATTATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCATTTATTT
Found at i:78338758 original size:17 final size:17
Alignment explanation
Indices: 78338738--78338774 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
78338728 TTTCATTTCT
78338738 TTTATTTCATTTATTTA
1 TTTATTTCATTTATTTA
*
78338755 TTTATTTCATTTCTTTA
1 TTTATTTCATTTATTTA
78338772 TTT
1 TTT
78338775 TATTATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATTTCATTTATTTA
Found at i:78342807 original size:45 final size:45
Alignment explanation
Indices: 78342756--78342899 Score: 225
Period size: 45 Copynumber: 3.2 Consensus size: 45
78342746 ATCTGGAATA
*
78342756 GTAACAGTAACAATATTCAACACACAAAGTGCTGAATCGGTAACG
1 GTAACAGTAACAATATTCAACACACAAAGTGCCGAATCGGTAACG
* *
78342801 GTAACAGTAACAATATTCCACACACAAAGTGCCGAATCGGTAATG
1 GTAACAGTAACAATATTCAACACACAAAGTGCCGAATCGGTAACG
* * *
78342846 ATAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACA
1 GTAACAGTAACAATATTCAACACACAAAGTGCCGAATCGGTAACG
*
78342891 GTAGCAGTA
1 GTAACAGTA
78342900 GCGGTAACAG
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 90 1.00
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (45 bp):
GTAACAGTAACAATATTCAACACACAAAGTGCCGAATCGGTAACG
Found at i:78342943 original size:22 final size:22
Alignment explanation
Indices: 78342915--78342973 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
78342905 AACAGTAACT
78342915 AGCACATAAGTGCCTAAAATAC
1 AGCACATAAGTGCCTAAAATAC
*
78342937 AGCACATAAGTGCCTAAGATAC
1 AGCACATAAGTGCCTAAAATAC
* *
78342959 GGCACTTAAAGTGCC
1 AGCACAT-AAGTGCC
78342974 CGATCGGTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 26 0.79
23 7 0.21
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (22 bp):
AGCACATAAGTGCCTAAAATAC
Found at i:78344022 original size:5 final size:5
Alignment explanation
Indices: 78344014--78344053 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
78344004 TCTTTTTCTT
78344014 TTTCA TTTCA TTT-A TTTCA TTT-A TTTC- TTT-A TTTCA TTTC
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTC
78344054 TTTATTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
4 14 0.45
5 17 0.55
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (5 bp):
TTTCA
Found at i:78344032 original size:9 final size:9
Alignment explanation
Indices: 78344018--78344052 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
78344008 TTTCTTTTTC
78344018 ATTTCATTT
1 ATTTCATTT
78344027 ATTTCATTT
1 ATTTCATTT
78344036 ATTTC-TTT
1 ATTTCATTT
78344044 ATTTCATTT
1 ATTTCATTT
78344053 CTTTATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTTCATTT
Found at i:78344046 original size:17 final size:18
Alignment explanation
Indices: 78344018--78344052 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
78344008 TTTCTTTTTC
78344018 ATTTCATTTATTTCATTT
1 ATTTCATTTATTTCATTT
78344036 ATTTC-TTTATTTCATTT
1 ATTTCATTTATTTCATTT
78344053 CTTTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTCATTTATTTCATTT
Found at i:78344052 original size:13 final size:13
Alignment explanation
Indices: 78344018--78344060 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
78344008 TTTCTTTTTC
*
78344018 ATTTCATTTATTT
1 ATTTCATTTCTTT
78344031 CATTT-ATTTCTTT
1 -ATTTCATTTCTTT
78344044 ATTTCATTTCTTT
1 ATTTCATTTCTTT
78344057 ATTT
1 ATTT
78344061 TATTATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 4 0.15
13 19 0.70
14 4 0.15
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:78346041 original size:15 final size:16
Alignment explanation
Indices: 78346013--78346044 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
78346003 GAATTCCTCT
78346013 ACGAAAACCAACTCAA
1 ACGAAAACCAACTCAA
78346029 ACGAAAA-CAACTCAA
1 ACGAAAACCAACTCAA
78346044 A
1 A
78346045 GCTAAACGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.59, C:0.28, G:0.06, T:0.06
Consensus pattern (16 bp):
ACGAAAACCAACTCAA
Found at i:78346099 original size:57 final size:57
Alignment explanation
Indices: 78346031--78346149 Score: 238
Period size: 57 Copynumber: 2.1 Consensus size: 57
78346021 CAACTCAAAC
78346031 GAAAACAACTCAAAGCTAAACGACGATGAACAAAGAACGAAATAAGAACAAGCCACA
1 GAAAACAACTCAAAGCTAAACGACGATGAACAAAGAACGAAATAAGAACAAGCCACA
78346088 GAAAACAACTCAAAGCTAAACGACGATGAACAAAGAACGAAATAAGAACAAGCCACA
1 GAAAACAACTCAAAGCTAAACGACGATGAACAAAGAACGAAATAAGAACAAGCCACA
78346145 GAAAA
1 GAAAA
78346150 ATAAGAACAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 62 1.00
ACGTcount: A:0.57, C:0.20, G:0.16, T:0.07
Consensus pattern (57 bp):
GAAAACAACTCAAAGCTAAACGACGATGAACAAAGAACGAAATAAGAACAAGCCACA
Found at i:78346365 original size:23 final size:22
Alignment explanation
Indices: 78346333--78346375 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
78346323 AAATTAAATC
*
78346333 TCTAATATTACAAAATCATATGT
1 TCTAAGATTAC-AAATCATATGT
*
78346356 TCTAAGATTACATATCATAT
1 TCTAAGATTACAAATCATAT
78346376 CTAAGATTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.40
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATGT
Found at i:78353533 original size:22 final size:23
Alignment explanation
Indices: 78353506--78353550 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
78353496 GGATATCTAC
78353506 AAATCAAAT-CTCTAAGATTACA
1 AAATCAAATGCTCTAAGATTACA
* *
78353528 AAATCATATGTTCTAAGATTACA
1 AAATCAAATGCTCTAAGATTACA
78353551 TATCATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.31
Consensus pattern (23 bp):
AAATCAAATGCTCTAAGATTACA
Found at i:78353544 original size:23 final size:22
Alignment explanation
Indices: 78353503--78353558 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
78353493 AAAGGATATC
* *
78353503 TACAAATCAAAT-CTCTAAGAT
1 TACAAATCATATGTTCTAAGAT
78353524 TACAAAATCATATGTTCTAAGAT
1 TAC-AAATCATATGTTCTAAGAT
*
78353547 TACATATCATAT
1 TACAAATCATAT
78353559 CTAAGATTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.10
22 16 0.53
23 11 0.37
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (22 bp):
TACAAATCATATGTTCTAAGAT
Found at i:78353563 original size:19 final size:20
Alignment explanation
Indices: 78353516--78353573 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
78353506 AAATCAAATC
*
78353516 TCTAAGATTACAAAATCATATGT
1 TCTAAGATTAC-ATATCATA--T
78353539 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
*
78353558 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
78353574 CGTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
22 7 0.21
23 11 0.33
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.36
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:78354622 original size:20 final size:20
Alignment explanation
Indices: 78354597--78354654 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
78354587 GTACGGGATC
78354597 GCACTTCGATGCCTCTGTTT
1 GCACTTCGATGCCTCTGTTT
* * * *
78354617 GCACTTTGGTGTCTCTATTT
1 GCACTTCGATGCCTCTGTTT
*
78354637 TCACTTC-AGTGCCTCTGT
1 GCACTTCGA-TGCCTCTGT
78354655 ATTTGCACTA
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.10, C:0.28, G:0.19, T:0.43
Consensus pattern (20 bp):
GCACTTCGATGCCTCTGTTT
Found at i:78357346 original size:61 final size:60
Alignment explanation
Indices: 78357228--78357356 Score: 170
Period size: 61 Copynumber: 2.1 Consensus size: 60
78357218 GTGAGAAATC
* * *
78357228 AACACGGCCTGGACTTCCTTACACGGGTAGACCACATGCCCGTGTAGTTTTAGCAGACTCT
1 AACACGGCCTAGACTTCCTTACACGGGTAGACCACACGCCCGTGTA-TTTTAACAGACTCT
* * *
78357289 AACATGGCCTAGACTTCCTTACACGGGTAGACCATACGCCTGTGT-TTATTCAACAGACTCT
1 AACACGGCCTAGACTTCCTTACACGGGTAGACCACACGCCCGTGTATT-TT-AACAGACTCT
78357350 AACACGG
1 AACACGG
78357357 TTTGAAGCAC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
59 2 0.03
60 2 0.03
61 55 0.93
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (60 bp):
AACACGGCCTAGACTTCCTTACACGGGTAGACCACACGCCCGTGTATTTTAACAGACTCT
Found at i:78360258 original size:29 final size:30
Alignment explanation
Indices: 78360226--78360297 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 30
78360216 TAGACATTTG
*
78360226 GAAA-GAAACTTGGATTTTTGACACAACCT
1 GAAACGAAAATTGGATTTTTGACACAACCT
78360255 GAAACGAAATTAAATTGGATTTTTGACACAACCT
1 GAAACG--A--AAATTGGATTTTTGACACAACCT
78360289 GAAACGAAA
1 GAAACGAAA
78360298 TTAAATCCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
29 4 0.11
30 3 0.08
32 2 0.05
34 28 0.76
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (30 bp):
GAAACGAAAATTGGATTTTTGACACAACCT
Found at i:78360278 original size:34 final size:34
Alignment explanation
Indices: 78360235--78360303 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
78360225 GGAAAGAAAC
78360235 TTGGATTTTTGACACAACCTGAAACGAAATTAAA
1 TTGGATTTTTGACACAACCTGAAACGAAATTAAA
78360269 TTGGATTTTTGACACAACCTGAAACGAAATTAAA
1 TTGGATTTTTGACACAACCTGAAACGAAATTAAA
78360303 T
1 T
78360304 CCAAGTTAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (34 bp):
TTGGATTTTTGACACAACCTGAAACGAAATTAAA
Found at i:78361997 original size:25 final size:25
Alignment explanation
Indices: 78361969--78362087 Score: 148
Period size: 25 Copynumber: 4.8 Consensus size: 25
78361959 ATCAAGATTT
*
78361969 AGCTCAGAAGAGCTTACTGATATTC
1 AGCTCAGAAGAGCTTACCGATATTC
** *
78361994 AGCTTGGAAAAGCTTACCGATATTC
1 AGCTCAGAAGAGCTTACCGATATTC
*
78362019 AGCTCAAAAGAGCTTACCGATATTC
1 AGCTCAGAAGAGCTTACCGATATTC
*
78362044 AGCTCAGAAGAGCTTACCAATATTC
1 AGCTCAGAAGAGCTTACCGATATTC
* * * *
78362069 AACTCGGATGATCTTACCG
1 AGCTCAGAAGAGCTTACCG
78362088 TTTACCGCTC
Statistics
Matches: 79, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 79 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (25 bp):
AGCTCAGAAGAGCTTACCGATATTC
Found at i:78362023 original size:50 final size:50
Alignment explanation
Indices: 78361954--78362069 Score: 151
Period size: 50 Copynumber: 2.3 Consensus size: 50
78361944 AGCTCACATG
* * * * * **
78361954 AGCTTATCAAGATTTAGCTCAGAAGAGCTTACTGATATTCAGCTTGGAAA
1 AGCTTACCAATATTCAGCTCAAAAGAGCTTACCGATATTCAGCTCAGAAA
* *
78362004 AGCTTACCGATATTCAGCTCAAAAGAGCTTACCGATATTCAGCTCAGAAG
1 AGCTTACCAATATTCAGCTCAAAAGAGCTTACCGATATTCAGCTCAGAAA
78362054 AGCTTACCAATATTCA
1 AGCTTACCAATATTCA
78362070 ACTCGGATGA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (50 bp):
AGCTTACCAATATTCAGCTCAAAAGAGCTTACCGATATTCAGCTCAGAAA
Found at i:78362747 original size:45 final size:46
Alignment explanation
Indices: 78362698--78362820 Score: 160
Period size: 45 Copynumber: 2.7 Consensus size: 46
78362688 ACTGGAAATG
* *
78362698 AGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCTAAC-A
1 AGTAAGACCATAGCTGAAAGACACTATGGCATCACGAATCTAACGA
* * *
78362743 AGTAAGACCTTAGCTGAAAGACACTATGGCATCATGAATCTGACGA
1 AGTAAGACCATAGCTGAAAGACACTATGGCATCACGAATCTAACGA
* * *
78362789 A-TAAGACCATTGTTGAAAGACACTATGACATC
1 AGTAAGACCATAGCTGAAAGACACTATGGCATC
78362821 CTTTAACCAT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 66 0.97
46 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTAAGACCATAGCTGAAAGACACTATGGCATCACGAATCTAACGA
Found at i:78372799 original size:18 final size:18
Alignment explanation
Indices: 78372776--78372813 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
78372766 TTTCGAGTAA
*
78372776 AACTGAACAAATTCGTTT
1 AACTGAACAAATTCGGTT
78372794 AACTGAACAAATTCGGTT
1 AACTGAACAAATTCGGTT
78372812 AA
1 AA
78372814 ATGGTCAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (18 bp):
AACTGAACAAATTCGGTT
Found at i:78372826 original size:30 final size:29
Alignment explanation
Indices: 78372792--78372848 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
78372782 ACAAATTCGT
* *
78372792 TTAACTGAACAAATTCGGTTAAATGGTCAG
1 TTAACCGAACAAATTCGG-TAAAGGGTCAG
**
78372822 TTAACCGAATTAATTCGGTAAAGGGTC
1 TTAACCGAACAAATTCGGTAAAGGGTC
78372849 GATTAATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 8 0.35
30 15 0.65
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (29 bp):
TTAACCGAACAAATTCGGTAAAGGGTCAG
Found at i:78375061 original size:17 final size:19
Alignment explanation
Indices: 78375020--78375061 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
78375010 CAATAGGAAA
*
78375020 TTTGAATGGAGATCTTCAAT
1 TTTGAATGGAGATCTGC-AT
78375040 TTTGAA-GGAGATCTGC-T
1 TTTGAATGGAGATCTGCAT
78375057 TTTGA
1 TTTGA
78375062 GTTGATTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
19 9 0.43
20 6 0.29
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (19 bp):
TTTGAATGGAGATCTGCAT
Found at i:78378760 original size:3 final size:3
Alignment explanation
Indices: 78378752--78378813 Score: 60
Period size: 3 Copynumber: 20.7 Consensus size: 3
78378742 ACATAAACTG
78378752 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGA- AA- AAT GAAT AAAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT -AAT -AAT -AAT
78378799 AAT -AT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AA
78378814 ACCAAGAAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
2 7 0.13
3 35 0.66
4 11 0.21
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:78382143 original size:231 final size:231
Alignment explanation
Indices: 78381740--78382190 Score: 778
Period size: 231 Copynumber: 2.0 Consensus size: 231
78381730 TGAGACGTAG
*
78381740 AATTATTACCCATATAGTTGACTTGTTCATTCTCTGTGTTAGGACCGTGGTGTAAATATTCTGAA
1 AATTATTACCCATATAGTTGACTTGTTCATTCTCTGTGCTAGGACCGTGGTGTAAATATTCTGAA
* * * * *
78381805 TTGTTCATTCCTCCTCCGTTTGTATCAGACTGCATCACCGGATGTACTTGCGTAGAAACACATAA
66 TTGTTCATTCCTCCTCCATTTGTATCACACTGCATCACCGGATGTACCTACATAGAAACACATAA
78381870 ACAATCAATTTTCTTATTTAATTATTCTATCTGGTTTGATAATATGGTGACTACATCTAGATTGA
131 ACAATCAATTTTCTTATTTAATTATTCTATCTGGTTTGATAATATGGTGACTACATCTAGATTGA
* * * *
78381935 AAACATTGGTTGGTCTGTTAGGCTTTATCCTCTGAT
196 AAACACTGGCTGCTCTATTAGGCTTTATCCTCTGAT
**
78381971 AATTATTACCCATATAGTTGACTTGTTTGTTCTCTGTGCTAGGACCGTAGG-GTAAATATTCTGA
1 AATTATTACCCATATAGTTGACTTGTTCATTCTCTGTGCTAGGACCGT-GGTGTAAATATTCTGA
78382035 ATTGTTCATTCCTCCTCCATTTGTATCACACTGCATCACCGGATGTACCTACATAGAAACACATA
65 ATTGTTCATTCCTCCTCCATTTGTATCACACTGCATCACCGGATGTACCTACATAGAAACACATA
78382100 AACAATCAATTTTCTTATTTAATTATTCTATCTGGTTTGATAATATGGTGACTACATCTAGATTG
130 AACAATCAATTTTCTTATTTAATTATTCTATCTGGTTTGATAATATGGTGACTACATCTAGATTG
78382165 AAAACACTGGCTGCTCTATTAGGCTT
195 AAAACACTGGCTGCTCTATTAGGCTT
78382191 CGTCCTCATA
Statistics
Matches: 207, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
231 205 0.99
232 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (231 bp):
AATTATTACCCATATAGTTGACTTGTTCATTCTCTGTGCTAGGACCGTGGTGTAAATATTCTGAA
TTGTTCATTCCTCCTCCATTTGTATCACACTGCATCACCGGATGTACCTACATAGAAACACATAA
ACAATCAATTTTCTTATTTAATTATTCTATCTGGTTTGATAATATGGTGACTACATCTAGATTGA
AAACACTGGCTGCTCTATTAGGCTTTATCCTCTGAT
Found at i:78388323 original size:68 final size:68
Alignment explanation
Indices: 78388205--78388333 Score: 170
Period size: 68 Copynumber: 1.9 Consensus size: 68
78388195 TTCCTCCCAC
* * * * *
78388205 AAATCGCATGGCGCATAATGACTAGTGAAAACTATATTTCTAATAAGGTTTTAAGAGCTAACACT
1 AAATCGCATGGCGCATAATGACAAGTCAAAACTATATTCCCAATAAGGTTTTAAGAACTAACACT
78388270 AAA
66 AAA
* * *
78388273 AAATCGCGTGGCGCATAATGACAAGTCAAAACTATCTTCCCACA-ATGGTTTTAAGAACTAA
1 AAATCGCATGGCGCATAATGACAAGTCAAAACTATATTCCCA-ATAAGGTTTTAAGAACTAA
78388334 GTATTGTAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
68 51 0.98
69 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (68 bp):
AAATCGCATGGCGCATAATGACAAGTCAAAACTATATTCCCAATAAGGTTTTAAGAACTAACACT
AAA
Found at i:78389165 original size:22 final size:22
Alignment explanation
Indices: 78389117--78389169 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
78389107 GAAGGTGCTC
*
78389117 TGTCTCGAGACATATGAGTATA
1 TGTCTCGAGACATAAGAGTATA
* *
78389139 AGTCTCGAGACATAAGAGCT-TT
1 TGTCTCGAGACATAAGAG-TATA
78389161 TGTCTCGAG
1 TGTCTCGAG
78389170 TCATGCCTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (22 bp):
TGTCTCGAGACATAAGAGTATA
Found at i:78390639 original size:21 final size:21
Alignment explanation
Indices: 78390613--78390671 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
78390603 TATATGGTAA
78390613 GCATTCAATTACACGAATCAT
1 GCATTCAATTACACGAATCAT
78390634 GCATTCAATTACACGAATCAT
1 GCATTCAATTACACGAATCAT
78390655 GCATTCAATTACACGAA
1 GCATTCAATTACACGAA
78390672 CACGTATGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (21 bp):
GCATTCAATTACACGAATCAT
Found at i:78393581 original size:101 final size:101
Alignment explanation
Indices: 78393406--78393608 Score: 316
Period size: 101 Copynumber: 2.0 Consensus size: 101
78393396 CTTTTTAGTT
* * * * *
78393406 TGTCATCTTTACTTATAATTCCATCTTAGTCTATACTGTTTTAGTATGTGCTAGAAGCTAAGTTG
1 TGTCATCTTTACATATAATTCCATCCTAGTCTATACTGTTTTAATAGGTGCTAGAAGCCAAGTTG
* *
78393471 CTTCTGCTTTTGAATCTTGTTTAGCCTTTCAATTTA
66 CTTCTGCTTTCGAATCTTGTTTAGCCATTCAATTTA
* *
78393507 TGTCATCTTTAGATATAGTTCCATCCTAGTCTATACTGTTTTAATAGGTGCTAGAAGCCAAGTTG
1 TGTCATCTTTACATATAATTCCATCCTAGTCTATACTGTTTTAATAGGTGCTAGAAGCCAAGTTG
*
78393572 CTTCTGCTTTCGTATCTTGTTTAGCCATTCAATTTA
66 CTTCTGCTTTCGAATCTTGTTTAGCCATTCAATTTA
78393608 T
1 T
78393609 TATGGAAAAT
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 92 1.00
ACGTcount: A:0.22, C:0.18, G:0.15, T:0.45
Consensus pattern (101 bp):
TGTCATCTTTACATATAATTCCATCCTAGTCTATACTGTTTTAATAGGTGCTAGAAGCCAAGTTG
CTTCTGCTTTCGAATCTTGTTTAGCCATTCAATTTA
Found at i:78395332 original size:17 final size:17
Alignment explanation
Indices: 78395312--78395345 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
78395302 TGACTATTCT
*
78395312 CTCTTTTATCTTTTTAA
1 CTCTTCTATCTTTTTAA
78395329 CTCTTCTATCTTTTTAA
1 CTCTTCTATCTTTTTAA
78395346 AAATTTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.62
Consensus pattern (17 bp):
CTCTTCTATCTTTTTAA
Found at i:78406420 original size:27 final size:27
Alignment explanation
Indices: 78406389--78406445 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
78406379 TGTTTCCTTA
78406389 CCTCAAATCTTTTCATGGTATCATTCG
1 CCTCAAATCTTTTCATGGTATCATTCG
*
78406416 CCTCAAATCTTTTCATTGTATCATTCG
1 CCTCAAATCTTTTCATGGTATCATTCG
78406443 CCT
1 CCT
78406446 TAGTCCTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (27 bp):
CCTCAAATCTTTTCATGGTATCATTCG
Found at i:78415686 original size:27 final size:25
Alignment explanation
Indices: 78415656--78415708 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
78415646 TCACGCAAGA
*
78415656 AGAAAATGAAAGAATAATAACAAAATC
1 AGAAAAGGAAAGAA-AATAA-AAAATC
* *
78415683 AGAAAGGGAAAGAAACTAAAAAATC
1 AGAAAAGGAAAGAAAATAAAAAATC
78415708 A
1 A
78415709 CCTTTAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 4 0.17
27 12 0.52
ACGTcount: A:0.66, C:0.08, G:0.15, T:0.11
Consensus pattern (25 bp):
AGAAAAGGAAAGAAAATAAAAAATC
Found at i:78416888 original size:133 final size:133
Alignment explanation
Indices: 78416665--78416985 Score: 518
Period size: 133 Copynumber: 2.4 Consensus size: 133
78416655 CTTCATAGCC
* * *
78416665 GATAAGACT-ACCATTCCTGATCTGCTCCATAGTCGATACATGGAGATATGATCTGTAATTTTCA
1 GATAAGACTCGCCATTTCTGATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTCA
* *
78416729 GTCTGCTTCCTACAACTTCAAGAAGATAAGACTTGTGGCTAAAATCTGCTCCATATCTGATACAT
66 GTCTGCTTCCTACAACTTCAAGAAGATAAGACTTGTGGCTAAAATCTGCTCCATAGCCGATACAT
78416794 AGA
131 AGA
* * *
78416797 GATAAGACTCGCCATTTCTGATTTTCTCTATAGTCGATACATGGAGATAAGATCTGTAATTTTCA
1 GATAAGACTCGCCATTTCTGATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTCA
* * *
78416862 GTCTGCTTCCTGCAACTTTAGGAAGATAAGACTTGTGGCTAAAATCTGCTCCATAGCCGATACAT
66 GTCTGCTTCCTACAACTTCAAGAAGATAAGACTTGTGGCTAAAATCTGCTCCATAGCCGATACAT
*
78416927 GGA
131 AGA
*
78416930 GATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTG
1 GATAAGACTCGCCATTTCTGATCTGCTCCATAGTCGATACATGGAGATAAGATCTG
78416986 GTATTTAGCC
Statistics
Matches: 172, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
132 9 0.05
133 163 0.95
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (133 bp):
GATAAGACTCGCCATTTCTGATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTCA
GTCTGCTTCCTACAACTTCAAGAAGATAAGACTTGTGGCTAAAATCTGCTCCATAGCCGATACAT
AGA
Found at i:78416933 original size:44 final size:43
Alignment explanation
Indices: 78416885--78416981 Score: 115
Period size: 45 Copynumber: 2.2 Consensus size: 43
78416875 AACTTTAGGA
*
78416885 AGATAAGACTTG-TGGCTAAAATCTGCTCCATAGCCGATACATGG
1 AGATAAGACTCGCTGGCT--AATCTGCTCCATAGCCGATACATGG
** *
78416929 AGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGG
1 AGATAAGACTCG-C-TGGCTAATCTGCTCCATAGCCGATACATGG
78416974 AGATAAGA
1 AGATAAGA
78416982 TCTGGTATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
44 11 0.24
45 32 0.70
47 3 0.07
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (43 bp):
AGATAAGACTCGCTGGCTAATCTGCTCCATAGCCGATACATGG
Found at i:78417088 original size:133 final size:132
Alignment explanation
Indices: 78416974--78417653 Score: 950
Period size: 133 Copynumber: 5.1 Consensus size: 132
78416964 CGATACATGG
* *
78416974 AGATAAGATCTGGTATTTAGCCTACTCCACTCCTGCTCAGTGAAGATAAGGCCGATGATTGGAAT
1 AGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
* * * * * *
78417039 CTGCTCCATCGTCGGTACGTGAAGATAAGA-TTCTTCAAAGTTCGATCTGCTTCACTCCTGCTCA
66 CTGCTCCATTGCCGATACATGAAGATAAGACTTC--CAAAATTTGATCTGCTTCACTCCTGCTCA
78417103 GTGA
129 GTGA
* * ** *
78417107 AGATAAGATCTGGTATTTAGCCTGCTCCACTCGTGCTCAGTAAAGATAAGGCTGATGGCTGAAAT
1 AGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
* *
78417172 CTGCTCCATTGCTGATATATGAAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTGCTCAG
66 CTGCTCCATTGCCGATACATGAAGATAAGACTT-CCAAAATTTGATCTGCTTCACTCCTGCTCAG
78417237 TGA
130 TGA
78417240 AGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
1 AGATAAGATCTGGTA--TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
* * * * * *
78417305 ATCTGCTCCATTGCCGGTACGTGGAGATAAGATTCTCCAAAGTTTGATCTGCTTCACTCCTGATC
64 ATCTGCTCCATTGCCGATACATGAAGATAAGACT-TCCAAAATTTGATCTGCTTCACTCCTGCTC
78417370 AGTGA
128 AGTGA
* * *
78417375 AGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGACTGATGGTTGAAAT
1 AGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
78417440 CTGCTCCATTGCCGATACATGAAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTGCTCAG
66 CTGCTCCATTGCCGATACATGAAGATAAGACTT-CCAAAATTTGATCTGCTTCACTCCTGCTCAG
78417505 TGA
130 TGA
* *
78417508 AGAAAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTAAAGATAAGGCTGATGATTGGA
1 AGATAAGATCTGGTA--TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
* * * * * * *
78417573 ATATGCTCCATTGCCTATACATGGAGATAAGATTTACCAAAATTTGATCTGCTCCGCTCTTGCTC
64 ATCTGCTCCATTGCCGATACATGAAGATAAGACTT-CCAAAATTTGATCTGCTTCACTCCTGCTC
*
78417638 AGCGA
128 AGTGA
78417643 A-ATAAGATCTG
1 AGATAAGATCTG
78417654 TAATTTTAGC
Statistics
Matches: 487, Mismatches: 52, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
132 1 0.00
133 249 0.51
134 11 0.02
135 225 0.46
136 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (132 bp):
AGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
CTGCTCCATTGCCGATACATGAAGATAAGACTTCCAAAATTTGATCTGCTTCACTCCTGCTCAGT
GA
Done.