Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 148 of 213
Found at i:44435119 original size:20 final size:22
Alignment explanation
Indices: 44435090--44435134 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
44435080 GCGACCCCTA
44435090 TTTTCAAAATT-TTTAATTT-T
1 TTTTCAAAATTCTTTAATTTGT
* *
44435110 TTTTCCAAATTCTTTGATTTGT
1 TTTTCAAAATTCTTTAATTTGT
44435132 TTT
1 TTT
44435135 AAATTAGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 7 0.33
22 4 0.19
ACGTcount: A:0.22, C:0.09, G:0.04, T:0.64
Consensus pattern (22 bp):
TTTTCAAAATTCTTTAATTTGT
Found at i:44435129 original size:21 final size:20
Alignment explanation
Indices: 44435090--44435134 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
44435080 GCGACCCCTA
*
44435090 TTTTCAAAATTTTTAATTTT
1 TTTTCAAAATTTTTAATTTG
* *
44435110 TTTTCCAAATTCTTTGATTTG
1 TTTTCAAAATT-TTTAATTTG
44435131 TTTT
1 TTTT
44435135 AAATTAGTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.22, C:0.09, G:0.04, T:0.64
Consensus pattern (20 bp):
TTTTCAAAATTTTTAATTTG
Found at i:44438296 original size:5 final size:5
Alignment explanation
Indices: 44438286--44438323 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
44438276 AGTTTGTGTG
44438286 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
44438324 ATAAAAAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:44438505 original size:23 final size:23
Alignment explanation
Indices: 44438475--44438522 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
44438465 TGCACATTGG
44438475 GGACAATGTGCAAAATAAAGTGT
1 GGACAATGTGCAAAATAAAGTGT
44438498 GGACAATGTGCAAAATAAAGTGT
1 GGACAATGTGCAAAATAAAGTGT
44438521 GG
1 GG
44438523 GGTGACATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.29, T:0.21
Consensus pattern (23 bp):
GGACAATGTGCAAAATAAAGTGT
Found at i:44444861 original size:28 final size:27
Alignment explanation
Indices: 44444809--44444862 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
44444799 AGACAATTTC
* *
44444809 TTCATAGATTGTCACAAAGGCTTCCTT
1 TTCATAGATTGCCACAAAGCCTTCCTT
*
44444836 TTCATAGATTAGCCACAGAGCCTTCCT
1 TTCATAGATT-GCCACAAAGCCTTCCT
44444863 GCATTTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (27 bp):
TTCATAGATTGCCACAAAGCCTTCCTT
Found at i:44447203 original size:27 final size:27
Alignment explanation
Indices: 44447166--44447282 Score: 117
Period size: 28 Copynumber: 4.2 Consensus size: 27
44447156 AGTCCTTACC
44447166 GACTATCTTTCAAGCAAGTGTCTGTATG
1 GACTAT-TTTCAAGCAAGTGTCTGTATG
* * * *
44447194 GACAATTTTCAAGCAATTGTCCGCATG
1 GACTATTTTCAAGCAAGTGTCTGTATG
* * * **
44447221 GACTATCTTTCAAGAAAGAGTCTGGAAA
1 GACTAT-TTTCAAGCAAGTGTCTGTATG
*
44447249 GACTATTCTTCAAGCAAGTGCCTGTATG
1 GACTATT-TTCAAGCAAGTGTCTGTATG
44447277 GACTAT
1 GACTAT
44447283 CTGTAACACC
Statistics
Matches: 69, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
27 24 0.35
28 45 0.65
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (27 bp):
GACTATTTTCAAGCAAGTGTCTGTATG
Found at i:44449090 original size:20 final size:20
Alignment explanation
Indices: 44449062--44449109 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
44449052 AAAACACACT
44449062 AGAGAGCATCAAAATGCCA-AC
1 AGAG-GCATCAAAATG-CATAC
* *
44449083 AGAGGCATCGAAGTGCATAC
1 AGAGGCATCAAAATGCATAC
44449103 AGAGGCA
1 AGAGGCA
44449110 CTAAAGTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 18 0.75
21 4 0.17
ACGTcount: A:0.42, C:0.21, G:0.27, T:0.10
Consensus pattern (20 bp):
AGAGGCATCAAAATGCATAC
Found at i:44459589 original size:29 final size:29
Alignment explanation
Indices: 44459480--44459592 Score: 81
Period size: 29 Copynumber: 3.9 Consensus size: 29
44459470 CAAATTTTCG
44459480 TAAAAGTG-AGCA-TTGTGGCTATCTCTGT
1 TAAAA-TGAAGCATTTGTGGCTATCTCTGT
* * * *
44459508 TACACA-GAAACCTTTGTGGCAATC-CTTGT
1 TA-AAATGAAGCATTTGTGGCTATCTC-TGT
** * * * *
44459537 TAAAAAAAAGCCTTTCTAGTTATCTCTGT
1 TAAAATGAAGCATTTGTGGCTATCTCTGT
44459566 TAAAATGAAGCATTTGTGGCTATCTCT
1 TAAAATGAAGCATTTGTGGCTATCTCT
44459593 AGTAAATAGA
Statistics
Matches: 62, Mismatches: 17, Indels: 11
0.69 0.19 0.12
Matches are distributed among these distances:
27 1 0.02
28 7 0.11
29 53 0.85
30 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (29 bp):
TAAAATGAAGCATTTGTGGCTATCTCTGT
Found at i:44459745 original size:29 final size:29
Alignment explanation
Indices: 44459492--44459833 Score: 75
Period size: 29 Copynumber: 11.7 Consensus size: 29
44459482 AAAGTGAGCA
*
44459492 TTGTGGCTATCTCTGTTACACA-GAA-ACCT
1 TTGTGGCTATCTCTGTTA-A-AGGAATGCCT
* ** *
44459521 TTGTGGCAATC-CTTGTTAAAAAAAAGCCT
1 TTGTGGCTATCTC-TGTTAAAGGAATGCCT
* * * * *
44459550 TTCTAGTTATCTCTGTTAAAATGAA-GCAT
1 TTGTGGCTATCTCTGTT-AAAGGAATGCCT
* *
44459579 TTGTGGCTATCTCTAG-TAAATAGAA-GACT
1 TTGTGGCTATCTCT-GTTAAA-GGAATGCCT
* *
44459608 TTGTTG-TGATCTCTATTAAATGGAA-GCCT
1 TTGTGGCT-ATCTCTGTTAAA-GGAATGCCT
** * * *
44459637 TTGT-AATAATATCTTTTAAAAGCAATGCCT
1 TTGTGGCT-ATCTCTGTT-AAAGGAATGCCT
* * * *
44459667 TTGAGGCGATACTCTG--AAGGGAAAGCCT
1 TTGTGGCTAT-CTCTGTTAAAGGAATGCCT
* *
44459695 TTGTGGCAAGTATTTAATGTTAAAGGAATGCCT
1 TTGTGGC---TATCT-CTGTTAAAGGAATGCCT
* * *
44459728 TTGTGGCTATCTCTGTTAAA-AAGATTCAT
1 TTGTGGCTATCTCTGTTAAAGGA-ATGCCT
* * * *
44459757 TTGTGGTTATCTATGTGAAAAAGACAT--CT
1 TTGTGGCTATCTCTGT-TAAAGGA-ATGCCT
* * *
44459786 TTGTGGCTATCTATATTAAAGG-ATGCCA
1 TTGTGGCTATCTCTGTTAAAGGAATGCCT
* * *
44459814 TTGTGGTTGTCTCTATTAAA
1 TTGTGGCTATCTCTGTTAAA
44459834 TGGATGTCTT
Statistics
Matches: 229, Mismatches: 59, Indels: 51
0.68 0.17 0.15
Matches are distributed among these distances:
26 2 0.01
27 1 0.00
28 46 0.20
29 126 0.55
30 27 0.12
31 10 0.04
33 17 0.07
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (29 bp):
TTGTGGCTATCTCTGTTAAAGGAATGCCT
Found at i:44459912 original size:28 final size:28
Alignment explanation
Indices: 44459858--44459913 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
44459848 GTTAGACTTT
* * *
44459858 GAAAGGAAAGCCTCTTTGGCTATTTTTG
1 GAAAGAAAAGCCTCTTTGGCGAATTTTG
44459886 GAAAGAAAAGCCT-TTGTGGCGAATTTTG
1 GAAAGAAAAGCCTCTT-TGGCGAATTTTG
44459914 AAGAACGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (28 bp):
GAAAGAAAAGCCTCTTTGGCGAATTTTG
Found at i:44461390 original size:22 final size:21
Alignment explanation
Indices: 44461358--44461429 Score: 64
Period size: 22 Copynumber: 3.6 Consensus size: 21
44461348 TATTCCTAGC
*
44461358 AGGCTTAGTGCCGGTGTTATTT
1 AGGCTTTGTGCC-GTGTTATTT
*
44461380 AGGCTTTGTGCC----TA-AT
1 AGGCTTTGTGCCGTGTTATTT
*
44461396 AGGCTTTGTGTCAGTGTTATTT
1 AGGCTTTGTG-CCGTGTTATTT
44461418 AGGCTTTGTGCC
1 AGGCTTTGTGCC
44461430 TAGCACGCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 13
0.68 0.09 0.23
Matches are distributed among these distances:
16 11 0.28
17 3 0.08
21 3 0.08
22 22 0.56
ACGTcount: A:0.14, C:0.15, G:0.29, T:0.42
Consensus pattern (21 bp):
AGGCTTTGTGCCGTGTTATTT
Found at i:44461434 original size:76 final size:76
Alignment explanation
Indices: 44461299--44461450 Score: 198
Period size: 76 Copynumber: 2.0 Consensus size: 76
44461289 ATTATATTGA
* * * *
44461299 TATTCAGGATTTGTGCCTAGCAGGCTTTGTGCTGGTGTTATTCAGGCTTTATTCCTAGCAGGCTT
1 TATTCAGGATTTGTGCCTAACAGGCTTTGTGCTAGTGTTATTCAGGCTTTATGCCTAGCACGCTT
*
44461364 AGTGCCGGTGT
66 AGTGCCAGTGT
* * * * *
44461375 TATTTAGGCTTTGTGCCTAATAGGCTTTGTG-TCAGTGTTATTTAGGCTTTGTGCCTAGCACGCT
1 TATTCAGGATTTGTGCCTAACAGGCTTTGTGCT-AGTGTTATTCAGGCTTTATGCCTAGCACGCT
44461439 TAGTGCCAGTGT
65 TAGTGCCAGTGT
44461451 ATTAAAAAGT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
75 1 0.02
76 64 0.98
ACGTcount: A:0.15, C:0.18, G:0.28, T:0.39
Consensus pattern (76 bp):
TATTCAGGATTTGTGCCTAACAGGCTTTGTGCTAGTGTTATTCAGGCTTTATGCCTAGCACGCTT
AGTGCCAGTGT
Found at i:44461449 original size:38 final size:38
Alignment explanation
Indices: 44461299--44461450 Score: 178
Period size: 38 Copynumber: 4.0 Consensus size: 38
44461289 ATTATATTGA
* * **
44461299 TATTCAGGATTTGTGCCTAGCAGGCTTTGTGCTGGTGT
1 TATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGT
* * *
44461337 TATTCAGGCTTTATTCCTAGCAGGCTTAGTGCCGGTGT
1 TATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGT
* ** * *
44461375 TATTTAGGCTTTGTGCCTAATAGGCTTTGTGTCAGTGT
1 TATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGT
* *
44461413 TATTTAGGCTTTGTGCCTAGCACGCTTAGTGCCAGTGT
1 TATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGT
44461451 ATTAAAAAGT
Statistics
Matches: 96, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 96 1.00
ACGTcount: A:0.15, C:0.18, G:0.28, T:0.39
Consensus pattern (38 bp):
TATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGT
Found at i:44464705 original size:30 final size:32
Alignment explanation
Indices: 44464659--44464719 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 32
44464649 AATTTGTCCT
44464659 TTTAACTCTTCTAAAAATAATAAA-ATTTTAA
1 TTTAACTCTTCTAAAAATAATAAAGATTTTAA
* *
44464690 TTTAA-TCTTTTAAAAATTATAAAGATTTTA
1 TTTAACTCTTCTAAAAATAATAAAGATTTTA
44464720 GCCCCTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (32 bp):
TTTAACTCTTCTAAAAATAATAAAGATTTTAA
Found at i:44475091 original size:18 final size:19
Alignment explanation
Indices: 44475070--44475105 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
44475060 TTCTTATAAT
44475070 TATAT-ATAAAATTTAAAA
1 TATATAATAAAATTTAAAA
*
44475088 TATATAATAAGATTTAAA
1 TATATAATAAAATTTAAA
44475106 CTCAATACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
TATATAATAAAATTTAAAA
Found at i:44478527 original size:8 final size:9
Alignment explanation
Indices: 44478499--44478606 Score: 60
Period size: 9 Copynumber: 11.4 Consensus size: 9
44478489 ACAGGTAATT
44478499 AATTTCTAAA
1 AATTT-TAAA
44478509 AATTTTAAA
1 AATTTTAAA
44478518 AATTTTAAA
1 AATTTTAAA
*
44478527 AATATATAAA
1 AAT-TTTAAA
*
44478537 TTATTTTAAA
1 -AATTTTAAA
*
44478547 AA-ATTAAA
1 AATTTTAAA
44478555 AATTATTTAAA
1 AA-T-TTTAAA
* *
44478566 AA--GTACA
1 AATTTTAAA
*
44478573 AATTATAAA
1 AATTTTAAA
*
44478582 TATATATTTTAA
1 -A-AT-TTTAAA
44478594 AATTTTAAA
1 AATTTTAAA
44478603 AATT
1 AATT
44478607 AATTAATTGC
Statistics
Matches: 75, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
7 5 0.07
8 7 0.09
9 29 0.39
10 18 0.24
11 12 0.16
12 4 0.05
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.42
Consensus pattern (9 bp):
AATTTTAAA
Found at i:44478528 original size:19 final size:19
Alignment explanation
Indices: 44478499--44478567 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 19
44478489 ACAGGTAATT
44478499 AATTTCTAAAAATTTT-AAA
1 AATTT-TAAAAATTTTAAAA
* *
44478518 AATTTTAAAAATATATAAAT
1 AATTTTAAAAAT-TTTAAAA
* *
44478538 TATTTTAAAAA-ATTAAAA
1 AATTTTAAAAATTTTAAAA
*
44478556 ATTATTTAAAAA
1 AAT-TTTAAAAA
44478568 GTACAAATTA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
18 12 0.31
19 15 0.38
20 12 0.31
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTTTAAAAATTTTAAAA
Found at i:44478544 original size:20 final size:20
Alignment explanation
Indices: 44478519--44478567 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
44478509 AATTTTAAAA
*
44478519 ATTTT-AAAAATATATAAATT
1 ATTTTAAAAAAT-TAAAAATT
44478539 ATTTTAAAAAATTAAAAATT
1 ATTTTAAAAAATTAAAAATT
44478559 A-TTTAAAAA
1 ATTTTAAAAA
44478568 GTACAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 8 0.30
20 13 0.48
21 6 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTTTAAAAAATTAAAAATT
Found at i:44481026 original size:42 final size:41
Alignment explanation
Indices: 44480914--44481041 Score: 114
Period size: 44 Copynumber: 3.0 Consensus size: 41
44480904 TTCCGATATG
* *
44480914 TGATTTCGTGTAAGACCAC-GTCTGGGACGTTGGCATCGATT
1 TGATTTCGTGTAAGACC-CTGTCTGGGACATTGGCATCGATA
* * *
44480955 TGAGATTTACATGTAAGACCATGTTTGGGACATTGGCATCGTATA
1 T--GATTT-CGTGTAAGACCCTGTCTGGGACATTGGCATCG-ATA
* * * * *
44481000 TGATTTTGTGTAAGACCCTATCTGGGATAGTGACATCGATA
1 TGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATCGATA
44481041 T
1 T
44481042 TTGATTACAT
Statistics
Matches: 69, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
41 5 0.07
42 24 0.35
43 10 0.14
44 27 0.39
45 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATCGATA
Found at i:44492271 original size:40 final size:40
Alignment explanation
Indices: 44492218--44492529 Score: 545
Period size: 40 Copynumber: 7.8 Consensus size: 40
44492208 CAGCCGCAAA
* * * *
44492218 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
44492258 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCATC-CG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
44492297 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
44492337 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
44492377 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
44492417 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
44492457 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
44492497 CATAATTGCCTTCGGGTCTTAGCCCGGATATAT
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATAT
44492530 TCCAATGTTC
Statistics
Matches: 259, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 37 0.14
40 222 0.86
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (40 bp):
CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
Found at i:44501179 original size:40 final size:40
Alignment explanation
Indices: 44501126--44501326 Score: 332
Period size: 40 Copynumber: 5.0 Consensus size: 40
44501116 CAGCCGCAAA
* * * *
44501126 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
44501166 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCATC-CG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
44501205 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
44501245 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
44501285 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
44501325 CA
1 CA
44501327 ATGCCTCCCC
Statistics
Matches: 151, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 37 0.25
40 114 0.75
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
Found at i:44501231 original size:79 final size:80
Alignment explanation
Indices: 44501126--44501326 Score: 332
Period size: 79 Copynumber: 2.5 Consensus size: 80
44501116 CAGCCGCAAA
* * * *
44501126 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCGCATAATTGCCTTCGGGTCTTAGCCC
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
*
44501191 GGATATATCATC-CG
66 GGATATATCAACTCG
*
44501205 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
44501270 GGATATATCAACTCG
66 GGATATATCAACTCG
*
44501285 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCGCA
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCA
44501327 ATGCCTCCCC
Statistics
Matches: 113, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
79 71 0.63
80 42 0.37
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (80 bp):
CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
GGATATATCAACTCG
Found at i:44501434 original size:40 final size:40
Alignment explanation
Indices: 44501379--44501471 Score: 186
Period size: 40 Copynumber: 2.3 Consensus size: 40
44501369 GTCACTCGCA
44501379 AGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTT
1 AGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTT
44501419 AGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTT
1 AGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTT
44501459 AGCCCGGATATAT
1 AGCCCGGATATAT
44501472 TCCAATGTTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (40 bp):
AGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTT
Found at i:44510126 original size:40 final size:40
Alignment explanation
Indices: 44510073--44510464 Score: 669
Period size: 40 Copynumber: 9.8 Consensus size: 40
44510063 CAGCCGCAAA
* * * *
44510073 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
44510113 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCCCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
44510153 CATAATTGCCTTC-GGTCATAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
44510192 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
44510232 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
44510272 CATAATTGCCTTCGGGTCATAACCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
44510312 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
44510352 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
44510392 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
44510432 CATAATTGCCTTCGGGTCTTAGCCCGGATATAT
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATAT
44510465 TCCAATGTTC
Statistics
Matches: 331, Mismatches: 20, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
39 36 0.11
40 295 0.89
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
Found at i:44514500 original size:28 final size:27
Alignment explanation
Indices: 44514435--44514504 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
44514425 TTTAATAGTA
*
44514435 ACAGTACAGTATGGGCCTTAGCCCATT
1 ACAGTACAGTATGGGCCTAAGCCCATT
* * *
44514462 ACAGAAACAGTGTGGGCCTAAGCCTGA-T
1 ACAG-TACAGTATGGGCCTAAGCC-CATT
44514490 ACAGTATCAGTATGG
1 ACAGTA-CAGTATGG
44514505 TGCAAGTATG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
27 5 0.15
28 28 0.82
29 1 0.03
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (27 bp):
ACAGTACAGTATGGGCCTAAGCCCATT
Found at i:44514740 original size:32 final size:32
Alignment explanation
Indices: 44514700--44514884 Score: 255
Period size: 32 Copynumber: 5.8 Consensus size: 32
44514690 ATAAGTACAG
* *
44514700 TAATATGATTGGCACAAAGCCATCAGTAGC-A
1 TAATATGATCGGCACAAAGCCATCAGTAACGA
* * * *
44514731 GTGATATGATCGGCACACAGCCATCAGTAATGG
1 -TAATATGATCGGCACAAAGCCATCAGTAACGA
* *
44514764 TAATATGATCGGTACAAAGCCATCAATAACGA
1 TAATATGATCGGCACAAAGCCATCAGTAACGA
*
44514796 TAATATGATCGGCACAAAACCATCAGTAACGA
1 TAATATGATCGGCACAAAGCCATCAGTAACGA
44514828 TAATATGATCGGCACAAAGCCATCAGTAACGA
1 TAATATGATCGGCACAAAGCCATCAGTAACGA
* *
44514860 TATTATGATCGACACAAAGCCATCA
1 TAATATGATCGGCACAAAGCCATCA
44514885 ATAGCATCGC
Statistics
Matches: 134, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
32 134 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (32 bp):
TAATATGATCGGCACAAAGCCATCAGTAACGA
Found at i:44515090 original size:24 final size:23
Alignment explanation
Indices: 44515063--44515117 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
44515053 GCTCAGAATT
*
44515063 AGTCATTCAAATCACAGATAAATC
1 AGTCATTCAAA-CACAGACAAATC
*
44515087 AGTCATACCAAACACAGACAAATC
1 AGTCAT-TCAAACACAGACAAATC
44515111 AGTCATT
1 AGTCATT
44515118 TGACCTCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.45, C:0.24, G:0.09, T:0.22
Consensus pattern (23 bp):
AGTCATTCAAACACAGACAAATC
Found at i:44515187 original size:27 final size:27
Alignment explanation
Indices: 44515153--44515495 Score: 402
Period size: 27 Copynumber: 12.7 Consensus size: 27
44515143 TTATCTACCA
*
44515153 GGGCATTACAGTCATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
* *
44515180 GGGTATTACGGTCATTTTACCCTACAA
1 GGGCATTACGGTCATTTTACCCTACAG
* * **
44515207 GAGTATTACGGTCATTTTACAGTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
* *
44515234 GGGCATTACGGTCATTTTACCATATA-
1 GGGCATTACGGTCATTTTACCCTACAG
** * *
44515260 GGTTATTACAGTTATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
* * *
44515287 GGGCACTATGGTCATTTTACCCTATAG
1 GGGCATTACGGTCATTTTACCCTACAG
*
44515314 GGGCATTACGGTCATTTTACCCTACAA
1 GGGCATTACGGTCATTTTACCCTACAG
* * * * *
44515341 GGGTATTATGATTATTTTACCTTACA-
1 GGGCATTACGGTCATTTTACCCTACAG
*
44515367 TGGCTATTACGGTCATTTTACCCTACAG
1 GGGC-ATTACGGTCATTTTACCCTACAG
*
44515395 GGGCATTATGGTCATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
*
44515422 GGGCATTACGGTCATTTTACCTTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
* *
44515449 GGGCATTACGGTCATTTTACCTTATAG
1 GGGCATTACGGTCATTTTACCCTACAG
* *
44515476 GGGTATTACGGTTATTTTAC
1 GGGCATTACGGTCATTTTAC
44515496 AACATTTTCG
Statistics
Matches: 266, Mismatches: 47, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
26 22 0.08
27 241 0.91
28 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GGGCATTACGGTCATTTTACCCTACAG
Found at i:44526536 original size:26 final size:23
Alignment explanation
Indices: 44526498--44526573 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 23
44526488 TATAGTAAAA
*
44526498 TTTATTTATATAAATATGACATAT
1 TTTAATTATATAAATATGA-ATAT
*
44526522 TTTAACTTAGTATAAAATTATGAATGT
1 TTTAA-TTA-TAT-AAA-TATGAATAT
44526549 TTTAATTATATAAATAT-AAGTAT
1 TTTAATTATATAAATATGAA-TAT
44526572 TT
1 TT
44526574 GTTTAAATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
22 2 0.05
23 7 0.16
24 7 0.16
25 6 0.14
26 6 0.14
27 11 0.25
28 5 0.11
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (23 bp):
TTTAATTATATAAATATGAATAT
Found at i:44527048 original size:28 final size:28
Alignment explanation
Indices: 44527008--44527067 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
44526998 AAAAATTAAG
44527008 TTATTTTCTAGAAATTATTTTTCGAAAA
1 TTATTTTCTAGAAATTATTTTTCGAAAA
*
44527036 TTATTTTCTAGAAATTATTTTTCGAAAG
1 TTATTTTCTAGAAATTATTTTTCGAAAA
44527064 TTAT
1 TTAT
44527068 ATTCAGTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.07, G:0.08, T:0.52
Consensus pattern (28 bp):
TTATTTTCTAGAAATTATTTTTCGAAAA
Found at i:44527057 original size:15 final size:15
Alignment explanation
Indices: 44527011--44527058 Score: 73
Period size: 14 Copynumber: 3.3 Consensus size: 15
44527001 AATTAAGTTA
44527011 TTTTCTAGAAATTAT
1 TTTTCTAGAAATTAT
*
44527026 TTTTCGA-AAATTA-
1 TTTTCTAGAAATTAT
44527039 TTTTCTAGAAATTAT
1 TTTTCTAGAAATTAT
44527054 TTTTC
1 TTTTC
44527059 GAAAGTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 6 0.21
14 12 0.41
15 11 0.38
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.54
Consensus pattern (15 bp):
TTTTCTAGAAATTAT
Found at i:44528302 original size:5 final size:5
Alignment explanation
Indices: 44528292--44528329 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
44528282 AATACTAATA
44528292 ATTAT ATTAT ATTAT ATTTAT ATGT-T ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT A-TTAT AT-TAT ATTAT ATTAT AT
44528330 AAATAGATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 1 0.03
5 23 0.77
6 6 0.20
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (5 bp):
ATTAT
Found at i:44528314 original size:16 final size:15
Alignment explanation
Indices: 44528292--44528329 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
44528282 AATACTAATA
44528292 ATTATAT-TATATTAT
1 ATTATATGT-TATTAT
44528307 ATTTATATGTTATTAT
1 A-TTATATGTTATTAT
44528323 ATTATAT
1 ATTATAT
44528330 AAATAGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.33
16 13 0.62
17 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
ATTATATGTTATTAT
Found at i:44534104 original size:102 final size:103
Alignment explanation
Indices: 44533929--44534190 Score: 393
Period size: 102 Copynumber: 2.6 Consensus size: 103
44533919 AACTGTTATC
* * **
44533929 GGTGGATTCCGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGG
1 GGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCAGGGG
* *
44533994 AATCAGCACTTAGCAACCCCC-TTCACATTTCAGAT-G
66 AATCAGCACTTAGCAACCCCCTTTCACATTTAAAATAG
* * * * **
44534030 CGGTGGAATTAGCACTTAGCAACCACTAATGAATAGGGGAATCAACACTTAGCAACCCCTCAGGG
1 -GGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCAGGG
44534095 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATAG
65 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATAG
44534134 GGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCC
1 GGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCC
44534191 TTTTATATGC
Statistics
Matches: 140, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
102 76 0.54
103 63 0.45
104 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (103 bp):
GGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCAGGGG
AATCAGCACTTAGCAACCCCCTTTCACATTTAAAATAG
Found at i:44534105 original size:27 final size:27
Alignment explanation
Indices: 44534064--44534115 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
44534054 ACTAATGAAT
44534064 AGGGGAATCAACACTTAGCAACCCCTC
1 AGGGGAATCAACACTTAGCAACCCCTC
*
44534091 AGGGGAATCAGCACTTAGCAACCCC
1 AGGGGAATCAACACTTAGCAACCCC
44534116 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.21, T:0.13
Consensus pattern (27 bp):
AGGGGAATCAACACTTAGCAACCCCTC
Found at i:44535228 original size:21 final size:21
Alignment explanation
Indices: 44535204--44535253 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
44535194 GAAATAGCTC
44535204 GCCCGACGTATGTGACACCCT
1 GCCCGACGTATGTGACACCCT
*
44535225 GCCCAACGTATGTGACACCCT
1 GCCCGACGTATGTGACACCCT
*
44535246 GCTCGACG
1 GCCCGACG
44535254 AAGCCTTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.38, G:0.24, T:0.18
Consensus pattern (21 bp):
GCCCGACGTATGTGACACCCT
Found at i:44539691 original size:26 final size:28
Alignment explanation
Indices: 44539625--44539696 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
44539615 GTTTCTGTTA
44539625 AAGGAATGCCTTTGTGGTAAATCTCTAAT
1 AAGGAATGCCTTTGTGGTAAA-CTCTAAT
*
44539654 AAGGAATACCTTTGTGGT-AA-TCT-AT
1 AAGGAATGCCTTTGTGGTAAACTCTAAT
44539679 AAGGAGATGCCTTTGTGG
1 AAGGA-ATGCCTTTGTGG
44539697 CACAACGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.17
26 14 0.35
28 2 0.05
29 17 0.43
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (28 bp):
AAGGAATGCCTTTGTGGTAAACTCTAAT
Found at i:44539774 original size:29 final size:29
Alignment explanation
Indices: 44539732--44539872 Score: 156
Period size: 29 Copynumber: 4.9 Consensus size: 29
44539722 TTAATTTTCA
* * **
44539732 TAAAACAATGCCTTTGTGGTGATCTCTAT
1 TAAAAGAAAGCCTTTGTGGCAATCTCTAT
* *
44539761 TAAAAGGAAGCCTTTGTGACAATCTCTAT
1 TAAAAGAAAGCCTTTGTGGCAATCTCTAT
* * * *
44539790 TAAAAGGAAGCCTTTGTGACGATCTCTGT
1 TAAAAGAAAGCCTTTGTGGCAATCTCTAT
* * * *
44539819 TAAAATAAAGCCTTTGTGGTAATATCTTT
1 TAAAAGAAAGCCTTTGTGGCAATCTCTAT
44539848 TAAAAGAAAGCCTTTGTGGCAATCT
1 TAAAAGAAAGCCTTTGTGGCAATCT
44539873 TTGTCAAAGG
Statistics
Matches: 94, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (29 bp):
TAAAAGAAAGCCTTTGTGGCAATCTCTAT
Found at i:44539822 original size:58 final size:58
Alignment explanation
Indices: 44539732--44539893 Score: 173
Period size: 58 Copynumber: 2.8 Consensus size: 58
44539722 TTAATTTTCA
* * * * *
44539732 TAAAACAATGCCTTTGTGGTGATCTCTATTAAAAGGAAGCCTTTGTGACAATCTCTAT
1 TAAAAGAAAGCCTTTGTGGCGATCTCTGTTAAAAGGAAGCCTTTGTGACAATATCTAT
* * ** ** *
44539790 TAAAAGGAAGCCTTTGTGACGATCTCTGTTAAAATAAAGCCTTTGTGGTAATATCTTT
1 TAAAAGAAAGCCTTTGTGGCGATCTCTGTTAAAAGGAAGCCTTTGTGACAATATCTAT
* * * *
44539848 TAAAAGAAAGCCTTTGTGGCAATCTTTG-TCAAAGGATGCCTTTGTG
1 TAAAAGAAAGCCTTTGTGGCGATCTCTGTTAAAAGGAAGCCTTTGTG
44539894 GCGAGACTCT
Statistics
Matches: 84, Mismatches: 20, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
57 14 0.17
58 70 0.83
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (58 bp):
TAAAAGAAAGCCTTTGTGGCGATCTCTGTTAAAAGGAAGCCTTTGTGACAATATCTAT
Found at i:44539835 original size:87 final size:86
Alignment explanation
Indices: 44539732--44539893 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 86
44539722 TTAATTTTCA
* * * *
44539732 TAAAACAATGCCTTTGTGGTGATCTCTATTAAAAGGAAGCCTTTGTGACAATCTCTAT-TAAAAG
1 TAAAACAAAGCCTTTGTGGTAATATCTATTAAAAGAAAGCCTTTGTGACAATCT-T-TGTAAAAG
44539796 GAAGCCTTTGTGACGATCTCTGT
64 GAAGCCTTTGTGACGATCTCTGT
* * * *
44539819 TAAAATAAAGCCTTTGTGGTAATATCTTTTAAAAGAAAGCCTTTGTGGCAATCTTTGTCAAAGGA
1 TAAAACAAAGCCTTTGTGGTAATATCTATTAAAAGAAAGCCTTTGTGACAATCTTTGTAAAAGGA
*
44539884 TGCCTTTGTG
66 AGCCTTTGTG
44539894 GCGAGACTCT
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 1 0.02
86 17 0.26
87 47 0.72
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (86 bp):
TAAAACAAAGCCTTTGTGGTAATATCTATTAAAAGAAAGCCTTTGTGACAATCTTTGTAAAAGGA
AGCCTTTGTGACGATCTCTGT
Found at i:44554063 original size:21 final size:20
Alignment explanation
Indices: 44554034--44554075 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
44554024 GTGTCTTAAT
44554034 GGTGTGGTGCGA-TAGGCAAG
1 GGTGTGGTGCGAGTA-GCAAG
44554054 GGTGTTGGTGCGAGTAGCAAG
1 GGTG-TGGTGCGAGTAGCAAG
44554075 G
1 G
44554076 CAGCAGCGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 14 0.70
22 2 0.10
ACGTcount: A:0.19, C:0.10, G:0.50, T:0.21
Consensus pattern (20 bp):
GGTGTGGTGCGAGTAGCAAG
Found at i:44554657 original size:16 final size:15
Alignment explanation
Indices: 44554632--44554665 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
44554622 AAAGTTGATA
*
44554632 ATAATTAATATATATT
1 ATAATAAATATA-ATT
44554648 ATAATAAATATAATT
1 ATAATAAATATAATT
44554663 ATA
1 ATA
44554666 TACTAGTTAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:44564327 original size:22 final size:23
Alignment explanation
Indices: 44564293--44564338 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
44564283 TCTGTCAAAA
44564293 ATTATAAAAATTAATCAAAATTT
1 ATTATAAAAATTAATCAAAATTT
*
44564316 ATTAT-AAAATTAATGAAAATTT
1 ATTATAAAAATTAATCAAAATTT
44564338 A
1 A
44564339 AAACGTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTATAAAAATTAATCAAAATTT
Found at i:44566986 original size:18 final size:18
Alignment explanation
Indices: 44566963--44566998 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
44566953 TGTTAACACG
*
44566963 AAAGTGTTATTGCAGTCA
1 AAAGTGTTATTACAGTCA
44566981 AAAGTGTTATTACAGTCA
1 AAAGTGTTATTACAGTCA
44566999 TTGACACTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.33
Consensus pattern (18 bp):
AAAGTGTTATTACAGTCA
Found at i:44574895 original size:18 final size:18
Alignment explanation
Indices: 44574874--44574908 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44574864 TGCAGAAGCA
44574874 GAAGTTGTTGTAGAAGAG
1 GAAGTTGTTGTAGAAGAG
*
44574892 GAAGTTGTTGTTGAAGA
1 GAAGTTGTTGTAGAAGA
44574909 AAAGAAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.37, T:0.31
Consensus pattern (18 bp):
GAAGTTGTTGTAGAAGAG
Found at i:44574903 original size:21 final size:21
Alignment explanation
Indices: 44574877--44574918 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44574867 AGAAGCAGAA
* * *
44574877 GTTGTTGTAGAAGAGGAAGTT
1 GTTGTTGAAGAAAAGAAAGTT
44574898 GTTGTTGAAGAAAAGAAAGTT
1 GTTGTTGAAGAAAAGAAAGTT
44574919 ATTGAAAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.31
Consensus pattern (21 bp):
GTTGTTGAAGAAAAGAAAGTT
Found at i:44575345 original size:17 final size:17
Alignment explanation
Indices: 44575320--44575353 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44575310 GATAAGTATA
* *
44575320 CATTTTCATTGCATTTT
1 CATTGTCATTACATTTT
44575337 CATTGTCATTACATTTT
1 CATTGTCATTACATTTT
44575354 AGTGTTAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.56
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:44582340 original size:144 final size:144
Alignment explanation
Indices: 44582081--44582511 Score: 740
Period size: 144 Copynumber: 3.0 Consensus size: 144
44582071 GAGACCTTTC
* * *
44582081 CTATTGCTGAAAGATTGGTAAGTCAAAC-AAAAAGATGAGGATGAGGAAGAAGGATTTTGAGAAG
1 CTATTGCTGAAGGATTGGTAAGTCAAACAAAAAAGAGGAAGATGAGGAAGAAGGATTTTGAGAAG
*
44582145 CCTTTTCCTTGGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTGATCTTACTTATGTTGTTAA
66 CCTTTTCCTTAGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTGATCTTACTTATGTTGTTAA
44582210 CTTCCATCAAACAT
131 CTTCCATCAAACAT
* *
44582224 CTATTGCTGAAGGATTGGTAAGTCAAACAAAAAAGAGGAAGATGACGAAGGAGGATTTTGAGAAG
1 CTATTGCTGAAGGATTGGTAAGTCAAACAAAAAAGAGGAAGATGAGGAAGAAGGATTTTGAGAAG
* *
44582289 CCTTTTCCCTAGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTTATCTTACTTATGTTGTTAA
66 CCTTTTCCTTAGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTGATCTTACTTATGTTGTTAA
44582354 CTTCCATCAAACAT
131 CTTCCATCAAACAT
* *
44582368 CTATTGCTAAAGGATTGGTACA-TCAAACAAAAGAGAGGAAGATGAGGAAGAAGGATTTTGAGAA
1 CTATTGCTGAAGGATTGGTA-AGTCAAACAAAAAAGAGGAAGATGAGGAAGAAGGATTTTGAGAA
*
44582432 GTCTTTTCCTTAGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTGATCTTACTTATGTTGTTA
65 GCCTTTTCCTTAGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTGATCTTACTTATGTTGTTA
44582497 ACTTCCATCAAACAT
130 ACTTCCATCAAACAT
44582512 TTATGAGGAA
Statistics
Matches: 271, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
143 27 0.10
144 243 0.90
145 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (144 bp):
CTATTGCTGAAGGATTGGTAAGTCAAACAAAAAAGAGGAAGATGAGGAAGAAGGATTTTGAGAAG
CCTTTTCCTTAGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTGATCTTACTTATGTTGTTAA
CTTCCATCAAACAT
Found at i:44585715 original size:25 final size:25
Alignment explanation
Indices: 44585687--44585734 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
44585677 AGGCATTCTG
*
44585687 GATAACACACCACATAGGCTCTTAT
1 GATAACACACCACAAAGGCTCTTAT
***
44585712 GATAGTTCACCACAAAGGCTCTT
1 GATAACACACCACAAAGGCTCTT
44585735 CGAATAATTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (25 bp):
GATAACACACCACAAAGGCTCTTAT
Found at i:44585745 original size:25 final size:25
Alignment explanation
Indices: 44585694--44585781 Score: 99
Period size: 25 Copynumber: 3.5 Consensus size: 25
44585684 CTGGATAACA
* * *
44585694 CACCACATAGGCTCTTATG-ATAGTT
1 CACCACAAAGGCTCTT-CGAATAATT
44585719 CACCACAAAGGCTCTTCGAATAATT
1 CACCACAAAGGCTCTTCGAATAATT
*
44585744 CACCATAAAGGCTCTTC-AGATAATT
1 CACCACAAAGGCTCTTCGA-ATAATT
*
44585769 CGCCACAAAGGCT
1 CACCACAAAGGCT
44585782 TGACTTGGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
24 2 0.04
25 53 0.96
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (25 bp):
CACCACAAAGGCTCTTCGAATAATT
Found at i:44587522 original size:25 final size:25
Alignment explanation
Indices: 44587494--44587546 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
44587484 CTCCTGTGAC
* *
44587494 CATTCTGATTTACAGCTCATGTAAG
1 CATTCTGATTCACAACTCATGTAAG
* *
44587519 CATTCTGATTCACAACTCGTGTGAG
1 CATTCTGATTCACAACTCATGTAAG
44587544 CAT
1 CAT
44587547 ACATGTATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (25 bp):
CATTCTGATTCACAACTCATGTAAG
Found at i:44603765 original size:22 final size:21
Alignment explanation
Indices: 44603734--44603775 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
44603724 ATAAACTAAA
44603734 ACTAAATAAAAACCCTAAAACT
1 ACTAAAT-AAAACCCTAAAACT
*
44603756 ACTAACTAAAACCCTAAAAC
1 ACTAAATAAAACCCTAAAAC
44603776 GAATTGGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.57, C:0.26, G:0.00, T:0.17
Consensus pattern (21 bp):
ACTAAATAAAACCCTAAAACT
Found at i:44606002 original size:18 final size:18
Alignment explanation
Indices: 44605977--44606039 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
44605967 AGGAAGGCAA
44605977 AATAATTGTAAGAATCTT
1 AATAATTGTAAGAATCTT
* * **
44605995 ATTAATTGT-AGAAGCAA
1 AATAATTGTAAGAATCTT
*
44606012 AATGATTGTAAGAATCTT
1 AATAATTGTAAGAATCTT
*
44606030 AGTAATTGTA
1 AATAATTGTA
44606040 GAAGGTTTTA
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
17 12 0.36
18 21 0.64
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.37
Consensus pattern (18 bp):
AATAATTGTAAGAATCTT
Found at i:44606020 original size:35 final size:35
Alignment explanation
Indices: 44605973--44606043 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
44605963 GAGTAGGAAG
*
44605973 GCAAAATAATTGTAAGAATCTTATTAATTGTAGAA
1 GCAAAATAATTGTAAGAATCTTAGTAATTGTAGAA
*
44606008 GCAAAATGATTGTAAGAATCTTAGTAATTGTAGAA
1 GCAAAATAATTGTAAGAATCTTAGTAATTGTAGAA
44606043 G
1 G
44606044 GTTTTATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (35 bp):
GCAAAATAATTGTAAGAATCTTAGTAATTGTAGAA
Found at i:44616215 original size:7 final size:7
Alignment explanation
Indices: 44616203--44616258 Score: 58
Period size: 7 Copynumber: 7.7 Consensus size: 7
44616193 GTTTTTTTTA
44616203 AAATTAT
1 AAATTAT
44616210 AAATTAT
1 AAATTAT
*
44616217 AAATTTAA
1 AAA-TTAT
*
44616225 AAATTTT
1 AAATTAT
* *
44616232 AAATAAAA
1 AAAT-TAT
44616240 AAATTAT
1 AAATTAT
44616247 AAATTAT
1 AAATTAT
44616254 AAATT
1 AAATT
44616259 TCAGGCAACA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
7 29 0.74
8 10 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAATTAT
Found at i:44616228 original size:15 final size:15
Alignment explanation
Indices: 44616210--44616256 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
44616200 TTAAAATTAT
44616210 AAATTATAAATTTAA
1 AAATTATAAATTTAA
* **
44616225 AAATTTTAAATAAAA
1 AAATTATAAATTTAA
44616240 AAATTATAAATTATAA
1 AAATTATAAATT-TAA
44616256 A
1 A
44616257 TTTCAGGCAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 22 0.88
16 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATTATAAATTTAA
Found at i:44617829 original size:30 final size:28
Alignment explanation
Indices: 44617790--44617856 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 28
44617780 ATTAATATTT
*
44617790 AATTAATTTTTAAAAAATTAAAAATTCAAAA
1 AATT-ATTTTTAAAAAA-TAAAAAAT-AAAA
44617821 AATTATTTTTAAAAAATAAAAAATAAAA
1 AATTATTTTTAAAAAATAAAAAATAAAA
44617849 AA-TATTTT
1 AATTATTTT
44617857 GGTTATTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 6 0.17
28 6 0.17
29 7 0.20
30 12 0.34
31 4 0.11
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (28 bp):
AATTATTTTTAAAAAATAAAAAATAAAA
Found at i:44625943 original size:46 final size:46
Alignment explanation
Indices: 44625884--44626059 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
44625874 GCTATTTGGT
* * * *
44625884 GTGTAGGTCCAACCCTAACGGGTGACCAGACACTATTATTTGATTC
1 GTGTAGGTTCAACCCTAATGGGTAACCAAACACTATTATTTGATTC
* * * *
44625930 GTGTATGTTCAACCCTAATGGGTAACGAAATACTATTATTTGATTT
1 GTGTAGGTTCAACCCTAATGGGTAACCAAACACTATTATTTGATTC
* * * *
44625976 TTGTAGGTTCAACCCTAATGGGTGACGAAACACTATTATTCGATTC
1 GTGTAGGTTCAACCCTAATGGGTAACCAAACACTATTATTTGATTC
* *
44626022 GTGTAGGTTTAA-CCTAAATGGGTAACCAGACACTATTA
1 GTGTAGGTTCAACCCT-AATGGGTAACCAAACACTATTA
44626060 CTTTCACCTG
Statistics
Matches: 110, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
45 3 0.03
46 107 0.97
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (46 bp):
GTGTAGGTTCAACCCTAATGGGTAACCAAACACTATTATTTGATTC
Found at i:44626057 original size:92 final size:92
Alignment explanation
Indices: 44625885--44626059 Score: 244
Period size: 92 Copynumber: 1.9 Consensus size: 92
44625875 CTATTTGGTG
* * *
44625885 TGTAGGTCCAACCCTAACGGGTGACCAGACACTATTATTTGATTCGTGTATGTTCAACCCTAATG
1 TGTAGGTCCAACCCTAACGGGTGACCAAACACTATTATTCGATTCGTGTAGGTTCAACCCTAATG
* *
44625950 GGTAACGAAATACTATTATTTGATTTT
66 GGTAACCAAACACTATTATTTGATTTT
* * * *
44625977 TGTAGGTTCAACCCTAATGGGTGACGAAACACTATTATTCGATTCGTGTAGGTTTAA-CCTAAAT
1 TGTAGGTCCAACCCTAACGGGTGACCAAACACTATTATTCGATTCGTGTAGGTTCAACCCT-AAT
*
44626041 GGGTAACCAGACACTATTA
65 GGGTAACCAAACACTATTA
44626060 CTTTCACCTG
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
91 3 0.04
92 69 0.96
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (92 bp):
TGTAGGTCCAACCCTAACGGGTGACCAAACACTATTATTCGATTCGTGTAGGTTCAACCCTAATG
GGTAACCAAACACTATTATTTGATTTT
Found at i:44627865 original size:28 final size:28
Alignment explanation
Indices: 44627825--44627880 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
44627815 ATGCCAATTG
44627825 TATCCCACCAATTTTGCTAATAATATTT
1 TATCCCACCAATTTTGCTAATAATATTT
* *
44627853 TATCCCACCAATTTTTCTAATCATATTT
1 TATCCCACCAATTTTGCTAATAATATTT
44627881 AAAGTTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.02, T:0.45
Consensus pattern (28 bp):
TATCCCACCAATTTTGCTAATAATATTT
Found at i:44630372 original size:16 final size:16
Alignment explanation
Indices: 44630351--44630382 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44630341 GTTTTGTTGC
*
44630351 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
44630367 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
44630383 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:44630668 original size:51 final size:50
Alignment explanation
Indices: 44630610--44630800 Score: 231
Period size: 51 Copynumber: 3.8 Consensus size: 50
44630600 TCGGTTCACA
* *
44630610 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCG-TACACG
* ** * *
44630661 TAGTAGCCTGCACATAGTACTACACACGTGATCAAAACTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCC-GTACACG
* * * * **
44630712 TAGTAGCCTTCACATAGTACTACACATGCGACCTATCA-TTTTAGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGTACACG
44630762 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
44630801 TTCACTTTCA
Statistics
Matches: 116, Mismatches: 21, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
49 4 0.03
50 36 0.31
51 73 0.63
52 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGTACACG
Found at i:44630789 original size:101 final size:102
Alignment explanation
Indices: 44630608--44630792 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
44630598 TATCGGTTCA
* * *
44630608 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACATGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGCCTGCA
44630673 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
66 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
* * *
44630710 CATAGTAGCCTTCACATAGTACTACACATGCGACCTATCA-TTTTAG-TACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCAGATACACGTAGTAGCCTGC
44630773 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
44630793 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 36 0.47
102 36 0.47
103 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCAAAACTATCCGGTACG
Found at i:44630815 original size:101 final size:102
Alignment explanation
Indices: 44630601--44630826 Score: 278
Period size: 101 Copynumber: 2.2 Consensus size: 102
44630591 TTAATGATAT
* * * *
44630601 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACATGTAGTA
1 CGGTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTA
*
44630666 GCCTGCACATAGTACTACACACGTGATCAAAACTATC
66 GCCTGCACATAGTACTACACACGTGACCAAAACTATC
* * * * *
44630703 CGGTACGCATAGTAGCCTTCACATAGTACTACACATGCGACCTATCA-TTTTAG-TACACGTAGT
1 CGGTTCACATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATCAGATACACGTAGT
** *
44630766 AGCCTGCACATAGTACTACACACGTGACCATCACTTTC
65 AGCCTGCACATAGTACTACACACGTGACCAAAACTATC
* *
44630804 AC-TTTCACATAGTGGCCTACACA
1 -CGGTTCACATAGTAGCCTACACA
44630827 CAGTCCATGC
Statistics
Matches: 105, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
101 59 0.56
102 42 0.40
103 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (102 bp):
CGGTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTA
GCCTGCACATAGTACTACACACGTGACCAAAACTATC
Found at i:44638985 original size:17 final size:17
Alignment explanation
Indices: 44638954--44638986 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
44638944 TTTTTTTTAA
44638954 TTTATATTTCTTATTTC
1 TTTATATTTCTTATTTC
44638971 TTTATGATTTC-TATTT
1 TTTAT-ATTTCTTATTT
44638987 GTTCTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTATATTTCTTATTTC
Found at i:44641763 original size:35 final size:35
Alignment explanation
Indices: 44641697--44641786 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 35
44641687 ATCACTATGA
*
44641697 CATGTTTAACATGCGAGA-CAGAATCTAAATAAT-G
1 CATGCTTAACATGCGA-ATCAGAATCTAAATAATAG
*
44641731 TCATGCTTAACATGCGAATCATAAT-TAGAATAATAG
1 -CATGCTTAACATGCGAATCAGAATCTA-AATAATAG
*
44641767 CATGCTCAACATGCGAATCA
1 CATGCTTAACATGCGAATCA
44641787 AAATATCAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
34 3 0.06
35 45 0.92
36 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (35 bp):
CATGCTTAACATGCGAATCAGAATCTAAATAATAG
Found at i:44641798 original size:35 final size:35
Alignment explanation
Indices: 44641724--44641798 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 35
44641714 ACAGAATCTA
* * *
44641724 AATAATGTCATGCTTAACATGCGAATCATAATTAG
1 AATAATGTCATGCTCAACATGCGAATCAAAATTAC
44641759 AATAATAG-CATGCTCAACATGCGAATCAAAA-TATC
1 AATAAT-GTCATGCTCAACATGCGAATCAAAATTA-C
44641794 AATAA
1 AATAA
44641799 ATCAATATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 2 0.06
35 32 0.91
36 1 0.03
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (35 bp):
AATAATGTCATGCTCAACATGCGAATCAAAATTAC
Found at i:44657415 original size:19 final size:19
Alignment explanation
Indices: 44657376--44657415 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
44657366 TTAACAATGC
* **
44657376 TTTTATCTCAAACGTGTTT
1 TTTTATCTCAAAAGTCATT
44657395 TTTTATCTCAAAAGTCATT
1 TTTTATCTCAAAAGTCATT
44657414 TT
1 TT
44657416 GAAAAGCCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.15, G:0.07, T:0.53
Consensus pattern (19 bp):
TTTTATCTCAAAAGTCATT
Found at i:44661521 original size:18 final size:18
Alignment explanation
Indices: 44661478--44661521 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
44661468 ACCCACTTCA
* * *
44661478 AACCCAAGTATTCAATCC
1 AACCCAATTACTCAACCC
44661496 AACCCAATTACTCAACCC
1 AACCCAATTACTCAACCC
44661514 AACCCAAT
1 AACCCAAT
44661522 CATAAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.39, G:0.02, T:0.18
Consensus pattern (18 bp):
AACCCAATTACTCAACCC
Found at i:44661631 original size:9 final size:8
Alignment explanation
Indices: 44661617--44661693 Score: 64
Period size: 9 Copynumber: 8.6 Consensus size: 8
44661607 ATGTATGATT
44661617 TAATTCGAG
1 TAATTCG-G
44661626 TAATTCGG
1 TAATTCGG
44661634 TTAATTCGAG
1 -TAATTCG-G
44661644 TAATTCGG
1 TAATTCGG
44661652 TTAATTCGGG
1 -TAATTC-GG
*
44661662 TAATTTGG
1 TAATTCGG
*
44661670 TTAATTTGG
1 -TAATTCGG
44661679 TTAATTCGG
1 -TAATTCGG
44661688 TTAATT
1 -TAATT
44661694 TTTAACCAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
8 4 0.07
9 54 0.89
10 3 0.05
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (8 bp):
TAATTCGG
Found at i:44661639 original size:18 final size:18
Alignment explanation
Indices: 44661616--44661693 Score: 113
Period size: 18 Copynumber: 4.3 Consensus size: 18
44661606 TATGTATGAT
44661616 TTAATTCGAGTAATTCGG
1 TTAATTCGAGTAATTCGG
44661634 TTAATTCGAGTAATTCGG
1 TTAATTCGAGTAATTCGG
* *
44661652 TTAATTCGGGTAATTTGG
1 TTAATTCGAGTAATTCGG
*
44661670 TTAATTTG-GTTAATTCGG
1 TTAATTCGAG-TAATTCGG
44661688 TTAATT
1 TTAATT
44661694 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
17 1 0.02
18 54 0.98
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.45
Consensus pattern (18 bp):
TTAATTCGAGTAATTCGG
Found at i:44661694 original size:27 final size:27
Alignment explanation
Indices: 44661617--44661694 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
44661607 ATGTATGATT
*
44661617 TAATTCGAG-TAATTCGGTTAATTCGAG
1 TAATTCG-GTTAATTCGGTTAATTTGAG
*
44661644 TAATTCGGTTAATTCGGGTAATTTG-G
1 TAATTCGGTTAATTCGGTTAATTTGAG
*
44661670 TTAATTTGGTTAATTCGGTTAATTT
1 -TAATTCGGTTAATTCGGTTAATTT
44661695 TTAACCAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.04
27 43 0.96
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.45
Consensus pattern (27 bp):
TAATTCGGTTAATTCGGTTAATTTGAG
Found at i:44661912 original size:16 final size:16
Alignment explanation
Indices: 44661891--44661923 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
44661881 GAACACCCCT
44661891 ACTTCTACCTTATTAA
1 ACTTCTACCTTATTAA
44661907 ACTTCTACCTTATTAA
1 ACTTCTACCTTATTAA
44661923 A
1 A
44661924 TGAACAAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (16 bp):
ACTTCTACCTTATTAA
Found at i:44664309 original size:39 final size:38
Alignment explanation
Indices: 44664255--44664350 Score: 90
Period size: 39 Copynumber: 2.5 Consensus size: 38
44664245 TAAAATATAT
* *
44664255 AAAAATATAAAAAAATTATAA-AATTTTATAAA-GTCGTAA
1 AAAAAT-TATAAAAATTATAAGAA--ATATAAATGTCGTAA
* *
44664294 GAAAATTATACAAAATGTA-AAGAAATATAAATTTCGTAA
1 AAAAATTATA-AAAAT-TATAAGAAATATAAATGTCGTAA
44664333 AAAAATTATAAAAATTAT
1 AAAAATTATAAAAATTAT
44664351 CGTATCAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
37 2 0.04
38 14 0.30
39 27 0.57
40 4 0.09
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.30
Consensus pattern (38 bp):
AAAAATTATAAAAATTATAAGAAATATAAATGTCGTAA
Found at i:44664344 original size:20 final size:20
Alignment explanation
Indices: 44664274--44664347 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
44664264 AAAAAATTAT
* * *
44664274 AAAATTTTATAAAGTCGTAAG
1 AAAATTATA-AAAATCGTAAA
44664295 AAAATTATACAAAAT-GTAAA
1 AAAATTATA-AAAATCGTAAA
* **
44664315 GAAA-TATAAATTTCGTAAA
1 AAAATTATAAAAATCGTAAA
44664334 AAAATTATAAAAAT
1 AAAATTATAAAAAT
44664348 TATCGTATCA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
18 3 0.07
19 12 0.29
20 14 0.34
21 12 0.29
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (20 bp):
AAAATTATAAAAATCGTAAA
Found at i:44664656 original size:21 final size:21
Alignment explanation
Indices: 44664622--44664680 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
44664612 CTACAGTTCT
*
44664622 TTTTCTTTCT-TTTTTTTGCTG
1 TTTTCTTT-TATTTTTTTGCTA
*
44664643 TTTT-TTATTATTTTGTTGCTA
1 TTTTCTT-TTATTTTTTTGCTA
*
44664664 TTTTCTTTTCTTTTTTT
1 TTTTCTTTTATTTTTTT
44664681 TTTTGACTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.05, C:0.10, G:0.07, T:0.78
Consensus pattern (21 bp):
TTTTCTTTTATTTTTTTGCTA
Found at i:44666376 original size:26 final size:27
Alignment explanation
Indices: 44666346--44666404 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
44666336 ATATTAAAAT
*
44666346 TATTTATATAATTT-TATTATATATTA
1 TATTTATAAAATTTGTATTATATATTA
* * *
44666372 TATTTTTAAAATTTGTATTTTCTATTA
1 TATTTATAAAATTTGTATTATATATTA
*
44666399 TTTTTA
1 TATTTA
44666405 ATGGTGTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (27 bp):
TATTTATAAAATTTGTATTATATATTA
Found at i:44670895 original size:41 final size:41
Alignment explanation
Indices: 44670836--44670917 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 41
44670826 TGTGATAAGT
*
44670836 CTCACTCTGTGTATTCCTTTGA-AACATGAGCATTTGTGAGC
1 CTCACTCTGTGTACTCC-TTGAGAACATGAGCATTTGTGAGC
* * * * *
44670877 CTCACTTTGTGTGCTCCTTGAGAGCATGTGCTTTTGTGAGC
1 CTCACTCTGTGTACTCCTTGAGAACATGAGCATTTGTGAGC
44670918 GAGTCTTGCG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
40 4 0.12
41 30 0.88
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (41 bp):
CTCACTCTGTGTACTCCTTGAGAACATGAGCATTTGTGAGC
Found at i:44685030 original size:18 final size:18
Alignment explanation
Indices: 44685004--44685038 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44684994 ATGATGTGCC
*
44685004 AAACTATTTTCATGCTTG
1 AAACCATTTTCATGCTTG
*
44685022 AAACCATTTTGATGCTT
1 AAACCATTTTCATGCTT
44685039 CTTGTTCCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (18 bp):
AAACCATTTTCATGCTTG
Found at i:44685926 original size:17 final size:17
Alignment explanation
Indices: 44685904--44685937 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44685894 TAGGTTTGAG
*
44685904 GACAACGGCAACCCTAA
1 GACAACGACAACCCTAA
44685921 GACAACGACAACCCTAA
1 GACAACGACAACCCTAA
44685938 CTCTATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.35, G:0.15, T:0.06
Consensus pattern (17 bp):
GACAACGACAACCCTAA
Found at i:44689992 original size:24 final size:24
Alignment explanation
Indices: 44689962--44690007 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
44689952 ATATCTTAAC
44689962 ATATATGTGTATAAAACCTTCAAT
1 ATATATGTGTATAAAACCTTCAAT
44689986 ATATATGTGTATAAAACCTTCA
1 ATATATGTGTATAAAACCTTCA
44690008 CCTTGGCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (24 bp):
ATATATGTGTATAAAACCTTCAAT
Found at i:44691726 original size:54 final size:54
Alignment explanation
Indices: 44691611--44691727 Score: 146
Period size: 54 Copynumber: 2.2 Consensus size: 54
44691601 GTGTCTCAGG
* * * *
44691611 CCATGTAACAATTGAAATAGGGACACATAACTGTGTCTCAGCCCGTGTCCTTAC
1 CCATGTAACAATTGAAATAGAGACACACAACTGTGTCCCAGCCCGTATCCTTAC
* * * *
44691665 TCGTGTAACATTTGAACTAGAGACACACAACTGTGTCCCAGCCCGTAT-CTCTAC
1 CCATGTAACAATTGAAATAGAGACACACAACTGTGTCCCAGCCCGTATCCT-TAC
44691719 CCATGTAAC
1 CCATGTAAC
44691728 TCACTGAGTA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 2 0.04
54 50 0.96
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (54 bp):
CCATGTAACAATTGAAATAGAGACACACAACTGTGTCCCAGCCCGTATCCTTAC
Found at i:44717521 original size:21 final size:22
Alignment explanation
Indices: 44717497--44717537 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
44717487 GCTCTATACT
44717497 TATAA-ACCATAAA-CAAATCTA
1 TATAATACCA-AAACCAAATCTA
44717518 TATAATACCAAAACCAAATC
1 TATAATACCAAAACCAAATC
44717538 ACACCATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (22 bp):
TATAATACCAAAACCAAATCTA
Found at i:44719888 original size:11 final size:11
Alignment explanation
Indices: 44719872--44719902 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
44719862 AGCTTTGTCG
*
44719872 TCCCTTGCTAT
1 TCCCTTGCCAT
44719883 TCCCTTGCCAT
1 TCCCTTGCCAT
44719894 TCCCTTGCC
1 TCCCTTGCC
44719903 CCTTCCATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.06, C:0.45, G:0.10, T:0.39
Consensus pattern (11 bp):
TCCCTTGCCAT
Found at i:44739265 original size:51 final size:51
Alignment explanation
Indices: 44739204--44739374 Score: 245
Period size: 51 Copynumber: 3.4 Consensus size: 51
44739194 TTTGGGGGTT
* * * * * *
44739204 TTCACATAGTACCACCCATGTTACTATTA-TCATTCGGTACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTATTTA-TCGATACACGTAGTAGCC
* *
44739255 TTCACTTAGTACTATACATGTGACCATTATTTATCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
*
44739306 TTCACTTAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
44739357 TTCACATAGTACTACACA
1 TTCACATAGTACTACACA
44739375 CGTGTTCATC
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
51 107 0.98
52 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
TTCACATAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
Found at i:44739347 original size:25 final size:25
Alignment explanation
Indices: 44739270--44739347 Score: 65
Period size: 25 Copynumber: 3.1 Consensus size: 25
44739260 TTAGTACTAT
44739270 ACATGTGACCATTATTTATCGATAC
1 ACATGTGACCATTATTTATCGATAC
* *
44739295 ACGTAGT-AGCC-TTCACTTA--GTACTAC
1 ACAT-GTGA-CCATT-ATTTATCG-A-TAC
44739321 ACATGTGACCATTATTTATCGATAC
1 ACATGTGACCATTATTTATCGATAC
44739346 AC
1 AC
44739348 GTAGTAGCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
24 1 0.03
25 20 0.50
26 18 0.45
27 1 0.03
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (25 bp):
ACATGTGACCATTATTTATCGATAC
Found at i:44746844 original size:51 final size:50
Alignment explanation
Indices: 44746785--44747107 Score: 339
Period size: 51 Copynumber: 6.4 Consensus size: 50
44746775 TTTGGGGGTT
* * * * *
44746785 TTCACATAGTACCACCCATGTTACTATTATCATTCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTAT-TTTCGATACACGTAGTAGCC
* * *
44746836 TTCACATAGTACTACACATGTGATCA--AGTTTTACGGTTCACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTA-TTTT-CGATACACGTAGTAGCC
* * * * *
44746886 TTCACATAGTACTACACACGTGACCA-AAGCTTTTTGGTACACATAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTA--TTTTCGATACACGTAGTAGCC
* *
44746937 TTCACTTAGTACTATACATGTGACCATTATTTATCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTATTT-TCGATACACGTAGTAGCC
* * * *
44746988 TTCACATAGTACTACACACGTGACCA-AAGCTTTTCGGTACACATAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTA--TTTTCGATACACGTAGTAGCC
* * *
44747039 TTCACTTAGTACTATACATGTGACAATTATTTATCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTATTT-TCGATACACGTAGTAGCC
44747090 TTCACATAGTACTACACA
1 TTCACATAGTACTACACA
44747108 CGTGTTCATC
Statistics
Matches: 226, Mismatches: 36, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
49 3 0.01
50 47 0.21
51 167 0.74
52 9 0.04
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (50 bp):
TTCACATAGTACTACACATGTGACCATTATTTTCGATACACGTAGTAGCC
Found at i:44747009 original size:102 final size:102
Alignment explanation
Indices: 44746817--44747111 Score: 486
Period size: 102 Copynumber: 2.9 Consensus size: 102
44746807 ACTATTATCA
* * * * * * *
44746817 TTCGATACACGTAGTAGCCTTCACATAGTACTACACATGTGATCAAGT-TTTA-CGGTTCACGTA
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTATACATGTGA-CAATTATTTATCGATACACGTA
44746880 GTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
65 GTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* *
44746918 TTTGGTACACATAGTAGCCTTCACTTAGTACTATACATGTGACCATTATTTATCGATACACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTATACATGTGACAATTATTTATCGATACACGTAG
44746983 TAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
66 TAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
44747020 TTCGGTACACATAGTAGCCTTCACTTAGTACTATACATGTGACAATTATTTATCGATACACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTATACATGTGACAATTATTTATCGATACACGTAG
44747085 TAGCCTTCACATAGTACTACACACGTG
66 TAGCCTTCACATAGTACTACACACGTG
44747112 TTCATCGGTA
Statistics
Matches: 181, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
100 3 0.02
101 41 0.23
102 137 0.76
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (102 bp):
TTCGGTACACATAGTAGCCTTCACTTAGTACTATACATGTGACAATTATTTATCGATACACGTAG
TAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
Found at i:44747100 original size:153 final size:152
Alignment explanation
Indices: 44746818--44747103 Score: 405
Period size: 153 Copynumber: 1.9 Consensus size: 152
44746808 CTATTATCAT
* * * *
44746818 TCGATACACGTAGTAGCCTTCACATAGTACTACACATGTGATCAAGTTTTACGGTTCACGTAGTA
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTACACATAGTA
* * * *
44746883 GCCTTCACATAGTACTACACACGTGACCAAAGCTTTTTGGTACACATAGTAGCCTTCACTTAGTA
66 GCCTTCACATAGTACTACACACGTGACCAAAGATTTTCGATACACATAGTAGCCTTCACATAGTA
44746948 CTATACATGTGACCATTATTTA
131 CTATACATGTGACCATTATTTA
44746970 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTACGGTACACATAG
* * * ** *
44747034 TAGCCTTCACTTAGTACTATACATGTGA-CAATTATTTATCGATACACGTAGTAGCCTTCACATA
64 TAGCCTTCACATAGTACTACACACGTGACCAAAGATTT-TCGATACACATAGTAGCCTTCACATA
44747098 GTACTA
128 GTACTA
44747104 CACACGTGTT
Statistics
Matches: 117, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
152 47 0.40
153 66 0.56
154 4 0.03
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (152 bp):
TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTACACATAGTA
GCCTTCACATAGTACTACACACGTGACCAAAGATTTTCGATACACATAGTAGCCTTCACATAGTA
CTATACATGTGACCATTATTTA
Found at i:44749863 original size:20 final size:20
Alignment explanation
Indices: 44749838--44749922 Score: 53
Period size: 20 Copynumber: 4.2 Consensus size: 20
44749828 ACACTAGTGG
44749838 CTTGTCCACATTACTGGCAA
1 CTTGTCCACATTACTGGCAA
** ** ***
44749858 CTTGTCTGCAACACTGGTGG
1 CTTGTCCACATTACTGGCAA
* *
44749878 CCTGTCCACATTACTGGCAG
1 CTTGTCCACATTACTGGCAA
* * * *
44749898 TTTATCTACGTTACTGGCAA
1 CTTGTCCACATTACTGGCAA
44749918 CTTGT
1 CTTGT
44749923 TTGGATTATT
Statistics
Matches: 43, Mismatches: 22, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (20 bp):
CTTGTCCACATTACTGGCAA
Found at i:44749914 original size:40 final size:40
Alignment explanation
Indices: 44749827--44749906 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
44749817 GCTTTTCTGT
* * * *
44749827 AACACTAGTGGCTTGTCCACATTACTGGCAACTTGTCTGC
1 AACACTGGTGGCCTGTCCACATTACTGGCAACTTATCTAC
**
44749867 AACACTGGTGGCCTGTCCACATTACTGGCAGTTTATCTAC
1 AACACTGGTGGCCTGTCCACATTACTGGCAACTTATCTAC
44749907 GTTACTGGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
AACACTGGTGGCCTGTCCACATTACTGGCAACTTATCTAC
Found at i:44772616 original size:19 final size:19
Alignment explanation
Indices: 44772592--44772642 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
44772582 TTCCATTAGC
44772592 TTAGATTTTTTCTTTAGGT
1 TTAGATTTTTTCTTTAGGT
* *
44772611 TTAGATTCTATCTTTAGGT
1 TTAGATTTTTTCTTTAGGT
*
44772630 TTAGATTTGTTCT
1 TTAGATTTTTTCT
44772643 CTTGTTTTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.18, C:0.08, G:0.16, T:0.59
Consensus pattern (19 bp):
TTAGATTTTTTCTTTAGGT
Found at i:44780796 original size:12 final size:12
Alignment explanation
Indices: 44780781--44780808 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
44780771 TGACAGTAAA
44780781 ATTTAAAAACCT
1 ATTTAAAAACCT
44780793 ATTTAAAAACCT
1 ATTTAAAAACCT
44780805 ATTT
1 ATTT
44780809 CTTTTACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.39
Consensus pattern (12 bp):
ATTTAAAAACCT
Found at i:44795958 original size:12 final size:12
Alignment explanation
Indices: 44795946--44795985 Score: 66
Period size: 11 Copynumber: 3.5 Consensus size: 12
44795936 TTTCTTCAAT
44795946 TTTCTCTCT-AA
1 TTTCTCTCTAAA
44795957 TTTCTCTC-AAA
1 TTTCTCTCTAAA
44795968 TTTCTCTCTAAA
1 TTTCTCTCTAAA
44795980 TTTCTC
1 TTTCTC
44795986 AAAACTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.20, C:0.28, G:0.00, T:0.53
Consensus pattern (12 bp):
TTTCTCTCTAAA
Found at i:44795966 original size:22 final size:23
Alignment explanation
Indices: 44795935--44795985 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
44795925 TTCGTACATT
*
44795935 ATTTCT-TCAATTTTCTCTCT-A
1 ATTTCTCTCAAATTTCTCTCTAA
44795956 ATTTCTCTCAAATTTCTCTCTAA
1 ATTTCTCTCAAATTTCTCTCTAA
44795979 ATTTCTC
1 ATTTCTC
44795986 AAAACTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 6 0.22
22 13 0.48
23 8 0.30
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTCTCTCAAATTTCTCTCTAA
Found at i:44796190 original size:18 final size:21
Alignment explanation
Indices: 44796150--44796190 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
44796140 TAAGGGTTAA
44796150 TTTTTCAATATTATTTAATTT
1 TTTTTCAATATTATTTAATTT
44796171 TTTTTC-AT-TTATTTAATTT
1 TTTTTCAATATTATTTAATTT
44796190 T
1 T
44796191 AATTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.60
20 2 0.10
21 6 0.30
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTCAATATTATTTAATTT
Found at i:44796191 original size:10 final size:10
Alignment explanation
Indices: 44796160--44796205 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
44796150 TTTTTCAATA
44796160 TTATTTAATT
1 TTATTTAATT
* *
44796170 TTTTTTCA-T
1 TTATTTAATT
44796179 TTATTTAATT
1 TTATTTAATT
44796189 TTAATTTAATT
1 TT-ATTTAATT
44796200 TTATTT
1 TTATTT
44796206 TATAATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 7 0.23
10 13 0.43
11 10 0.33
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (10 bp):
TTATTTAATT
Found at i:44797760 original size:18 final size:18
Alignment explanation
Indices: 44797737--44797779 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
44797727 TGCCAGGTCC
*
44797737 GTATCCTAGCCCATATAT
1 GTATCCTAACCCATATAT
*
44797755 GTATCCTAACCCTTATAT
1 GTATCCTAACCCATATAT
*
44797773 GTTTCCT
1 GTATCCT
44797780 TTTCCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (18 bp):
GTATCCTAACCCATATAT
Found at i:44798280 original size:93 final size:92
Alignment explanation
Indices: 44798121--44798311 Score: 346
Period size: 93 Copynumber: 2.1 Consensus size: 92
44798111 ATTGATTTTT
**
44798121 TTAATATATTTGTACAATTTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTAATA
1 TTAATATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTAATA
44798186 TTTTAATAGTAATTTATTTTTTATATTC
66 TTTTAATAGTAATTTA-TTTTTATATTC
44798214 TTAATATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTAATA
1 TTAATATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTAATA
*
44798279 TTTTAATAGTAATTTATTTTTATATTT
66 TTTTAATAGTAATTTATTTTTATATTC
44798306 TTAATA
1 TTAATA
44798312 AAGTAGAAGT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 16 0.17
93 79 0.83
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (92 bp):
TTAATATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTAATA
TTTTAATAGTAATTTATTTTTATATTC
Found at i:44798286 original size:24 final size:24
Alignment explanation
Indices: 44798259--44798313 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
44798249 CATTTAATAA
*
44798259 AATAAAAGTTGTTTTTA-ATATTTT
1 AATAAAAGTTATTTTTATAT-TTTT
* *
44798283 AATAGTAATTTATTTTTATATTTTT
1 AATA-AAAGTTATTTTTATATTTTT
44798308 AATAAA
1 AATAAA
44798314 GTAGAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 5 0.20
25 18 0.72
26 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (24 bp):
AATAAAAGTTATTTTTATATTTTT
Found at i:44801779 original size:127 final size:125
Alignment explanation
Indices: 44801381--44801778 Score: 593
Period size: 126 Copynumber: 3.2 Consensus size: 125
44801371 TAAGGCCAAA
* * *
44801381 CAGGAACTACTGTAGAAAAAGAACATCCACGTGAGAGCCTTTTTCAGTAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTG-GAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * *
44801446 ATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTTAAAATTATTTTTT
65 ATCTTGCTTGAAGCGTTTTTTACACTATTTGTTCAGAACCGTCTTCTTAAAATTATTTTTT
* * * *
44801507 CAGGAATTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTT-TGTAATTTTGCTGACAGTAC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGT-GGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
*
44801571 ATCTTGCTTGAAGCGTTTTTTTACACTATTTGTTTAGAACCGTCTTCTTAAAATTATTTTTT
65 ATCTTGCTTGAAGCG-TTTTTTACACTATTTGTTCAGAACCGTCTTCTTAAAATTATTTTTT
* *
44801633 CAGGAACTACTATAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCAGTAATTTTGCTGACAGTGT
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGT-GGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* *
44801698 ATCTTGCTTGAAGCGTTTTTTACATTATCTT-TTCAGAACCGTCTTCTCAAAATTATTTTTT
65 ATCTTGCTTGAAGCGTTTTTTACACTAT-TTGTTCAGAACCGTCTTCTTAAAATTATTTTTT
*
44801759 CAGAAACTACTGTAGAAAAA
1 CAGGAACTACTGTAGAAAAA
44801779 AAAACAAAAT
Statistics
Matches: 245, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
125 31 0.13
126 179 0.73
127 35 0.14
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (125 bp):
CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
TCTTGCTTGAAGCGTTTTTTACACTATTTGTTCAGAACCGTCTTCTTAAAATTATTTTTT
Found at i:44801890 original size:33 final size:32
Alignment explanation
Indices: 44801828--44801940 Score: 129
Period size: 33 Copynumber: 3.5 Consensus size: 32
44801818 CTAAACACAA
* ** *
44801828 AATT-ATTTTTAAAAAAACTAAACCATAATTT
1 AATTAATTTTTTAAAACCCTAAACCCTAATTT
44801859 AATTAATTTTCTTAAAACCCTAAACCCTAATTT
1 AATTAATTTT-TTAAAACCCTAAACCCTAATTT
* * * *
44801892 AATTTATTTATTTAAAACCCAAAAACCTAGTTT
1 AATTAATTT-TTTAAAACCCTAAACCCTAATTT
44801925 AATTAATTTTTTAAAA
1 AATTAATTTTTTAAAA
44801941 AAACTCTAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
31 4 0.06
32 12 0.17
33 53 0.76
34 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.41
Consensus pattern (32 bp):
AATTAATTTTTTAAAACCCTAAACCCTAATTT
Found at i:44804253 original size:14 final size:13
Alignment explanation
Indices: 44804198--44804259 Score: 79
Period size: 13 Copynumber: 4.8 Consensus size: 13
44804188 TAGCTTCTCC
*
44804198 TTTTCAGAAGTGT
1 TTTTCAAAAGTGT
*
44804211 TTTTCAAAAGTAT
1 TTTTCAAAAGTGT
44804224 TTTTCAAAAGTGT
1 TTTTCAAAAGTGT
* *
44804237 TTTTCAAAAATGC
1 TTTTCAAAAGTGT
*
44804250 TTTTGAAAAG
1 TTTTCAAAAG
44804260 CCAAAAATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.44
Consensus pattern (13 bp):
TTTTCAAAAGTGT
Found at i:44809758 original size:41 final size:41
Alignment explanation
Indices: 44809696--44809791 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
44809686 ACAACTTACT
* ** * * * *
44809696 TGATATAATACATCGGTACAAATACTACCATGCTCGAAGCC
1 TGATATAATACACCGACACAAAGACTACCAGGCACAAAGCC
* *
44809737 TGATATAATACACCGACACAAAGCCTACTAGGCACAAAGCC
1 TGATATAATACACCGACACAAAGACTACCAGGCACAAAGCC
*
44809778 TGTTATAATACACC
1 TGATATAATACACC
44809792 AGCACGAAGC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.22
Consensus pattern (41 bp):
TGATATAATACACCGACACAAAGACTACCAGGCACAAAGCC
Found at i:44809801 original size:66 final size:66
Alignment explanation
Indices: 44809716--44809870 Score: 186
Period size: 66 Copynumber: 2.3 Consensus size: 66
44809706 CATCGGTACA
* * *
44809716 AATACTACCATGCTCGAAGCCTGATATAATACACCGACACAAAGCCTACTAG-GCACAAAGCCTG
1 AATAC-ACCA-GCACGAAGCCTGATATAATACACCGACACAAAGCCGACT-GTACACAAAGCCTG
*
44809780 TTAT
63 ATAT
* * * *
44809784 AATACACCAGCACGAAGCCTGATATAATACACCGGCACGAAGCCGGCTGTACACAGAGCCTGATA
1 AATACACCAGCACGAAGCCTGATATAATACACCGACACAAAGCCGACTGTACACAAAGCCTGATA
44809849 T
66 T
* *
44809850 AATACACTAGCACAAAGCCTG
1 AATACACCAGCACGAAGCCTG
44809871 TTAGGCACAG
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 66 0.87
67 4 0.05
68 5 0.07
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.17
Consensus pattern (66 bp):
AATACACCAGCACGAAGCCTGATATAATACACCGACACAAAGCCGACTGTACACAAAGCCTGATA
T
Found at i:44809802 original size:25 final size:25
Alignment explanation
Indices: 44809768--44809827 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
44809758 AGCCTACTAG
* *
44809768 GCACAAAGCCTGTTATAATACACCA
1 GCACGAAGCCTGATATAATACACCA
*
44809793 GCACGAAGCCTGATATAATACACCG
1 GCACGAAGCCTGATATAATACACCA
44809818 GCACGAAGCC
1 GCACGAAGCC
44809828 GGCTGTACAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.37, C:0.30, G:0.18, T:0.15
Consensus pattern (25 bp):
GCACGAAGCCTGATATAATACACCA
Found at i:44809856 original size:41 final size:40
Alignment explanation
Indices: 44809799--44809905 Score: 123
Period size: 41 Copynumber: 2.7 Consensus size: 40
44809789 ACCAGCACGA
*
44809799 AGCCTGATATAATACACCGGCACGAAGCCGGCTGTA-CACAG
1 AGCCTGATATAATACACCGGCACAAAGCCGG-T-TAGCACAG
** *
44809840 AGCCTGATATAATACACTAGCACAAAGCCTGTTAGGCACAG
1 AGCCTGATATAATACACCGGCACAAAGCCGGTTA-GCACAG
44809881 AGCCTGA-AT-AT-CACCGGCACAAAGC
1 AGCCTGATATAATACACCGGCACAAAGC
44809906 TTGCTAGGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
38 12 0.21
39 4 0.07
40 3 0.05
41 39 0.67
ACGTcount: A:0.35, C:0.28, G:0.21, T:0.16
Consensus pattern (40 bp):
AGCCTGATATAATACACCGGCACAAAGCCGGTTAGCACAG
Found at i:44809914 original size:38 final size:38
Alignment explanation
Indices: 44809835--44809932 Score: 115
Period size: 38 Copynumber: 2.5 Consensus size: 38
44809825 GCCGGCTGTA
* *
44809835 CACAGAGCCTGATATAATACACTAGCACAAAGCCTGTTAGG
1 CACAGAGCCTGA-AT-AT-CACCAGCACAAAGCCTGCTAGG
* *
44809876 CACAGAGCCTGAATATCACCGGCACAAAGCTTGCTAGG
1 CACAGAGCCTGAATATCACCAGCACAAAGCCTGCTAGG
**
44809914 CACAGAGCCCAAATATCAC
1 CACAGAGCCTGAATATCAC
44809933 TGGAGCCCGA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
38 35 0.69
39 2 0.04
40 2 0.04
41 12 0.24
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.16
Consensus pattern (38 bp):
CACAGAGCCTGAATATCACCAGCACAAAGCCTGCTAGG
Found at i:44814299 original size:26 final size:26
Alignment explanation
Indices: 44814269--44814321 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
44814259 GCCTTAAAGG
44814269 CACCTCAAACACATACATTAAACATA
1 CACCTCAAACACATACATTAAACATA
44814295 CACCTCAAACACATACATTAAACATA
1 CACCTCAAACACATACATTAAACATA
44814321 C
1 C
44814322 CTAAATATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (26 bp):
CACCTCAAACACATACATTAAACATA
Found at i:44814317 original size:13 final size:13
Alignment explanation
Indices: 44814275--44814318 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
44814265 AAGGCACCTC
44814275 AAACACATACATT
1 AAACACATACATT
* * * *
44814288 AAACATACACCTC
1 AAACACATACATT
44814301 AAACACATACATT
1 AAACACATACATT
44814314 AAACA
1 AAACA
44814319 TACCTAAATA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (13 bp):
AAACACATACATT
Found at i:44815505 original size:41 final size:41
Alignment explanation
Indices: 44815460--44815694 Score: 212
Period size: 41 Copynumber: 5.9 Consensus size: 41
44815450 GGCATACTCG
* * * *
44815460 AAGCCTGATATAATACACCGGCACAAAGCTTACTAGGCATA
1 AAGCCTGATATAATACACCGGCACGAAGCCTGCTAGGCACA
* *
44815501 AAGCCTGATATAATACATCGGCACGAAGCCTGCTAAGCACA
1 AAGCCTGATATAATACACCGGCACGAAGCCTGCTAGGCACA
* * * *
44815542 AATCCTGATATACTACACCGACACGAAGCCTGCTAGACACA
1 AAGCCTGATATAATACACCGGCACGAAGCCTGCTAGGCACA
* * *
44815583 GAGCCTGATATAATACACTGGCACGAAGCTTGCTAGGCACA
1 AAGCCTGATATAATACACCGGCACGAAGCCTGCTAGGCACA
* * * * * * * *
44815624 GAGCC-CAAAT-AT-CACTGACACAAAGCTTGTTAGGCACA
1 AAGCCTGATATAATACACCGGCACGAAGCCTGCTAGGCACA
* * *
44815662 GAGCCCGA-AT-AT-CACCGGCACAAAGCCTGCTAG
1 AAGCCTGATATAATACACCGGCACGAAGCCTGCTAG
44815695 ACACGGAGCT
Statistics
Matches: 164, Mismatches: 29, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
38 49 0.30
39 3 0.02
40 3 0.02
41 109 0.66
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.17
Consensus pattern (41 bp):
AAGCCTGATATAATACACCGGCACGAAGCCTGCTAGGCACA
Found at i:44815650 original size:38 final size:38
Alignment explanation
Indices: 44815557--44815748 Score: 186
Period size: 38 Copynumber: 5.0 Consensus size: 38
44815547 TGATATACTA
* * * *
44815557 CACCGACACGAAGCCTGCTAGACACAGAGCCTGATATAAT
1 CACCGACACAAAGCCTGCTAGGCACAGAGCC-CAAAT-AT
* * * *
44815597 ACACTGGCACGAAGCTTGCTAGGCACAGAGCCCAAATAT
1 -CACCGACACAAAGCCTGCTAGGCACAGAGCCCAAATAT
* * * *
44815636 CACTGACACAAAGCTTGTTAGGCACAGAGCCCGAATAT
1 CACCGACACAAAGCCTGCTAGGCACAGAGCCCAAATAT
* * * *
44815674 CACCGGCACAAAGCCTGCTAGACACGGAGCTCAAATAT
1 CACCGACACAAAGCCTGCTAGGCACAGAGCCCAAATAT
* * *
44815712 CACCAACACAAAGCCTGCTAGGCACGGAGCCCGAATA
1 CACCGACACAAAGCCTGCTAGGCACAGAGCCCAAATA
44815749 ACATTACGTT
Statistics
Matches: 128, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
38 96 0.75
39 2 0.02
40 3 0.02
41 27 0.21
ACGTcount: A:0.34, C:0.30, G:0.21, T:0.14
Consensus pattern (38 bp):
CACCGACACAAAGCCTGCTAGGCACAGAGCCCAAATAT
Found at i:44815709 original size:76 final size:77
Alignment explanation
Indices: 44815557--44815748 Score: 233
Period size: 76 Copynumber: 2.5 Consensus size: 77
44815547 TGATATACTA
* * * * * * *
44815557 CACCGACACGAAGCCTGCTAGACACAGAGCCTGATATAATACACTGGCACGAAGCTTGCTAGGCA
1 CACCGACACAAAGCCTGCTAGGCACAGAGCCCGA-AT-ATACACCGGCACAAAGCCTGCTAGACA
44815622 CAGAGCCCAAATAT
64 CAGAGCCCAAATAT
* * * *
44815636 CACTGACACAAAGCTTGTTAGGCACAGAGCCCGAATAT-CACCGGCACAAAGCCTGCTAGACACG
1 CACCGACACAAAGCCTGCTAGGCACAGAGCCCGAATATACACCGGCACAAAGCCTGCTAGACACA
*
44815700 GAGCTCAAATAT
66 GAGCCCAAATAT
* *
44815712 CACCAACACAAAGCCTGCTAGGCACGGAGCCCGAATA
1 CACCGACACAAAGCCTGCTAGGCACAGAGCCCGAATA
44815749 ACATTACGTT
Statistics
Matches: 96, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
76 64 0.67
77 2 0.02
78 2 0.02
79 28 0.29
ACGTcount: A:0.34, C:0.30, G:0.21, T:0.14
Consensus pattern (77 bp):
CACCGACACAAAGCCTGCTAGGCACAGAGCCCGAATATACACCGGCACAAAGCCTGCTAGACACA
GAGCCCAAATAT
Found at i:44821751 original size:147 final size:147
Alignment explanation
Indices: 44821553--44821825 Score: 467
Period size: 147 Copynumber: 1.9 Consensus size: 147
44821543 TCTCTATAAA
* *
44821553 ACTTTTTTAAGATTGTCAAAACATTCTTGAAATGAATCTCATATACTGAGAAATCATCCATAAAT
1 ACTTTTTTAAGATAGTCAAAACATTCTTGAAATAAATCTCATATACTGAGAAATCATCCATAAAT
*
44821618 ACATCCAAGCCTTCTTCTAACATGTCAGCAAAAATAGCCATCATACATCTCATAAAGGTTGGTTT
66 ACATCCAAGCCTTCTTCTAACATGTCAACAAAAATAGCCATCATACATCTCATAAAGGTTGGTTT
44821683 TTTTGCATCTCTGCAAG
131 TTTTGCATCTCTGCAAG
*
44821700 ACTTTTTTAAGATAGTCCAAA-ATTCTTGAAATAAATCTCCATATACTGAGAAATCATCCATAAA
1 ACTTTTTTAAGATAGTCAAAACATTCTTGAAATAAATCT-CATATACTGAGAAATCATCCATAAA
** *
44821764 TACATCCAAGCCTTCTTCTAACATGTCAACAAAAATAGCTGTCATACATCTCATAGAGGTTG
65 TACATCCAAGCCTTCTTCTAACATGTCAACAAAAATAGCCATCATACATCTCATAAAGGTTG
44821826 CTGGGGCATT
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
146 16 0.14
147 102 0.86
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (147 bp):
ACTTTTTTAAGATAGTCAAAACATTCTTGAAATAAATCTCATATACTGAGAAATCATCCATAAAT
ACATCCAAGCCTTCTTCTAACATGTCAACAAAAATAGCCATCATACATCTCATAAAGGTTGGTTT
TTTTGCATCTCTGCAAG
Found at i:44825438 original size:38 final size:40
Alignment explanation
Indices: 44825376--44825464 Score: 128
Period size: 38 Copynumber: 2.2 Consensus size: 40
44825366 TAAAAAGTAT
* *
44825376 TTATATTTAAAAACACTACTATAAATATAATATATGTTTTA
1 TTATA-TTAAAAACACTACAATAAATATAATAAATGTTTTA
44825417 TTATATTAAAAACAC-A-AATAAATATAATAAATGTTTTA
1 TTATATTAAAAACACTACAATAAATATAATAAATGTTTTA
*
44825455 TTGTATTAAA
1 TTATATTAAA
44825465 TATAATTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 29 0.64
39 1 0.02
40 10 0.22
41 5 0.11
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (40 bp):
TTATATTAAAAACACTACAATAAATATAATAAATGTTTTA
Found at i:44826519 original size:21 final size:19
Alignment explanation
Indices: 44826493--44826531 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
44826483 ATATTTCTCA
44826493 TTTATAAATTTAAATAATTTG
1 TTTATAAA-TT-AATAATTTG
*
44826514 TTTATATATTAATAATTT
1 TTTATAAATTAATAATTT
44826532 ATTTTATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 2 0.12
21 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTATAAATTAATAATTTG
Found at i:44828171 original size:20 final size:19
Alignment explanation
Indices: 44828146--44828185 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
44828136 TTAAACTATT
44828146 AAAAAACTATTATTTTGAAA
1 AAAAAACTATTATTTT-AAA
* *
44828166 AAAAAATTCTTATTTTAAA
1 AAAAAACTATTATTTTAAA
44828185 A
1 A
44828186 TTATACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAAAACTATTATTTTAAA
Found at i:44833464 original size:24 final size:24
Alignment explanation
Indices: 44833436--44833483 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
44833426 AAGTTTCTCG
44833436 ATTTT-CTTCTCTCAATTAAACTCT
1 ATTTTGCTT-TCTCAATTAAACTCT
* *
44833460 ATTTTGGTTTCTCACTTAAACTCT
1 ATTTTGCTTTCTCAATTAAACTCT
44833484 TATTAACTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.23, C:0.23, G:0.04, T:0.50
Consensus pattern (24 bp):
ATTTTGCTTTCTCAATTAAACTCT
Found at i:44834360 original size:22 final size:22
Alignment explanation
Indices: 44834335--44834378 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
44834325 TAGTCATATA
44834335 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
44834357 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
44834379 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:44834491 original size:15 final size:15
Alignment explanation
Indices: 44834471--44834527 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
44834461 ATTCAATATT
44834471 AATATTTTAATAATA
1 AATATTTTAATAATA
*
44834486 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
44834505 AATATATTAATAATA
1 AATATTTTAATAATA
44834520 AATATTTT
1 AATATTTT
44834528 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 18 0.53
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Done.