Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 129 of 163
Found at i:41486924 original size:19 final size:21
Alignment explanation
Indices: 41486885--41486926 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
41486875 TACCTAGGCT
41486885 TTGGCTTTTGTGGCTTTTGAA
1 TTGGCTTTTGTGGCTTTTGAA
41486906 TTGGC-TTTGTGGC-TTTGAA
1 TTGGCTTTTGTGGCTTTTGAA
41486925 TT
1 TT
41486927 AAAGGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.38
20 8 0.38
21 5 0.24
ACGTcount: A:0.10, C:0.10, G:0.29, T:0.52
Consensus pattern (21 bp):
TTGGCTTTTGTGGCTTTTGAA
Found at i:41489149 original size:2 final size:2
Alignment explanation
Indices: 41489132--41489168 Score: 56
Period size: 2 Copynumber: 17.5 Consensus size: 2
41489122 TTGTCTTTTC
41489132 AT AT CAT AT CAT 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 A
41489169 AAGTACGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 29 0.88
3 4 0.12
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:41490731 original size:40 final size:40
Alignment explanation
Indices: 41490687--41490788 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 40
41490677 ACCAAAGTAT
*
41490687 AAACAGAGGCACACATGTGCATTTAGGGGTACCGAAATAC
1 AAACAGAGGCACGCATGTGCATTTAGGGGTACCGAAATAC
* * * * *
41490727 AAACAGGGGCATGTATGTGCATTTAGGGGTACTGAAGTAC
1 AAACAGAGGCACGCATGTGCATTTAGGGGTACCGAAATAC
*
41490767 AAACA-AGGACACGCATATGCAT
1 AAACAGAGG-CACGCATGTGCAT
41490789 CCAAGCAATA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
39 2 0.04
40 49 0.96
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (40 bp):
AAACAGAGGCACGCATGTGCATTTAGGGGTACCGAAATAC
Found at i:41491533 original size:21 final size:21
Alignment explanation
Indices: 41491504--41491551 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
41491494 TAAGGTTGTA
* *
41491504 TTAAAGTTTCGTTAGAAAATT
1 TTAACGTTTCGATAGAAAATT
* **
41491525 TTAACGTTTTGATAGTTAATT
1 TTAACGTTTCGATAGAAAATT
41491546 TTAACG
1 TTAACG
41491552 AGCTTCTGTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (21 bp):
TTAACGTTTCGATAGAAAATT
Found at i:41496411 original size:31 final size:31
Alignment explanation
Indices: 41496352--41496419 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
41496342 ACTAATAACC
41496352 TAGTGACTCAAACAAAAACTTTTAAATAATG
1 TAGTGACTCAAACAAAAACTTTTAAATAATG
* ** * * *
41496383 TAGTGACTTAAATTAAAATTTTTTAATAATT
1 TAGTGACTCAAACAAAAACTTTTAAATAATG
41496414 TAGTGA
1 TAGTGA
41496420 GCAAAACGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.38
Consensus pattern (31 bp):
TAGTGACTCAAACAAAAACTTTTAAATAATG
Found at i:41504211 original size:7 final size:7
Alignment explanation
Indices: 41504199--41504230 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
41504189 TCTCTCGTTT
41504199 ATATTAA
1 ATATTAA
41504206 ATATTAA
1 ATATTAA
41504213 ATATTAA
1 ATATTAA
*
41504220 ATATAAA
1 ATATTAA
41504227 ATAT
1 ATAT
41504231 GCATATGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATATTAA
Found at i:41506447 original size:12 final size:11
Alignment explanation
Indices: 41506430--41506483 Score: 60
Period size: 10 Copynumber: 5.1 Consensus size: 11
41506420 CATTTTCATA
*
41506430 TTTTTTGTTTG
1 TTTTTTTTTTG
41506441 TTTTTTTTTT-
1 TTTTTTTTTTG
41506451 TTTTTTTTTT-
1 TTTTTTTTTTG
41506461 TTTTTTTTTT-
1 TTTTTTTTTTG
*
41506471 TTTACTTTTTTG
1 TTT-TTTTTTTG
41506483 T
1 T
41506484 ATCATTCTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
10 23 0.59
11 15 0.38
12 1 0.03
ACGTcount: A:0.02, C:0.02, G:0.06, T:0.91
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:41506481 original size:1 final size:1
Alignment explanation
Indices: 41506430--41506473 Score: 70
Period size: 1 Copynumber: 44.0 Consensus size: 1
41506420 CATTTTCATA
* *
41506430 TTTTTTGTTTGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
41506474 ACTTTTTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.05, T:0.95
Consensus pattern (1 bp):
T
Found at i:41517304 original size:27 final size:27
Alignment explanation
Indices: 41517274--41517325 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
41517264 TCATTGTTGC
* *
41517274 GTTTCAATTTTTATTTGCAAATCCTGT
1 GTTTCAATTTCTATTTGAAAATCCTGT
*
41517301 GTTTCAATTTCTATTTTAAAATCCT
1 GTTTCAATTTCTATTTGAAAATCCT
41517326 TTATGGCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.15, G:0.08, T:0.52
Consensus pattern (27 bp):
GTTTCAATTTCTATTTGAAAATCCTGT
Found at i:41519066 original size:24 final size:23
Alignment explanation
Indices: 41519039--41519089 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
41519029 AATCGAACGT
41519039 AAAAAAGACAAAA-AGATATACAAA
1 AAAAAAGA-AAAATAGA-ATACAAA
41519063 AAAAAAGAAAAATAGAATACAAA
1 AAAAAAGAAAAATAGAATACAAA
41519086 AAAA
1 AAAA
41519090 GTAAAGAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.78, C:0.06, G:0.08, T:0.08
Consensus pattern (23 bp):
AAAAAAGAAAAATAGAATACAAA
Found at i:41520076 original size:4 final size:4
Alignment explanation
Indices: 41520052--41520157 Score: 65
Period size: 4 Copynumber: 26.8 Consensus size: 4
41520042 AATGTTTCCT
** ** *
41520052 TTTA TTT- TTTA TTTA CATA TTTA TTTA -TTA TTCC TTTGA TTTTA TTCA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT-A -TTTA TTTA
* * * * * *
41520100 TTTA CTTA CTTA TTTA CTTA TTTA TTTA TATA -TTA TTCA TTCA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
41520147 CTTA TTTA TTT
1 TTTA TTTA TTT
41520158 TAATTCCTTT
Statistics
Matches: 77, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
3 8 0.10
4 65 0.84
5 1 0.01
6 3 0.04
ACGTcount: A:0.25, C:0.09, G:0.01, T:0.65
Consensus pattern (4 bp):
TTTA
Found at i:41520145 original size:23 final size:23
Alignment explanation
Indices: 41520119--41520203 Score: 75
Period size: 23 Copynumber: 3.7 Consensus size: 23
41520109 TTATTTACTT
*
41520119 ATTTATTTATATATTATTCATTC
1 ATTTATTTATATATTATTCCTTC
* * *
41520142 ATTTACTTATTTATTTTAATTCCTTT
1 ATTTA-TT-TATATATT-ATTCCTTC
* *
41520168 ATTCATTTATATGTTATTCCTTC
1 ATTTATTTATATATTATTCCTTC
41520191 ATTT-TTTA-ATATT
1 ATTTATTTATATATT
41520204 TAAAATTTTC
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
21 4 0.08
22 4 0.08
23 15 0.31
24 8 0.16
25 8 0.16
26 10 0.20
ACGTcount: A:0.26, C:0.11, G:0.01, T:0.62
Consensus pattern (23 bp):
ATTTATTTATATATTATTCCTTC
Found at i:41530159 original size:19 final size:20
Alignment explanation
Indices: 41530135--41530172 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
41530125 TATATTTTTA
41530135 TTTTTTAATTTTAAAATACT
1 TTTTTTAATTTTAAAATACT
*
41530155 TTTTTTATTTTTAAAATA
1 TTTTTTAATTTTAAAATA
41530173 AATTTTTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTTAATTTTAAAATACT
Found at i:41530178 original size:20 final size:20
Alignment explanation
Indices: 41530134--41530179 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
41530124 ATATATTTTT
*
41530134 ATTTTTTAATTTTAAAATAC
1 ATTTTTTAATTTTAAAATAA
* *
41530154 TTTTTTTATTTTTAAAATAA
1 ATTTTTTAATTTTAAAATAA
41530174 ATTTTT
1 ATTTTT
41530180 GGTGTTTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTTTAATTTTAAAATAA
Found at i:41530984 original size:28 final size:28
Alignment explanation
Indices: 41530945--41530998 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
41530935 TTATTTAAAA
41530945 TTTATTCCTACCAAACAATATAATTAAT
1 TTTATTCCTACCAAACAATATAATTAAT
* * *
41530973 TTTATTCTTACCAAATAATCTAATTA
1 TTTATTCCTACCAAACAATATAATTA
41530999 TAATCAATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.43
Consensus pattern (28 bp):
TTTATTCCTACCAAACAATATAATTAAT
Found at i:41531080 original size:15 final size:15
Alignment explanation
Indices: 41531055--41531097 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
41531045 TGAATGTAGT
*
41531055 ACTTAAATTTTCAAC
1 ACTTAATTTTTCAAC
* **
41531070 ACTTACTTTTTCCTC
1 ACTTAATTTTTCAAC
41531085 ACTTAATTTTTCA
1 ACTTAATTTTTCA
41531098 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.00, T:0.49
Consensus pattern (15 bp):
ACTTAATTTTTCAAC
Found at i:41535286 original size:25 final size:25
Alignment explanation
Indices: 41535252--41535307 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
41535242 ACACACCGCA
*
41535252 GCTCTTATGAGCATCCCGATATATG
1 GCTCTTATGAGCATACCGATATATG
41535277 GCTCTTATGAGCATACCGATATATG
1 GCTCTTATGAGCATACCGATATATG
41535302 GCTCTT
1 GCTCTT
41535308 CGGAGCTTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (25 bp):
GCTCTTATGAGCATACCGATATATG
Found at i:41535329 original size:25 final size:25
Alignment explanation
Indices: 41535301--41535368 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 25
41535291 ACCGATATAT
*
41535301 GGCTCTTCGGAGCTTCCCAACTAAA
1 GGCTCTTCAGAGCTTCCCAACTAAA
* * * *
41535326 GGCTCTTTAATGAGTTTCCCGACTAAT
1 GGCTC-TTCA-GAGCTTCCCAACTAAA
41535353 GGCTCTTCAGAGCTTC
1 GGCTCTTCAGAGCTTC
41535369 GTGATATTGG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
25 11 0.32
26 5 0.15
27 18 0.53
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.31
Consensus pattern (25 bp):
GGCTCTTCAGAGCTTCCCAACTAAA
Found at i:41536442 original size:15 final size:15
Alignment explanation
Indices: 41536422--41536455 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
41536412 AGACATGAGC
*
41536422 GTGTGTCTCAGCCGT
1 GTGTGTCACAGCCGT
41536437 GTGTGTCACAGCCGT
1 GTGTGTCACAGCCGT
41536452 GTGT
1 GTGT
41536456 TACATATGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.24, G:0.35, T:0.32
Consensus pattern (15 bp):
GTGTGTCACAGCCGT
Found at i:41538156 original size:15 final size:15
Alignment explanation
Indices: 41538138--41538180 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
41538128 TTTGCCTTTT
41538138 CTTTTTTTTTTCTCC
1 CTTTTTTTTTTCTCC
*
41538153 CTTTCTTTTTT-TCC
1 CTTTTTTTTTTCTCC
41538167 CTTTTATTTTTTCT
1 CTTTT-TTTTTTCT
41538181 TCCCCAAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.29
15 16 0.67
16 1 0.04
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (15 bp):
CTTTTTTTTTTCTCC
Found at i:41538176 original size:14 final size:13
Alignment explanation
Indices: 41538140--41538179 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 13
41538130 TGCCTTTTCT
41538140 TTTTTTTTTCTCCC
1 TTTTTTTTT-TCCC
41538154 TTTCTTTTTTTCCC
1 TTT-TTTTTTTCCC
41538168 TTTTATTTTTTC
1 TTTT-TTTTTTC
41538180 TTCCCCAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.04
14 17 0.71
15 6 0.25
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTTTTTTCCC
Found at i:41540471 original size:125 final size:125
Alignment explanation
Indices: 41540249--41540569 Score: 606
Period size: 125 Copynumber: 2.6 Consensus size: 125
41540239 TAATCTAGTA
** *
41540249 TTGAATTTGAATGAAATATTTTATATCAAAATGAATTATTGCAAAATTCACCATCTAAGTTTTAT
1 TTGAATTTGAATGAAATCCTTTATATCAAAATGAATTATTGCAAAATTCACCATATAAGTTTTAT
41540314 AACTGACTCAATCAACTTATTAGCAACGGTTTTGATTGTGAATTGTTTGCTACATAAGTG
66 AACTGACTCAATCAACTTATTAGCAACGGTTTTGATTGTGAATTGTTTGCTACATAAGTG
41540374 TTGAATTTGAATGAAATCCTTTATATCAAAATGAATTATTGCAAAATTCACCATATAAGTTTTAT
1 TTGAATTTGAATGAAATCCTTTATATCAAAATGAATTATTGCAAAATTCACCATATAAGTTTTAT
41540439 AACTGACTCAATCAACTTATTAGCAACGGTTTTGATTGTGAATTGTTTGCTACATAAGTG
66 AACTGACTCAATCAACTTATTAGCAACGGTTTTGATTGTGAATTGTTTGCTACATAAGTG
*
41540499 TTGAATTTGAATGAAATCCTTTATATCAAAATGAATTATTGCAAAATTTACCATATAAGTTTTAT
1 TTGAATTTGAATGAAATCCTTTATATCAAAATGAATTATTGCAAAATTCACCATATAAGTTTTAT
41540564 AACTGA
66 AACTGA
41540570 TGCACTCTAT
Statistics
Matches: 192, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 192 1.00
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (125 bp):
TTGAATTTGAATGAAATCCTTTATATCAAAATGAATTATTGCAAAATTCACCATATAAGTTTTAT
AACTGACTCAATCAACTTATTAGCAACGGTTTTGATTGTGAATTGTTTGCTACATAAGTG
Found at i:41543412 original size:22 final size:22
Alignment explanation
Indices: 41543387--41543429 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
41543377 GCACTATTAA
41543387 ACAGAAAGCACTAAAGTGCTAT
1 ACAGAAAGCACTAAAGTGCTAT
* *
41543409 ACAGAGAGCACTAATGTGCTA
1 ACAGAAAGCACTAAAGTGCTA
41543430 ATAATCGGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (22 bp):
ACAGAAAGCACTAAAGTGCTAT
Found at i:41544272 original size:22 final size:22
Alignment explanation
Indices: 41544247--41544289 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
41544237 GCACTATTAA
41544247 ACAGAAAGCACTAAAGTGCTAT
1 ACAGAAAGCACTAAAGTGCTAT
* *
41544269 ACAGAGAGCACTAATGTGCTA
1 ACAGAAAGCACTAAAGTGCTA
41544290 ATAATCGGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (22 bp):
ACAGAAAGCACTAAAGTGCTAT
Found at i:41566786 original size:3 final size:3
Alignment explanation
Indices: 41566778--41566807 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
41566768 TTTACAGCGC
41566778 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
41566808 TTTTCAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:41572557 original size:45 final size:44
Alignment explanation
Indices: 41572504--41572599 Score: 140
Period size: 44 Copynumber: 2.2 Consensus size: 44
41572494 TTTGGTTCGC
41572504 TGTAATGGAATAGAAGCGTAATAGTAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAAGCGTAATAGT-ATTC-ATGTGTTTGGTTGAA
* * *
41572549 TGTAATGGAATAGAGGCGTACTAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAAGCGTAATAGTATTCATGTGTTTGGTTGAA
41572593 TGTAATG
1 TGTAATG
41572600 ATGTTGTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.49
45 23 0.49
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (44 bp):
TGTAATGGAATAGAAGCGTAATAGTATTCATGTGTTTGGTTGAA
Found at i:41574321 original size:49 final size:49
Alignment explanation
Indices: 41574249--41574351 Score: 154
Period size: 49 Copynumber: 2.1 Consensus size: 49
41574239 AGAAAAAAAC
* * *
41574249 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTT-TATA
1 AAATTAAAATTAAGTTAAATATCATGAATCAAAAGCTCAACA-TTGTATA
*
41574298 AAATTAAAATTAAGTTAAATATCATGAATCAGAAGCTCAACATTGTATA
1 AAATTAAAATTAAGTTAAATATCATGAATCAAAAGCTCAACATTGTATA
41574347 AAATT
1 AAATT
41574352 GTAACACATG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 2 0.04
49 47 0.96
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.32
Consensus pattern (49 bp):
AAATTAAAATTAAGTTAAATATCATGAATCAAAAGCTCAACATTGTATA
Found at i:41578436 original size:5 final size:5
Alignment explanation
Indices: 41578421--41578463 Score: 77
Period size: 5 Copynumber: 8.4 Consensus size: 5
41578411 CTATGACTAG
41578421 TTATAT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
1 TTAT-T TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
41578464 TATGAGTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 33 0.89
6 4 0.11
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:41579852 original size:37 final size:37
Alignment explanation
Indices: 41579802--41579873 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
41579792 CTTATTTTTT
*
41579802 CCATTAGATTAGAATTCACTAACTATTTAATTAATCA
1 CCATTAAATTAGAATTCACTAACTATTTAATTAATCA
41579839 CCATTAAATTAGAATTCACTAACTATTTAATTAAT
1 CCATTAAATTAGAATTCACTAACTATTTAATTAAT
41579874 TATGAGTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.39
Consensus pattern (37 bp):
CCATTAAATTAGAATTCACTAACTATTTAATTAATCA
Found at i:41580483 original size:9 final size:9
Alignment explanation
Indices: 41580466--41580510 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
41580456 ACCGAAGAAA
*
41580466 CATCATCCT
1 CATCGTCCT
41580475 CATCGTCCT
1 CATCGTCCT
*
41580484 CATCGTCAT
1 CATCGTCCT
* *
41580493 CATGGTCGT
1 CATCGTCCT
41580502 CATCGTCCT
1 CATCGTCCT
41580511 TTTTGCAACC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.16, C:0.38, G:0.13, T:0.33
Consensus pattern (9 bp):
CATCGTCCT
Found at i:41582452 original size:2 final size:2
Alignment explanation
Indices: 41582445--41582471 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
41582435 CAGTTATTAA
41582445 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 A
41582472 CATGTGTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:41585882 original size:206 final size:207
Alignment explanation
Indices: 41585517--41585929 Score: 819
Period size: 206 Copynumber: 2.0 Consensus size: 207
41585507 GAATGGGAAT
41585517 GTATTAATGTAATAATAAATTTTAAAAATAAAAAAATATATATTAATTATATCCGGGCCCAGGCC
1 GTATTAATGTAATAATAAATTTTAAAAATAAAAAAATATATATTAATTATATCCGGGCCCAGGCC
41585582 AAAAAAATTGTTCGAGGCCCGACCCGTTTTTTAAATAGGCCTCGTTTTTTGCCCAAACCCATATT
66 AAAAAAATTGTTCGAGGCCCGACCCGTTTTTTAAATAGGCCTCGTTTTTTGCCCAAACCCATATT
41585647 TCGGGTCTATATTTTTATCCAAACCCTCTCATATTTTGGGCAGGCCATCGGGCCGGGCCGGACCG
131 TCGGGTCTATATTTTTATCCAAACCCTCTCATATTTTGGGCAGGCCATCGGGCCGGGCCGGACCG
41585712 CCCAACCCATGA
196 CCCAACCCATGA
41585724 GTATTAATGT-ATAATAAATTTTAAAAATAAAAAAATATATATTAATTATATCCGGGCCCAGGCC
1 GTATTAATGTAATAATAAATTTTAAAAATAAAAAAATATATATTAATTATATCCGGGCCCAGGCC
41585788 AAAAAAATTGTTCGAGGCCCGACCCGTTTTTTAAATAGGCCTCGTTTTTTGCCCAAACCCATATT
66 AAAAAAATTGTTCGAGGCCCGACCCGTTTTTTAAATAGGCCTCGTTTTTTGCCCAAACCCATATT
41585853 TCGGGTCTATATTTTTATCCAAACCCTCTCATATTTTGGGCAGGCCATCGGGCCGGGCCGGACCG
131 TCGGGTCTATATTTTTATCCAAACCCTCTCATATTTTGGGCAGGCCATCGGGCCGGGCCGGACCG
41585918 CCCAACCCATGA
196 CCCAACCCATGA
41585930 TCACCTCTAC
Statistics
Matches: 206, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
206 196 0.95
207 10 0.05
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (207 bp):
GTATTAATGTAATAATAAATTTTAAAAATAAAAAAATATATATTAATTATATCCGGGCCCAGGCC
AAAAAAATTGTTCGAGGCCCGACCCGTTTTTTAAATAGGCCTCGTTTTTTGCCCAAACCCATATT
TCGGGTCTATATTTTTATCCAAACCCTCTCATATTTTGGGCAGGCCATCGGGCCGGGCCGGACCG
CCCAACCCATGA
Found at i:41596991 original size:13 final size:13
Alignment explanation
Indices: 41596969--41596999 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
41596959 CCGAGTTGAT
*
41596969 TTCGATGGTTTTC
1 TTCGAGGGTTTTC
41596982 TTCGAGGGTTTTC
1 TTCGAGGGTTTTC
41596995 TTCGA
1 TTCGA
41597000 TCTTCTCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.16, G:0.26, T:0.48
Consensus pattern (13 bp):
TTCGAGGGTTTTC
Found at i:41601103 original size:16 final size:15
Alignment explanation
Indices: 41601082--41601115 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
41601072 CAGAAGTACA
*
41601082 AAAAATAATAATGAAG
1 AAAAATAAAAAT-AAG
41601098 AAAAATAAAAATAAG
1 AAAAATAAAAATAAG
41601113 AAA
1 AAA
41601116 CGAAATGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (15 bp):
AAAAATAAAAATAAG
Found at i:41601437 original size:18 final size:18
Alignment explanation
Indices: 41601402--41601442 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
41601392 TAAACTGATG
*
41601402 ATAATGAAACTAAGAATA
1 ATAATGAAACTAAAAATA
41601420 ATAA-GAAACTTAAAAATA
1 ATAATGAAAC-TAAAAATA
41601438 ATAAT
1 ATAAT
41601443 TAATAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.24
Consensus pattern (18 bp):
ATAATGAAACTAAAAATA
Found at i:41601454 original size:32 final size:29
Alignment explanation
Indices: 41601418--41601503 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 29
41601408 AAACTAAGAA
41601418 TAATAAGAAACTTAAAAATAATAATTAATAAT
1 TAATAAGAAAC-TAAAAA-AATAA-TAATAAT
* *
41601450 TAATAA-TAACTAGAAAAATAATAATAAT
1 TAATAAGAAACTAAAAAAATAATAATAAT
*
41601478 T-ATAAGAAA-TAATAAACA-AATAATAA
1 TAATAAGAAACTAA-AAAAATAATAATAA
41601504 AAAATTAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
27 14 0.30
28 14 0.30
29 5 0.11
30 5 0.11
31 3 0.06
32 6 0.13
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (29 bp):
TAATAAGAAACTAAAAAAATAATAATAAT
Found at i:41601473 original size:18 final size:19
Alignment explanation
Indices: 41601450--41601492 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
41601440 AATTAATAAT
41601450 TAATAATAACTAGAA-AAA
1 TAATAATAACTAGAAGAAA
* *
41601468 TAATAATAATTATAAGAAA
1 TAATAATAACTAGAAGAAA
41601487 TAATAA
1 TAATAA
41601493 ACAAATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (19 bp):
TAATAATAACTAGAAGAAA
Found at i:41601500 original size:11 final size:10
Alignment explanation
Indices: 41601431--41601539 Score: 60
Period size: 10 Copynumber: 10.5 Consensus size: 10
41601421 TAAGAAACTT
41601431 AAAAATAATA
1 AAAAATAATA
** *
41601441 ATTAATAATT
1 AAAAATAATA
*
41601451 AATAATAACTA
1 AAAAATAA-TA
41601462 GAAAAATAAT-
1 -AAAAATAATA
* *
41601472 AATAATTATA
1 AAAAATAATA
*
41601482 AGAAATAATA
1 AAAAATAATA
41601492 AACAAATAATA
1 AA-AAATAATA
41601503 AAAAATTAAATA
1 AAAAA-T-AATA
* *
41601515 ATTAAATAATT
1 A-AAAATAATA
*
41601526 AAAACTAA-A
1 AAAAATAATA
41601535 AAAAA
1 AAAAA
41601540 GGAATGGATA
Statistics
Matches: 74, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
9 11 0.15
10 30 0.41
11 17 0.23
12 13 0.18
13 3 0.04
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.27
Consensus pattern (10 bp):
AAAAATAATA
Found at i:41601525 original size:16 final size:15
Alignment explanation
Indices: 41601495--41601537 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
41601485 AATAATAAAC
41601495 AAATAATAAAAAATT
1 AAATAATAAAAAATT
*
41601510 AAATAATTAAATAATT
1 AAATAA-TAAAAAATT
*
41601526 AAA-ACTAAAAAA
1 AAATAATAAAAAA
41601538 AAGGAATGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 6 0.25
15 7 0.29
16 11 0.46
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAATAAAAAATT
Found at i:41607433 original size:146 final size:147
Alignment explanation
Indices: 41607167--41607602 Score: 689
Period size: 146 Copynumber: 3.0 Consensus size: 147
41607157 GTCTTCTTTT
* *
41607167 AATTGGGCAGGACTATGGATGATGTGGTAGAAAGAGTCAATAAAATAATTTCTCATGGTAAACAC
1 AATTGGGCAGGACTATGGATGATGTGGGA-AAAGAGTCAATAAAATAATTTCTCATGATAAACAC
41607232 ATTAATTTATAACTATACTTTCAAAAAAGACTGGTGAGACTTAAAATGGCAGTTTTAAAACATTT
65 ATTAATTTATAACTATACTTTCAAAAAAGACTGGTGAGACTTAAAATGGCAGTTTTAAAACATTT
41607297 GGAATGTAACTTTCATGA
130 GGAATGTAACTTTCATGA
* * *
41607315 AATTGGGCAGGACCATGGTTGATGTGGCGAAAAGAGTCTAT-AAA-AATTTCTCATGATAAACAC
1 AATTGGGCAGGACTATGGATGATGTGG-GAAAAGAGTCAATAAAATAATTTCTCATGATAAACAC
41607378 ATTAATTTATAACTATACTTTCAAAAAAGACTGGTGAGACTTAAAATGGCAGTTTTAAAACATTT
65 ATTAATTTATAACTATACTTTCAAAAAAGACTGGTGAGACTTAAAATGGCAGTTTTAAAACATTT
41607443 GGAATGTAACTTTCATGA
130 GGAATGTAACTTTCATGA
* * * * *
41607461 AACTGGGCAGGACTATAGATGATGTGGTGAAAAGAGCCCATAAAATAATTTCTTAT-AGTAAACA
1 AATTGGGCAGGACTATGGATGATGTGG-GAAAAGAGTCAATAAAATAATTTCTCATGA-TAAACA
* * *
41607525 CATTAATTTATAACTATACTTCCAAAAAAGAGTGGTGAGACTTAAAATGTCAGTTTTAAAACATT
64 CATTAATTTATAACTATACTTTCAAAAAAGACTGGTGAGACTTAAAATGGCAGTTTTAAAACATT
*
41607590 TGGAATGTGACTT
129 TGGAATGTAACTT
41607603 CCGTTAAAGT
Statistics
Matches: 267, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
146 135 0.51
147 7 0.03
148 124 0.46
149 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (147 bp):
AATTGGGCAGGACTATGGATGATGTGGGAAAAGAGTCAATAAAATAATTTCTCATGATAAACACA
TTAATTTATAACTATACTTTCAAAAAAGACTGGTGAGACTTAAAATGGCAGTTTTAAAACATTTG
GAATGTAACTTTCATGA
Found at i:41612626 original size:50 final size:49
Alignment explanation
Indices: 41612567--41612795 Score: 249
Period size: 50 Copynumber: 4.7 Consensus size: 49
41612557 GGCAGTGAGT
*
41612567 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGACCG-TGGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GA-CGATGGA
* *
41612617 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGACAGAAGAGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GAC-GATG-GA
* *
41612669 GT--CAGTGTAAGACCATGTTTGGGACATGGCATCGGCTCGA-GAT-GA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGACGATGGA
*
41612714 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGA-TATGTGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGACGATG-GA
* * * *
41612764 -TCCCA-TGTAAGACCATATCTAGGATATGGCAT
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCAT
41612796 TGGCGTCCTA
Statistics
Matches: 156, Mismatches: 15, Indels: 18
0.83 0.08 0.10
Matches are distributed among these distances:
45 4 0.03
47 35 0.22
48 29 0.19
49 7 0.04
50 76 0.49
51 1 0.01
52 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (49 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGACGATGGA
Found at i:41612747 original size:97 final size:98
Alignment explanation
Indices: 41612571--41612753 Score: 289
Period size: 97 Copynumber: 1.9 Consensus size: 98
41612561 GTGAGTGTGC
*
41612571 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGACCGTGGAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGA-C-TGGAGTGCCAGTGTAAGACCATG
41612636 TCTGGGACATGGCATCGGCACGGACAGAAGAGAGT
64 TCTGGGACATGGCATCGGCACGGACAGAAGAGAGT
* * *
41612671 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCTCGAGA-T-GAGTGCCAGTGTAAGACCATGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-AGACTGGAGTGCCAGTGTAAGACCATGT
41612734 CTGGGACATGGCATCGGCAC
65 CTGGGACATGGCATCGGCAC
41612754 CGATATGTGA
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
97 41 0.53
98 1 0.01
100 33 0.42
101 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.33, T:0.20
Consensus pattern (98 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGACTGGAGTGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCACGGACAGAAGAGAGT
Found at i:41613286 original size:45 final size:43
Alignment explanation
Indices: 41613221--41613344 Score: 151
Period size: 45 Copynumber: 2.8 Consensus size: 43
41613211 ATATTTATGA
41613221 AAAGTGATTGCTATGTGCTGATTTCACCGGATACCAATG-GTTAT
1 AAAGTGATTGCTATGTGCTGATTTCACCGG-TACCAATGAG-TAT
* *
41613265 ATAAGTGATTGCTATGTGCTGAATTCAACCGGTACCATTGAGTAT
1 A-AAGTGATTGCTATGTGCTGATTTC-ACCGGTACCAATGAGTAT
* *
41613310 AAAGGTGGTTGCTATGTGCTGATTACACCGAGTAC
1 AAA-GTGATTGCTATGTGCTGATTTCACCG-GTAC
41613345 TATATAAGGG
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
44 7 0.10
45 57 0.81
46 6 0.09
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
AAAGTGATTGCTATGTGCTGATTTCACCGGTACCAATGAGTAT
Found at i:41631969 original size:21 final size:21
Alignment explanation
Indices: 41631907--41631993 Score: 88
Period size: 23 Copynumber: 4.1 Consensus size: 21
41631897 CCTGATCAGT
*
41631907 ATACGACACAT-AAGTACCTG
1 ATACGACACATAAAGTGCCTG
* ** *
41631927 AAACGACACA-CGAGATGTCTG
1 ATACGACACATAAAG-TGCCTG
41631948 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCT--G
41631971 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
41631992 AT
1 AT
41631994 CGGCAAAGCC
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
20 11 0.20
21 20 0.37
22 2 0.04
23 21 0.39
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:41631977 original size:23 final size:23
Alignment explanation
Indices: 41631947--41631992 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
41631937 CGAGATGTCT
41631947 GATACGACACATAAAGTGCCTGA
1 GATACGACACATAAAGTGCCTGA
41631970 GATACGACACATAAAGTGCCTGA
1 GATACGACACATAAAGTGCCTGA
41631993 TCGGCAAAGC
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:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (23 bp):
GATACGACACATAAAGTGCCTGA
Found at i:41631993 original size:44 final size:41
Alignment explanation
Indices: 41631907--41631993 Score: 95
Period size: 44 Copynumber: 2.0 Consensus size: 41
41631897 CCTGATCAGT
** *
41631907 ATACGACACATAAGTACCTGAAACGACACACGAGATGTCTG
1 ATACGACACATAAGTACCTGAAACGACACAAAAGATGCCTG
*
41631948 ATACGACACATAAAGTGCCTGAGATACGACACATAAAG-TGCCTG
1 ATACGACACAT-AAGTACCTGA-A-ACGACACA-AAAGATGCCTG
41631992 AT
1 AT
41631994 CGGCAAAGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
41 11 0.29
42 9 0.24
43 1 0.03
44 15 0.39
45 2 0.05
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (41 bp):
ATACGACACATAAGTACCTGAAACGACACAAAAGATGCCTG
Found at i:41633291 original size:14 final size:13
Alignment explanation
Indices: 41633274--41633316 Score: 61
Period size: 14 Copynumber: 3.3 Consensus size: 13
41633264 TTGTTTGTCT
41633274 TAATTTAATAATAA
1 TAATTTAATAAT-A
41633288 TAATTTAATAATA
1 TAATTTAATAATA
*
41633301 T-ATTTAATAATT
1 TAATTTAATAATA
41633313 TAAT
1 TAAT
41633317 AATCATACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 11 0.41
13 4 0.15
14 12 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TAATTTAATAATA
Found at i:41633308 original size:9 final size:8
Alignment explanation
Indices: 41633274--41633319 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
41633264 TTGTTTGTCT
41633274 TAATTTAA
1 TAATTTAA
41633282 TAA--TAA
1 TAATTTAA
41633288 TAATTTAA
1 TAATTTAA
41633296 TAA--T-A
1 TAATTTAA
41633301 T-ATTTAA
1 TAATTTAA
41633308 TAATTTAA
1 TAATTTAA
41633316 TAAT
1 TAAT
41633320 CATACTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
4 1 0.03
5 2 0.06
6 8 0.25
7 2 0.06
8 19 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
TAATTTAA
Found at i:41636922 original size:231 final size:231
Alignment explanation
Indices: 41636519--41636980 Score: 852
Period size: 231 Copynumber: 2.0 Consensus size: 231
41636509 AGGCTTTGCT
* * *
41636519 GGAGGCGGGGGCTGCAGCGCTACCTGCTGCTAGGGTTTTCTTTTTTTGTTTTTTAGTTTTGGGTT
1 GGAGGCGGAGGCTGCAGCGCTACCTGCTGCTAGGGTTTTCTTTTTTTGTTTTTTAGCTTTGGGCT
41636584 GAGGTCTGTATTGGGCTTAGGTTAGTTTTGTTGGGTCTGACATGTTTTTGTTTAGTTTGGACCCA
66 GAGGTCTGTATTGGGCTTAGGTTAGTTTTGTTGGGTCTGACATGTTTTTGTTTAGTTTGGACCCA
* *
41636649 AGCCGATTGGGCCTTATTACAGCTGCCCCTCTTTGCTCATTGTCGTGTAACGGGAATAGAGCAAA
131 AGCCGATTGGGCCTTATTACAGCTGCCCCTCTTTACTCATTGTCGTGTAACGGGAATAAAGCAAA
*
41636714 GACTACAAGGCCTAATTATGCCTGGTCTCACTGAGC
196 GACTACAAGGCCCAATTATGCCTGGTCTCACTGAGC
*
41636750 GGAGGCGGAGGCTGCGGCGCTACCTGCTGCTAGGGTTTTCTTTTTTTGTTTTTTAGCTTTGGGCT
1 GGAGGCGGAGGCTGCAGCGCTACCTGCTGCTAGGGTTTTCTTTTTTTGTTTTTTAGCTTTGGGCT
41636815 GAGGTCTGTATTGGGCTTAGGTTAGTTTTGTTGGGTCTGACATGTTTTTGTTTAGTTTGGACCCA
66 GAGGTCTGTATTGGGCTTAGGTTAGTTTTGTTGGGTCTGACATGTTTTTGTTTAGTTTGGACCCA
*
41636880 GGCCGATTGGGCCTTATTACAGCTGCCCCTCTTTACTCATTGTCGTGTAACGGGAATAAAGCAAA
131 AGCCGATTGGGCCTTATTACAGCTGCCCCTCTTTACTCATTGTCGTGTAACGGGAATAAAGCAAA
41636945 GACTACAAGGCCCAATTATGCCTGGTCTCACTGAGC
196 GACTACAAGGCCCAATTATGCCTGGTCTCACTGAGC
41636981 CTTAGACTTC
Statistics
Matches: 223, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
231 223 1.00
ACGTcount: A:0.17, C:0.19, G:0.28, T:0.36
Consensus pattern (231 bp):
GGAGGCGGAGGCTGCAGCGCTACCTGCTGCTAGGGTTTTCTTTTTTTGTTTTTTAGCTTTGGGCT
GAGGTCTGTATTGGGCTTAGGTTAGTTTTGTTGGGTCTGACATGTTTTTGTTTAGTTTGGACCCA
AGCCGATTGGGCCTTATTACAGCTGCCCCTCTTTACTCATTGTCGTGTAACGGGAATAAAGCAAA
GACTACAAGGCCCAATTATGCCTGGTCTCACTGAGC
Found at i:41637203 original size:44 final size:44
Alignment explanation
Indices: 41637155--41638196 Score: 744
Period size: 44 Copynumber: 23.3 Consensus size: 44
41637145 TTAGGGAGAT
* *
41637155 AAGATCTGTAATCTTCGATCTACTTCACGCCAGTACATGAAGAC
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
* *
41637199 AAGATCTGGTATCTTTGATCTACTTTACGCCAGTACATGAAGAC
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
* * *** *
41637243 AAGATCTGCTT-T-TTCCGATCTACTTCACTACCAGTATGGGAAGAT
1 AAGATCTG-TTATCTT-TGATCTACTTCAC-GCCAGTACATGAAGAC
* * *
41637288 AAGATCTGCTATCTTTAATCTACTTCACGCCAGTATATGAAGAC
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
* * * *** *
41637332 AAGATCTGTTTTCTTTGATCTGCTTCGC-CATCAGTATGGGAAGGC
1 AAGATCTGTTATCTTTGATCTACTTCACGC--CAGTACATGAAGAC
41637377 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
* ** * * ***
41637421 AAGATCTACTT-TCTTTGATCTGTTTCGCCACCAGTATGGGAAGAC
1 AAGATCT-GTTATCTTTGATCTACTTC-ACGCCAGTACATGAAGAC
* *
41637466 AAGATCTATTACCTTTGATCTACTTCACGCCAGTACATGAAGAC
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
* * *
41637510 AAGATCTGCTT-TCTTTGATCTGCTT--CGCCA-TCAGATGGGAAGGC
1 AAGATCTG-TTATCTTTGATCTACTTCACGCCAGT-ACAT--GAAGAC
* *
41637554 AAGACCTGTTATCTCTGATCTACTTCACGCCAGTACATGAAGAC
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
* * * * * * * *** * *
41637598 AATATCTACTTTTCTTTAATCTGCTCCACCACCAGTATGGGGAGGC
1 AAGATCT-GTTATCTTTGATCTACTTCA-CGCCAGTACATGAAGAC
* *
41637644 AAGATCTGTTACCTTTGATCTACTTCACTCCAGTACATGAAGAC
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
* * * * ** * * ***
41637688 AAGATCTATTTTCTTCGATATGTTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGTTATCTTTGATCTACTTC-ACGCCAGTACATGAAGAC
*
41637733 TAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
* * * * *
41637777 AAGATCTGCTT-TCTTTGATCTGCTTCGCCACCAGTATGA-GAAGGC
1 AAGATCTG-TTATCTTTGATCTACTTC-ACGCCAGTA-CATGAAGAC
* * *
41637822 AAGATCTGGTATCTCTGATCTACTTCACGCTAGTACATGAAGAC
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
* * * * * *** *
41637866 AAAATCTACTT-T-TTTTATCTGCTTCACCACCAGTATGGGAAGGC
1 AAGATCT-GTTATCTTTGATCTACTTCA-CGCCAGTACATGAAGAC
* *
41637910 AAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAAGAC
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
* * * * *** *
41637954 AAGATCTACTT-TCTTTGATCTGCTTCGCCACCAGTATGGGAAGGC
1 AAGATCT-GTTATCTTTGATCTACTTC-ACGCCAGTACATGAAGAC
* * * *
41637999 AAGATATGTTA-CTTTTGATCTACTTCATGCTAATACATGAAGAC
1 AAGATCTGTTATC-TTTGATCTACTTCACGCCAGTACATGAAGAC
* * * * ***
41638043 AAGATCTGCTTTTTCCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
1 AAGATCTG--TTAT-CTTTGATCTACTTC-ACGCCAGTACATGAAGAC
*
41638091 AAGATCTGTTATCTTTGATCTACTTCACACCAGTACATGAAGAC
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
* * * * ***
41638135 AAGATCTGCTTTTTCCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
1 AAGATCTG--TTAT-CTTTGATCTACTTC-ACGCCAGTACATGAAGAC
*
41638183 AAGATCTGCTATCT
1 AAGATCTGTTATCT
41638197 CTCAACTTGC
Statistics
Matches: 758, Mismatches: 196, Indels: 87
0.73 0.19 0.08
Matches are distributed among these distances:
41 1 0.00
42 8 0.01
43 18 0.02
44 368 0.49
45 257 0.34
46 39 0.05
47 26 0.03
48 41 0.05
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (44 bp):
AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
Found at i:41637303 original size:89 final size:88
Alignment explanation
Indices: 41637193--41638196 Score: 1312
Period size: 89 Copynumber: 11.2 Consensus size: 88
41637183 GCCAGTACAT
* *
41637193 GAAGACAAGATCTGGTATCTTTGATCTACTTTACGCCAGTACATGAAGACAAGATCTGCTTTTTC
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTT-
* * * *
41637258 CGATCTACTTCACTACCAGTATGG
65 TGATCTGCTTCGCCACCAGTATGG
* * * * *
41637282 GAAGATAAGATCTGCTATCTTTAATCTACTTCACGCCAGTATATGAAGACAAGATCTGTTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTT-TT
*
41637347 TGATCTGCTTCGCCATCAGTATGG
65 TGATCTGCTTCGCCACCAGTATGG
* *
41637371 GAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTT-TT
*
41637436 TGATCTGTTTCGCCACCAGTATGG
65 TGATCTGCTTCGCCACCAGTATGG
* *
41637460 GAAGACAAGATCTATTACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTT-TT
*
41637525 TGATCTGCTTCGCCATCAG-ATGG
65 TGATCTGCTTCGCCACCAGTATGG
* * * * *
41637548 GAAGGCAAGACCTGTTATCTCTGATCTACTTCACGCCAGTACATGAAGACAATATCTACTTTTCT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC-TTT-T
* * *
41637613 TTAATCTGCTCCACCACCAGTATGG
64 TTGATCTGCTTCGCCACCAGTATGG
* * * * *
41637638 GGAGGCAAGATCTGTTACCTTTGATCTACTTCACTCCAGTACATGAAGACAAGATCT-ATTTTCT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTT-T
* *
41637702 TCGATATGTTTCGCCACCAGTATGG
65 T-GATCTGCTTCGCCACCAGTATGG
*
41637727 GAAGACTAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTT-TT
*
41637792 TGATCTGCTTCGCCACCAGTATGA
65 TGATCTGCTTCGCCACCAGTATGG
* * * * * *
41637816 GAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCTAGTACATGAAGACAAAATCTACTTTTTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTT
* *
41637881 TATCTGCTTCACCACCAGTATGG
66 GATCTGCTTCGCCACCAGTATGG
* * * *
41637904 GAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTT-TT
41637969 TGATCTGCTTCGCCACCAGTATGG
65 TGATCTGCTTCGCCACCAGTATGG
* * * * *
41637993 GAAGGCAAGATATGTTA-CTTTTGATCTACTTCATGCTAATACATGAAGACAAGATCTGCTTTTT
1 GAAGACAAGATCTGTTATC-TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC-TTTT
*
41638057 CCTTCGATCTACTTCGCCACCAGTATGG
64 --TT-GATCTGCTTCGCCACCAGTATGG
*
41638085 GAAGACAAGATCTGTTATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGCTTTTTC
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC-TTTT-
*
41638150 CTTCGATCTACTTCGCCACCAGTATGG
64 -TT-GATCTGCTTCGCCACCAGTATGG
*
41638177 GAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGTTATCT
41638197 CTCAACTTGC
Statistics
Matches: 814, Mismatches: 87, Indels: 25
0.88 0.09 0.03
Matches are distributed among these distances:
87 1 0.00
88 145 0.18
89 474 0.58
90 65 0.08
91 3 0.00
92 125 0.15
93 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (88 bp):
GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTT
GATCTGCTTCGCCACCAGTATGG
Found at i:41646279 original size:20 final size:20
Alignment explanation
Indices: 41646254--41646293 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
41646244 TAAAGATCTT
*
41646254 TAATGCATATAATGCGATGC
1 TAATGCACATAATGCGATGC
*
41646274 TAATGCACATGATGCGATGC
1 TAATGCACATAATGCGATGC
41646294 ATGAGGTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (20 bp):
TAATGCACATAATGCGATGC
Found at i:41650067 original size:27 final size:26
Alignment explanation
Indices: 41650024--41650086 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
41650014 AGTTTTAAGA
41650024 ATATATATATTAGATAAAGAAATATGT
1 ATATATATATTAGATAAA-AAATATGT
* *
41650051 ATATATACTA-TATATAAAAAATGTGT
1 ATATATA-TATTAGATAAAAAATATGT
* *
41650077 GTATACATAT
1 ATATATATAT
41650087 AGAAATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 2 0.07
26 12 0.40
27 14 0.47
28 2 0.07
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (26 bp):
ATATATATATTAGATAAAAAATATGT
Found at i:41658662 original size:21 final size:21
Alignment explanation
Indices: 41658638--41658679 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
41658628 AAATTACTGG
41658638 TTTAAATGAAATAGGATCGTC
1 TTTAAATGAAATAGGATCGTC
41658659 TTTAAATGAAATAGGATCGTC
1 TTTAAATGAAATAGGATCGTC
41658680 AAGCAAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTAAATGAAATAGGATCGTC
Found at i:41661917 original size:3 final size:3
Alignment explanation
Indices: 41661911--41661944 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
41661901 TTTTTTTAAA
41661911 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
41661945 GGAAATTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:41668050 original size:62 final size:62
Alignment explanation
Indices: 41667953--41668099 Score: 267
Period size: 62 Copynumber: 2.4 Consensus size: 62
41667943 GTTTACTTTT
* *
41667953 CGTTTAGCTCTCACGAGCTTCTGTTAACTCATATGAGTTTCCGTTCAACCCTTATAGGTTTC
1 CGTTTAGCTCTCACGAGCTTCTGTTAACTCATATGAGTTTCCATTCAACCCTTATACGTTTC
41668015 CGTTTAGCTCTCACGAGCTTCTGTTAACTCATATGAGTTTCCATTCAACCCTTATACGTTTC
1 CGTTTAGCTCTCACGAGCTTCTGTTAACTCATATGAGTTTCCATTCAACCCTTATACGTTTC
*
41668077 CGTTTAGCTCTCATGAGCTTCTG
1 CGTTTAGCTCTCACGAGCTTCTG
41668100 CTCAGCCTTC
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 82 1.00
ACGTcount: A:0.19, C:0.27, G:0.16, T:0.39
Consensus pattern (62 bp):
CGTTTAGCTCTCACGAGCTTCTGTTAACTCATATGAGTTTCCATTCAACCCTTATACGTTTC
Found at i:41669074 original size:20 final size:20
Alignment explanation
Indices: 41669030--41669093 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
41669020 TCTTAGATTT
* *
41669030 TTATGTTTTATATATATTATT
1 TTATGTTATA-ATATATTATA
*
41669051 TTAT-TATATAATATAATATA
1 TTATGT-TATAATATATTATA
*
41669071 TTATGTTATATTATATTATA
1 TTATGTTATAATATATTATA
41669091 TTA
1 TTA
41669094 AATAAACTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 28 0.78
21 8 0.22
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
TTATGTTATAATATATTATA
Found at i:41669079 original size:5 final size:5
Alignment explanation
Indices: 41669037--41669093 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
41669027 TTTTTATGTT
* *
41669037 TTATA -TATA TTAT- TT-TA TTATA TAATATA ATATA TTATG TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA T--TATA TTATA TTATA TTATA TTATA
41669086 TTATA TTA
1 TTATA TTA
41669094 AATAAACTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
3 1 0.02
4 8 0.19
5 30 0.70
7 4 0.09
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (5 bp):
TTATA
Found at i:41675788 original size:32 final size:32
Alignment explanation
Indices: 41675747--41675810 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
41675737 TAGTCGAGTA
*
41675747 TGTAGTCATCTAGTGCTTCTAGGTTAAGAATT
1 TGTAGTCATCTAGTGCTTCTAGGTTAAAAATT
41675779 TGTAGTCATCTAGTGCTTCTAGGTTAAAAATT
1 TGTAGTCATCTAGTGCTTCTAGGTTAAAAATT
41675811 CCGACCCGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (32 bp):
TGTAGTCATCTAGTGCTTCTAGGTTAAAAATT
Found at i:41677132 original size:9 final size:9
Alignment explanation
Indices: 41677115--41677151 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
41677105 TGAGTTTTCG
41677115 AATTCGAAT
1 AATTCGAAT
*
41677124 AACTCGAAT
1 AATTCGAAT
41677133 AATTCGAAT
1 AATTCGAAT
41677142 AATTCGAAT
1 AATTCGAAT
41677151 A
1 A
41677152 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:41678395 original size:17 final size:17
Alignment explanation
Indices: 41678362--41678394 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
41678352 GCATTTTGCA
*
41678362 AATTTGTTCTTTGTTTT
1 AATTTGTTCTTCGTTTT
41678379 AATTTGTT-TTCGTTTT
1 AATTTGTTCTTCGTTTT
41678395 TTTTTTCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.12, C:0.06, G:0.12, T:0.70
Consensus pattern (17 bp):
AATTTGTTCTTCGTTTT
Found at i:41678902 original size:18 final size:19
Alignment explanation
Indices: 41678860--41678903 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
41678850 GCATTTTCTA
41678860 TAATATATATACGTACTTT
1 TAATATATATACGTACTTT
*
41678879 T-TTATATATACGTA-TTT
1 TAATATATATACGTACTTT
41678896 TAATATAT
1 TAATATAT
41678904 GCATATACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 4 0.18
18 17 0.77
19 1 0.05
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (19 bp):
TAATATATATACGTACTTT
Found at i:41682770 original size:24 final size:24
Alignment explanation
Indices: 41682738--41682795 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
41682728 GTTCTAAAAA
*
41682738 AAATGCAGGATCAACTTTAGCAGC
1 AAATGCAGGATCAACTTCAGCAGC
41682762 AAATGCAGGATCAACTTCAGCAGC
1 AAATGCAGGATCAACTTCAGCAGC
41682786 AAATGCAGGA
1 AAATGCAGGA
41682796 GCAGCTCGGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (24 bp):
AAATGCAGGATCAACTTCAGCAGC
Found at i:41686266 original size:27 final size:26
Alignment explanation
Indices: 41686230--41686293 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
41686220 ACACTTTTCG
*
41686230 TATTCATTTTT-GAGCCAGTAGTCTTTT
1 TATTC-TTTTTCGAGCAAGTAGTC-TTT
* * *
41686257 TATTCTTTTTCGAGTAATTATTCTTT
1 TATTCTTTTTCGAGCAAGTAGTCTTT
41686283 TATTCTTTTTC
1 TATTCTTTTTC
41686294 CACATCATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 19 0.59
27 13 0.41
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.59
Consensus pattern (26 bp):
TATTCTTTTTCGAGCAAGTAGTCTTT
Found at i:41702449 original size:88 final size:87
Alignment explanation
Indices: 41702301--41702472 Score: 256
Period size: 88 Copynumber: 2.0 Consensus size: 87
41702291 GGTGAAACTT
* * * *
41702301 CAGCCTTATCTCTCTGAGCAGAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
1 CAGCCTTATCTCTCTGAGCAGAGTGGAGTAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACTAG
*
41702366 CAGCGAAGTAGATCGAAGATAC
66 CAGCGAAGCAGATCGAAGATAC
* *
41702388 CAGCCTTGTCTAC-CTGAGCAGCAGTGGAGTAGGTTAAAAATGGCAGATCTTGCCTTCCTGTACT
1 CAGCCTTATCT-CTCTGAGCAG-AGTGGAGTAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACT
41702452 AGCAGCGAAGCAGATCGAAGA
64 AGCAGCGAAGCAGATCGAAGA
41702473 CACCGGTCTT
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
87 18 0.24
88 58 0.76
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (87 bp):
CAGCCTTATCTCTCTGAGCAGAGTGGAGTAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACTAG
CAGCGAAGCAGATCGAAGATAC
Found at i:41703700 original size:25 final size:25
Alignment explanation
Indices: 41703672--41703801 Score: 97
Period size: 25 Copynumber: 5.2 Consensus size: 25
41703662 AGTTCTTCCG
* *
41703672 AGCTATATAACGGGAAGCTCATGTA
1 AGCTATATATCGGGAAGCTCATGCA
* * * * *
41703697 AGCTAAATAACAGAAAGCTCATGCG
1 AGCTATATATCGGGAAGCTCATGCA
* * *
41703722 AGCTGTATATTGGGAAGCTCAT-AA
1 AGCTATATATCGGGAAGCTCATGCA
*
41703746 GAGCTGA-A-ATTGGGAAGCTCATGCA
1 -AGCT-ATATATCGGGAAGCTCATGCA
*
41703771 AGCTAAATATCGGGAAGCTCATG-A
1 AGCTATATATCGGGAAGCTCATGCA
41703795 GAGCTAT
1 -AGCTAT
41703802 GGTGTCCGCA
Statistics
Matches: 82, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
23 1 0.01
24 20 0.24
25 61 0.74
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (25 bp):
AGCTATATATCGGGAAGCTCATGCA
Found at i:41703762 original size:24 final size:24
Alignment explanation
Indices: 41703711--41703799 Score: 101
Period size: 25 Copynumber: 3.6 Consensus size: 24
41703701 AAATAACAGA
* *
41703711 AAGCTCATGCGAGCTGTATATTGGG
1 AAGCTCATGAGAGCTG-AAATTGGG
*
41703736 AAGCTCATAAGAGCTGAAATTGGG
1 AAGCTCATGAGAGCTGAAATTGGG
41703760 AAGCTCATGCA-AGCT-AAATATCGGG
1 AAGCTCATG-AGAGCTGAAAT-T-GGG
41703785 AAGCTCATGAGAGCT
1 AAGCTCATGAGAGCT
41703800 ATGGTGTCCG
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
23 4 0.07
24 21 0.38
25 31 0.55
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (24 bp):
AAGCTCATGAGAGCTGAAATTGGG
Found at i:41722432 original size:24 final size:23
Alignment explanation
Indices: 41722394--41722449 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
41722384 ACATGTGGCA
41722394 AAAATTATAAATAAATAAA-AATTAT
1 AAAATT-TAAATAAA-AAAGAATT-T
* *
41722419 AAAATTTTAATAAAAAAGTATTT
1 AAAATTTAAATAAAAAAGAATTT
41722442 AAAATTTA
1 AAAATTTA
41722450 TGAAAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.41
24 10 0.37
25 6 0.22
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAATTTAAATAAAAAAGAATTT
Found at i:41722468 original size:23 final size:21
Alignment explanation
Indices: 41722442--41722497 Score: 78
Period size: 23 Copynumber: 2.6 Consensus size: 21
41722432 AAAAGTATTT
41722442 AAAATTTATGAAAAATTAGAAAA
1 AAAATTTAT-AAAAATT-GAAAA
*
41722465 AAAATTTATAAAAATTGTAAA
1 AAAATTTATAAAAATTGAAAA
41722486 AAAA-TTATAAAA
1 AAAATTTATAAAA
41722498 TTTTATCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 8 0.25
21 8 0.25
22 7 0.22
23 9 0.28
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAATTTATAAAAATTGAAAA
Found at i:41722477 original size:10 final size:10
Alignment explanation
Indices: 41722408--41722526 Score: 57
Period size: 10 Copynumber: 11.6 Consensus size: 10
41722398 TTATAAATAA
41722408 ATAAAAA-TT
1 ATAAAAATTT
*
41722417 ATAAAATTTT
1 ATAAAAATTT
**
41722427 AATAAAAAAGT
1 -ATAAAAATTT
*
41722438 ATTTAAAATTT
1 A-TAAAAATTT
*
41722449 ATGAAAAATTAGA
1 AT-AAAAATT--T
*
41722462 AAAAAAATTT
1 ATAAAAATTT
41722472 ATAAAAATTGT
1 ATAAAAATT-T
*
41722483 A-AAAAAATT
1 ATAAAAATTT
*
41722492 ATAAAATTTT
1 ATAAAAATTT
* *
41722502 ATCAAAA-TC
1 ATAAAAATTT
41722511 ATAAATAA-TT
1 ATAAA-AATTT
41722521 ATAAAA
1 ATAAAA
41722527 TACATCAAAA
Statistics
Matches: 81, Mismatches: 20, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
9 14 0.17
10 37 0.46
11 22 0.27
12 7 0.09
13 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (10 bp):
ATAAAAATTT
Found at i:41722744 original size:19 final size:20
Alignment explanation
Indices: 41722713--41722768 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
41722703 GTATGATAGT
41722713 TTTTATAATTTTTTTACAAA
1 TTTTATAATTTTTTTACAAA
**
41722733 TTTTAT-ATTTTTTTACATT
1 TTTTATAATTTTTTTACAAA
*
41722752 TTTTATAATTTTCTTAC
1 TTTTATAATTTTTTTAC
41722769 GACTTTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTATAATTTTTTTACAAA
Found at i:41722838 original size:9 final size:9
Alignment explanation
Indices: 41722820--41722867 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
41722810 TTTTATTTTA
*
41722820 TTTTACAAT
1 TTTTATAAT
41722829 TTTTATAAT
1 TTTTATAAT
*
41722838 TTTTCCTAAT
1 TTTT-ATAAT
*
41722848 TTTTATATT
1 TTTTATAAT
41722857 TTTTA-AAT
1 TTTTATAAT
41722865 TTT
1 TTT
41722868 AAAAAAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
8 5 0.15
9 20 0.61
10 8 0.24
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:41723838 original size:18 final size:18
Alignment explanation
Indices: 41723799--41723840 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
41723789 ATTCAACTAT
41723799 TTAACATTTTTTTAACCAC
1 TTAA-ATTTTTTTAACCAC
41723818 TTAAATTTCTTTTAACC-C
1 TTAAATTT-TTTTAACCAC
41723836 TTAAA
1 TTAAA
41723841 AACCTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (18 bp):
TTAAATTTTTTTAACCAC
Found at i:41724316 original size:34 final size:35
Alignment explanation
Indices: 41724272--41724338 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
41724262 CAGTAAAATA
* *
41724272 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
41724306 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
41724339 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:41724325 original size:20 final size:20
Alignment explanation
Indices: 41724287--41724326 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
41724277 CGTAAAATGA
**
41724287 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
41724307 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
41724327 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:41731505 original size:31 final size:29
Alignment explanation
Indices: 41731470--41731539 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
41731460 ACTATCAAAA
* *
41731470 TAGTCACTTTTGTTTGACTCAGGTTACATTT
1 TAGTCACTTATGTTTGA--AAGGTTACATTT
* *
41731501 TAGTCACTTATGTTTGAAATGTTACGTTT
1 TAGTCACTTATGTTTGAAAGGTTACATTT
41731530 TAGTCACTTA
1 TAGTCACTTA
41731540 CGTTATCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.54
31 16 0.46
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (29 bp):
TAGTCACTTATGTTTGAAAGGTTACATTT
Found at i:41761837 original size:17 final size:17
Alignment explanation
Indices: 41761810--41761880 Score: 52
Period size: 21 Copynumber: 3.8 Consensus size: 17
41761800 AAGAGTAATT
*
41761810 TTTAATGTTTTATAAAA
1 TTTAATTTTTTATAAAA
* *
41761827 TTTAATTTTTTCTTAAAT
1 TTTAATTTTTT-ATAAAA
41761845 TTTATAGTTTTTTATGAAAAA
1 TTTA-A-TTTTTTAT--AAAA
41761866 TATTAAATTTTTTAT
1 T-TT-AATTTTTTAT
41761881 TTTCAATCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
17 10 0.24
18 8 0.19
19 2 0.05
20 6 0.14
21 12 0.29
22 3 0.07
23 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (17 bp):
TTTAATTTTTTATAAAA
Found at i:41762846 original size:17 final size:18
Alignment explanation
Indices: 41762815--41762848 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41762805 TAATATATTA
*
41762815 TTTAATATTTCAATTTAT
1 TTTAATATGTCAATTTAT
41762833 TTTAATATGT-AATTTA
1 TTTAATATGTCAATTTA
41762849 ATATTCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTAATATGTCAATTTAT
Found at i:41767130 original size:67 final size:67
Alignment explanation
Indices: 41767045--41767269 Score: 242
Period size: 67 Copynumber: 3.3 Consensus size: 67
41767035 ATCAATTGTA
* *
41767045 TATATATTTAATTTTTTATTTTAATCCATAGATATTTTACATGTATTATTATTAATTAATTTTAA
1 TATATATTTTATTATTTATTTTAATCCATAGATATTTTACATGTATTATTATTAATTAATTTTAA
41767110 AT
66 AT
* * * ** * * *
41767112 TATATATTTTATTATTTATTATATGTTCAT-TTTATTTTTATATGTA-TACT-TT-ATTACTTCT
1 TATATATTTTATTATTTATTTTA-ATCCATAGATA-TTTTACATGTATTATTATTAATTAATT-T
*
41767173 ATCAATT
63 -T-AAAT
*
41767180 GTATATATATTTAATTTTTTATTTTAATCCATAGATATTTTACATGTATTATTATTAATTAATTT
1 -TATATAT-TTT-ATTATTTATTTTAATCCATAGATATTTTACATGTATTATTATTAATTAATTT
41767245 TAAAT
63 TAAAT
41767250 TATATATTTTATTATTTATT
1 TATATATTTTATTATTTATT
41767270 ATATGTTATA
Statistics
Matches: 124, Mismatches: 22, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
65 6 0.05
66 3 0.02
67 35 0.28
68 20 0.16
69 14 0.11
70 20 0.16
71 17 0.14
72 3 0.02
73 6 0.05
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (67 bp):
TATATATTTTATTATTTATTTTAATCCATAGATATTTTACATGTATTATTATTAATTAATTTTAA
AT
Found at i:41767164 original size:19 final size:20
Alignment explanation
Indices: 41767123--41767166 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
41767113 ATATATTTTA
*
41767123 TTATTTATTATATGTTCATT
1 TTATTTATTATATGTTCACT
41767143 TTATTT-TTATATGTAT-ACT
1 TTATTTATTATATGT-TCACT
41767162 TTATT
1 TTATT
41767167 ACTTCTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.66
Consensus pattern (20 bp):
TTATTTATTATATGTTCACT
Found at i:41767167 original size:138 final size:139
Alignment explanation
Indices: 41767000--41767276 Score: 547
Period size: 138 Copynumber: 2.0 Consensus size: 139
41766990 ATATTTTGTA
41767000 CATTTTATTTTTATTATGTATACTTTATTACTTCTATCAATTGTATATATATTTAATTTTTTATT
1 CATTTTATTTTTATTATGTATACTTTATTACTTCTATCAATTGTATATATATTTAATTTTTTATT
41767065 TTAATCCATAGATATTTTACATGTATTATTATTAATTAATTTTAAATTATATATTTTATTATTTA
66 TTAATCCATAGATATTTTACATGTATTATTATTAATTAATTTTAAATTATATATTTTATTATTTA
41767130 TTATATGTT
131 TTATATGTT
41767139 CATTTTATTTTTA-TATGTATACTTTATTACTTCTATCAATTGTATATATATTTAATTTTTTATT
1 CATTTTATTTTTATTATGTATACTTTATTACTTCTATCAATTGTATATATATTTAATTTTTTATT
41767203 TTAATCCATAGATATTTTACATGTATTATTATTAATTAATTTTAAATTATATATTTTATTATTTA
66 TTAATCCATAGATATTTTACATGTATTATTATTAATTAATTTTAAATTATATATTTTATTATTTA
41767268 TTATATGTT
131 TTATATGTT
41767277 ATATATATTA
Statistics
Matches: 138, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
138 125 0.91
139 13 0.09
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.59
Consensus pattern (139 bp):
CATTTTATTTTTATTATGTATACTTTATTACTTCTATCAATTGTATATATATTTAATTTTTTATT
TTAATCCATAGATATTTTACATGTATTATTATTAATTAATTTTAAATTATATATTTTATTATTTA
TTATATGTT
Found at i:41770454 original size:95 final size:95
Alignment explanation
Indices: 41770291--41770465 Score: 287
Period size: 95 Copynumber: 1.8 Consensus size: 95
41770281 TCCATATTTG
* * * * *
41770291 GTTGCAATCATATTTCATCCCCTATAAGTTATCGTTCTTTCATTTTAGTCCTTCATTATTTGTTA
1 GTTGCAATCACATTTCATCCCATATAAGTTATCGTTCTTTCATTTTAATCCTCCATTAGTTGTTA
41770356 TTTAAGTTATTACATATGTACCCTCCATTA
66 TTTAAGTTATTACATATGTACCCTCCATTA
*
41770386 GTTGCAATCACATTTCATCCCATATAAGTTATCGTTCTTTCATTTTAATCCTCCTTTAGTTGTTA
1 GTTGCAATCACATTTCATCCCATATAAGTTATCGTTCTTTCATTTTAATCCTCCATTAGTTGTTA
*
41770451 TTTAAGTTGTTACAT
66 TTTAAGTTATTACAT
41770466 GTATATATAT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 73 1.00
ACGTcount: A:0.24, C:0.19, G:0.09, T:0.47
Consensus pattern (95 bp):
GTTGCAATCACATTTCATCCCATATAAGTTATCGTTCTTTCATTTTAATCCTCCATTAGTTGTTA
TTTAAGTTATTACATATGTACCCTCCATTA
Found at i:41788445 original size:28 final size:28
Alignment explanation
Indices: 41788414--41788480 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
41788404 TTTAATCATT
*
41788414 TAAAAATTATATTTTTACTATTATATAG
1 TAAAAATTATATTTTTACTATCATATAG
41788442 TAAAAATTATATTTTTACTATCATATAG
1 TAAAAATTATATTTTTACTATCATATAG
41788470 TAAAAATTATA
1 TAAAAATTATA
41788481 ATTTAATTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (28 bp):
TAAAAATTATATTTTTACTATCATATAG
Found at i:41788875 original size:3 final size:3
Alignment explanation
Indices: 41788867--41788901 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
41788857 AGACAGCACC
41788867 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
41788902 CTCAAGAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:41789670 original size:3 final size:3
Alignment explanation
Indices: 41789662--41789698 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
41789652 CATAAAAGCA
*
41789662 ATG ATG ATG ATG ATG ATG GTG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
41789699 CATATCTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:41794117 original size:51 final size:51
Alignment explanation
Indices: 41794003--41794320 Score: 449
Period size: 51 Copynumber: 6.3 Consensus size: 51
41793993 CTTACGTATG
* * * *
41794003 ATCACTTATCACTTGTCCCTGATCAGGTAAGTGTAG-TTAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
** *
41794053 ATCACTTACCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACAT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* * *
41794104 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCGATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* * *
41794155 ATCACTTGCCACTTGTCACTGATCAAATAAGTGTAGCTAAAGCTACCACAT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* * *
41794206 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCGATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* * * *
41794257 ATCACTTGCCACTTGTCATTGATCAGATAAGTGTAACTAAAGCTACTACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
41794308 ATCACTTGTCACT
1 ATCACTTGTCACT
41794321 GATCAGAAGT
Statistics
Matches: 236, Mismatches: 31, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
50 33 0.14
51 203 0.86
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
Found at i:41794185 original size:102 final size:102
Alignment explanation
Indices: 41794003--41794320 Score: 521
Period size: 102 Copynumber: 3.1 Consensus size: 102
41793993 CTTACGTATG
* * * * * * *
41794003 ATCACTTATCACTTGTCCCTGATCAGGTAAGTGTAG-TTAAGCTACCACTTATCACTTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCGATCACTTATCACTTGCCACTT
41794067 GTCACTGATCAGATAAGTGTAGCTAAAGCTACCACAT
66 GTCACTGATCAGATAAGTGTAGCTAAAGCTACCACAT
41794104 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCGATCACTTATCACTTGCCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCGATCACTTATCACTTGCCACTT
*
41794169 GTCACTGATCAAATAAGTGTAGCTAAAGCTACCACAT
66 GTCACTGATCAGATAAGTGTAGCTAAAGCTACCACAT
41794206 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCGATCACTTATCACTTGCCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCGATCACTTATCACTTGCCACTT
* * * *
41794271 GTCATTGATCAGATAAGTGTAACTAAAGCTACTACTT
66 GTCACTGATCAGATAAGTGTAGCTAAAGCTACCACAT
41794308 ATCACTTGTCACT
1 ATCACTTGTCACT
41794321 GATCAGAAGT
Statistics
Matches: 203, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
101 33 0.16
102 170 0.84
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (102 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCGATCACTTATCACTTGCCACTT
GTCACTGATCAGATAAGTGTAGCTAAAGCTACCACAT
Found at i:41797509 original size:16 final size:16
Alignment explanation
Indices: 41797488--41797536 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
41797478 TTCGCTGTAT
41797488 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
* * *
41797504 TGGAATATATGTGTAA
1 TGGAATAGAGGCGTAA
*
41797520 TGGAATAGAGACGTAA
1 TGGAATAGAGGCGTAA
41797536 T
1 T
41797537 AGCAAATCAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.39, C:0.04, G:0.31, T:0.27
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:41797566 original size:45 final size:44
Alignment explanation
Indices: 41797515--41797605 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 44
41797505 GGAATATATG
41797515 TGTAATGGAATAGA-GACGTAATAGCAAATCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGATG-CGTAATAG-AAATC-ATGTGTTTGGTTGAA
* *
41797560 TGTAATGGAATAGATGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGATGCGTAATAGAAATCATGTGTTTGGTTGAA
41797604 TG
1 TG
41797606 GAATAGAGGT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
43 1 0.02
44 18 0.43
45 22 0.52
46 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGATGCGTAATAGAAATCATGTGTTTGGTTGAA
Found at i:41797756 original size:18 final size:17
Alignment explanation
Indices: 41797735--41797769 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
41797725 TTATTATTAA
*
41797735 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
41797753 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
41797770 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:41797874 original size:16 final size:16
Alignment explanation
Indices: 41797830--41797902 Score: 55
Period size: 16 Copynumber: 4.6 Consensus size: 16
41797820 TACTATAAAA
*
41797830 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
41797846 TATTATT-AAATATAT
1 TATAATTAAAATATAT
41797861 TATAATTAAAATATAT
1 TATAATTAAAATATAT
*
41797877 AATTTAA-TAAAAT-TAT
1 --TATAATTAAAATATAT
41797893 TAATAATTAA
1 T-ATAATTAA
41797903 TATTCTTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
14 5 0.11
15 13 0.28
16 18 0.39
17 6 0.13
18 4 0.09
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:41797874 original size:120 final size:120
Alignment explanation
Indices: 41797661--41797919 Score: 448
Period size: 120 Copynumber: 2.2 Consensus size: 120
41797651 ATACCCTTAG
* ** *
41797661 AATATTCTTGTATGAATTTACTCTGATCATAATATATGATACTATAAAATATATTTTAACATAAT
1 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTAACATAAT
* *
41797726 TATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
66 TATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATC
41797781 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTAACATAAT
1 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTAACATAAT
*
41797846 TATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATT
66 TATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATC
41797901 AATATTCTTATAT-AATTTA
1 AATATTCTTATATGAATTTA
41797920 ATAAAACAAT
Statistics
Matches: 132, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
119 6 0.05
120 126 0.95
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (120 bp):
AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTAACATAAT
TATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATC
Found at i:41797876 original size:18 final size:18
Alignment explanation
Indices: 41797855--41797902 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
41797845 TTATTATTAA
41797855 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
41797873 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
41797890 -TAT-TAATAATTAA
1 ATATATTATAATTAA
41797903 TATTCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:41800667 original size:71 final size:71
Alignment explanation
Indices: 41800543--41800684 Score: 203
Period size: 71 Copynumber: 2.0 Consensus size: 71
41800533 CTTTGGTGGG
* * * *
41800543 TGGTTATGGTATGGTGAAATTTTTTATATTATAGCTATAGTAACTAATATCACCGTCATCGCTGG
1 TGGTTATGGTATGGCGAAAATTTTTATATTACAGCTATAGTAACTAATATCACCATCATCGCTGG
41800608 TTTTAA
66 TTTTAA
* * * * *
41800614 TGGTTATGGTATGGCGAAAATTTTTATCTTACAGCTATAGTAATTAATCTCACCATCATCGTTGT
1 TGGTTATGGTATGGCGAAAATTTTTATATTACAGCTATAGTAACTAATATCACCATCATCGCTGG
41800679 TTTTAA
66 TTTTAA
41800685 CCTTACCAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (71 bp):
TGGTTATGGTATGGCGAAAATTTTTATATTACAGCTATAGTAACTAATATCACCATCATCGCTGG
TTTTAA
Found at i:41806971 original size:13 final size:13
Alignment explanation
Indices: 41806953--41806982 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
41806943 TAACTACGCT
41806953 TAAATAATTATAA
1 TAAATAATTATAA
*
41806966 TAAATAATTGTAA
1 TAAATAATTATAA
41806979 TAAA
1 TAAA
41806983 AAAATTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
TAAATAATTATAA
Found at i:41812788 original size:47 final size:47
Alignment explanation
Indices: 41812731--41812828 Score: 144
Period size: 47 Copynumber: 2.1 Consensus size: 47
41812721 AAGTGCTATA
* *
41812731 CAGAGAGCACAAATGTGTTAAACAGAGAGCATTGACGTACT-AATAAT
1 CAGAGAGCACAAATGTGCTAAACAGAGAGCACTGACGTACTAAAT-AT
* *
41812778 CAGAGAGCACAGATGTGCTAAACAGAGAGCACTGACGTGCTAAATAT
1 CAGAGAGCACAAATGTGCTAAACAGAGAGCACTGACGTACTAAATAT
41812825 CAGA
1 CAGA
41812829 AAGCGCTAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 43 0.93
48 3 0.07
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.18
Consensus pattern (47 bp):
CAGAGAGCACAAATGTGCTAAACAGAGAGCACTGACGTACTAAATAT
Found at i:41812828 original size:25 final size:24
Alignment explanation
Indices: 41812709--41812828 Score: 90
Period size: 22 Copynumber: 5.2 Consensus size: 24
41812699 AACTAATGAA
* *
41812709 CAGAGAGCACTAAAGTGCT-ATA-
1 CAGAGAGCACTGACGTGCTAATAT
** * *
41812731 CAGAGAGCACAAATGTGTTAA-A-
1 CAGAGAGCACTGACGTGCTAATAT
* *
41812753 CAGAGAGCATTGACGTACTAATAAT
1 CAGAGAGCACTGACGTGCTAAT-AT
* *
41812778 CAGAGAGCACAGATGTGCTAA-A-
1 CAGAGAGCACTGACGTGCTAATAT
41812800 CAGAGAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGACGTGCT-AATAT
41812825 CAGA
1 CAGA
41812829 AAGCGCTAGA
Statistics
Matches: 76, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
22 49 0.64
23 4 0.05
24 2 0.03
25 21 0.28
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.18
Consensus pattern (24 bp):
CAGAGAGCACTGACGTGCTAATAT
Found at i:41813941 original size:10 final size:9
Alignment explanation
Indices: 41813928--41813988 Score: 67
Period size: 8 Copynumber: 7.0 Consensus size: 9
41813918 TCTGTTGTTT
41813928 TATATATATA
1 TATATATA-A
41813938 TATATATAA
1 TATATATAA
41813947 TA-ATATAA
1 TATATATAA
41813955 TATTATATAA
1 TA-TATATAA
41813965 TAT-TATAA
1 TATATATAA
*
41813973 T-CATATAA
1 TATATATAA
41813981 TATA-ATAA
1 TATATATAA
41813989 CACGCTTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
8 24 0.53
9 5 0.11
10 16 0.36
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (9 bp):
TATATATAA
Found at i:41813961 original size:18 final size:19
Alignment explanation
Indices: 41813929--41813988 Score: 77
Period size: 18 Copynumber: 3.1 Consensus size: 19
41813919 CTGTTGTTTT
41813929 ATATATATATATATATAATA
1 ATATA-ATATATATATAATA
41813949 ATATAATAT-TATATAATA
1 ATATAATATATATATAATA
*
41813967 TTATAATCATATAATATAATA
1 ATATAAT-ATAT-ATATAATA
41813988 A
1 A
41813989 CACGCTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 15 0.43
19 6 0.17
20 6 0.17
21 8 0.23
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATAATATATATATAATA
Found at i:41815360 original size:13 final size:13
Alignment explanation
Indices: 41815322--41815361 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
41815312 TTTGTCTGGC
41815322 TAAATGTATGATA
1 TAAATGTATGATA
* *
41815335 TATAGGT-TGATA
1 TAAATGTATGATA
41815347 TAAATGTATGATA
1 TAAATGTATGATA
41815360 TA
1 TA
41815362 TGCGGTTTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (13 bp):
TAAATGTATGATA
Found at i:41816487 original size:46 final size:45
Alignment explanation
Indices: 41816436--41816531 Score: 129
Period size: 46 Copynumber: 2.1 Consensus size: 45
41816426 TGATGAATGA
* * * *
41816436 TATTATGTATTTAATATATTTTTGAAAAATGAAGTGTCGTTAAATT
1 TATTATGTATTTAACATATTATTGAAAAATGAAATATCGTTAAA-T
* *
41816482 TATTATGTATTTAGCATATTATTGAAAAATGAAATATTGTTAAAT
1 TATTATGTATTTAACATATTATTGAAAAATGAAATATCGTTAAAT
41816527 TATTA
1 TATTA
41816532 ATTGAAATGA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 6 0.14
46 38 0.86
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (45 bp):
TATTATGTATTTAACATATTATTGAAAAATGAAATATCGTTAAAT
Found at i:41818549 original size:800 final size:800
Alignment explanation
Indices: 41817009--41818608 Score: 3200
Period size: 800 Copynumber: 2.0 Consensus size: 800
41816999 GTTGATGTGT
41817009 TATAGTAGGTTCAGTAAGATTTTTATTTAAAGCCATCGAACTTATTAAGCTTCCTTTAGCTTACT
1 TATAGTAGGTTCAGTAAGATTTTTATTTAAAGCCATCGAACTTATTAAGCTTCCTTTAGCTTACT
41817074 TGTGTTGTTTAATGTTCTTGTAGATTAACGTGAGGCCGGGAGATCGGATCAACACATCAAGCCAC
66 TGTGTTGTTTAATGTTCTTGTAGATTAACGTGAGGCCGGGAGATCGGATCAACACATCAAGCCAC
41817139 ACTATCCAACTTAATCCAGTAGCTTTTGTAATGAATACTTTAGTTTATATGGCATGTATAGGATT
131 ACTATCCAACTTAATCCAGTAGCTTTTGTAATGAATACTTTAGTTTATATGGCATGTATAGGATT
41817204 TGTGTAGAAATGAAGTACTTAGAAATATAGTTATGAATGATATATGCTTGTATGCATGTAAATTG
196 TGTGTAGAAATGAAGTACTTAGAAATATAGTTATGAATGATATATGCTTGTATGCATGTAAATTG
41817269 TAGTAGATGTTGATAAATCCATAAATAGGTAAGTTTAAGTAATTGAGAATTTGTGATATTATGTT
261 TAGTAGATGTTGATAAATCCATAAATAGGTAAGTTTAAGTAATTGAGAATTTGTGATATTATGTT
41817334 ATGATTAAAACATGATTTTGACTTGTGTTGATTACTTGTTTGGGAAGTATTGATGTATTGAAATG
326 ATGATTAAAACATGATTTTGACTTGTGTTGATTACTTGTTTGGGAAGTATTGATGTATTGAAATG
41817399 TTGTGTATAGGTTTATATCAAAATAGGTGAGAAAAATGGCCTTAAAATGACCTATTTTCATCCAC
391 TTGTGTATAGGTTTATATCAAAATAGGTGAGAAAAATGGCCTTAAAATGACCTATTTTCATCCAC
41817464 ACAGGCAAAGACACGGGCGTGTATCTCAGCTGTGTGTGACACACGGCCTAGCACATGGACGTGTG
456 ACAGGCAAAGACACGGGCGTGTATCTCAGCTGTGTGTGACACACGGCCTAGCACATGGACGTGTG
41817529 GTCTGGCCGTGTGTCCCTTGCATCTCAAAATTTGGAAACAGAATACCCAGGTTTTTGCACATGGC
521 GTCTGGCCGTGTGTCCCTTGCATCTCAAAATTTGGAAACAGAATACCCAGGTTTTTGCACATGGC
41817594 CTAGCACACAGGCGTTGGGGCTTGGCCGTGTGACCCTTGCATCTTACACACGGCCTAGCACACGG
586 CTAGCACACAGGCGTTGGGGCTTGGCCGTGTGACCCTTGCATCTTACACACGGCCTAGCACACGG
41817659 GCGTGTGGCTTGGCCGTGCGATCCAAGTCAGAGAGTTACACGGGCATGGACATGGGCTAGGACAC
651 GCGTGTGGCTTGGCCGTGCGATCCAAGTCAGAGAGTTACACGGGCATGGACATGGGCTAGGACAC
41817724 GGTTGTGTGTCTCACATCAAATGCCCACACGGCCTAAGACACGGGCGTGTCTCCTGGTCGTGTGA
716 GGTTGTGTGTCTCACATCAAATGCCCACACGGCCTAAGACACGGGCGTGTCTCCTGGTCGTGTGA
41817789 GCCACACGGCTTGGCTACAC
781 GCCACACGGCTTGGCTACAC
41817809 TATAGTAGGTTCAGTAAGATTTTTATTTAAAGCCATCGAACTTATTAAGCTTCCTTTAGCTTACT
1 TATAGTAGGTTCAGTAAGATTTTTATTTAAAGCCATCGAACTTATTAAGCTTCCTTTAGCTTACT
41817874 TGTGTTGTTTAATGTTCTTGTAGATTAACGTGAGGCCGGGAGATCGGATCAACACATCAAGCCAC
66 TGTGTTGTTTAATGTTCTTGTAGATTAACGTGAGGCCGGGAGATCGGATCAACACATCAAGCCAC
41817939 ACTATCCAACTTAATCCAGTAGCTTTTGTAATGAATACTTTAGTTTATATGGCATGTATAGGATT
131 ACTATCCAACTTAATCCAGTAGCTTTTGTAATGAATACTTTAGTTTATATGGCATGTATAGGATT
41818004 TGTGTAGAAATGAAGTACTTAGAAATATAGTTATGAATGATATATGCTTGTATGCATGTAAATTG
196 TGTGTAGAAATGAAGTACTTAGAAATATAGTTATGAATGATATATGCTTGTATGCATGTAAATTG
41818069 TAGTAGATGTTGATAAATCCATAAATAGGTAAGTTTAAGTAATTGAGAATTTGTGATATTATGTT
261 TAGTAGATGTTGATAAATCCATAAATAGGTAAGTTTAAGTAATTGAGAATTTGTGATATTATGTT
41818134 ATGATTAAAACATGATTTTGACTTGTGTTGATTACTTGTTTGGGAAGTATTGATGTATTGAAATG
326 ATGATTAAAACATGATTTTGACTTGTGTTGATTACTTGTTTGGGAAGTATTGATGTATTGAAATG
41818199 TTGTGTATAGGTTTATATCAAAATAGGTGAGAAAAATGGCCTTAAAATGACCTATTTTCATCCAC
391 TTGTGTATAGGTTTATATCAAAATAGGTGAGAAAAATGGCCTTAAAATGACCTATTTTCATCCAC
41818264 ACAGGCAAAGACACGGGCGTGTATCTCAGCTGTGTGTGACACACGGCCTAGCACATGGACGTGTG
456 ACAGGCAAAGACACGGGCGTGTATCTCAGCTGTGTGTGACACACGGCCTAGCACATGGACGTGTG
41818329 GTCTGGCCGTGTGTCCCTTGCATCTCAAAATTTGGAAACAGAATACCCAGGTTTTTGCACATGGC
521 GTCTGGCCGTGTGTCCCTTGCATCTCAAAATTTGGAAACAGAATACCCAGGTTTTTGCACATGGC
41818394 CTAGCACACAGGCGTTGGGGCTTGGCCGTGTGACCCTTGCATCTTACACACGGCCTAGCACACGG
586 CTAGCACACAGGCGTTGGGGCTTGGCCGTGTGACCCTTGCATCTTACACACGGCCTAGCACACGG
41818459 GCGTGTGGCTTGGCCGTGCGATCCAAGTCAGAGAGTTACACGGGCATGGACATGGGCTAGGACAC
651 GCGTGTGGCTTGGCCGTGCGATCCAAGTCAGAGAGTTACACGGGCATGGACATGGGCTAGGACAC
41818524 GGTTGTGTGTCTCACATCAAATGCCCACACGGCCTAAGACACGGGCGTGTCTCCTGGTCGTGTGA
716 GGTTGTGTGTCTCACATCAAATGCCCACACGGCCTAAGACACGGGCGTGTCTCCTGGTCGTGTGA
41818589 GCCACACGGCTTGGCTACAC
781 GCCACACGGCTTGGCTACAC
41818609 GGGCGTGTAT
Statistics
Matches: 800, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
800 800 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (800 bp):
TATAGTAGGTTCAGTAAGATTTTTATTTAAAGCCATCGAACTTATTAAGCTTCCTTTAGCTTACT
TGTGTTGTTTAATGTTCTTGTAGATTAACGTGAGGCCGGGAGATCGGATCAACACATCAAGCCAC
ACTATCCAACTTAATCCAGTAGCTTTTGTAATGAATACTTTAGTTTATATGGCATGTATAGGATT
TGTGTAGAAATGAAGTACTTAGAAATATAGTTATGAATGATATATGCTTGTATGCATGTAAATTG
TAGTAGATGTTGATAAATCCATAAATAGGTAAGTTTAAGTAATTGAGAATTTGTGATATTATGTT
ATGATTAAAACATGATTTTGACTTGTGTTGATTACTTGTTTGGGAAGTATTGATGTATTGAAATG
TTGTGTATAGGTTTATATCAAAATAGGTGAGAAAAATGGCCTTAAAATGACCTATTTTCATCCAC
ACAGGCAAAGACACGGGCGTGTATCTCAGCTGTGTGTGACACACGGCCTAGCACATGGACGTGTG
GTCTGGCCGTGTGTCCCTTGCATCTCAAAATTTGGAAACAGAATACCCAGGTTTTTGCACATGGC
CTAGCACACAGGCGTTGGGGCTTGGCCGTGTGACCCTTGCATCTTACACACGGCCTAGCACACGG
GCGTGTGGCTTGGCCGTGCGATCCAAGTCAGAGAGTTACACGGGCATGGACATGGGCTAGGACAC
GGTTGTGTGTCTCACATCAAATGCCCACACGGCCTAAGACACGGGCGTGTCTCCTGGTCGTGTGA
GCCACACGGCTTGGCTACAC
Found at i:41819788 original size:15 final size:14
Alignment explanation
Indices: 41819765--41819807 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
41819755 CTTATATTCA
41819765 TAATTAATTATAATT
1 TAATTAATTA-AATT
* *
41819780 TATTTAATTAAAAT
1 TAATTAATTAAATT
41819794 TAATTAATTAAATT
1 TAATTAATTAAATT
41819808 ATTAAGCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 15 0.62
15 9 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TAATTAATTAAATT
Found at i:41821725 original size:30 final size:30
Alignment explanation
Indices: 41821670--41821726 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
41821660 CCAACCCAAA
*
41821670 TATATTATGTTATAAAATTATTATATTAAT
1 TATATTATGTTATAAAATAATTATATTAAT
41821700 TATA-TATGTTA-AATAATAATATATATT
1 TATATTATGTTATAA-AATAAT-TATATT
41821727 TATATTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 2 0.08
29 12 0.50
30 10 0.42
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (30 bp):
TATATTATGTTATAAAATAATTATATTAAT
Found at i:41832814 original size:13 final size:13
Alignment explanation
Indices: 41832776--41832815 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
41832766 TTTGTCTGGC
41832776 TAAATGTATGATA
1 TAAATGTATGATA
* *
41832789 TATAGGT-TGATA
1 TAAATGTATGATA
41832801 TAAATGTATGATA
1 TAAATGTATGATA
41832814 TA
1 TA
41832816 TGCGGTTTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (13 bp):
TAAATGTATGATA
Found at i:41833941 original size:46 final size:45
Alignment explanation
Indices: 41833890--41833985 Score: 129
Period size: 46 Copynumber: 2.1 Consensus size: 45
41833880 TGATGAATGA
* * * *
41833890 TATTATGTATTTAATATATTTTTGAAAAATGAAGTGTCGTTAAATT
1 TATTATGTATTTAACATATTATTGAAAAATGAAATATCGTTAAA-T
* *
41833936 TATTATGTATTTAGCATATTATTGAAAAATGAAATATTGTTAAAT
1 TATTATGTATTTAACATATTATTGAAAAATGAAATATCGTTAAAT
41833981 TATTA
1 TATTA
41833986 ATTGAAATGA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 6 0.14
46 38 0.86
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (45 bp):
TATTATGTATTTAACATATTATTGAAAAATGAAATATCGTTAAAT
Found at i:41836442 original size:15 final size:14
Alignment explanation
Indices: 41836419--41836461 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
41836409 CTTATATTCA
41836419 TAATTAATTATAATT
1 TAATTAATTA-AATT
* *
41836434 TATTTAATTAAAAT
1 TAATTAATTAAATT
41836448 TAATTAATTAAATT
1 TAATTAATTAAATT
41836462 ATTAAGCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 15 0.62
15 9 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TAATTAATTAAATT
Found at i:41838379 original size:30 final size:30
Alignment explanation
Indices: 41838324--41838380 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
41838314 CCAACCCAAA
*
41838324 TATATTATGTTATAAAATTATTATATTAAT
1 TATATTATGTTATAAAATAATTATATTAAT
41838354 TATA-TATGTTA-AATAATAATATATATT
1 TATATTATGTTATAA-AATAAT-TATATT
41838381 TATATTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 2 0.08
29 12 0.50
30 10 0.42
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (30 bp):
TATATTATGTTATAAAATAATTATATTAAT
Found at i:41841128 original size:7 final size:7
Alignment explanation
Indices: 41841116--41841147 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
41841106 TTTTACTCTA
41841116 AACCCCG
1 AACCCCG
41841123 AACCCCG
1 AACCCCG
*
41841130 AACCCCT
1 AACCCCG
41841137 AACCCCG
1 AACCCCG
41841144 AACC
1 AACC
41841148 TTGAAGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.31, C:0.56, G:0.09, T:0.03
Consensus pattern (7 bp):
AACCCCG
Found at i:41841278 original size:36 final size:36
Alignment explanation
Indices: 41841229--41841301 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
41841219 GGAGTTACAT
* *
41841229 GTTACAAGCTTGGGGTTCAGGGTTCAAATGTTTGAG
1 GTTACAAGCTTGGGGTTCAGGGCTCAAAGGTTTGAG
* *
41841265 GTTACAAGTTTGGGGTTTAGGGCTCAAAGGTTTGAG
1 GTTACAAGCTTGGGGTTCAGGGCTCAAAGGTTTGAG
41841301 G
1 G
41841302 CTATGGGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.22, C:0.10, G:0.36, T:0.33
Consensus pattern (36 bp):
GTTACAAGCTTGGGGTTCAGGGCTCAAAGGTTTGAG
Found at i:41841325 original size:14 final size:14
Alignment explanation
Indices: 41841294--41841345 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
41841284 GGGCTCAAAG
*
41841294 GTTTGAGGCTATGG-
1 GTTTGAGG-TTTGGA
41841308 GTTTGAGGTTTGGA
1 GTTTGAGGTTTGGA
* *
41841322 GTTTTAGGTTTTGA
1 GTTTGAGGTTTGGA
*
41841336 GTTTGGGGTT
1 GTTTGAGGTT
41841346 CAAGATAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 4 0.12
14 28 0.88
ACGTcount: A:0.12, C:0.02, G:0.40, T:0.46
Consensus pattern (14 bp):
GTTTGAGGTTTGGA
Found at i:41845768 original size:7 final size:7
Alignment explanation
Indices: 41845724--41845750 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
41845714 ATTCTTCTAT
41845724 ATTTTTA
1 ATTTTTA
41845731 ATTTTTA
1 ATTTTTA
41845738 ATTTTTA
1 ATTTTTA
41845745 ATTTTT
1 ATTTTT
41845751 TATATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
ATTTTTA
Found at i:41845784 original size:33 final size:32
Alignment explanation
Indices: 41845721--41845785 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
41845711 AGAATTCTTC
* * *
41845721 TATATTTTTAATTTTTAATTTTTAATTTTTTA
1 TATATTTTTAATTTTAAATTTGTAAGTTTTTA
41845753 TATATTTTTTAATTTTAAAATTTGT-AGTTTTTA
1 TATA-TTTTTAATTTT-AAATTTGTAAGTTTTTA
41845786 GATAACATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 4 0.14
33 18 0.64
34 6 0.21
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (32 bp):
TATATTTTTAATTTTAAATTTGTAAGTTTTTA
Found at i:41848231 original size:26 final size:26
Alignment explanation
Indices: 41848201--41848273 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
41848191 ATTTATTGTT
41848201 TATATAATTAATATTTTAATAATAAA
1 TATATAATTAATATTTTAATAATAAA
* *
41848227 TATATAGTTCAA-ATTAT-A-AATAAA
1 TATATAATT-AATATTTTAATAATAAA
* *
41848251 TAAAT-ATGAATATTTTAATAATA
1 TATATAATTAATATTTTAATAATA
41848274 TAAATATTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
22 2 0.05
23 5 0.14
24 11 0.30
25 5 0.14
26 12 0.32
27 2 0.05
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.42
Consensus pattern (26 bp):
TATATAATTAATATTTTAATAATAAA
Found at i:41852931 original size:13 final size:13
Alignment explanation
Indices: 41852913--41852937 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41852903 CAATCAAATG
41852913 CACACAAAATAAA
1 CACACAAAATAAA
41852926 CACACAAAATAA
1 CACACAAAATAA
41852938 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:41861953 original size:46 final size:46
Alignment explanation
Indices: 41861894--41862051 Score: 246
Period size: 46 Copynumber: 3.4 Consensus size: 46
41861884 TTAGCCCTTG
* * *
41861894 TACTAGCTGGGTGATCATTGTAGT-TCACTATGTGTAGTAAATTTAC
1 TACTAGCTGGGTGACCATTG-AGTCCCACTATATGTAGTAAATTTAC
* *
41861940 TACTAGCTAGGTGACCATTGGGTCCCACTATATGTAGTAAATTTAC
1 TACTAGCTGGGTGACCATTGAGTCCCACTATATGTAGTAAATTTAC
*
41861986 TACTAGCTGGGTGACCATTGGGTCCCACTATATGTAGTAAATTTAC
1 TACTAGCTGGGTGACCATTGAGTCCCACTATATGTAGTAAATTTAC
41862032 TACTAGCTGGGTGACCATTG
1 TACTAGCTGGGTGACCATTG
41862052 TAGTTTCACG
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 2 0.02
46 103 0.98
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (46 bp):
TACTAGCTGGGTGACCATTGAGTCCCACTATATGTAGTAAATTTAC
Found at i:41876537 original size:43 final size:43
Alignment explanation
Indices: 41876465--41876607 Score: 182
Period size: 43 Copynumber: 3.3 Consensus size: 43
41876455 AACGCGCTAA
* * *
41876465 CTTTTGCGGTGCTTACATAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGA-AAAAAAACGCCGCTAAAGATCATGTT
*
41876509 CTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAATGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGATCATGTT
** * *
41876552 CTTTAGCGGCGCTT-GGTAAAAAATGCCGCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGA-TCATGTT
41876594 CTTTAGCGGCGCTT
1 CTTTAGCGGCGCTT
41876608 CATCTACAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.01
42 35 0.39
43 39 0.44
44 14 0.16
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGATCATGTT
Found at i:41883601 original size:113 final size:113
Alignment explanation
Indices: 41882264--41883602 Score: 2563
Period size: 113 Copynumber: 11.8 Consensus size: 113
41882254 TAATAGTGTG
*
41882264 CTTCAGCGGCGTTTTTATAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
*
41882329 TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGTTAATGATCCA
66 TGTTTAACA-TTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
* *
41882378 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTGCTATACCTCAAACTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
* *
41882443 TGTTTAACATTTTTTGCGGCGCTTA-AAAAAAACGCCGCTAATGATACA
66 TGTTTAACA-TTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
** *
41882491 CTTCAGTAGCGTTTTTACAAAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
41882556 TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
66 TGTTTAACA-TTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
41882605 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
41882670 TGTTTAACATTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
66 TGTTTAACATTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
41882718 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
41882783 TGTTTAACATTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
66 TGTTTAACATTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
41882831 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
41882896 TGTTTAACATTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
66 TGTTTAACATTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
41882944 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
41883009 TGTTTAACATTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
66 TGTTTAACATTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
41883057 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
41883122 TGTTTAACATTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
66 TGTTTAACATTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
41883170 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
41883235 TGTTTAACATTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
66 TGTTTAACATTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
41883283 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
41883348 TGTTTAACATTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
66 TGTTTAACATTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
41883396 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
41883461 TGTTTAACATTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
66 TGTTTAACATTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
41883509 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
41883574 TGTTTAACATTTTTGCGGCGCTTACAAAC
66 TGTTTAACATTTTTGCGGCGCTTACAAAC
41883603 GGATTTTTTT
Statistics
Matches: 1208, Mismatches: 16, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
113 1029 0.85
114 179 0.15
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (113 bp):
CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
TGTTTAACATTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
Found at i:41885665 original size:43 final size:43
Alignment explanation
Indices: 41885598--41885795 Score: 215
Period size: 43 Copynumber: 4.6 Consensus size: 43
41885588 TAACTTTTGT
* *
41885598 GGCGCTTACAGAAAAAAACACCGCTAAAGGTCATGTTCTTTAGC
1 GGCGCTTA-GGAAAAAAACACCGCTAAAGATCATGTTCTTTAGC
* *
41885642 GGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTTCTTTAGC
1 GGCGCTTAGGAAAAAAACACCGCTAAAGATCATGTTCTTTAGC
* * * *
41885685 GGCGCTT-GGGAGAAAACACCGCTAAAGAAACATGATCTTTAGC
1 GGCGCTTAGGAAAAAAACACCGCTAAAG-ATCATGTTCTTTAGC
* * * * *
41885728 GGCGTTTA-GAAAAAAACGCCGCTAAA-AGTAATGTTCTATAGT
1 GGCGCTTAGGAAAAAAACACCGCTAAAGA-TCATGTTCTTTAGC
*
41885770 GGCGCTT-GGTAAAAAACACCGCTAAA
1 GGCGCTTAGGAAAAAAACACCGCTAAA
41885796 AGTAGTGCTC
Statistics
Matches: 128, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 47 0.37
43 72 0.56
44 8 0.06
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (43 bp):
GGCGCTTAGGAAAAAAACACCGCTAAAGATCATGTTCTTTAGC
Found at i:41885710 original size:85 final size:85
Alignment explanation
Indices: 41885610--41885795 Score: 250
Period size: 85 Copynumber: 2.2 Consensus size: 85
41885600 CGCTTACAGA
** * * *
41885610 AAAAAACACCGCTAAAG-GTCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCT-AATGATC
1 AAAAAACACCGCTAAAGAAACATGATCTTTAGCGGCGCTTA-GAAAAAAACGCCGCTAAAAG-TA
*
41885673 ATGTTCTTTAGCGGCGCTTGGG
64 ATGTTCTATAGCGGCGCTTGGG
* *
41885695 AGAAAACACCGCTAAAGAAACATGATCTTTAGCGGCGTTTAGAAAAAAACGCCGCTAAAAGTAAT
1 AAAAAACACCGCTAAAGAAACATGATCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAAGTAAT
* *
41885760 GTTCTATAGTGGCGCTTGGT
66 GTTCTATAGCGGCGCTTGGG
41885780 AAAAAACACCGCTAAA
1 AAAAAACACCGCTAAA
41885796 AGTAGTGCTC
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
85 66 0.75
86 22 0.25
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (85 bp):
AAAAAACACCGCTAAAGAAACATGATCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAAGTAAT
GTTCTATAGCGGCGCTTGGG
Done.