Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 141 of 240
Found at i:43990208 original size:239 final size:239
Alignment explanation
Indices: 43989789--43990246 Score: 808
Period size: 239 Copynumber: 1.9 Consensus size: 239
43989779 CCCTTCGGGA
* * * * *
43989789 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
43989854 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
66 TTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
43989919 GGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
131 GGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
43989984 ATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
196 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
43990028 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
43990093 TTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
43990158 GGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
131 GGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
43990223 ATCACATATATACACTTTCACATT
196 ATCACATATATACACTTTCACATT
43990247 TATTCAAATA
Statistics
Matches: 207, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
239 207 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (239 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44000316 original size:4 final size:4
Alignment explanation
Indices: 44000307--44000340 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
44000297 AAGTTTTATT
44000307 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
44000341 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:44000348 original size:22 final size:22
Alignment explanation
Indices: 44000290--44000349 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
44000280 AAGTGGCCCA
*
44000290 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
44000314 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
44000335 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
44000350 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:44002702 original size:18 final size:18
Alignment explanation
Indices: 44002681--44002719 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
44002671 GATTGAGAGT
* *
44002681 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
44002699 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
44002717 GAA
1 GAA
44002720 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:44004128 original size:4 final size:4
Alignment explanation
Indices: 44004119--44004152 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
44004109 AAGTTTTATT
44004119 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
44004153 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:44004160 original size:22 final size:22
Alignment explanation
Indices: 44004102--44004161 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
44004092 AAGTGGCCCA
*
44004102 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
44004126 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
44004147 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
44004162 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:44006473 original size:20 final size:20
Alignment explanation
Indices: 44006448--44006510 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
44006438 ACCACTCCAT
*
44006448 TTACTTACCATTCCATTTAC
1 TTACTTTCCATTCCATTTAC
*
44006468 TTACTTTCCATTTCATTTAC
1 TTACTTTCCATTCCATTTAC
*
44006488 TTACTTTCTATTCCATTTAC
1 TTACTTTCCATTCCATTTAC
44006508 TTA
1 TTA
44006511 GCATAAGCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.52
Consensus pattern (20 bp):
TTACTTTCCATTCCATTTAC
Found at i:44006478 original size:15 final size:16
Alignment explanation
Indices: 44006438--44006480 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
44006428 AAGACTATAA
*
44006438 ACCACTCCATTTACTT
1 ACCATTCCATTTACTT
44006454 ACCATTCCATTTACTT
1 ACCATTCCATTTACTT
*
44006470 A-CTTTCCATTT
1 ACCATTCCATTT
44006481 CATTTACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 9 0.36
16 16 0.64
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (16 bp):
ACCATTCCATTTACTT
Found at i:44013603 original size:65 final size:65
Alignment explanation
Indices: 44013526--44013660 Score: 216
Period size: 65 Copynumber: 2.1 Consensus size: 65
44013516 GGCCTATGGC
* *
44013526 AGTTGATGGGAATAGTTTAACTTATGCGACTAACTAGAGCGTATAGCATCTATAAGGCCCGTGAT
1 AGTTGATGGGAATAGTGTAACTTAAGCGACTAACTAGAGCGTATAGCATCTATAAGGCCCGTGAT
* * * *
44013591 AGTTTATGGGAATAGTGTAACTTAAGCGACTAACTAGCGCGTATTGCATGTATAAGGCCCGTGAT
1 AGTTGATGGGAATAGTGTAACTTAAGCGACTAACTAGAGCGTATAGCATCTATAAGGCCCGTGAT
44013656 AGTTG
1 AGTTG
44013661 GCTAGGGCCA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (65 bp):
AGTTGATGGGAATAGTGTAACTTAAGCGACTAACTAGAGCGTATAGCATCTATAAGGCCCGTGAT
Found at i:44014287 original size:13 final size:13
Alignment explanation
Indices: 44014271--44014329 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
44014261 ACCAAATTTT
*
44014271 TCAAAAGTACTTC
1 TCAAAAGCACTTC
*
44014284 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* * *
44014297 TCCACAGCACTTT
1 TCAAAAGCACTTC
* *
44014310 TCAAAAACACTTT
1 TCAAAAGCACTTC
44014323 TCAAAAG
1 TCAAAAG
44014330 TAATGAAGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.29
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:44016552 original size:45 final size:45
Alignment explanation
Indices: 44016454--44016552 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
44016444 ATCGGTAACG
* *
44016454 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTATCGAATCT
* * *
44016499 GTAGCAGTAACGGTAACAGTATTCGACACACAAAGTATCGAAT-T
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTATCGAATCT
44016543 AGTAACAGTA
1 -GTAACAGTA
44016553 GTCAGCACAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 1 0.02
45 46 0.98
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.23
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTATCGAATCT
Found at i:44018115 original size:24 final size:23
Alignment explanation
Indices: 44018080--44018139 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
44018070 TGTTATGTCT
44018080 TAATTAATTAATTAAT-CAATTTCA
1 TAATTAA-TAATTAATACAATTT-A
*
44018104 TAATATAATAATTAATATAATTTA
1 TAAT-TAATAATTAATACAATTTA
44018128 TAATTTAATAAT
1 TAA-TTAATAAT
44018140 AGATAAAACC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 23 0.72
25 9 0.28
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (23 bp):
TAATTAATAATTAATACAATTTA
Found at i:44019628 original size:13 final size:13
Alignment explanation
Indices: 44019610--44019645 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
44019600 TAGTTTCTTC
*
44019610 AAAAAAAATTCGA
1 AAAAAAAATTCAA
44019623 AAAAAAAATTCAA
1 AAAAAAAATTCAA
44019636 AAAAAAAATT
1 AAAAAAAATT
44019646 GGTTTCCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.17
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:44019637 original size:11 final size:11
Alignment explanation
Indices: 44019607--44019641 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
44019597 TAGTAGTTTC
44019607 TTCAAAAAAAA
1 TTCAAAAAAAA
44019618 TTCGAAAAAAAAA
1 TTC--AAAAAAAA
44019631 TTCAAAAAAAA
1 TTCAAAAAAAA
44019642 AATTGGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.71, C:0.09, G:0.03, T:0.17
Consensus pattern (11 bp):
TTCAAAAAAAA
Found at i:44019705 original size:15 final size:15
Alignment explanation
Indices: 44019682--44019721 Score: 71
Period size: 15 Copynumber: 2.6 Consensus size: 15
44019672 GATATCAAGT
44019682 TGAAAAAAAAATTTCG
1 TGAAAAAAAAA-TTCG
44019698 TGAAAAAAAAATTCG
1 TGAAAAAAAAATTCG
44019713 TGAAAAAAA
1 TGAAAAAAA
44019722 GAAGAAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.62, C:0.05, G:0.12, T:0.20
Consensus pattern (15 bp):
TGAAAAAAAAATTCG
Found at i:44023339 original size:70 final size:70
Alignment explanation
Indices: 44023262--44023401 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
44023252 GAGTTATTTG
44023262 GTTCAAAGAATAAGAAAAGACATCAGTTTTTATGGCACATTAAGTGGATGTTTTTGACCATTCGG
1 GTTCAAAGAATAAGAAAAGACATCAGTTTTTATGGCACATTAAGTGGATGTTTTTGACCATTCGG
44023327 TTACC
66 TTACC
44023332 GTTCAAAGAATAAGAAAAGACATCAGTTTTTATGGCACATTAAGTGGATGTTTTTGACCATTCGG
1 GTTCAAAGAATAAGAAAAGACATCAGTTTTTATGGCACATTAAGTGGATGTTTTTGACCATTCGG
44023397 TTACC
66 TTACC
44023402 TTGTTTTAGC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (70 bp):
GTTCAAAGAATAAGAAAAGACATCAGTTTTTATGGCACATTAAGTGGATGTTTTTGACCATTCGG
TTACC
Found at i:44027780 original size:17 final size:17
Alignment explanation
Indices: 44027758--44027801 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
44027748 AACTAGTTCA
*
44027758 CATTCATTTCAATTTCC
1 CATTCATTTCAATTTAC
44027775 CATTCATTTCAATTTAC
1 CATTCATTTCAATTTAC
44027792 CATTCCATTT
1 CATT-CATTT
44027802 TAATAATTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.25, C:0.27, G:0.00, T:0.48
Consensus pattern (17 bp):
CATTCATTTCAATTTAC
Found at i:44028321 original size:45 final size:45
Alignment explanation
Indices: 44028224--44028321 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
44028214 TCGGTAACGT
* *
44028224 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCTG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTATCGAATCTG
* * *
44028269 TAGCAGTAACGGTAACAGTATTCGACACACAAAGTATCGAAT-TAG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTATCGAATCT-G
44028314 TAACAGTA
1 TAACAGTA
44028322 GTCAGCACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 1 0.02
45 45 0.98
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.23
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTATCGAATCTG
Found at i:44028731 original size:3 final size:3
Alignment explanation
Indices: 44028723--44028761 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
44028713 GAGATTCACA
44028723 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
44028762 CAGTTCAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:44029894 original size:24 final size:23
Alignment explanation
Indices: 44029859--44029918 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 23
44029849 TGTTATGTCT
44029859 TAATTAATTAATTAAT-TAATTTCA
1 TAATTAA-TAATTAATATAATTT-A
44029883 TAATATAATAATTAATATAATTTA
1 TAAT-TAATAATTAATATAATTTA
44029907 TAATTTAATAAT
1 TAA-TTAATAAT
44029919 AGATAAAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
24 23 0.70
25 10 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATTAATAATTAATATAATTTA
Found at i:44031066 original size:10 final size:11
Alignment explanation
Indices: 44031038--44031070 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
44031028 TTTGTAAGAA
44031038 TTATTTCTTTG
1 TTATTTCTTTG
44031049 TTTATTTCTTTG
1 -TTATTTCTTTG
44031061 -TATTTCTTTG
1 TTATTTCTTTG
44031071 AGATGGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
12 11 0.52
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.73
Consensus pattern (11 bp):
TTATTTCTTTG
Found at i:44042109 original size:40 final size:40
Alignment explanation
Indices: 44042061--44042288 Score: 411
Period size: 40 Copynumber: 5.7 Consensus size: 40
44042051 GCAAACACAT
* * *
44042061 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
44042101 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
44042141 TTGCATTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
44042181 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
44042221 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
44042261 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
44042289 TCCAATGCTC
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:44056492 original size:40 final size:40
Alignment explanation
Indices: 44056392--44056655 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
44056382 GCTCCTCGTT
* * * *
44056392 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
44056432 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
44056471 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
44056511 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
44056551 CAAAGGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
44056590 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
44056631 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
44056656 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 67 0.34
40 117 0.59
41 11 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:44056495 original size:79 final size:80
Alignment explanation
Indices: 44056392--44056602 Score: 275
Period size: 79 Copynumber: 2.7 Consensus size: 80
44056382 GCTCCTCGTT
* * * *
44056392 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGG
44056456 ATTTAACAACTCGCA
66 ATTTAACAACTCGCA
* * * *
44056471 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGG
** *
44056536 ATTTAGTATCTCGCA
66 ATTTAACAACTCGCA
* *
44056551 CAAAGGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTCGG
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCACAAATGCCTTCGG
44056603 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
79 65 0.57
80 50 0.43
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGG
ATTTAACAACTCGCA
Found at i:44056571 original size:119 final size:119
Alignment explanation
Indices: 44056394--44056655 Score: 298
Period size: 119 Copynumber: 2.2 Consensus size: 119
44056384 TCCTCGTTCA
* * *
44056394 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-AT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGAAT
* * *
44056458 TTAACAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
66 TT-ACAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAATAACTTAGCAC
* * * *
44056512 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGGA
** * ** * *
44056576 ATTTGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCAC
64 ATTTACAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
*
44056632 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
44056656 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
118 3 0.03
119 97 0.81
120 20 0.17
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGAAT
TTACAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
Found at i:44056615 original size:79 final size:80
Alignment explanation
Indices: 44056359--44056655 Score: 263
Period size: 79 Copynumber: 3.7 Consensus size: 80
44056349 AAATCACGTA
* ** * * *
44056359 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
44056421 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
44056437 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
44056500 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
*
44056517 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGG-CTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
44056580 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
44056596 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
44056656 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 24, Indels: 24
0.79 0.10 0.10
Matches are distributed among these distances:
77 1 0.01
78 15 0.08
79 98 0.54
80 68 0.37
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:44056664 original size:41 final size:41
Alignment explanation
Indices: 44056587--44056664 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44056577 TTTGTATCTC
* * *
44056587 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44056628 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44056665 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44059737 original size:12 final size:12
Alignment explanation
Indices: 44059709--44059749 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
44059699 GGCACATGGT
44059709 CGTG-CCTCAGCC
1 CGTGTCCTCA-CC
44059721 CGTGTCCTCACC
1 CGTGTCCTCACC
*
44059733 TGTGTCCTCACC
1 CGTGTCCTCACC
44059745 CGTGT
1 CGTGT
44059750 AACTCACTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.07, C:0.44, G:0.22, T:0.27
Consensus pattern (12 bp):
CGTGTCCTCACC
Found at i:44064235 original size:16 final size:16
Alignment explanation
Indices: 44064210--44064240 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44064200 CATCATAGCT
44064210 TTGATACATTTACATA
1 TTGATACATTTACATA
*
44064226 TTGATCCATTTACAT
1 TTGATACATTTACAT
44064241 TATAAATAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.45
Consensus pattern (16 bp):
TTGATACATTTACATA
Found at i:44071658 original size:18 final size:19
Alignment explanation
Indices: 44071636--44071682 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
44071626 AAGGAAGACA
44071636 GAAAAAGA-AATCAAAAA-
1 GAAAAAGAGAATCAAAAAG
*
44071653 GAAAAAGAGAATGAAAAAG
1 GAAAAAGAGAATCAAAAAG
44071672 AGAAAAAGAGA
1 -GAAAAAGAGA
44071683 TTGAGATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 8 0.31
18 8 0.31
20 10 0.38
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.04
Consensus pattern (19 bp):
GAAAAAGAGAATCAAAAAG
Found at i:44079164 original size:16 final size:17
Alignment explanation
Indices: 44079133--44079166 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
44079123 CAATTTAGTC
*
44079133 CAAAATTCATACTTTTG
1 CAAAATTCACACTTTTG
44079150 CAAAATT-ACACTTTTG
1 CAAAATTCACACTTTTG
44079166 C
1 C
44079167 CCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (17 bp):
CAAAATTCACACTTTTG
Found at i:44086190 original size:19 final size:19
Alignment explanation
Indices: 44086159--44086196 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
44086149 TTTCAATTGA
*
44086159 AAGAAAAGATAAAAGAGTG
1 AAGAAAAGATAAAACAGTG
44086178 AAGAAAA-ATTAAAACAGTG
1 AAGAAAAGA-TAAAACAGTG
44086197 GAGGAAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.63, C:0.03, G:0.21, T:0.13
Consensus pattern (19 bp):
AAGAAAAGATAAAACAGTG
Found at i:44087523 original size:14 final size:13
Alignment explanation
Indices: 44087504--44087555 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
44087494 AAAGCTTAGA
44087504 AAAACATAGCTTAT
1 AAAACATAGCTT-T
44087518 AAAACAATA-CTTTT
1 AAAAC-ATAGC-TTT
*
44087532 AAAACA-AGCTTG
1 AAAACATAGCTTT
44087544 AAAACATAGCTT
1 AAAACATAGCTT
44087556 GTATAGGAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
12 9 0.27
13 7 0.21
14 12 0.36
15 5 0.15
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (13 bp):
AAAACATAGCTTT
Found at i:44088254 original size:27 final size:27
Alignment explanation
Indices: 44088183--44088254 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
44088173 CCTTAGTTTT
* **
44088183 CCAAACAGACTAGCAAACCCTAGGTTG
1 CCAAACAGACTAGCGAACCCTAGGTCA
* *
44088210 CCAAATAGACTAGTGAACCCTAGGTCA
1 CCAAACAGACTAGCGAACCCTAGGTCA
44088237 CCAAACAGACTAGCGAAC
1 CCAAACAGACTAGCGAAC
44088255 ACAACTTTCA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.39, C:0.29, G:0.18, T:0.14
Consensus pattern (27 bp):
CCAAACAGACTAGCGAACCCTAGGTCA
Found at i:44088344 original size:13 final size:12
Alignment explanation
Indices: 44088319--44088362 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 12
44088309 CTTTGCTAAA
44088319 TTTTACGTGAACT
1 TTTTA-GTGAACT
44088332 TTTTAGTGAAACT
1 TTTTAGTG-AACT
*
44088345 CTTTTGGTGAACT
1 -TTTTAGTGAACT
44088358 TTTTA
1 TTTTA
44088363 TTGATCCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 7 0.26
13 13 0.48
14 7 0.26
ACGTcount: A:0.23, C:0.11, G:0.16, T:0.50
Consensus pattern (12 bp):
TTTTAGTGAACT
Found at i:44101294 original size:60 final size:60
Alignment explanation
Indices: 44101192--44101416 Score: 301
Period size: 60 Copynumber: 3.8 Consensus size: 60
44101182 CTATGGCCAT
* * *
44101192 AAAGG-TTTCCTTTCCAGAGAATTTCCACAAAGGCATCCTTTTCATTCAATACTCACTAC
1 AAAGGCTTTCCTTTCCAGAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTCACCAC
* * *
44101251 AAGGGCTTTCCTTTCTAGAGATTTTCCACAAAGGCATCATTTTCATTCAGTACTCACCAC
1 AAAGGCTTTCCTTTCCAGAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTCACCAC
* * * * * *
44101311 AAAGGCTTTCTTTTCCAAAGATTTGCCACAAAGTCATCTTTTTCATTCAGTACTCGCCA-
1 AAAGGCTTTCCTTTCCAGAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTCACCAC
* *
44101370 AACAGGCTTTCCTTTCCATAGATTTTCCATAAAGGCATCCTTTTCAT
1 AA-AGGCTTTCCTTTCCAGAGATTTTCCACAAAGGCATCCTTTTCAT
44101417 ACATTTTCAC
Statistics
Matches: 144, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
59 6 0.04
60 138 0.96
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.35
Consensus pattern (60 bp):
AAAGGCTTTCCTTTCCAGAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTCACCAC
Found at i:44101325 original size:31 final size:31
Alignment explanation
Indices: 44101216--44101325 Score: 82
Period size: 31 Copynumber: 3.6 Consensus size: 31
44101206 CAGAGAATTT
* * *
44101216 CCACAAAGGCATCCTTTTCATTCAATACTCA
1 CCACAAAGGCTTTCTTTTCATTCAGTACTCA
* * * ** * **
44101247 CTACAAGGGCTTTCCTTTC-TAGAG-ATTTT
1 CCACAAAGGCTTTCTTTTCATTCAGTACTCA
*
44101276 CCACAAAGGC-ATCATTTTCATTCAGTACTCA
1 CCACAAAGGCTTTC-TTTTCATTCAGTACTCA
44101307 CCACAAAGGCTTTCTTTTC
1 CCACAAAGGCTTTCTTTTC
44101326 CAAAGATTTG
Statistics
Matches: 54, Mismatches: 21, Indels: 8
0.65 0.25 0.10
Matches are distributed among these distances:
28 2 0.04
29 14 0.26
30 5 0.09
31 31 0.57
32 2 0.04
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (31 bp):
CCACAAAGGCTTTCTTTTCATTCAGTACTCA
Found at i:44110002 original size:22 final size:23
Alignment explanation
Indices: 44109956--44110004 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
44109946 TATCGATACC
44109956 TAGCTCGGAGGAGCTTACTGTTATT
1 TAGCTCGGAGGAGCTTAC--TTATT
*
44109981 TAGCTCGGAGGAGTTTAC-TATT
1 TAGCTCGGAGGAGCTTACTTATT
44110003 TA
1 TA
44110005 TAGCTTGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
25 17 0.74
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.37
Consensus pattern (23 bp):
TAGCTCGGAGGAGCTTACTTATT
Found at i:44110129 original size:166 final size:166
Alignment explanation
Indices: 44109854--44110188 Score: 652
Period size: 166 Copynumber: 2.0 Consensus size: 166
44109844 TCCAACGACG
44109854 TACAAAAATTACCGAGTACCGTTTGAACCTTAGGAATTTGTACGATACAAATGACATGTCATTAG
1 TACAAAAATTACCGAGTACCGTTTGAACCTTAGGAATTTGTACGATACAAATGACATGTCATTAG
*
44109919 GGTTATCAATTTTACCTCGTATGAGCTTATCGATACCTAGCTCGGAGGAGCTTACTGTTATTTAG
66 GGTTATCAATTTTACCTCGTATGAGCTTATCGATACCCAGCTCGGAGGAGCTTACTGTTATTTAG
44109984 CTCGGAGGAGTTTACTATTTATAGCTTGTAAGAGCA
131 CTCGGAGGAGTTTACTATTTATAGCTTGTAAGAGCA
*
44110020 TACAAAAATTACCGAGTATCGTTTGAACCTTAGGAATTTGTACGATACAAATGACATGTCATTAG
1 TACAAAAATTACCGAGTACCGTTTGAACCTTAGGAATTTGTACGATACAAATGACATGTCATTAG
44110085 GGTTATCAATTTTACCTCGTATGAGCTTATCGATACCCAGCTCGGAGGAGCTTACTGTTATTTAG
66 GGTTATCAATTTTACCTCGTATGAGCTTATCGATACCCAGCTCGGAGGAGCTTACTGTTATTTAG
44110150 CTCGGAGGAGTTTACTATTTATAGCTTGTAAGAGCA
131 CTCGGAGGAGTTTACTATTTATAGCTTGTAAGAGCA
44110186 TAC
1 TAC
44110189 CGATTTAGAG
Statistics
Matches: 167, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
166 167 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (166 bp):
TACAAAAATTACCGAGTACCGTTTGAACCTTAGGAATTTGTACGATACAAATGACATGTCATTAG
GGTTATCAATTTTACCTCGTATGAGCTTATCGATACCCAGCTCGGAGGAGCTTACTGTTATTTAG
CTCGGAGGAGTTTACTATTTATAGCTTGTAAGAGCA
Found at i:44110168 original size:22 final size:23
Alignment explanation
Indices: 44110123--44110170 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 23
44110113 ATCGATACCC
44110123 AGCTCGGAGGAGCTTACTGTTATTT
1 AGCTCGGAGGAGCTTAC--TTATTT
*
44110148 AGCTCGGAGGAGTTTAC-TATTT
1 AGCTCGGAGGAGCTTACTTATTT
44110170 A
1 A
44110171 TAGCTTGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
25 16 0.73
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (23 bp):
AGCTCGGAGGAGCTTACTTATTT
Found at i:44110195 original size:25 final size:25
Alignment explanation
Indices: 44110166--44110213 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
44110156 GGAGTTTACT
* *
44110166 ATTTATAGCTTGTAAGAGCATACCG
1 ATTTAGAGCTCGTAAGAGCATACCG
*
44110191 ATTTAGAGCTCGTATGAGCATAC
1 ATTTAGAGCTCGTAAGAGCATAC
44110214 ATGTACAGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (25 bp):
ATTTAGAGCTCGTAAGAGCATACCG
Found at i:44116492 original size:40 final size:40
Alignment explanation
Indices: 44116432--44116537 Score: 203
Period size: 40 Copynumber: 2.6 Consensus size: 40
44116422 ATAGCTTTAG
44116432 TAAAAGAAGCTACTTGGGAACCCGAGACAGCTATACGGAT
1 TAAAAGAAGCTACTTGGGAACCCGAGACAGCTATACGGAT
*
44116472 TAAAAGAAGCTACTTAGGAACCCGAGACAGCTATACGGAT
1 TAAAAGAAGCTACTTGGGAACCCGAGACAGCTATACGGAT
44116512 TAAAAGAAGCTACTTGGGAACCCGAG
1 TAAAAGAAGCTACTTGGGAACCCGAG
44116538 GAAGCTGTGA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.17
Consensus pattern (40 bp):
TAAAAGAAGCTACTTGGGAACCCGAGACAGCTATACGGAT
Found at i:44129597 original size:23 final size:22
Alignment explanation
Indices: 44129546--44129597 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
44129536 CCTCGTCTTT
*
44129546 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
44129568 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
44129591 TTCTTTT
1 TTCTTTT
44129598 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:44129612 original size:18 final size:18
Alignment explanation
Indices: 44129591--44129629 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
44129581 TTTCTTCAAC
* *
44129591 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
44129609 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
44129627 TTC
1 TTC
44129630 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:44134100 original size:16 final size:15
Alignment explanation
Indices: 44134075--44134105 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
44134065 TGATTAATTT
44134075 TAAAGGTTAAATAAG
1 TAAAGGTTAAATAAG
44134090 TAAATGGTTAAATAAG
1 TAAA-GGTTAAATAAG
44134106 GATAAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (15 bp):
TAAAGGTTAAATAAG
Found at i:44135093 original size:25 final size:25
Alignment explanation
Indices: 44135059--44135107 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
44135049 CCACAGATCG
*
44135059 TGAGAGCATACCGATTTATAGCTCA
1 TGAGAGCATACCGATTCATAGCTCA
44135084 TGAGAGCATACCGATTCATAGCTC
1 TGAGAGCATACCGATTCATAGCTC
44135108 GTATCAGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (25 bp):
TGAGAGCATACCGATTCATAGCTCA
Found at i:44138237 original size:6 final size:6
Alignment explanation
Indices: 44138226--44138250 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
44138216 GTCGAAACCA
44138226 TTCCTT TTCCTT TTCCTT TTCCTT T
1 TTCCTT TTCCTT TTCCTT TTCCTT T
44138251 ACATCATTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCCTT
Found at i:44138324 original size:13 final size:14
Alignment explanation
Indices: 44138306--44138334 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
44138296 TGATGGTCGG
44138306 AATGTAGCT-ACAC
1 AATGTAGCTCACAC
44138319 AATGTAGCTCACAC
1 AATGTAGCTCACAC
44138333 AA
1 AA
44138335 GTTGAAGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (14 bp):
AATGTAGCTCACAC
Found at i:44153487 original size:24 final size:22
Alignment explanation
Indices: 44153446--44153489 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
44153436 CATTATTCAA
*
44153446 ATTTCATATACATGTATCATAC
1 ATTTCATATACATATATCATAC
44153468 ATTTCATATATCAATATATCAT
1 ATTTCATATA-C-ATATATCAT
44153490 GTAACATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTTCATATACATATATCATAC
Found at i:44171141 original size:34 final size:34
Alignment explanation
Indices: 44171090--44171154 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
44171080 AAAATTTGGG
*
44171090 TTGGGTTGAGTTGAGTTTAGTTGAGTTAAATAAT
1 TTGGGTTGAGTTAAGTTTAGTTGAGTTAAATAAT
*
44171124 TTGGGTTGGGTTAAGTTTAGTTGAGTTAAAT
1 TTGGGTTGAGTTAAGTTTAGTTGAGTTAAAT
44171155 TATAAAGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.45
Consensus pattern (34 bp):
TTGGGTTGAGTTAAGTTTAGTTGAGTTAAATAAT
Found at i:44176106 original size:171 final size:170
Alignment explanation
Indices: 44175828--44176136 Score: 431
Period size: 170 Copynumber: 1.8 Consensus size: 170
44175818 AGTTAAGAGC
* * ** *
44175828 GTAGGTTCGTGAGCTGTCAGCTGAGAGCATAGGTCCGCGAGCTATTTCGGAGTAGCAGGCTTAAC
1 GTAGGTCCATGAGCTGTCAGCTGAGAGCATAGGTCCGCGAGCTATCCCAGAGTAGCAGGCTTAAC
* *
44175893 ACAGCTTACTCAAATAAATAAGGTTGTGAGTATAACTCATCTAACCATTAAACATCAGCTGGGAG
66 ACAACTTACTCAAATAAATAAGGTTGTAAGTATAACTCATCTAACCATTAAACATCAGCTGGGAG
44175958 CGTAGGTCGGTGGGCTGTGTTGAAGTTTATCAATAGAAAT
131 CGTAGGTCGGTGGGCTGTGTTGAAGTTTATCAATAGAAAT
* * * * * *
44175998 GTAGGTCCATGAGCTGTCAGTTGAGAGCGTAGGTTCGCGAGTTGTCCCAGAGTAG-TGAGCTTAA
1 GTAGGTCCATGAGCTGTCAGCTGAGAGCATAGGTCCGCGAGCTATCCCAGAGTAGCAG-GCTTAA
* * * * *
44176062 CTCAACTTACTGAAATAAATGAAGGTTGTAAGTATAATTCATCTAACCTTTAAACATCAGCTTGG
65 CACAACTTACTCAAATAAAT-AAGGTTGTAAGTATAACTCATCTAACCATTAAACATCAGCTGGG
44176127 AGCGTAGGTC
129 AGCGTAGGTC
44176137 CTCAAGTTGT
Statistics
Matches: 119, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
169 1 0.01
170 68 0.57
171 50 0.42
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (170 bp):
GTAGGTCCATGAGCTGTCAGCTGAGAGCATAGGTCCGCGAGCTATCCCAGAGTAGCAGGCTTAAC
ACAACTTACTCAAATAAATAAGGTTGTAAGTATAACTCATCTAACCATTAAACATCAGCTGGGAG
CGTAGGTCGGTGGGCTGTGTTGAAGTTTATCAATAGAAAT
Found at i:44181121 original size:31 final size:32
Alignment explanation
Indices: 44181042--44181311 Score: 214
Period size: 33 Copynumber: 8.2 Consensus size: 32
44181032 CAAATGTATG
* * *
44181042 TATATACTCATCAAATAATTATAACCGAATGCATA
1 TATACACT-ATCAAATACTTATAATCGAATGC--A
* *
44181077 TATATACTAATCAACTACTTATAATCGAATGCA
1 TATACACT-ATCAAATACTTATAATCGAATGCA
44181110 TATACAC-ATCAAATA--TATACATTCGAATGCA
1 TATACACTATCAAATACTTATA-A-TCGAATGCA
*
44181141 TATACACCTATCCAATACTTATAATCGAATGCA
1 TATACA-CTATCAAATACTTATAATCGAATGCA
* * *
44181174 TATACAC-ATCAAAT-GTATACAACCGAATGCA
1 TATACACTATCAAATACT-TATAATCGAATGCA
* * *
44181205 TATATACCTATCAAATACTTAAAATCAAATGCA
1 TATACA-CTATCAAATACTTATAATCGAATGCA
*
44181238 TATACAC-ATCAAAGGTA--TATAACCGAATGCATA
1 TATACACTATCAAA--TACTTATAATCGAATGC--A
* * *
44181271 TATATATCTATCAAATACTTATAATCAAAAGCA
1 TATACA-CTATCAAATACTTATAATCGAATGCA
44181304 TATACACT
1 TATACACT
44181312 GCAAAGGTAT
Statistics
Matches: 192, Mismatches: 25, Indels: 39
0.75 0.10 0.15
Matches are distributed among these distances:
29 4 0.02
30 2 0.01
31 61 0.32
32 6 0.03
33 68 0.35
34 3 0.02
35 48 0.25
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (32 bp):
TATACACTATCAAATACTTATAATCGAATGCA
Found at i:44181145 original size:16 final size:17
Alignment explanation
Indices: 44181100--44181208 Score: 74
Period size: 14 Copynumber: 6.8 Consensus size: 17
44181090 ACTACTTATA
44181100 ATCGAATGCATATACAC
1 ATCGAATGCATATACAC
*
44181117 ATCAAAT--ATATACA-
1 ATCGAATGCATATACAC
*
44181131 TTCGAATGCATATACACC
1 ATCGAATGCATATACA-C
* * *
44181149 TATCCAATAC-T-TATA-
1 -ATCGAATGCATATACAC
44181164 ATCGAATGCATATACAC
1 ATCGAATGCATATACAC
*
44181181 ATCAAATG--TATACA-
1 ATCGAATGCATATACAC
*
44181195 ACCGAATGCATATA
1 ATCGAATGCATATA
44181209 TACCTATCAA
Statistics
Matches: 69, Mismatches: 13, Indels: 21
0.67 0.13 0.20
Matches are distributed among these distances:
14 18 0.26
15 14 0.20
16 14 0.20
17 16 0.23
18 1 0.01
19 6 0.09
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (17 bp):
ATCGAATGCATATACAC
Found at i:44181305 original size:35 final size:34
Alignment explanation
Indices: 44181032--44181307 Score: 152
Period size: 35 Copynumber: 8.4 Consensus size: 34
44181022 TGTATAAAAC
* * * *
44181032 CAAATGTATGTATATACTCATCAAATAATTATAAC
1 CAAATGCATATATATACT-ATCAAATACTTATAAT
* *
44181067 CGAATGCATATATATACTAATCAACTACTTATAAT
1 CAAATGCATATATATACT-ATCAAATACTTATAAT
* *
44181102 CGAATGC--ATATACAC-ATCAAATA--TATACATT
1 CAAATGCATATATATACTATCAAATACTTATA-A-T
* * * *
44181133 CGAATGCATATACA-CCTATCCAATACTTATAAT
1 CAAATGCATATATATACTATCAAATACTTATAAT
* * * * *
44181166 CGAATGC--ATATACAC-ATCAAAT-GTATACAAC
1 CAAATGCATATATATACTATCAAATACT-TATAAT
* * *
44181197 CGAATGCATATATA-CCTATCAAATACTTAAAAT
1 CAAATGCATATATATACTATCAAATACTTATAAT
* *
44181230 CAAATGC--ATATACAC-ATCAAAGGTA--TATAAC
1 CAAATGCATATATATACTATCAAA--TACTTATAAT
*
44181261 CGAATGCATATATATATCTATCAAATACTTATAAT
1 CAAATGCATATATATA-CTATCAAATACTTATAAT
*
44181296 CAAAAGCATATA
1 CAAATGCATATA
44181308 CACTGCAAAG
Statistics
Matches: 188, Mismatches: 31, Indels: 44
0.71 0.12 0.17
Matches are distributed among these distances:
29 4 0.02
30 2 0.01
31 57 0.30
32 4 0.02
33 58 0.31
34 3 0.02
35 60 0.32
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (34 bp):
CAAATGCATATATATACTATCAAATACTTATAAT
Found at i:44181310 original size:66 final size:66
Alignment explanation
Indices: 44181061--44181353 Score: 368
Period size: 64 Copynumber: 4.5 Consensus size: 66
44181051 ATCAAATAAT
* *
44181061 TATAACCGAATGCATATATATA-CTAATCAACTACTTATAATCGAATGCATATACACATCAAA--
1 TATAACCGAATGCATATATATACCT-ATCAAATACTTATAATCAAATGCATATACACATCAAAGG
44181123 TA
65 TA
* * * * *
44181125 TATACATTCGAATGC--ATATACACCTATCCAATACTTATAATCGAATGCATATACACATCAAAT
1 TATA-A-CCGAATGCATATATATACCTATCAAATACTTATAATCAAATGCATATACACATCAAAG
44181188 GTA
64 GTA
* *
44181191 TACAACCGAATGC--ATATATACCTATCAAATACTTAAAATCAAATGCATATACACATCAAAGGT
1 TATAACCGAATGCATATATATACCTATCAAATACTTATAATCAAATGCATATACACATCAAAGGT
44181254 A
66 A
* *
44181255 TATAACCGAATGCATATATATATCTATCAAATACTTATAATCAAAAGCATATACAC-TGCAAAGG
1 TATAACCGAATGCATATATATACCTATCAAATACTTATAATCAAATGCATATACACAT-CAAAGG
44181319 TA
65 TA
* * *
44181321 TATAACCGAATGCATATAAATACTTATTAAATA
1 TATAACCGAATGCATATATATACCTATCAAATA
44181354 AGATATAATA
Statistics
Matches: 202, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
64 110 0.54
65 5 0.02
66 87 0.43
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (66 bp):
TATAACCGAATGCATATATATACCTATCAAATACTTATAATCAAATGCATATACACATCAAAGGT
A
Found at i:44181336 original size:31 final size:29
Alignment explanation
Indices: 44181096--44181338 Score: 107
Period size: 31 Copynumber: 7.6 Consensus size: 29
44181086 ATCAACTACT
*
44181096 TATAATCGAATGCATATACACATCAAA-TA
1 TATAACCGAATGCATATACAC-TCAAAGTA
* *
44181125 TATACATTCGAATGCATATACACCTATCCAA-TA
1 TATA-A-CCGAATGCATATACA-C--TCAAAGTA
*
44181158 CTTATAATCGAATGCATATACACATCAAATGTA
1 --TATAACCGAATGCATATACAC-TCAAA-GTA
* *
44181191 TACAACCGAATGCATATATACCTATCAAA-TA
1 TATAACCGAATGCATATACA-C--TCAAAGTA
* * *
44181222 CTTAAAATCAAATGCATATACACATCAAAGGTA
1 --TATAACCGAATGCATATACAC-TCAAA-GTA
*
44181255 TATAACCGAATGCATATATATATCTATCAAA-TA
1 TATAACCGAATGC--ATATACA-C--TCAAAGTA
* * *
44181288 CTTATAATCAAAAGCATATACACTGCAAAGGTA
1 --TATAACCGAATGCATATACACT-CAAA-GTA
44181321 TATAACCGAATGCATATA
1 TATAACCGAATGCATATA
44181339 AATACTTATT
Statistics
Matches: 171, Mismatches: 20, Indels: 44
0.73 0.09 0.19
Matches are distributed among these distances:
29 4 0.02
30 2 0.01
31 74 0.43
32 5 0.03
33 64 0.37
34 2 0.01
35 20 0.12
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.28
Consensus pattern (29 bp):
TATAACCGAATGCATATACACTCAAAGTA
Found at i:44181859 original size:78 final size:78
Alignment explanation
Indices: 44181697--44181950 Score: 370
Period size: 78 Copynumber: 3.3 Consensus size: 78
44181687 AAGTATTTAC
* * * * * * *
44181697 AATTCATACTTTTAATTCAACTCAAGT-ACTTGTATATGTATATAC--ATCTATTCGAATCACAC
1 AATTCATACCTTTAATTCAATTCAA-TAACTTATACATGTATATACATATATATTCGAACCTCAC
* * *
44181759 ACATACATATGTAA
65 ATATACATATATAT
*
44181773 AATTCATACCTTTAATTTAATTCAATAACTTATACATGTATATACATATATATTCGAACCTCACA
1 AATTCATACCTTTAATTCAATTCAATAACTTATACATGTATATACATATATATTCGAACCTCACA
44181838 TATACATATATAT
66 TATACATATATAT
*
44181851 AATTCATACCTTTAATTCAATTCAAGAACTTATACATGTATATACATATATATTCGAACCTCACA
1 AATTCATACCTTTAATTCAATTCAATAACTTATACATGTATATACATATATATTCGAACCTCACA
44181916 TATACATATATAT
66 TATACATATATAT
44181929 AATTCATACCTTTAATTCAATT
1 AATTCATACCTTTAATTCAATT
44181951 TATATACTTT
Statistics
Matches: 162, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
75 1 0.01
76 38 0.23
78 123 0.76
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.39
Consensus pattern (78 bp):
AATTCATACCTTTAATTCAATTCAATAACTTATACATGTATATACATATATATTCGAACCTCACA
TATACATATATAT
Found at i:44186293 original size:94 final size:94
Alignment explanation
Indices: 44186109--44186279 Score: 234
Period size: 94 Copynumber: 1.8 Consensus size: 94
44186099 CAGTGAAACC
* * * * *
44186109 ACAAATCCTATACCCCTGAAGTTACAGTAGGTCGGATTGAATCTACCATAGCGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTACAGTAGGTCGGATTGAAACTACAACAACAAATCTTATCTCC
*
44186174 TTGAAGTTGCAGCAGAGCAAAATGAAGAT
66 TTGAAGTTGCAACAGAGCAAAATGAAGAT
* ** * * *
44186203 ACAAATCCTATACCCTTGAAGTTGTATTGGGTCGGCTTGAAACTACAACAACAAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTACAGTAGGTCGGATTGAAACTACAACAACAAATCTTATCTCC
44186268 TTGAAGTTGCAA
66 TTGAAGTTGCAA
44186280 TGGAGTAAGA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
94 65 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (94 bp):
ACAAATCCTATACCCCTGAAGTTACAGTAGGTCGGATTGAAACTACAACAACAAATCTTATCTCC
TTGAAGTTGCAACAGAGCAAAATGAAGAT
Found at i:44196960 original size:179 final size:179
Alignment explanation
Indices: 44196660--44197024 Score: 658
Period size: 179 Copynumber: 2.0 Consensus size: 179
44196650 TGTAAATATT
44196660 TAGGAAGTTAGGGATAGGTGAAGTTAGACCTACTACAGTTACGCTTCAATTAGCAGATCGATCCT
1 TAGGAAGTTAGGGATAGGTGAAGTTAGACCTACTACAGTTACGCTTCAATTAGCAGATCGATCCT
* * *
44196725 TAGCACATCTAGAAGGAAAACTAGAGGACGTATTGGTACGTGTAGACAAATTTATTTTTCTTGCT
66 TAGCACATCTAGAAGAAAAACTAGAGGACGTATTGGTACGTGTAGACAAATTTATTTCTCTTACT
* *
44196790 GACTTTGTTATTCTAGACTTTAAAGTAGACAAATAACTGTCAATCATCC
131 GACTTTGTTATTCTAGACTTTAAAGCAGACAAATAACTATCAATCATCC
44196839 TAGGAAGTTAGGGATAGGTGAAGTTAGACCTACTACAGTTACGCTTCAATTAGCAGATCGATCCT
1 TAGGAAGTTAGGGATAGGTGAAGTTAGACCTACTACAGTTACGCTTCAATTAGCAGATCGATCCT
*
44196904 TAGCACATCTAGAAGAAAAACTAGAGGACGTATTGGTACGTGTAGACAAATTTATTTCTCTTATT
66 TAGCACATCTAGAAGAAAAACTAGAGGACGTATTGGTACGTGTAGACAAATTTATTTCTCTTACT
* *
44196969 GACTTTGTTATTCTAGACTTTGAAGCAGACAAATAAGTATCAATCATCC
131 GACTTTGTTATTCTAGACTTTAAAGCAGACAAATAACTATCAATCATCC
44197018 TAGGAAG
1 TAGGAAG
44197025 GCATTTCCTA
Statistics
Matches: 178, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
179 178 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (179 bp):
TAGGAAGTTAGGGATAGGTGAAGTTAGACCTACTACAGTTACGCTTCAATTAGCAGATCGATCCT
TAGCACATCTAGAAGAAAAACTAGAGGACGTATTGGTACGTGTAGACAAATTTATTTCTCTTACT
GACTTTGTTATTCTAGACTTTAAAGCAGACAAATAACTATCAATCATCC
Found at i:44200569 original size:16 final size:15
Alignment explanation
Indices: 44200542--44200575 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
44200532 AAGATGATAA
*
44200542 TATAATTATATTTAT
1 TATAATTATATTAAT
44200557 TATAATATATATTAAT
1 TATAAT-TATATTAAT
44200573 TAT
1 TAT
44200576 TATCAACTTT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:44201224 original size:25 final size:25
Alignment explanation
Indices: 44201190--44201249 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
44201180 AATTTCAATT
*
44201190 TTATTTAATTATTTAAT-TTTTCA-AA
1 TTATTAAATTA-TTAATATTTT-ATAA
*
44201215 TTATTAAATTATTAATATTTTATAC
1 TTATTAAATTATTAATATTTTATAA
44201240 TTATTAAATT
1 TTATTAAATT
44201250 TTTGAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 6 0.19
25 25 0.81
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (25 bp):
TTATTAAATTATTAATATTTTATAA
Found at i:44201228 original size:8 final size:8
Alignment explanation
Indices: 44201190--44201249 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
44201180 AATTTCAATT
*
44201190 TTATTTAA
1 TTATTAAA
*
44201198 TTATTTAA
1 TTATTAAA
*
44201206 TTTTTCAAA
1 TTATT-AAA
44201215 TTATTAAA
1 TTATTAAA
44201223 TTATTAATA
1 TTATTAA-A
*
44201232 TT-TTATAC
1 TTATTA-AA
44201240 TTATTAAA
1 TTATTAAA
44201248 TT
1 TT
44201250 TTTGAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
8 30 0.70
9 13 0.30
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (8 bp):
TTATTAAA
Found at i:44207096 original size:17 final size:16
Alignment explanation
Indices: 44207074--44207107 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44207064 GGGGATGGCA
44207074 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
44207091 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
44207107 T
1 T
44207108 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:44225839 original size:40 final size:40
Alignment explanation
Indices: 44225784--44226051 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
44225774 AGCATTTGAA
44225784 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
44225824 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
44225864 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
44225904 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
44225944 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
44225984 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
44226024 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
44226052 AGGTGTTTGC
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:44230699 original size:37 final size:37
Alignment explanation
Indices: 44230651--44230792 Score: 128
Period size: 37 Copynumber: 3.8 Consensus size: 37
44230641 TCTATTGAGC
44230651 CAAATCTTACTGTTATACTGAATGAAGCTCAATCGAG
1 CAAATCTTACTGTTATACTGAATGAAGCTCAATCGAG
* * * *
44230688 CAAATCATACTGTTATACTGAAT-AGAGTTTAA-CATAG
1 CAAATCTTACTGTTATACTGAATGA-AGCTCAATC-GAG
* * * * * *
44230725 CAAATCTTACTGTTATACTGACTGATGTTTAATTGAT
1 CAAATCTTACTGTTATACTGAATGAAGCTCAATCGAG
* *
44230762 CAAAT-TCTACTGTTATACCGAGTGAAGCTCA
1 CAAATCT-TACTGTTATACTGAATGAAGCTCA
44230793 CACGAGTAGA
Statistics
Matches: 85, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
36 3 0.04
37 81 0.95
38 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (37 bp):
CAAATCTTACTGTTATACTGAATGAAGCTCAATCGAG
Found at i:44248730 original size:44 final size:43
Alignment explanation
Indices: 44248677--44248819 Score: 110
Period size: 44 Copynumber: 3.3 Consensus size: 43
44248667 GTTGCTGGTA
44248677 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCAACAACT
1 CAGGAAGGCAAGATCTGCTA-TTTTAACCTGCTCCGCAACAACT
* * * * * * * ** **
44248721 CAGGGAGGCAAGGT-TGGTGTCTTAGATCTGCTTCGCTGTC-GGT
1 CAGGAAGGCAAGATCTGCTATTTTA-ACCTGCTCCGC-AACAACT
* *
44248764 GCAGGAAGGCAAGATCTGCTATTTTAACCTGCTCCGCTACAACC
1 -CAGGAAGGCAAGATCTGCTATTTTAACCTGCTCCGCAACAACT
*
44248808 CAGGGAGGCAAG
1 CAGGAAGGCAAG
44248820 GCTGGTGCCT
Statistics
Matches: 70, Mismatches: 24, Indels: 11
0.67 0.23 0.10
Matches are distributed among these distances:
42 4 0.06
43 25 0.36
44 34 0.49
45 7 0.10
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (43 bp):
CAGGAAGGCAAGATCTGCTATTTTAACCTGCTCCGCAACAACT
Found at i:44248839 original size:87 final size:87
Alignment explanation
Indices: 44248412--44248906 Score: 568
Period size: 87 Copynumber: 5.7 Consensus size: 87
44248402 TTTGCTACCA
* * *
44248412 GTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAGGTCAAGGCTAG
1 GTACAGGAAGGCAAGATCTGCTAT-TTTAACCTGCTCCGCTGCAACCCAGGGAGG-CAAGGCTGG
* * * **
44248477 TGTCTTCAATCAGCTTC-TTGTTA
64 TGTCTTCGATCTGCTTCACTGTCG
* * * *
44248500 GTACCA-GAAGGCAAGATTTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAG
1 GTA-CAGGAAGGCAAGATCTGCTAT-TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGG
* * * *
44248564 TGTCTT-AATCTACTTCACTTTCA
64 TGTCTTCGATCTGCTTCACTGTCG
* *
44248587 GTACA-GAAGGCAAGATCTGCTATTTTCAACCTACTCCGCTGCATCCCAGGGAGGCAAGGCTGGT
1 GTACAGGAAGGCAAGATCTGCTATTTT-AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGT
* **
44248651 GTCTTTGATCTGCTTCGTTG-CTG
65 GTCTTCGATCTGCTTCACTGTC-G
** * *
44248674 GTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCAACAACTCAGGGAGGCAAGGTTGGT
1 GTACAGGAAGGCAAGATCTGCTA-TTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGT
* *
44248739 GTCTTAGATCTGCTTCGCTGTCG
65 GTCTTCGATCTGCTTCACTGTCG
* *
44248762 GTGCAGGAAGGCAAGATCTGCTATTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGCTGGTG
1 GTACAGGAAGGCAAGATCTGCTATTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTG
* * *
44248827 CCTTCGAGCTGCTTTACTGTCG
66 TCTTCGATCTGCTTCACTGTCG
* * * *
44248849 GTGCAGGAAGGCAAGATCTACAATTTTAATCTGCTCCGCTGCAACCCAGGGAGGCAAG
1 GTACAGGAAGGCAAGATCTGCTATTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAG
44248907 AAGCCGGATG
Statistics
Matches: 360, Mismatches: 39, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
85 3 0.01
86 65 0.18
87 145 0.40
88 140 0.39
89 7 0.02
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (87 bp):
GTACAGGAAGGCAAGATCTGCTATTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTG
TCTTCGATCTGCTTCACTGTCG
Found at i:44264643 original size:42 final size:42
Alignment explanation
Indices: 44264581--44264686 Score: 158
Period size: 42 Copynumber: 2.5 Consensus size: 42
44264571 CCACCAGTAT
* * *
44264581 TTGCAAATAAACTACTAGAAATATGTGGATAAATCACCAAAA
1 TTGCAAATAAAATACCAGAAATATGTGGATAAACCACCAAAA
* * *
44264623 TTGTAGATAAATTACCAGAAATATGTGGATAAACCACCAAAA
1 TTGCAAATAAAATACCAGAAATATGTGGATAAACCACCAAAA
44264665 TTGCAAATAAAATACCAGAAAT
1 TTGCAAATAAAATACCAGAAAT
44264687 TTTCTCCTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.50, C:0.14, G:0.12, T:0.24
Consensus pattern (42 bp):
TTGCAAATAAAATACCAGAAATATGTGGATAAACCACCAAAA
Found at i:44264654 original size:22 final size:22
Alignment explanation
Indices: 44264587--44264655 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
44264577 GTATTTGCAA
* *
44264587 ATAAACTACTAGAAATATGTGG
1 ATAAATTACCAGAAATATGTGG
* *
44264609 ATAAATCACCA-AAAT-TGTAG
1 ATAAATTACCAGAAATATGTGG
44264629 ATAAATTACCAGAAATATGTGG
1 ATAAATTACCAGAAATATGTGG
44264651 ATAAA
1 ATAAA
44264656 CCACCAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 14 0.36
21 8 0.21
22 17 0.44
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.26
Consensus pattern (22 bp):
ATAAATTACCAGAAATATGTGG
Found at i:44264661 original size:22 final size:21
Alignment explanation
Indices: 44264599--44264665 Score: 82
Period size: 20 Copynumber: 3.2 Consensus size: 21
44264589 AAACTACTAG
*
44264599 AAATATGTGGATAAATCACCA
1 AAATATGTGGATAAACCACCA
* **
44264620 AAAT-TGTAGATAAATTACCA
1 AAATATGTGGATAAACCACCA
44264640 GAAATATGTGGATAAACCACCA
1 -AAATATGTGGATAAACCACCA
44264662 AAAT
1 AAAT
44264666 TGCAAATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
20 14 0.36
21 12 0.31
22 13 0.33
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.24
Consensus pattern (21 bp):
AAATATGTGGATAAACCACCA
Found at i:44269338 original size:17 final size:16
Alignment explanation
Indices: 44269318--44269372 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
44269308 TTTATTATTT
44269318 TTTATGTTTTTCTTTAC
1 TTTAT-TTTTTCTTTAC
* *
44269335 TTTATTTATTACTTTAT
1 TTTATTT-TTTCTTTAC
*
44269352 TTTATTTTAT-TTTAC
1 TTTATTTTTTCTTTAC
44269367 -TTATTT
1 TTTATTT
44269373 GATATTAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 6 0.19
15 4 0.12
16 3 0.09
17 19 0.59
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTATTTTTTCTTTAC
Found at i:44274452 original size:84 final size:86
Alignment explanation
Indices: 44274324--44274571 Score: 376
Period size: 85 Copynumber: 2.9 Consensus size: 86
44274314 TTTACAAACC
* * * *
44274324 AAAAACGCCGCTAAAAACCATGTTCTTTAGCGGCGCTTA-CAAAAAAACGCCGCTAAAGAACATG
1 AAAAACGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGACCATG
*
44274388 TTCTTCAGCGGCGCTCAG-AA
66 TTCTTTAGCGGCGCTCAGAAA
* *
44274408 AAAAATGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCTCTAAAGACCATG
1 AAAAACGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGACCATG
*
44274473 TTCTTTAGCGGCGCTTAGAAA
66 TTCTTTAGCGGCGCTCAGAAA
*
44274494 AAAAACGCCT-CTAAAGACCATGTTCATTAGCGGCGCTTAGATAAAAAAACGCCGCTAAAGACCA
1 AAAAACG-CTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGA-AAAAAAACGCCGCTAAAGACCA
44274558 TGTTCTTTAGCGGC
64 TGTTCTTTAGCGGC
44274572 ATTTATTCTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
84 36 0.24
85 38 0.26
86 38 0.26
87 37 0.25
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (86 bp):
AAAAACGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGACCATG
TTCTTTAGCGGCGCTCAGAAA
Found at i:44274453 original size:43 final size:43
Alignment explanation
Indices: 44274324--44274571 Score: 383
Period size: 43 Copynumber: 5.8 Consensus size: 43
44274314 TTTACAAACC
* *
44274324 AAAAACGCCGCTAAAAACCATGTTCTTTAGCGGCGCTTA-CAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
* * *
44274366 AAAAACGCCGCTAAAGAACATGTTCTTCAGCGGCGCTCAG-AA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
* *
44274408 AAAAATGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
*
44274451 AAAAACGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
* *
44274494 AAAAACGCCTCTAAAGACCATGTTCATTAGCGGCGCTTAGATAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGA-AA
44274538 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGC
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGC
44274572 ATTTATTCTT
Statistics
Matches: 188, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
42 72 0.38
43 82 0.44
44 34 0.18
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
Found at i:44275003 original size:21 final size:21
Alignment explanation
Indices: 44274977--44275022 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
44274967 TTTTGGTCTG
44274977 CTCTGCTTCCCTCGCTG-CGGC
1 CTCTGCTTCCCTCGCTGTC-GC
44274998 CTCTGCTTCCCTCGCTGTCGC
1 CTCTGCTTCCCTCGCTGTCGC
44275019 CTCT
1 CTCT
44275023 ACTTTAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.00, C:0.48, G:0.20, T:0.33
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTCGC
Found at i:44280451 original size:9 final size:9
Alignment explanation
Indices: 44280437--44280521 Score: 79
Period size: 9 Copynumber: 9.9 Consensus size: 9
44280427 TAGTTATACA
44280437 TTATGTAAG
1 TTATGTAAG
44280446 TTATGTAAG
1 TTATGTAAG
44280455 TTATGTAAG
1 TTATGTAAG
*
44280464 TTGTGTAAG
1 TTATGTAAG
*
44280473 TTGTGT-A-
1 TTATGTAAG
* *
44280480 TTATGAAAC
1 TTATGTAAG
44280489 TTATGTAAG
1 TTATGTAAG
**
44280498 TTGCGTAAG
1 TTATGTAAG
*
44280507 TTGTGT-A-
1 TTATGTAAG
44280514 TTATGTAA
1 TTATGTAA
44280522 CTTACCCTTG
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
7 9 0.14
8 4 0.06
9 51 0.80
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:44280493 original size:34 final size:34
Alignment explanation
Indices: 44280446--44280525 Score: 133
Period size: 34 Copynumber: 2.4 Consensus size: 34
44280436 ATTATGTAAG
* *
44280446 TTATGTAAGTTATGTAAGTTGTGTAAGTTGTGTA
1 TTATGTAACTTATGTAAGTTGCGTAAGTTGTGTA
*
44280480 TTATGAAACTTATGTAAGTTGCGTAAGTTGTGTA
1 TTATGTAACTTATGTAAGTTGCGTAAGTTGTGTA
44280514 TTATGTAACTTA
1 TTATGTAACTTA
44280526 CCCTTGACAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.45
Consensus pattern (34 bp):
TTATGTAACTTATGTAAGTTGCGTAAGTTGTGTA
Found at i:44280637 original size:9 final size:9
Alignment explanation
Indices: 44280623--44281026 Score: 120
Period size: 9 Copynumber: 47.9 Consensus size: 9
44280613 AAGTTATACA
44280623 TTATGTAAG
1 TTATGTAAG
44280632 TTATGTAAG
1 TTATGTAAG
*
44280641 TTGTGTAAG
1 TTATGTAAG
44280650 -T-TGT-A-
1 TTATGTAAG
* *
44280655 TTATGAAAC
1 TTATGTAAG
44280664 TTATGTAAG
1 TTATGTAAG
**
44280673 TTGCGTAAG
1 TTATGTAAG
*
44280682 TTGTGT-A-
1 TTATGTAAG
*
44280689 TTATGTAAC
1 TTATGTAAG
* *
44280698 TTATTTAAC
1 TTATGTAAG
44280707 TTATGT-AG
1 TTATGTAAG
* *
44280715 GTATGT-AT
1 TTATGTAAG
*
44280723 TATATGTAAC
1 T-TATGTAAG
* *
44280733 TTATTTAAA
1 TTATGTAAG
*
44280742 TTATGTAGG
1 TTATGTAAG
*
44280751 GTATGTAAG
1 TTATGTAAG
44280760 -TATGTAAG
1 TTATGTAAG
*
44280768 TTCTGT-A-
1 TTATGTAAG
*
44280775 TTATTTACA-
1 TTATGTA-AG
*
44280784 -CATGTAAG
1 TTATGTAAG
*
44280792 TTATGT--C
1 TTATGTAAG
44280799 TTATGTAA-
1 TTATGTAAG
44280807 --ATGCATAAG
1 TTATG--TAAG
*
44280816 -TGTGT-A-
1 TTATGTAAG
* *
44280822 TTATGAAAC
1 TTATGTAAG
44280831 TTATGTAAG
1 TTATGTAAG
**
44280840 TTGCGTAAG
1 TTATGTAAG
*
44280849 TTGTGT-A-
1 TTATGTAAG
*
44280856 TTATGTAAC
1 TTATGTAAG
* *
44280865 TTATTTAAT
1 TTATGTAAG
*
44280874 TTATGTAGG
1 TTATGTAAG
*
44280883 GTATGTATTA-
1 TTATGTA--AG
*
44280893 TTATGTAAC
1 TTATGTAAG
* *
44280902 TTATTTAAT
1 TTATGTAAG
*
44280911 TTATGTAGG
1 TTATGTAAG
*
44280920 GTATGTAAG
1 TTATGTAAG
44280929 TTATGTAAG
1 TTATGTAAG
*
44280938 TTCTGT-A-
1 TTATGTAAG
*
44280945 TTATTTACA-
1 TTATGTA-AG
*
44280954 -CATGTAAG
1 TTATGTAAG
*
44280962 TTGTGT-A-
1 TTATGTAAG
44280969 TTATGTAAG
1 TTATGTAAG
*
44280978 TTATGCAAG
1 TTATGTAAG
44280987 TTATGT-A-
1 TTATGTAAG
* *
44280994 TTAAGTAGG
1 TTATGTAAG
44281003 TTATGTAAG
1 TTATGTAAG
44281012 TTATGT--G
1 TTATGTAAG
44281019 TTATGTAA
1 TTATGTAA
44281027 ATGAATATAT
Statistics
Matches: 290, Mismatches: 68, Indels: 74
0.67 0.16 0.17
Matches are distributed among these distances:
6 5 0.02
7 52 0.18
8 40 0.14
9 183 0.63
10 10 0.03
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:44280659 original size:32 final size:33
Alignment explanation
Indices: 44280622--44280893 Score: 144
Period size: 34 Copynumber: 8.2 Consensus size: 33
44280612 TAAGTTATAC
*
44280622 ATTATGTAAGTTATGTAAGTTGTGTAAGT-TGT
1 ATTATGTAACTTATGTAAGTTGTGTAAGTATGT
* * *
44280654 ATTATGAAACTTATGTAAGTTGCGTAAGTTGTGT
1 ATTATGTAACTTATGTAAGTTGTGTAAG-TATGT
* * * *
44280688 ATTATGTAACTTATTTAACTTATGTAGGTATGT
1 ATTATGTAACTTATGTAAGTTGTGTAAGTATGT
* * * *
44280721 ATTATATGTAACTTATTTAAATTATGTAGGGTATGT
1 A-T-TATGTAACTTATGTAAGTTGTGTA-AGTATGT
* * * * * *
44280757 AAGTATGTAAGTTCTGT-A-TTATTTACA-CATGT
1 -ATTATGTAACTTATGTAAGTTGTGTA-AGTATGT
* ** *
44280789 AAGTTATGT--CTTATGTAA-ATGCATAAGTGTGT
1 -A-TTATGTAACTTATGTAAGTTGTGTAAGTATGT
* * *
44280821 ATTATGAAACTTATGTAAGTTGCGTAAGTTGTGT
1 ATTATGTAACTTATGTAAGTTGTGTAAG-TATGT
* * * *
44280855 ATTATGTAACTTATTTAATTTATGTAGGGTATGT
1 ATTATGTAACTTATGTAAGTTGTGTA-AGTATGT
44280889 ATTAT
1 ATTAT
44280894 TATGTAACTT
Statistics
Matches: 188, Mismatches: 38, Indels: 26
0.75 0.15 0.10
Matches are distributed among these distances:
30 5 0.03
31 7 0.04
32 47 0.25
33 24 0.13
34 62 0.33
35 35 0.19
36 7 0.04
37 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (33 bp):
ATTATGTAACTTATGTAAGTTGTGTAAGTATGT
Found at i:44280732 original size:35 final size:36
Alignment explanation
Indices: 44280690--44280757 Score: 120
Period size: 35 Copynumber: 1.9 Consensus size: 36
44280680 AGTTGTGTAT
*
44280690 TATGTAACTTATTTAACTTATGTA-GGTATGTATTA
1 TATGTAACTTATTTAAATTATGTAGGGTATGTATTA
44280725 TATGTAACTTATTTAAATTATGTAGGGTATGTA
1 TATGTAACTTATTTAAATTATGTAGGGTATGTA
44280758 AGTATGTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 23 0.74
36 8 0.26
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.47
Consensus pattern (36 bp):
TATGTAACTTATTTAAATTATGTAGGGTATGTATTA
Found at i:44280859 original size:167 final size:169
Alignment explanation
Indices: 44280646--44280976 Score: 596
Period size: 167 Copynumber: 2.0 Consensus size: 169
44280636 GTAAGTTGTG
44280646 TAAGTTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGTGTATTATGTAACTTATTTAACTTAT
1 TAAGTTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGTGTATTATGTAACTTATTTAACTTAT
44280711 GTA-GGTATGTATTA-TATGTAACTTATTTAAATTATGTAGGGTATGTAAG-TATGTAAGTTCTG
66 GTAGGGTATGTATTATTATGTAACTTATTTAAATTATGTAGGGTATGTAAGTTATGTAAGTTCTG
*
44280773 TATTATTTACACATGTAAGTTATGTCTTATGTAAATGCA
131 TATTATTTACACATGTAAGTTATGTATTATGTAAATGCA
*
44280812 TAAGTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGTGTATTATGTAACTTATTTAATTTA
1 TAAGT-TGTATTATGAAACTTATGTAAGTTGCGTAAGTTGTGTATTATGTAACTTATTTAACTTA
*
44280877 TGTAGGGTATGTATTATTATGTAACTTATTTAATTTATGTAGGGTATGTAAGTTATGTAAGTTCT
65 TGTAGGGTATGTATTATTATGTAACTTATTTAAATTATGTAGGGTATGTAAGTTATGTAAGTTCT
*
44280942 GTATTATTTACACATGTAAGTTGTGTATTATGTAA
130 GTATTATTTACACATGTAAGTTATGTATTATGTAA
44280977 GTTATGCAAG
Statistics
Matches: 157, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
166 5 0.03
167 62 0.39
168 11 0.07
169 34 0.22
170 45 0.29
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.46
Consensus pattern (169 bp):
TAAGTTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGTGTATTATGTAACTTATTTAACTTAT
GTAGGGTATGTATTATTATGTAACTTATTTAAATTATGTAGGGTATGTAAGTTATGTAAGTTCTG
TATTATTTACACATGTAAGTTATGTATTATGTAAATGCA
Found at i:44280902 original size:37 final size:37
Alignment explanation
Indices: 44280854--44280926 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
44280844 GTAAGTTGTG
44280854 TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
1 TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
44280891 TATTATGTAACTTATTTAATTTATGTAGGGTATGTA
1 TATTATGTAACTTATTTAATTTATGTAGGGTATGTA
44280927 AGTTATGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.51
Consensus pattern (37 bp):
TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
Found at i:44281005 original size:25 final size:25
Alignment explanation
Indices: 44280959--44281026 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
44280949 TTACACATGT
* *
44280959 AAGTTGTGTATTATGTAAGTTATGC
1 AAGTTATGTATTAAGTAAGTTATGC
* *
44280984 AAGTTATGTATTAAGTAGGTTATGT
1 AAGTTATGTATTAAGTAAGTTATGC
* *
44281009 AAGTTATGTGTTATGTAA
1 AAGTTATGTATTAAGTAA
44281027 ATGAATATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.44
Consensus pattern (25 bp):
AAGTTATGTATTAAGTAAGTTATGC
Found at i:44281021 original size:16 final size:16
Alignment explanation
Indices: 44280955--44281026 Score: 58
Period size: 16 Copynumber: 4.4 Consensus size: 16
44280945 TTATTTACAC
* *
44280955 ATGTAAGTTGTGTATT
1 ATGTAAGTTATGTGTT
*
44280971 ATGTAAGTTATGCAAGTT
1 ATGTAAGTTATG--TGTT
*
44280989 ATGT-A-TTAAGTAGGTT
1 ATGTAAGTTATGT--GTT
44281005 ATGTAAGTTATGTGTT
1 ATGTAAGTTATGTGTT
44281021 ATGTAA
1 ATGTAA
44281027 ATGAATATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
16 31 0.70
17 2 0.05
18 11 0.25
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.44
Consensus pattern (16 bp):
ATGTAAGTTATGTGTT
Found at i:44281719 original size:209 final size:212
Alignment explanation
Indices: 44281023--44281796 Score: 1394
Period size: 212 Copynumber: 3.7 Consensus size: 212
44281013 TATGTGTTAT
*
44281023 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTATCAATTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
* *
44281088 AATAAAATTTAAATATAGCTTACATATGCAATCTTTGCTTTTAAACTAATCTTCCACTTAATTAT
66 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTGAATTAT
44281153 T-GTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATCT
131 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAAT-T
*
44281217 GAAATATAGCTTACATAC
195 TAAATATAGCTTACATAC
44281235 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
*
44281300 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCATTGAATTAT
66 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTGAATTAT
44281365 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATTT
131 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATTT
44281430 AAATATAGCTTACATAC
196 AAATATAGCTTACATAC
*
44281447 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAACTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
44281512 AATAAAATTTAAATATAGCTTACATAAGC-ATCTTTGCTTTTAAACTAATCTTCCACTGAA-TAT
66 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTGAATTAT
44281575 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATA-TATTAATAAAATTT
131 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATTT
44281639 AAATATAGCTTACATAC
196 AAATATAGCTTACATAC
*
44281656 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAATTGTCAATTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
* * * * *
44281721 AATAAAATTTAAATATACCTTACATAAGCAATCTTTGCTTTTAAACTTACCGGTCCACTAAATTA
66 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATC-TTCCACTGAATTA
44281786 TTCGTGGAGAG
130 TTCGTGGAGAG
44281797 TGAATATACA
Statistics
Matches: 544, Mismatches: 14, Indels: 8
0.96 0.02 0.01
Matches are distributed among these distances:
209 122 0.22
210 72 0.13
211 38 0.07
212 251 0.46
213 61 0.11
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (212 bp):
GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTGAATTAT
TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATTT
AAATATAGCTTACATAC
Found at i:44286744 original size:37 final size:37
Alignment explanation
Indices: 44286696--44286836 Score: 128
Period size: 37 Copynumber: 3.8 Consensus size: 37
44286686 TCTATTGAGC
44286696 CAAATCTTACTGTTATACTGAATGAAGCTCAATCGAG
1 CAAATCTTACTGTTATACTGAATGAAGCTCAATCGAG
* * * *
44286733 CAAATCATACTGTTATACTGAAT-AGAGTTTAA-CATAG
1 CAAATCTTACTGTTATACTGAATGA-AGCTCAATC-GAG
* * * * *
44286770 CAAATCTTACTGTTATACTGACTGATGTTTAAT-GAT
1 CAAATCTTACTGTTATACTGAATGAAGCTCAATCGAG
* *
44286806 CAAAT-TCTACTGTTATACCGAGTGAAGCTCA
1 CAAATCT-TACTGTTATACTGAATGAAGCTCA
44286837 CACGAGTAGA
Statistics
Matches: 85, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
35 1 0.01
36 27 0.32
37 56 0.66
38 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (37 bp):
CAAATCTTACTGTTATACTGAATGAAGCTCAATCGAG
Found at i:44304133 original size:45 final size:45
Alignment explanation
Indices: 44304038--44304154 Score: 155
Period size: 45 Copynumber: 2.6 Consensus size: 45
44304028 TTCTAATCCA
* * ** *
44304038 CTCCACTACAACTTTAGGGAGACAGGA-TTTTTTTATTTAGTCTG
1 CTCCACTACAACTTTAGGGAGATAAGACTTGCTTTATTGAGTCTG
* * *
44304082 CCCCACTACAATTTTAGGGGGATAAGACTTGCTTTATTGAGTCTG
1 CTCCACTACAACTTTAGGGAGATAAGACTTGCTTTATTGAGTCTG
44304127 CTCCACTACAACTTTAGGGAGATAAGAC
1 CTCCACTACAACTTTAGGGAGATAAGAC
44304155 CCGATGTGAT
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
44 22 0.36
45 39 0.64
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (45 bp):
CTCCACTACAACTTTAGGGAGATAAGACTTGCTTTATTGAGTCTG
Found at i:44304235 original size:44 final size:43
Alignment explanation
Indices: 44304172--44304283 Score: 116
Period size: 44 Copynumber: 2.6 Consensus size: 43
44304162 GATCTATTCT
* ** * *
44304172 ACTGCACCTTCAGACAGATAAGATATGTGGTTTTAATCCACTCC
1 ACTGCAACTTCAGGGAGATAAGATAT-CGGCTTTAATCCACTCC
* * ** *
44304216 ACTGCAACTTCTGGGAGATAGGATTATCGGCTTTAATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGA-TATCGGCTTTAATCCACTCC
44304260 ACTGCAACTTCAGGGAGATAAGAT
1 ACTGCAACTTCAGGGAGATAAGAT
44304284 TTGCCATCTT
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
43 1 0.02
44 51 0.93
45 3 0.05
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (43 bp):
ACTGCAACTTCAGGGAGATAAGATATCGGCTTTAATCCACTCC
Found at i:44304772 original size:44 final size:44
Alignment explanation
Indices: 44304719--44304862 Score: 114
Period size: 44 Copynumber: 3.3 Consensus size: 44
44304709 GTTGCTGGTA
44304719 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCAACAACT
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCAACAACT
* * * * * * * ** **
44304763 CAGGGAGGCAAGGT-TGGT-GTCTTAGATCTGCTTCGCTGTC-GGT
1 CAGGAAGGCAAGATCTGCTATTTTTA-ACCTGCTCCGC-AACAACT
* *
44304806 GCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACC
1 -CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCAACAACT
*
44304851 CAGGGAGGCAAG
1 CAGGAAGGCAAG
44304863 GCTGGTGCCT
Statistics
Matches: 70, Mismatches: 24, Indels: 12
0.66 0.23 0.11
Matches are distributed among these distances:
42 4 0.06
43 13 0.19
44 37 0.53
45 12 0.17
46 4 0.06
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCAACAACT
Found at i:44305080 original size:44 final size:44
Alignment explanation
Indices: 44304939--44305259 Score: 219
Period size: 44 Copynumber: 7.3 Consensus size: 44
44304929 CGCTGCAACC
* * * * *
44304939 CAGGGAGGCAAGGCTGGTCTCCTT-GATCTACTTCACTGTCGGTA
1 CAGGAAGGCAAGACTGGTGT-CTTCGATCTGCTTCACTGTCAGTA
* * * *
44304983 TAGGAAGGCAAGATCTAGTATCTTC-AGTTTGCTTCACTGT-A--A
1 CAGGAAGGCAAGA-CTGGTGTCTTCGA-TCTGCTTCACTGTCAGTA
* *
44305025 CCTAGGGAGGCAAGACTGGTGTCTTCGATCTACTTCACTGTCAGTA
1 -C-AGGAAGGCAAGACTGGTGTCTTCGATCTGCTTCACTGTCAGTA
* * * * *
44305071 CAAGAAGGCAAGATCTGCTATCTTCAATCTGCTCCACTG-CA--A
1 CAGGAAGGCAAGA-CTGGTGTCTTCGATCTGCTTCACTGTCAGTA
*
44305113 CCTAGGAAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
1 -C-AGGAAGGCAAGACTGGTGTCTTCGATCTGCTTCACTGTCAGTA
* * * * * * * ***
44305159 CAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTG-CAACC
1 CAGGAAGGCAAGA-CTGGTGTCTTCGATCTGCTTCACTGTCAGTA
* * *
44305203 CAGGAAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTGTCGGTA
1 CAGGAAGGCAAGACTGGTGTCTTCGATCTGCTTCACTGTCAGTA
*
44305247 CAAGAAGGCAAGA
1 CAGGAAGGCAAGA
44305260 TCTGCTATCT
Statistics
Matches: 209, Mismatches: 51, Indels: 34
0.71 0.17 0.12
Matches are distributed among these distances:
42 2 0.01
43 58 0.28
44 90 0.43
45 57 0.27
46 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.26
Consensus pattern (44 bp):
CAGGAAGGCAAGACTGGTGTCTTCGATCTGCTTCACTGTCAGTA
Found at i:44305273 original size:88 final size:88
Alignment explanation
Indices: 44304376--44305270 Score: 992
Period size: 88 Copynumber: 10.2 Consensus size: 88
44304366 ATGGGAAGAT
* * * * * *
44304376 AAGATCTGCTATCTTTAACCTGCTCTGCTGCCACCGAGGAAGGCAAGGCTAGTGTCTTCAATCTG
1 AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
** **
44304441 CTTTGCTACCAGTACAGGAAGGC
66 CTTCACTGTCAGTACAGGAAGGC
* * * * * *
44304464 AAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAGTCAAGGCTAGTGTCTTCAATCAG
1 AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* *
44304529 CTTCATTGTTAGTACCA-GAAGGC
66 CTTCACTGTCAGTA-CAGGAAGGC
* * * * ** *
44304552 AAGATTTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTTAATCTA
1 AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
*
44304617 CTTCACTTTCAGTACAGGAAGGC
66 CTTCACTGTCAGTACAGGAAGGC
* * *
44304640 AAGATCTGCTAT-TTTCAACCTACTCCGCTGCATCCCAGGGAGGCAAGGCTGGTGTCTTTGATCT
1 AAGATCTGCTATCTTT-AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCT
** *
44304704 GCTTCGTTG-CTGGTACAGGAAGGC
65 GCTTCACTGTC-AGTACAGGAAGGC
* ** * * *
44304728 AAGATCTGCTATTTTTAACCTGCTCCGCAACAACTCAGGGAGGCAAGGTTGGTGTCTTAGATCTG
1 AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* * *
44304793 CTTCGCTGTCGGTGCAGGAAGGC
66 CTTCACTGTCAGTACAGGAAGGC
* * * *
44304816 AAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGCTGGTGCCTTCGAGCTG
1 AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* * *
44304881 CTTTACTGTCGGTGCAGGAAGGC
66 CTTCACTGTCAGTACAGGAAGGC
* * * * *
44304904 AAGATCTACAATTTTTAATCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTCTCCTT-GATCT
1 AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGT-CTTCGATCT
* * *
44304968 ACTTCACTGTCGGTATAGGAAGGC
65 GCTTCACTGTCAGTACAGGAAGGC
* *** * * * * *
44304992 AAGATCTAG-TATCTTCAGTTTGCTTCACTGTAACCTAGGGAGGCAAGACTGGTGTCTTCGATCT
1 AAGATCT-GCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCT
* *
44305056 ACTTCACTGTCAGTACAAGAAGGC
65 GCTTCACTGTCAGTACAGGAAGGC
* * * * * *
44305080 AAGATCTGCTATCTTCAATCTGCTCCACTGCAACCTAGGAAGGCAAGACTGGTGTCTTCGATCTG
1 AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
*
44305145 CTTCGCTGTCAGTACAGGAAGGC
66 CTTCACTGTCAGTACAGGAAGGC
* *
44305168 AAGATCTGCTAT-TTTCAACCTGCTCCGCTGCAACCCAGGAAGGCAAGGCTGGTGTCTTTGATCT
1 AAGATCTGCTATCTTT-AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCT
* *
44305232 GCTTCACTGTCGGTACAAGAAGGC
65 GCTTCACTGTCAGTACAGGAAGGC
44305256 AAGATCTGCTATCTT
1 AAGATCTGCTATCTT
44305271 CAATGATCTG
Statistics
Matches: 705, Mismatches: 90, Indels: 23
0.86 0.11 0.03
Matches are distributed among these distances:
87 12 0.02
88 682 0.97
89 11 0.02
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (88 bp):
AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
CTTCACTGTCAGTACAGGAAGGC
Found at i:44312373 original size:13 final size:12
Alignment explanation
Indices: 44312345--44312382 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
44312335 AATGGCATAG
44312345 AATAATATAAACA
1 AATAA-ATAAACA
44312358 AATAAATAAACGA
1 AATAAATAAAC-A
44312371 AATAAA-AAACA
1 AATAAATAAACA
44312382 A
1 A
44312383 TAATCCATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 10 0.42
13 12 0.50
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.16
Consensus pattern (12 bp):
AATAAATAAACA
Found at i:44312468 original size:30 final size:31
Alignment explanation
Indices: 44312406--44312475 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
44312396 GCAAAATATT
* * *
44312406 AAATGAATAAATGTAAACACAATTAAATAAG
1 AAATGAAGAAATGCAAACACAAATAAATAAG
44312437 AAATGAAGAAA-GCAAACA-AAATAAATAAAG
1 AAATGAAGAAATGCAAACACAAATAAAT-AAG
*
44312467 AAAAGAAGA
1 AAATGAAGA
44312476 TATATAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.21
30 17 0.50
31 10 0.29
ACGTcount: A:0.67, C:0.06, G:0.13, T:0.14
Consensus pattern (31 bp):
AAATGAAGAAATGCAAACACAAATAAATAAG
Found at i:44312723 original size:29 final size:27
Alignment explanation
Indices: 44312674--44312732 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
44312664 AAATATCCAT
*
44312674 ATATATATAAATTCGTTAAAAAAATAA
1 ATATATATAAATTCGTAAAAAAAATAA
* *
44312701 ATATATATACATGTACGTAAAAAAATTAA
1 ATATATATAAAT-T-CGTAAAAAAAATAA
44312730 ATA
1 ATA
44312733 ATAATTACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 11 0.41
28 1 0.04
29 15 0.56
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (27 bp):
ATATATATAAATTCGTAAAAAAAATAA
Found at i:44318044 original size:15 final size:15
Alignment explanation
Indices: 44318024--44318052 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44318014 ATAAAATAAC
44318024 AAAAATAATTAAAAT
1 AAAAATAATTAAAAT
44318039 AAAAATAATTAAAA
1 AAAAATAATTAAAA
44318053 GTTGATACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAAATAATTAAAAT
Found at i:44322248 original size:39 final size:37
Alignment explanation
Indices: 44322223--44322317 Score: 127
Period size: 39 Copynumber: 2.5 Consensus size: 37
44322213 TCATACATTA
44322223 ATCCATCAACATATTTAATTTCATAACAAAATATAAATT
1 ATCCATCAACATATTTAATTTCAT-A-AAAATATAAATT
* *
44322262 GTCCATCAACATATTTAATTTCATAACAAAATATAAGTT
1 ATCCATCAACATATTTAATTTCAT-A-AAAATATAAATT
*
44322301 GTCCATCAACATATTTA
1 ATCCATCAACATATTTA
44322318 GAAGGAAAGC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (37 bp):
ATCCATCAACATATTTAATTTCATAAAAATATAAATT
Found at i:44322272 original size:22 final size:22
Alignment explanation
Indices: 44322247--44322311 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 22
44322237 TTAATTTCAT
44322247 AACAAAATATAAATTGTCCATC
1 AACAAAATATAAATTGTCCATC
* *
44322269 AAC-ATAT-TTAATT-T-CAT-
1 AACAAAATATAAATTGTCCATC
*
44322286 AACAAAATATAAGTTGTCCATC
1 AACAAAATATAAATTGTCCATC
44322308 AACA
1 AACA
44322312 TATTTAGAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
17 3 0.09
18 6 0.18
19 5 0.15
20 6 0.18
21 6 0.18
22 7 0.21
ACGTcount: A:0.48, C:0.17, G:0.05, T:0.31
Consensus pattern (22 bp):
AACAAAATATAAATTGTCCATC
Found at i:44322275 original size:19 final size:19
Alignment explanation
Indices: 44322253--44322314 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
44322243 TCATAACAAA
44322253 ATATAAATTGTCCATCAAC
1 ATATAAATTGTCCATCAAC
* *
44322272 ATATTTAATT-T-CATAACAAA
1 ATA-TAAATTGTCCAT--CAAC
*
44322292 ATATAAGTTGTCCATCAAC
1 ATATAAATTGTCCATCAAC
44322311 ATAT
1 ATAT
44322315 TTAGAAGGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
18 3 0.09
19 15 0.45
20 12 0.36
21 3 0.09
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (19 bp):
ATATAAATTGTCCATCAAC
Found at i:44322295 original size:20 final size:20
Alignment explanation
Indices: 44322233--44322295 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
44322223 ATCCATCAAC
44322233 ATATTTAATTTCATAACAAA
1 ATATTTAATTTCATAACAAA
* *
44322253 ATA-TAAATTGTCCAT--CAAC
1 ATATTTAATT-T-CATAACAAA
44322272 ATATTTAATTTCATAACAAA
1 ATATTTAATTTCATAACAAA
44322292 ATAT
1 ATAT
44322296 AAGTTGTCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
18 3 0.09
19 12 0.35
20 16 0.47
21 3 0.09
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.38
Consensus pattern (20 bp):
ATATTTAATTTCATAACAAA
Found at i:44322389 original size:9 final size:9
Alignment explanation
Indices: 44322353--44322386 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
44322343 CGAAGAAACA
44322353 TCCTCATCG
1 TCCTCATCG
44322362 TCCTCATCG
1 TCCTCATCG
* *
44322371 TCGTCATTG
1 TCCTCATCG
44322380 TCCTCAT
1 TCCTCAT
44322387 TGTTCTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.12, C:0.38, G:0.12, T:0.38
Consensus pattern (9 bp):
TCCTCATCG
Found at i:44324891 original size:42 final size:42
Alignment explanation
Indices: 44324845--44324964 Score: 197
Period size: 42 Copynumber: 2.9 Consensus size: 42
44324835 GTTATTAAAT
44324845 ATTTTAAATTAATAACTCTTTAATTTGTTATAAATATATAGA
1 ATTTTAAATTAATAACTCTTTAATTTGTTATAAATATATAGA
***
44324887 ATTTTAAATTAATTTGT-TATTAATTTGTTATAAATATATAGA
1 ATTTTAAATTAATAACTCT-TTAATTTGTTATAAATATATAGA
44324929 ATTTTAAATTAATAACTCTTTAATTTGTTATAAATA
1 ATTTTAAATTAATAACTCTTTAATTTGTTATAAATA
44324965 ATAAAAATTG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
41 1 0.01
42 68 0.97
43 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (42 bp):
ATTTTAAATTAATAACTCTTTAATTTGTTATAAATATATAGA
Found at i:44325827 original size:8 final size:8
Alignment explanation
Indices: 44325814--44325858 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
44325804 TTATTTCCAG
44325814 ATATAAAC
1 ATATAAAC
44325822 ATATAAAC
1 ATATAAAC
44325830 ----AAAC
1 ATATAAAC
*
44325834 ATATAAAT
1 ATATAAAC
44325842 ATATAAAC
1 ATATAAAC
44325850 ATATAAAC
1 ATATAAAC
44325858 A
1 A
44325859 AACATTTAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
4 4 0.13
8 27 0.87
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.24
Consensus pattern (8 bp):
ATATAAAC
Found at i:44329107 original size:30 final size:29
Alignment explanation
Indices: 44329072--44329128 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
44329062 CTTTTAGGTT
* *
44329072 CTGAACCTGGCAATTGGGTCCACTTTTGTA
1 CTGAACCTGGCAACTAGGTCCA-TTTTGTA
*
44329102 CTGAACTTGGCAACTAGGTCCATTTTG
1 CTGAACCTGGCAACTAGGTCCATTTTG
44329129 GTCCTTGCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (29 bp):
CTGAACCTGGCAACTAGGTCCATTTTGTA
Found at i:44330355 original size:2 final size:2
Alignment explanation
Indices: 44330348--44330374 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44330338 GTTTTGTTTG
44330348 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
44330375 ATATGTATAC
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:44340658 original size:25 final size:25
Alignment explanation
Indices: 44340630--44340701 Score: 63
Period size: 27 Copynumber: 2.8 Consensus size: 25
44340620 AATTTTCTCG
44340630 AAATTTTACCAGGGTAAAATCGTCA
1 AAATTTTACCAGGGTAAAATCGTCA
* * * * *
44340655 AAATATTATCGGCGTGTAAAATTGTTA
1 AAATTTTACCAG-G-GTAAAATCGTCA
* *
44340682 AAATTTTACTAGGATAAAAT
1 AAATTTTACCAGGGTAAAAT
44340702 TGGGGTAAGA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
25 15 0.43
26 2 0.06
27 18 0.51
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (25 bp):
AAATTTTACCAGGGTAAAATCGTCA
Found at i:44343460 original size:29 final size:29
Alignment explanation
Indices: 44343397--44343464 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
44343387 TAATCAACCG
44343397 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
44343426 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
44343455 CGCACACTTA
1 CGCACACTTA
44343465 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:44343577 original size:174 final size:174
Alignment explanation
Indices: 44343286--44343613 Score: 584
Period size: 174 Copynumber: 1.9 Consensus size: 174
44343276 AACTCAAGGT
* *
44343286 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGAAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGAAAATAATTTATA
*
44343351 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
44343416 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* * *
44343460 ACTTACCTTTTCCGCTGTCCAAAATCGACTTGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGAAAATAATTTATA
*
44343525 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
44343590 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
44343614 TGTACAATTT
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 146 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGAAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:44343605 original size:29 final size:30
Alignment explanation
Indices: 44343566--44343644 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
44343556 CTTAATAATC
44343566 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
44343596 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
44343625 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
44343645 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:44346003 original size:21 final size:21
Alignment explanation
Indices: 44345978--44346021 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
44345968 GTTCAAGAAT
44345978 CACACCAACTCCCTTATTGAA
1 CACACCAACTCCCTTATTGAA
44345999 CACACCAACTCCCTTATTGAA
1 CACACCAACTCCCTTATTGAA
44346020 CA
1 CA
44346022 TACTCACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.39, G:0.05, T:0.23
Consensus pattern (21 bp):
CACACCAACTCCCTTATTGAA
Found at i:44352020 original size:23 final size:23
Alignment explanation
Indices: 44351990--44352035 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
44351980 GTATTTGAAT
44351990 ATTAAGGAATCTTAAGAACAAAG
1 ATTAAGGAATCTTAAGAACAAAG
44352013 ATTAAGGAATCTTAAGAACAAAG
1 ATTAAGGAATCTTAAGAACAAAG
44352036 TGATAGCACC
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:0.52, C:0.09, G:0.17, T:0.22
Consensus pattern (23 bp):
ATTAAGGAATCTTAAGAACAAAG
Found at i:44356378 original size:9 final size:9
Alignment explanation
Indices: 44356364--44356390 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
44356354 CTATAAACAA
44356364 TTATATCAT
1 TTATATCAT
44356373 TTATATCAT
1 TTATATCAT
44356382 TTATATCAT
1 TTATATCAT
44356391 CAAACATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (9 bp):
TTATATCAT
Found at i:44361738 original size:28 final size:27
Alignment explanation
Indices: 44361685--44361738 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
44361675 AATGTTTACA
* ** *
44361685 TTTTTTTGTCAATTTGACTTTTAATCC
1 TTTTTTAGTCAATTTGACCGTCAATCC
44361712 TTTTTTAGTCAAATTTGACCGTCAATC
1 TTTTTTAGTC-AATTTGACCGTCAATC
44361739 TCTTAAAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.22, C:0.17, G:0.09, T:0.52
Consensus pattern (27 bp):
TTTTTTAGTCAATTTGACCGTCAATCC
Found at i:44369875 original size:3 final size:3
Alignment explanation
Indices: 44369867--44369909 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
44369857 TGTCAAAAGA
44369867 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
44369910 TTTTAAATAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:44374312 original size:38 final size:38
Alignment explanation
Indices: 44374291--44374538 Score: 309
Period size: 38 Copynumber: 6.6 Consensus size: 38
44374281 TGTTCTTAAT
44374291 AGGCTTTGTGCCAGTGATATTCGGGCTCTGTGCCTAGC
1 AGGCTTTGTGCCAGTGATATTCGGGCTCTGTGCCTAGC
* *
44374329 AAGCTTTGTGCCAGTGATATTCGGGCTCTATGCCTAGC
1 AGGCTTTGTGCCAGTGATATTCGGGCTCTGTGCCTAGC
* * *
44374367 AGGCTTTGTGTCGGTGATATTCGGGCTCTATGCCTAGC
1 AGGCTTTGTGCCAGTGATATTCGGGCTCTGTGCCTAGC
** * * *
44374405 AGGCTTCATGCCGGTGATATTTGGGCTCTGTGTCTAGC
1 AGGCTTTGTGCCAGTGATATTCGGGCTCTGTGCCTAGC
* * * * * *
44374443 AAGCTTCGTGCTAGTGATCTTCGAGCTCTGTGCCTAGT
1 AGGCTTTGTGCCAGTGATATTCGGGCTCTGTGCCTAGC
* *
44374481 AGGCTTTTTGCCATTGATATTCGGGCTCTGTGCCTAGC
1 AGGCTTTGTGCCAGTGATATTCGGGCTCTGTGCCTAGC
* *
44374519 AGGCTTCGTGCCGGTG-TATT
1 AGGCTTTGTGCCAGTGATATT
44374539 ATATCAGGCT
Statistics
Matches: 178, Mismatches: 32, Indels: 1
0.84 0.15 0.00
Matches are distributed among these distances:
37 4 0.02
38 174 0.98
ACGTcount: A:0.14, C:0.23, G:0.29, T:0.34
Consensus pattern (38 bp):
AGGCTTTGTGCCAGTGATATTCGGGCTCTGTGCCTAGC
Found at i:44374546 original size:25 final size:25
Alignment explanation
Indices: 44374518--44374576 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
44374508 CTGTGCCTAG
44374518 CAGGCTTCGTGCCGGTGTATTATAT
1 CAGGCTTCGTGCCGGTGTATTATAT
* * *
44374543 CAGGCTTTGTGCTGGTGTGTTATAT
1 CAGGCTTCGTGCCGGTGTATTATAT
44374568 CAGGCTTCG
1 CAGGCTTCG
44374577 AGCCTGGTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.14, C:0.19, G:0.31, T:0.37
Consensus pattern (25 bp):
CAGGCTTCGTGCCGGTGTATTATAT
Found at i:44376357 original size:30 final size:30
Alignment explanation
Indices: 44376316--44376385 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
44376306 CATGTGTCTT
44376316 AGCCATGTGTGACACATGGCCACACGACAC
1 AGCCATGTGTGACACATGGCCACACGACAC
* * *
44376346 AGCCGTGTGTGACACGTGGCCACGCGACAC
1 AGCCATGTGTGACACATGGCCACACGACAC
*
44376376 AGCCTTGTGT
1 AGCCATGTGT
44376386 CCCTTGTAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.23, C:0.31, G:0.29, T:0.17
Consensus pattern (30 bp):
AGCCATGTGTGACACATGGCCACACGACAC
Found at i:44382637 original size:20 final size:20
Alignment explanation
Indices: 44382612--44382656 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
44382602 GCTCAAGAGC
*
44382612 AAAGGGGAACTAAATCCGAT
1 AAAGGGGAACGAAATCCGAT
* *
44382632 AAA-GGGAAGGAGATCCGAT
1 AAAGGGGAACGAAATCCGAT
44382651 AAAGGG
1 AAAGGG
44382657 AAGGAAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.44, C:0.11, G:0.33, T:0.11
Consensus pattern (20 bp):
AAAGGGGAACGAAATCCGAT
Found at i:44382647 original size:19 final size:19
Alignment explanation
Indices: 44382625--44382661 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
44382615 GGGGAACTAA
44382625 ATCCGATAAAGGGAAGGAG
1 ATCCGATAAAGGGAAGGAG
44382644 ATCCGATAAAGGGAAGGA
1 ATCCGATAAAGGGAAGGA
44382662 AAAAGTGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.35, T:0.11
Consensus pattern (19 bp):
ATCCGATAAAGGGAAGGAG
Found at i:44383042 original size:79 final size:81
Alignment explanation
Indices: 44382906--44383090 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
44382896 TTGAATGATG
*
44382906 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
44382970 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
44382985 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
44383047 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
* *
44383065 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44383091 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:44383104 original size:40 final size:39
Alignment explanation
Indices: 44382907--44383090 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 39
44382897 TGAATGATGT
* * *
44382907 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* *
44382947 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
44382987 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
44383025 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
44383066 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44383091 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 18
0.82 0.07 0.12
Matches are distributed among these distances:
39 35 0.28
40 78 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:44383112 original size:79 final size:79
Alignment explanation
Indices: 44382907--44383113 Score: 192
Period size: 79 Copynumber: 2.6 Consensus size: 79
44382897 TGAATGATGT
** * * * **
44382907 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
*
44382970 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** *
44382987 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
44383052 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* *
44383066 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAA
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAA
44383114 ATTCCAAAGG
Statistics
Matches: 109, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
78 4 0.04
79 63 0.58
80 42 0.39
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
GCGAGATACTAATA
Done.