Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 168 of 290
Found at i:54893945 original size:40 final size:39
Alignment explanation
Indices: 54893901--54894003 Score: 136
Period size: 39 Copynumber: 2.6 Consensus size: 39
54893891 GCCCTGTTAC
* *
54893901 AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTT
1 AGTAACTCGCACAAATGCCTTCGGG-CTTAACCCAGAATT
* *
54893941 AGTAACTCGTA-ACAATGCCTTCGGGCTTAGCCCAGAATT
1 AGTAACTCGCACA-AATGCCTTCGGGCTTAACCCAGAATT
*
54893980 AGTAACTCGCACAAATGCTTTCGG
1 AGTAACTCGCACAAATGCCTTCGG
54894004 ATCTTAGTCC
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
39 32 0.58
40 23 0.42
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (39 bp):
AGTAACTCGCACAAATGCCTTCGGGCTTAACCCAGAATT
Found at i:54893997 original size:39 final size:39
Alignment explanation
Indices: 54893901--54894054 Score: 145
Period size: 40 Copynumber: 3.9 Consensus size: 39
54893891 GCCCTGTTAC
* *
54893901 AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTT
1 AGTAACTCGCACAAATGCCTTCGGGACTTAGCCC-GAATT
*
54893941 AGTAACTCGTA-ACAATGCCTTCGGG-CTTAGCCCAGAATT
1 AGTAACTCGCACA-AATGCCTTCGGGACTTAGCCC-GAATT
* * *
54893980 AGTAACTCGCACAAATGCTTTC-GGATCTTAGTCCGAACAT
1 AGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGAA-TT
* * *
54894020 AGTCACTTAGCACAAA-GCCTTCGGGTCTTAGCCCG
1 AGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
54894055 GACATCATTT
Statistics
Matches: 94, Mismatches: 13, Indels: 14
0.78 0.11 0.12
Matches are distributed among these distances:
38 2 0.02
39 33 0.35
40 49 0.52
41 10 0.11
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (39 bp):
AGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAATT
Found at i:54901226 original size:39 final size:39
Alignment explanation
Indices: 54901152--54901334 Score: 235
Period size: 39 Copynumber: 4.6 Consensus size: 39
54901142 GCTACTCGTT
*
54901152 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
*
54901192 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
54901231 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
54901270 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
54901311 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGACTTAGCCCGGA
54901335 CATCATTCGA
Statistics
Matches: 126, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
39 80 0.63
40 38 0.30
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:54901295 original size:79 final size:79
Alignment explanation
Indices: 54901154--54901334 Score: 233
Period size: 79 Copynumber: 2.3 Consensus size: 79
54901144 TACTCGTTCA
* *
54901154 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGAT
1 AATGCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGAT
* *
54901218 TTAGTAAC-TCGCACC
65 ATAGTAACTTAGCA-C
**
54901233 AATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGA-CTTAACCCGGAT
*
54901297 ATAGTCACTTAGCAC
65 ATAGTAACTTAGCAC
* *
54901312 AAAGCCTTCGGACTTAGCCCGGA
1 AATGCCTTCGGGCTTAGCCCGGA
54901335 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
78 35 0.39
79 51 0.57
80 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGATA
TAGTAACTTAGCAC
Found at i:54903353 original size:27 final size:27
Alignment explanation
Indices: 54903186--54903363 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
54903176 TAAATTGTAC
*
54903186 AGCACTAAGTGTGCGA-TTCTACTT-TGT
1 AGCACTAAGTGTGCGAGTT-GA-TTATGT
* ** *
54903213 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * ** **
54903239 ATGCACTAAGAGTGCGAATTGACCATAC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
54903267 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
54903295 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
54903322 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
54903349 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54903364 GCTCAATATA
Statistics
Matches: 116, Mismatches: 30, Indels: 10
0.74 0.19 0.06
Matches are distributed among these distances:
26 1 0.01
27 93 0.80
28 22 0.19
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:54903354 original size:82 final size:81
Alignment explanation
Indices: 54903183--54903363 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
54903173 GATTAAATTG
* * * *
54903183 TACAGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
54903248 GAGTGCGAATTGACCA
66 GAGTGCGAATTGACCA
* ** *
54903264 TACGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
54903328 AA-ATGTGCGAGTTGATTA
64 AAGA-GTGCGAATTGACCA
* *
54903346 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
54903364 GCTCAATATA
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 23 0.28
82 60 0.72
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GAGTGCGAATTGACCA
Found at i:54911304 original size:27 final size:27
Alignment explanation
Indices: 54911137--54911314 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
54911127 TAAATTGTAC
*
54911137 AGCACTAAGTGTGCGA-TTCTACTT-TGT
1 AGCACTAAGTGTGCGAGTT-GA-TTATGT
* ** *
54911164 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * ** **
54911190 ATGCACTAAGAGTGCGAATTGACCATAC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
54911218 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
54911246 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
54911273 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
54911300 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54911315 GGCTCAATAT
Statistics
Matches: 116, Mismatches: 30, Indels: 10
0.74 0.19 0.06
Matches are distributed among these distances:
26 1 0.01
27 93 0.80
28 22 0.19
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:54911305 original size:82 final size:81
Alignment explanation
Indices: 54911134--54911314 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
54911124 GATTAAATTG
* * * *
54911134 TACAGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
54911199 GAGTGCGAATTGACCA
66 GAGTGCGAATTGACCA
* ** *
54911215 TACGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
54911279 AA-ATGTGCGAGTTGATTA
64 AAGA-GTGCGAATTGACCA
* *
54911297 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
54911315 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 23 0.28
82 60 0.72
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GAGTGCGAATTGACCA
Found at i:54914993 original size:29 final size:29
Alignment explanation
Indices: 54914914--54915023 Score: 107
Period size: 29 Copynumber: 3.8 Consensus size: 29
54914904 ACCCCTCCAT
* *
54914914 ACATGCATATAGCCCACTAGGCCCAA-T-
1 ACATTCATATGGCCCACTAGGCCCAATTC
* * * *
54914941 ATTATTCAAATGGCCCATTTGGCCCAATTC
1 A-CATTCATATGGCCCACTAGGCCCAATTC
* *
54914971 ACATTCTTATGGCTCACTAGGCCCAATTC
1 ACATTCATATGGCCCACTAGGCCCAATTC
* *
54915000 ACTTTCATATGGCCCATTAGGCCC
1 ACATTCATATGGCCCACTAGGCCC
54915024 GAATCATATT
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
27 1 0.02
28 19 0.30
29 43 0.67
30 1 0.02
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAATTC
Found at i:54916521 original size:16 final size:16
Alignment explanation
Indices: 54916500--54916532 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
54916490 AAAAATTCAA
54916500 GATTTCAGGATTTTTG
1 GATTTCAGGATTTTTG
*
54916516 GATTTCGGGATTTTTG
1 GATTTCAGGATTTTTG
54916532 G
1 G
54916533 GGCGTTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.30, T:0.48
Consensus pattern (16 bp):
GATTTCAGGATTTTTG
Found at i:54919456 original size:29 final size:29
Alignment explanation
Indices: 54919377--54919488 Score: 93
Period size: 29 Copynumber: 3.9 Consensus size: 29
54919367 ACCCCTACAT
* *
54919377 ACATGCATATAGCCCACTAGGCCCAA-TC
1 ACATTCATATGGCCCACTAGGCCCAATTC
** * * * *
54919405 TTATTCAAATGGCTCATCT-GGCCTAGTTC
1 ACATTCATATGGCCCA-CTAGGCCCAATTC
* *
54919434 ATATTCTTATGGCCCACTAGGCCCAATTC
1 ACATTCATATGGCCCACTAGGCCCAATTC
* *
54919463 ACCTTCATATGGCCCATTAGGCCCAA
1 ACATTCATATGGCCCACTAGGCCCAA
54919489 ATCATATTAT
Statistics
Matches: 63, Mismatches: 18, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
28 17 0.27
29 46 0.73
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAATTC
Found at i:54923751 original size:43 final size:43
Alignment explanation
Indices: 54923681--54923762 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
54923671 TGTGATTCCA
** * *
54923681 ATATGTGTTTACAAGTAAGACCCTGTCTGGGACAGTGGCTTCG
1 ATATGTGACTACAAGTAAAACCATGTCTGGGACAGTGGCTTCG
* *
54923724 ATATGTGACTACATGTAAAACCATGTCTGGGACATTGGC
1 ATATGTGACTACAAGTAAAACCATGTCTGGGACAGTGGC
54923763 ATTGTACGAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
ATATGTGACTACAAGTAAAACCATGTCTGGGACAGTGGCTTCG
Found at i:54926677 original size:44 final size:41
Alignment explanation
Indices: 54926526--54926681 Score: 134
Period size: 43 Copynumber: 3.7 Consensus size: 41
54926516 AGCTTGTACA
* * * * * *
54926526 ATGCCAACGTCCCAAACGTGATCTTACATGTATTCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATC-AA-ATCG
* * *
54926569 ATGCCAATGTCCCAGACAG-GGTCTTACATGAAATCATATACA
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATCAAAT-CG
* *
54926611 ATGCCAATCTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AAA--TCAAATCG
*
54926655 ATGCCAATGTCCTAGACGTGGTCTTAC
1 ATGCCAATGTCCCAGACGTGGTCTTAC
54926682 GTGACATCTC
Statistics
Matches: 92, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.02
42 28 0.30
43 31 0.34
44 26 0.28
45 5 0.05
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATCG
Found at i:54929638 original size:35 final size:35
Alignment explanation
Indices: 54929579--54929646 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
54929569 CTTTTTGATA
*
54929579 TTAATTGAAAGAAGTATCGATGTTGTGGCGGGATG
1 TTAATTGAAAGAAGTATAGATGTTGTGGCGGGATG
*
54929614 TTAATTGAAAGAAGTATTAG-TGTTGTGGTGGGA
1 TTAATTGAAAGAAGTA-TAGATGTTGTGGCGGGA
54929647 ATTGTCTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 28 0.93
36 2 0.07
ACGTcount: A:0.29, C:0.03, G:0.34, T:0.34
Consensus pattern (35 bp):
TTAATTGAAAGAAGTATAGATGTTGTGGCGGGATG
Found at i:54931397 original size:27 final size:27
Alignment explanation
Indices: 54931374--54931795 Score: 459
Period size: 27 Copynumber: 15.6 Consensus size: 27
54931364 TTAGTTTACC
* *
54931374 AAATTACCAAAATAACCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
*
54931401 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
54931428 AAATCACCAAAACACTCC-TGGTTTGTA
1 AAATTACCAAAATAC-CCTTGGTTTATA
* *
54931455 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
54931482 AAATTACCAAAATACCCTTGGGTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
54931509 AAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
54931536 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
54931563 AAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
54931590 AAATTACAAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
54931617 AAATTACTAAAATACCCCTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
54931644 AAATTACCAAAATACCCATGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
*
54931671 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * * *
54931698 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTTGGTTTATA
* * ** *
54931725 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
** * ** *
54931752 AAATTATTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
*
54931779 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
54931796 CTAATTTACA
Statistics
Matches: 340, Mismatches: 53, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 1 0.00
27 337 0.99
28 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTATA
Found at i:54931439 original size:54 final size:54
Alignment explanation
Indices: 54931374--54931795 Score: 540
Period size: 54 Copynumber: 7.8 Consensus size: 54
54931364 TTAGTTTACC
* *
54931374 AAATTACCAAAATAACCTTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * * * *
54931428 AAATCACCAAAACACTCCTGGTTTGTAAAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
54931482 AAATTACCAAAATACCCTTGGGTTGTAAAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * *
54931536 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* *
54931590 AAATTACAAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
54931644 AAATTACCAAAATACCCATGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * ** *
54931698 AAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
** ** * *
54931752 AAATTATTAAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCC
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACTAAAATACCC
54931796 CTAATTTACA
Statistics
Matches: 321, Mismatches: 46, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
53 4 0.01
54 317 0.99
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:54931871 original size:27 final size:27
Alignment explanation
Indices: 54931837--54932079 Score: 238
Period size: 27 Copynumber: 9.0 Consensus size: 27
54931827 TTTACAAGAT
*
54931837 TACCGAAATACCCTTATAGGGTAGAAA
1 TACCGAAATACCCCTATAGGGTAGAAA
** * *
54931864 TATTGAAATACCCCTGTAGGGTAAAAA
1 TACCGAAATACCCCTATAGGGTAGAAA
* * *
54931891 TATCGAAATACCCCTGTAAGGTAGAAA
1 TACCGAAATACCCCTATAGGGTAGAAA
* * *
54931918 TACCGAAATAACTCTATAGGGTAGAAT
1 TACCGAAATACCCCTATAGGGTAGAAA
** * *
54931945 TACTAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTATAGGGTAGAAA
* * *
54931972 TACCAAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTATAGGGTAGAAA
* *
54931999 TACTGAAATACCCCTATAAGGTA-AAA
1 TACCGAAATACCCCTATAGGGTAGAAA
* *
54932025 TTACTGAAATACCCCTATAGGGTAGAAT
1 -TACCGAAATACCCCTATAGGGTAGAAA
* * *
54932053 TACCGAGATACCCTTATTGGGTA-AAA
1 TACCGAAATACCCCTATAGGGTAGAAA
54932079 T
1 T
54932080 TACCATTTTA
Statistics
Matches: 180, Mismatches: 34, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
26 6 0.03
27 172 0.96
28 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.25
Consensus pattern (27 bp):
TACCGAAATACCCCTATAGGGTAGAAA
Found at i:54932075 original size:81 final size:81
Alignment explanation
Indices: 54931837--54932067 Score: 302
Period size: 81 Copynumber: 2.9 Consensus size: 81
54931827 TTTACAAGAT
* * * * *
54931837 TACCGAAATACCCTTATAGGGTAGAAA-TATTGAAATACCCCTGTAGGGTAAAAATATCGAAATA
1 TACCGAAATACCCCTATAGGGTA-AAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATA
* *
54931901 CCCCTGTAAGGTAGAAA
65 CCCTTGTAGGGTAGAAA
* * * * *
54931918 TACCGAAATAACTCTATAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCAAAATAC
1 TACCGAAATACCCCTATAGGGTAAAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
54931983 CCTTGTAGGGTAGAAA
66 CCTTGTAGGGTAGAAA
* * * *
54931999 TACTGAAATACCCCTATAAGGTAAAATTACTGAAATACCCCTATAGGGTAGAATTACCGAGATAC
1 TACCGAAATACCCCTATAGGGTAAAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
54932064 CCTT
66 CCTT
54932068 ATTGGGTAAA
Statistics
Matches: 128, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
80 2 0.02
81 126 0.98
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (81 bp):
TACCGAAATACCCCTATAGGGTAAAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
CCTTGTAGGGTAGAAA
Found at i:54932372 original size:27 final size:26
Alignment explanation
Indices: 54932328--54932378 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
54932318 CTCGCTGTAA
*
54932328 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
54932355 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
54932379 CGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:54932605 original size:6 final size:6
Alignment explanation
Indices: 54932596--54932748 Score: 107
Period size: 6 Copynumber: 24.8 Consensus size: 6
54932586 TTGCATTCAC
* * *
54932596 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG GTTCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
54932645 ATTCTG GTTCTG -TTACCTG ATACTG ATTCTA ATTTTG -TTACCTA ATTCTG
1 ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* * *
54932695 ATTCTG ATTCTG ATTTTG ATTCTG -TCACCTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
54932744 ATTCT
1 ATTCT
54932749 CATTTTAATT
Statistics
Matches: 114, Mismatches: 21, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
5 7 0.06
6 92 0.81
7 10 0.09
8 5 0.04
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:54932627 original size:25 final size:25
Alignment explanation
Indices: 54932599--54932706 Score: 106
Period size: 25 Copynumber: 4.6 Consensus size: 25
54932589 CATTCACATT
54932599 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTGATA
54932624 CTGATTCTGATTCTGGTT--C---TA
1 CTGATTCTGATTCT-GTTACCTGATA
*
54932645 ---ATTCTGGTTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTGATA
* * * *
54932667 CTGATTCTAATTTTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTGATA
54932692 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
54932707 ATTTTGATTC
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
17 3 0.05
18 10 0.15
19 1 0.02
21 2 0.03
22 2 0.03
24 1 0.02
25 44 0.67
26 3 0.05
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTGATA
Found at i:54932631 original size:31 final size:30
Alignment explanation
Indices: 54932596--54932748 Score: 87
Period size: 31 Copynumber: 4.7 Consensus size: 30
54932586 TTGCATTCAC
54932596 ATTCTGATTCTGATTCTGTTACCTGATA-CTG
1 ATTCTGATTCTGATTCTGTT--CTGATACCTG
*
54932627 ATTCTGATTCTGGTTCTAATTCTGGTTCTGTTACCTG
1 ATTCTGATTCT-G-----ATTCT-GTTCTGATACCTG
* * * * *
54932664 ATACTGATTCTAATTTTGTTACCTAAT-TCTG
1 ATTCTGATTCTGATTCTGTT--CTGATACCTG
*
54932695 ATTCTGATTCTGATTTTGATTCTG-TCACCTG
1 ATTCTGATTCTGATTCTG-TTCTGAT-ACCTG
*
54932726 ATTCTGATTTTGATTCTGATTCT
1 ATTCTGATTCTGATTCTG-TTCT
54932749 CATTTTAATT
Statistics
Matches: 96, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
29 1 0.01
30 5 0.05
31 58 0.60
32 6 0.06
36 5 0.05
37 18 0.19
38 3 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTCTGATACCTG
Found at i:54932663 original size:43 final size:42
Alignment explanation
Indices: 54932597--54932700 Score: 145
Period size: 43 Copynumber: 2.4 Consensus size: 42
54932587 TGCATTCACA
* *
54932597 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGG
1 TTCTAATTCTGATTCTGTTACCTGATACTGATTCTAATT-TGG
* *
54932640 TTCTAATTCTGGTTCTGTTACCTGATACTGATTCTAATTTTG
1 TTCTAATTCTGATTCTGTTACCTGATACTGATTCTAATTTGG
54932682 TTACCTAATTCTGATTCTG
1 TT--CTAATTCTGATTCTG
54932701 ATTCTGATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
42 4 0.07
43 36 0.67
44 14 0.26
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (42 bp):
TTCTAATTCTGATTCTGTTACCTGATACTGATTCTAATTTGG
Found at i:54932702 original size:37 final size:37
Alignment explanation
Indices: 54932661--54932754 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
54932651 GTTCTGTTAC
* *
54932661 CTGATACTGATTCTAATTTTGTTACCTAATTCTGATT
1 CTGATTCTGATTCTAATTTTGTCACCTAATTCTGATT
* * * *
54932698 CTGATTCTGATTTTGATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTCTAATTTTGTCACCTAATTCTGATT
* *
54932735 TTGATTCTGATTCTCATTTT
1 CTGATTCTGATTCTAATTTT
54932755 AATTCTAGTT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.51
Consensus pattern (37 bp):
CTGATTCTGATTCTAATTTTGTCACCTAATTCTGATT
Found at i:54932708 original size:43 final size:42
Alignment explanation
Indices: 54932597--54932717 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 42
54932587 TGCATTCACA
* *
54932597 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGG
1 TTCTAATTCTGATTCTGTTA-CTGATACTGATTCTAATTCTGG
* *
54932640 TTCTAATTCTGGTTCTGTTACCTGATACTGATTCTAATT-TTG
1 TTCTAATTCTGATTCTGTTA-CTGATACTGATTCTAATTCTGG
**
54932682 TTACCTAATTCTGATTCTGATT-CTGATTTTGATTCT
1 TT--CTAATTCTGATTCTG-TTACTGATACTGATTCT
54932718 GTCACCTGAT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
42 4 0.06
43 48 0.71
44 14 0.21
45 2 0.03
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.50
Consensus pattern (42 bp):
TTCTAATTCTGATTCTGTTACTGATACTGATTCTAATTCTGG
Found at i:54934576 original size:50 final size:50
Alignment explanation
Indices: 54934454--54934846 Score: 324
Period size: 50 Copynumber: 7.8 Consensus size: 50
54934444 TGTGAGAACA
* *** * *
54934454 CATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT--TGTTAGGTCG
* * * *
54934506 CATGTGTAGTACTAATTGCAGGCTACTACGTGCACTAGATTGTTAGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCG
* * * * * * **
54934556 CATGTGTAGTACTAAGTGCAGGTTACTATGCGTACCCGATAGTTTCGATTA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG-TTAGGTCG
* * * * *
54934607 CATGTGTAGTACTAAGTACAGCCTACTATGTGTACCGGATTGATAGGTTG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCG
* * * **
54934657 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-CA-T-TAACTTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCG
* * * * * *
54934704 ATCATGAGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATCGATAAGTCA
1 --CAT--GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCG
* * * * * *
54934758 CGTGTGTAGTGCTAAATGCAGGCTACTACGTGTACCAGATTGATAGGTTG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCG
* *
54934808 CATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
54934847 GAGCTTTGGT
Statistics
Matches: 269, Mismatches: 64, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
47 3 0.01
48 1 0.00
49 4 0.01
50 152 0.57
51 70 0.26
52 36 0.13
54 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCG
Found at i:54934660 original size:101 final size:101
Alignment explanation
Indices: 54934454--54934846 Score: 371
Period size: 101 Copynumber: 3.9 Consensus size: 101
54934444 TGTGAGAACA
* * **** * * *
54934454 CATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTCACATGTGTAGTACT
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAG-TTTCGATTACATGTGTAGTACT
* * * *
54934519 AATTGCAGGCTACTACGTGCACTAGATTGTTAGGTCG
65 AAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCG
*
54934556 CATGTGTAGTACTAAGTGCAGGTTACTATGCGTACCCGATAGTTTCGATTACATGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGTTTCGATTACATGTGTAGTACTA
* * * * *
54934621 AGTACAGCCTACTATGTGTACCGGATTGATAGGTTG
66 AGTGCAGGCTACTACGTGTACCAGATTGATAGGTCG
**
54934657 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCC-ATTAACTTCGA-T-CATGAGTGTAGTA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGA-TAGTTTCGATTACAT--GTGTAGTA
* * * *
54934719 CTAAGTGCAGGCTACTACGTGTATCAGATCGATAAGTCA
63 CTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCG
* * * * * * * * * * *
54934758 CGTGTGTAGTGCTAAATGCAGGCTACTACGTGTACCAGATTG-ATAGGTTGCATGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGTTTCGATTACATGTGTAGTACTA
* * *
54934822 AGTGTAGGCTACTATGCGTACCAGA
66 AGTGCAGGCTACTACGTGTACCAGA
54934847 GAGCTTTGGT
Statistics
Matches: 239, Mismatches: 46, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
99 3 0.01
100 36 0.15
101 161 0.67
102 39 0.16
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (101 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGTTTCGATTACATGTGTAGTACTA
AGTGCAGGCTACTACGTGTACCAGATTGATAGGTCG
Found at i:54935721 original size:179 final size:179
Alignment explanation
Indices: 54935411--54935735 Score: 462
Period size: 179 Copynumber: 1.8 Consensus size: 179
54935401 TTCATGATCT
*
54935411 GTACCATGAGATAAATAATTTTTAGTAAAGAAAGATAGGAACTGTTGGACAGTGAAATAAGGGTA
1 GTACCATGAGATAAATAATTTTTAGTAAAGAAAGATAGGAACTGTTGGACAGTAAAATAAGGGTA
* **
54935476 TATTTAATGAATAAACTGTACTAATTGGATGAATGAAAAATTCTGAAAATTTTATGGTAGGAATA
66 TATTTAATGAATAAACTGTACTAATTGGATAAACAAAAAATTCTGAAAATTTTATGGTAGGAATA
*
54935541 TATGTGAGTCTCGTTTTTTTTAAACTATCATTTATTAATTTGGAGTCCC
131 TATGTGAGTCTAGTTTTTTTTAAACTATCATTTATTAATTTGGAGTCCC
* * * * *
54935590 GTACCATGAGATAAATAATTTTTATTGAAGAGAAG-TCA-GAATTGTTGGATAGTAAAATAGGGG
1 GTACCATGAGATAAATAATTTTTAGTAAAGA-AAGAT-AGGAACTGTTGGACAGTAAAATAAGGG
* *
54935653 TA-ACTTTAATGAATAAACTGTACTAATTGGCTAAACAAAAAATT-TGAAAATTTTTTTGGTTA-
64 TATA-TTTAATGAATAAACTGTACTAATTGGATAAACAAAAAATTCTGAAAA-TTTTATGG-TAG
54935715 GAATATATGTGAGTCTAGTTT
126 GAATATATGTGAGTCTAGTTT
54935736 CGAGGAAAAT
Statistics
Matches: 129, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
178 7 0.05
179 116 0.90
180 6 0.05
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (179 bp):
GTACCATGAGATAAATAATTTTTAGTAAAGAAAGATAGGAACTGTTGGACAGTAAAATAAGGGTA
TATTTAATGAATAAACTGTACTAATTGGATAAACAAAAAATTCTGAAAATTTTATGGTAGGAATA
TATGTGAGTCTAGTTTTTTTTAAACTATCATTTATTAATTTGGAGTCCC
Found at i:54944097 original size:50 final size:50
Alignment explanation
Indices: 54943997--54944380 Score: 317
Period size: 50 Copynumber: 7.6 Consensus size: 50
54943987 ATTGTGAGAA
* * *
54943997 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAG-TT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTG--T-A-CCAGATTGTTAGGT
* * * *
54944049 CACGTGTATAGTCCTAAGTGTAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
** * * * * *
54944099 CGTATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAGTTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTG-TTAGGT
* * * * * *
54944150 TACGTGTGTAGTACTAAGTACAGGCTACTATGTGTACCGGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * *
54944200 CGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCG-TTAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--GTTAGGT
* * * * * *
54944251 CACTTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * *
54944301 AACGTGTGTAGTACTAAATGCATGCTACTACGTGTACTAGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
*
54944351 CGCATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
54944381 TGCATACCAT
Statistics
Matches: 260, Mismatches: 64, Indels: 18
0.76 0.19 0.05
Matches are distributed among these distances:
48 3 0.01
49 5 0.02
50 146 0.56
51 77 0.30
52 29 0.11
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:54944199 original size:101 final size:100
Alignment explanation
Indices: 54944000--54944337 Score: 365
Period size: 101 Copynumber: 3.3 Consensus size: 100
54943990 GTGAGAACAC
* *** * * * *
54944000 ATGTGTAGTACTATGTGCAGGCTACTATGTGT-TTAAGACAGTTTTAGGTCACGTGTATAGTCCT
1 ATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCA-ATAGTTTT-GATCACGTGTGTAGTACT
*
54944064 AAGTGTAGGCTACTACGTGTACCAGATTGTTAGGTCG
64 AAGTGTAGGCTACTACGTGTACCAGATTGATAGGTCG
* *
54944101 TATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAATAGTTTTGATTACGTGTGTAGTACTA
1 -ATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCAATAGTTTTGATCACGTGTGTAGTACTA
** * *
54944166 AGTACAGGCTACTATGTGTACCGGATTGATAGGTCG
65 AGTGTAGGCTACTACGTGTACCAGATTGATAGGTCG
** ** * *
54944202 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGTTAACTTCGATCACTTGTGTAGTACTA
1 -ATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCAATAGTTTTGATCACGTGTGTAGTACTA
* * *
54944267 AGTGTAGGCTACTACGTGTATCAGATGGATAAGTAACG
65 AGTGTAGGCTACTACGTGTACCAGATTGATAGGT--CG
* * *
54944305 -TGTGTAGTACTAAATGCATGCTACTACGTGTAC
1 ATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
54944338 TAGATTGATA
Statistics
Matches: 199, Mismatches: 34, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
101 159 0.80
102 37 0.19
103 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (100 bp):
ATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCAATAGTTTTGATCACGTGTGTAGTACTAA
GTGTAGGCTACTACGTGTACCAGATTGATAGGTCG
Found at i:54946925 original size:28 final size:27
Alignment explanation
Indices: 54946872--54946925 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
54946862 AATTTTGGAA
* *
54946872 TTATTAATACACATGACATAAACAATT
1 TTATTAATACACATAACAGAAACAATT
* *
54946899 TTATTAAATTCACATAACAGAACCAAT
1 TTATT-AATACACATAACAGAAACAAT
54946926 ATGTCAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.48, C:0.17, G:0.04, T:0.31
Consensus pattern (27 bp):
TTATTAATACACATAACAGAAACAATT
Found at i:54948540 original size:45 final size:43
Alignment explanation
Indices: 54948410--54948542 Score: 103
Period size: 45 Copynumber: 3.0 Consensus size: 43
54948400 ATGCTATCTC
* * *
54948410 ATATCGATGCCACTATCCCAGACAG-GGTCTTACACGAATC-TA-
1 ATATCGATGCCAC-GTCCCAGAC-GTGGTCTTACACGAAACACAT
* * * * * *
54948452 ATAT-GATGCCCATGTCCCAAACATGGTCTTACTCTTAACCACAT
1 ATATCGATG-CCACGTCCCAGACGTGGTCTTACAC-GAAACACAT
54948496 ATATCGATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAT
1 ATATCGATGCC-ACGTCCCAGACGTGGTCTTACACG-AAACACAT
54948541 AT
1 AT
54948543 TGGATCCTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 13
0.72 0.15 0.14
Matches are distributed among these distances:
41 20 0.29
42 10 0.14
43 1 0.01
44 6 0.09
45 32 0.46
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.25
Consensus pattern (43 bp):
ATATCGATGCCACGTCCCAGACGTGGTCTTACACGAAACACAT
Found at i:54956315 original size:41 final size:44
Alignment explanation
Indices: 54956270--54956368 Score: 105
Period size: 45 Copynumber: 2.3 Consensus size: 44
54956260 TCCCAAATAG
* * *
54956270 GGTCTTACACGAA-TT-AAATAT-GATACCGATGTCCCAGACAT
1 GGTCTTACACGAACTTCAAATATCAATACCAACGTCCCAGACAT
* * * *
54956311 GGTCTTACTCGTAACTTCATATATCAATGCCAACGTCCCAGACGT
1 GGTCTTACACG-AACTTCAAATATCAATACCAACGTCCCAGACAT
54956356 GGTCTTACACGAA
1 GGTCTTACACGAA
54956369 AACACATATT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
41 10 0.22
42 2 0.04
43 2 0.04
44 7 0.15
45 25 0.54
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (44 bp):
GGTCTTACACGAACTTCAAATATCAATACCAACGTCCCAGACAT
Found at i:54957478 original size:14 final size:15
Alignment explanation
Indices: 54957461--54957489 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
54957451 TCACGAAAAT
54957461 TTCACACAT-ATAAA
1 TTCACACATAATAAA
54957475 TTCACACATAATAAA
1 TTCACACATAATAAA
54957490 CACATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:54958920 original size:42 final size:42
Alignment explanation
Indices: 54958861--54958966 Score: 142
Period size: 42 Copynumber: 2.5 Consensus size: 42
54958851 TTAGGGTTAC
* *
54958861 TGAGA-CTACGTGTAAGACCATATTTGGGATATGGCATCAATA
1 TGAGACCT-CGTGTAAGACCATATCTAGGATATGGCATCAATA
* * *
54958903 TGAGACCTCGTGCAAGACAATATCTAGGATATGGCATCGATA
1 TGAGACCTCGTGTAAGACCATATCTAGGATATGGCATCAATA
*
54958945 TGAGACTTCGTGTAAGACCATA
1 TGAGACCTCGTGTAAGACCATA
54958967 GCTGGGCTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 53 0.96
43 2 0.04
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (42 bp):
TGAGACCTCGTGTAAGACCATATCTAGGATATGGCATCAATA
Found at i:54959794 original size:23 final size:21
Alignment explanation
Indices: 54959751--54959803 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
54959741 CAATCAATTT
* *
54959751 CATACTCAATTTTATATCAAAAG
1 CATAC-CAATTTAATA-CCAAAG
*
54959774 CATACCAATTTAACTACCAAAT
1 CATACCAATTTAA-TACCAAAG
54959796 CATACCAA
1 CATACCAA
54959804 GATGGCCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.28
Consensus pattern (21 bp):
CATACCAATTTAATACCAAAG
Found at i:54960483 original size:42 final size:42
Alignment explanation
Indices: 54960384--54960497 Score: 142
Period size: 42 Copynumber: 2.7 Consensus size: 42
54960374 ACCTCATACA
* * * *
54960384 ATGCCAACGTCCTAAAC-GAGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCTAGACAG-GGTCTTACACGAAATC-AATATCG
54960427 ATGCCAATGTCCTAGACAGGGTCTTACACGAAATC-ATATGCG
1 ATGCCAATGTCCTAGACAGGGTCTTACACGAAATCAATAT-CG
*
54960469 ATGCCAATGTCCTAGACATGGTCTTACAC
1 ATGCCAATGTCCTAGACAGGGTCTTACAC
54960498 ATAAATCTCA
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
41 4 0.06
42 30 0.47
43 29 0.45
44 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCTAGACAGGGTCTTACACGAAATCAATATCG
Found at i:54960535 original size:44 final size:43
Alignment explanation
Indices: 54960487--54960591 Score: 138
Period size: 44 Copynumber: 2.4 Consensus size: 43
54960477 GTCCTAGACA
* * *
54960487 TGGTCTTACACATAAATCTCAAATTGATGCCAACATCTCAAACG
1 TGGTCTTACACA-AAATCTCAAATCGATGCCAACACCCCAAACG
* * *
54960531 TGGTCTTAGACAAAAATCTCAAATCGATGCCAACGCCCCAGACG
1 TGGTCTTACAC-AAAATCTCAAATCGATGCCAACACCCCAAACG
54960575 TGGTCTTACACAAAATC
1 TGGTCTTACACAAAATC
54960592 ACATATTGGA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 6 0.11
44 46 0.87
45 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (43 bp):
TGGTCTTACACAAAATCTCAAATCGATGCCAACACCCCAAACG
Found at i:54965434 original size:28 final size:28
Alignment explanation
Indices: 54965379--54965434 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
54965369 TAGTAACAGC
* * *
54965379 ACAGTGTGGGCCTTAGCCCAGTATAGTA
1 ACAGTGTAGGCCTTAGCCCAATACAGTA
54965407 ACAGTGTAGG-CTTAAGCCCAATACAGTA
1 ACAGTGTAGGCCTT-AGCCCAATACAGTA
54965435 TCAGAATCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.23
Consensus pattern (28 bp):
ACAGTGTAGGCCTTAGCCCAATACAGTA
Found at i:54965641 original size:26 final size:26
Alignment explanation
Indices: 54965603--54965652 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
54965593 GCCAACACAC
* *
54965603 TAATATCGCAGCATAGCTGCTAGAAA
1 TAATAACGCAGCAAAGCTGCTAGAAA
* *
54965629 TAATAACGTAGCAAAGTTGCTAGA
1 TAATAACGCAGCAAAGCTGCTAGA
54965653 TATATACACG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (26 bp):
TAATAACGCAGCAAAGCTGCTAGAAA
Found at i:54966253 original size:27 final size:27
Alignment explanation
Indices: 54966223--54966284 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
54966213 AAAAATATTC
*
54966223 ATTTTACTCTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
*
54966250 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGATA
*
54966277 ATTCTACA
1 ATTTTACA
54966285 AACAAGGTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:54967388 original size:15 final size:15
Alignment explanation
Indices: 54967365--54967394 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
54967355 TTAAAGAAAG
54967365 AAATAAGAATGCCTA
1 AAATAAGAATGCCTA
*
54967380 AAATGAGAATGCCTA
1 AAATAAGAATGCCTA
54967395 TTCGACAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (15 bp):
AAATAAGAATGCCTA
Found at i:54968825 original size:110 final size:110
Alignment explanation
Indices: 54968689--54968906 Score: 400
Period size: 110 Copynumber: 2.0 Consensus size: 110
54968679 CATTTACTGC
*
54968689 AATGCTTGCACTCAATTGATTTAGTCTGACATTACTGACACTAGCTATAGAAGTGGCTTTTGAAC
1 AATGCTTGCACTCAATTGATTTAGTCTGACATTACCGACACTAGCTATAGAAGTGGCTTTTGAAC
54968754 TCACAGGCAGTTTGTTTCGATCCCGTCTAGAATAGCTCTCAGTGT
66 TCACAGGCAGTTTGTTTCGATCCCGTCTAGAATAGCTCTCAGTGT
*
54968799 AATGCTTGCACTCAGTTGATTTAGTCTGACATTACCGACACTAGCTATAGAAGTGGCTTTTGAAC
1 AATGCTTGCACTCAATTGATTTAGTCTGACATTACCGACACTAGCTATAGAAGTGGCTTTTGAAC
* *
54968864 TCACAGGCGGTTTGTTTTGATCCCGTCTAGAATAGCTCTCAGT
66 TCACAGGCAGTTTGTTTCGATCCCGTCTAGAATAGCTCTCAGT
54968907 AGCCTTTGAA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 104 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (110 bp):
AATGCTTGCACTCAATTGATTTAGTCTGACATTACCGACACTAGCTATAGAAGTGGCTTTTGAAC
TCACAGGCAGTTTGTTTCGATCCCGTCTAGAATAGCTCTCAGTGT
Found at i:54972385 original size:15 final size:15
Alignment explanation
Indices: 54972367--54972398 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
54972357 TTTATTCATC
54972367 AACTATAAGGCCATT
1 AACTATAAGGCCATT
54972382 AACTATAAGGCCATT
1 AACTATAAGGCCATT
54972397 AA
1 AA
54972399 TGTCCATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (15 bp):
AACTATAAGGCCATT
Found at i:54972565 original size:13 final size:13
Alignment explanation
Indices: 54972547--54972571 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54972537 AAAAATGATA
54972547 AAATTTTCACACG
1 AAATTTTCACACG
54972560 AAATTTTCACAC
1 AAATTTTCACAC
54972572 ATATCACACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:54974937 original size:46 final size:46
Alignment explanation
Indices: 54974870--54975045 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
54974860 TGTAACCCGC
* *
54974870 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * *
54974916 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-G--GAC--GTTCGCAT
* *
54974966 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
54975009 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
54975046 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 62 0.56
47 27 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:54974989 original size:93 final size:93
Alignment explanation
Indices: 54974877--54975048 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
54974867 CGCCCATAAG
* *
54974877 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
54974942 ACGAGTTCAGATGCCTAGTTACATCTCA
66 ACGAGTTCAGATGCCTAGTTACATCTCA
*
54974970 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
54975035 ACGAGTTCGGATGC
66 ACGAGTTCAGATGC
54975049 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:54982590 original size:93 final size:93
Alignment explanation
Indices: 54982461--54982632 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
54982451 CGCCCATAAG
* * * *
54982461 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
54982526 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
54982554 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
54982619 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
54982633 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:54982629 original size:46 final size:46
Alignment explanation
Indices: 54982454--54982629 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
54982444 TGTAACCCGC
* * * *
54982454 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
54982500 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
54982550 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
54982593 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
54982630 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:54982648 original size:46 final size:44
Alignment explanation
Indices: 54982505--54982648 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
54982495 CGCATCCATA
54982505 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
54982552 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
*
54982598 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
54982644 AGTGA
1 AGTGA
54982649 CATGTCACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 32 0.41
47 31 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:54985405 original size:17 final size:18
Alignment explanation
Indices: 54985378--54985416 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
54985368 GGCCATTTCT
54985378 GGGCTATGTGGGCCACAC
1 GGGCTATGTGGGCCACAC
*
54985396 GGGC-ATGTGGGCCACAT
1 GGGCTATGTGGGCCACAC
54985413 GGGC
1 GGGC
54985417 CCGCATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.15, C:0.26, G:0.44, T:0.15
Consensus pattern (18 bp):
GGGCTATGTGGGCCACAC
Found at i:54985565 original size:27 final size:27
Alignment explanation
Indices: 54985535--54985668 Score: 189
Period size: 27 Copynumber: 5.0 Consensus size: 27
54985525 CCAAAATTGA
* *
54985535 TAAAATGACTGTTTTACCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
54985562 TAAAATGACTATTTTTCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* *
54985589 TAAAGTGACTATTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * *
54985616 TAAAATGATTGTTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATGTGG
54985643 T-AAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
54985669 CTGCTTACCC
Statistics
Matches: 96, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 22 0.23
27 74 0.77
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:54987244 original size:17 final size:17
Alignment explanation
Indices: 54987202--54987244 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
54987192 CTTTCATACG
*
54987202 AGCTTACTAAGCTACAT
1 AGCTTACTCAGCTACAT
*
54987219 AGCTTACTCAGCTATAT
1 AGCTTACTCAGCTACAT
54987236 AGCTTACTC
1 AGCTTACTC
54987245 TATTTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (17 bp):
AGCTTACTCAGCTACAT
Found at i:54992705 original size:68 final size:67
Alignment explanation
Indices: 54992633--54992782 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
54992623 CATCATGTGT
* * * *
54992633 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
54992695 ATGTAG
62 ATGTAG
** * *
54992701 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
54992766 AG
66 AG
54992768 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
54992783 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:54992738 original size:64 final size:64
Alignment explanation
Indices: 54992657--54992840 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
54992647 AGACATTATG
* *
54992657 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
54992721 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
54992786 AA
63 AA
* * * *
54992788 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
54992841 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:55004277 original size:12 final size:12
Alignment explanation
Indices: 55004260--55004299 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
55004250 GTGATCAGTT
55004260 GAGAGATTTGAG
1 GAGAGATTTGAG
* *
55004272 GAGAGATGTGGG
1 GAGAGATTTGAG
*
55004284 GAGAGATTTTAG
1 GAGAGATTTGAG
55004296 GAGA
1 GAGA
55004300 AAATCGTGGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.45, T:0.23
Consensus pattern (12 bp):
GAGAGATTTGAG
Found at i:55004905 original size:15 final size:16
Alignment explanation
Indices: 55004885--55004918 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
55004875 TTTCCCCTCA
*
55004885 TTTCTT-TCTTTTGAC
1 TTTCTTCTCTTTTCAC
55004900 TTTCTTCTCTTTTCAC
1 TTTCTTCTCTTTTCAC
55004916 TTT
1 TTT
55004919 TTAGGGTTGG
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:0.06, C:0.24, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTCTTCTCTTTTCAC
Found at i:55010985 original size:28 final size:27
Alignment explanation
Indices: 55010950--55011005 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
55010940 AATCATATTT
*
55010950 ACAAGATAGTTCTTG-CAAACTTTCCTC
1 ACAAGATAGTAC-TGACAAACTTTCCTC
*
55010977 ACAACGATAGTACTGACAGACTTTCCTC
1 ACAA-GATAGTACTGACAAACTTTCCTC
55011005 A
1 A
55011006 TATTTGATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (27 bp):
ACAAGATAGTACTGACAAACTTTCCTC
Found at i:55011099 original size:27 final size:27
Alignment explanation
Indices: 55011061--55011183 Score: 124
Period size: 27 Copynumber: 4.6 Consensus size: 27
55011051 ACCTCCACAT
55011061 ATTAGATAGTCTTGACAGACTTCTT-AC
1 ATTAGATAGTCTTGACAGACTT-TTCAC
* * *
55011088 ATTAGATGGTCTTGAAAG-GTTTTCCAC
1 ATTAGATAGTCTTGACAGACTTTT-CAC
*
55011115 ATTAGATAGTCCTGACAGACTTTTCAC
1 ATTAGATAGTCTTGACAGACTTTTCAC
* * * * *
55011142 ATTGGATACTCTTGACGGGCTTTCCAC
1 ATTAGATAGTCTTGACAGACTTTTCAC
*
55011169 ATTAGATAGTTTTGA
1 ATTAGATAGTCTTGA
55011184 TGAGCTTTCC
Statistics
Matches: 77, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
25 2 0.03
26 2 0.03
27 69 0.90
28 4 0.05
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
ATTAGATAGTCTTGACAGACTTTTCAC
Found at i:55011119 original size:54 final size:54
Alignment explanation
Indices: 55011061--55011183 Score: 158
Period size: 54 Copynumber: 2.3 Consensus size: 54
55011051 ACCTCCACAT
** *
55011061 ATTAGATAGTCTTGACAGACTTCTT-ACATTAGATGGTCTTGAAAGGTTTTCCAC
1 ATTAGATAGTCTTGACAGACTT-TTCACATTAGATACTCTTGAAAGGCTTTCCAC
* * **
55011115 ATTAGATAGTCCTGACAGACTTTTCACATTGGATACTCTTGACGGGCTTTCCAC
1 ATTAGATAGTCTTGACAGACTTTTCACATTAGATACTCTTGAAAGGCTTTCCAC
*
55011169 ATTAGATAGTTTTGA
1 ATTAGATAGTCTTGA
55011184 TGAGCTTTCC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 2 0.03
54 57 0.97
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.37
Consensus pattern (54 bp):
ATTAGATAGTCTTGACAGACTTTTCACATTAGATACTCTTGAAAGGCTTTCCAC
Found at i:55011190 original size:27 final size:26
Alignment explanation
Indices: 55011061--55011206 Score: 105
Period size: 27 Copynumber: 5.4 Consensus size: 26
55011051 ACCTCCACAT
* *
55011061 ATTAGATAGTCTTGACAGAC-TTCTTAC
1 ATTAGATAGTCTTGAGAG-CTTTC-CAC
* * *
55011088 ATTAGATGGTCTTGAAAGGTTTTCCAC
1 ATTAGATAGTCTTGAGA-GCTTTCCAC
* * *
55011115 ATTAGATAGTCCTGACAGACTTTTCAC
1 ATTAGATAGTCTTGAGAG-CTTTCCAC
* * *
55011142 ATTGGATACTCTTGACGGGCTTTCCAC
1 ATTAGATAGTCTTGA-GAGCTTTCCAC
* *
55011169 ATTAGATAGTTTTGATGAGCTTTCCAT
1 ATTAGATAGTCTTGA-GAGCTTTCCAC
*
55011196 AGTAGATAGTC
1 ATTAGATAGTC
55011207 CAGATGGACT
Statistics
Matches: 92, Mismatches: 23, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
26 1 0.01
27 86 0.93
28 5 0.05
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (26 bp):
ATTAGATAGTCTTGAGAGCTTTCCAC
Found at i:55011296 original size:24 final size:24
Alignment explanation
Indices: 55011258--55011327 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
55011248 ATTTCCATTT
*
55011258 GTCCTAC-T-AAGGGCTCTCATAC
1 GTCCTACATAAAGGGCTTTCATAC
*
55011280 GTCCTACATAAAGGGCTTTCAAAC
1 GTCCTACATAAAGGGCTTTCATAC
* *
55011304 GTCCTACACAAAGGGTTTTCATAC
1 GTCCTACATAAAGGGCTTTCATAC
55011328 ACTGGTATGC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
22 7 0.17
23 1 0.02
24 33 0.80
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (24 bp):
GTCCTACATAAAGGGCTTTCATAC
Found at i:55017357 original size:46 final size:46
Alignment explanation
Indices: 55017304--55017625 Score: 412
Period size: 46 Copynumber: 7.0 Consensus size: 46
55017294 ATGCATTAGA
*
55017304 ATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
**
55017350 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGGG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * *
55017396 ATATAAAATGTGTAAGACCATGGTTGAAGGACACCATGGCAACATG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * *
55017442 ATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGACAACAGG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* ** *
55017488 ATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTA
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* *** *
55017534 ACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACTTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * * * * *
55017580 ACA-GAAGATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATATGAA-ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
55017626 TCGAAGATAA
Statistics
Matches: 239, Mismatches: 36, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
45 3 0.01
46 236 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
Found at i:55018418 original size:22 final size:22
Alignment explanation
Indices: 55018373--55018418 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
55018363 ATAATTCATT
**
55018373 ATTATAATAAAGCATTTATCAC
1 ATTATAATAAAGCATTTAAAAC
*
55018395 ATTATATTAAAGCATTTAAAAC
1 ATTATAATAAAGCATTTAAAAC
55018417 AT
1 AT
55018419 ACTACCATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (22 bp):
ATTATAATAAAGCATTTAAAAC
Found at i:55020990 original size:66 final size:65
Alignment explanation
Indices: 55020936--55021086 Score: 178
Period size: 65 Copynumber: 2.3 Consensus size: 65
55020926 GCATCACATG
* * * *
55020936 GCCAGAGACACGCTCATGTGTCATGGCC-GTGTAAAATATGGAGGGTATACTGACTTAGGTCACA
1 GCCAGACACACGCCCATGTGCCA--GCCGGTGTAAAATATGGAGGGTATACTGACTTAGATCACA
55021000 CA
64 CA
* * * *
55021002 GCCGGCCACACGCCCATGTGCCAGCCGGTGTAAAATATGGAGGGTATATTGACTTAGGTCACACA
1 GCCAGACACACGCCCATGTGCCAGCCGGTGTAAAATATGGAGGGTATACTGACTTAGATCACACA
** *
55021067 GCTGGCCACACGCCCATGTG
1 GCCAGACACACGCCCATGTG
55021087 TCACAGATGG
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
64 3 0.04
65 56 0.73
66 18 0.23
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.21
Consensus pattern (65 bp):
GCCAGACACACGCCCATGTGCCAGCCGGTGTAAAATATGGAGGGTATACTGACTTAGATCACACA
Found at i:55021055 original size:65 final size:65
Alignment explanation
Indices: 55020964--55021086 Score: 228
Period size: 65 Copynumber: 1.9 Consensus size: 65
55020954 TGTCATGGCC
55020964 GTGTAAAATATGGAGGGTATACTGACTTAGGTCACACAGCCGGCCACACGCCCATGTGCCAGCCG
1 GTGTAAAATATGGAGGGTATACTGACTTAGGTCACACAGCCGGCCACACGCCCATGTGCCAGCCG
* *
55021029 GTGTAAAATATGGAGGGTATATTGACTTAGGTCACACAGCTGGCCACACGCCCATGTG
1 GTGTAAAATATGGAGGGTATACTGACTTAGGTCACACAGCCGGCCACACGCCCATGTG
55021087 TCACAGATGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (65 bp):
GTGTAAAATATGGAGGGTATACTGACTTAGGTCACACAGCCGGCCACACGCCCATGTGCCAGCCG
Found at i:55022207 original size:43 final size:43
Alignment explanation
Indices: 55022117--55022213 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
55022107 TATCCCAAAT
** * * **
55022117 ATGGTCTTACATGTTATCATATATCGATGCCAATACCCTAGTT
1 ATGGTCTTACATGAAATCAAATAACGATGCCAATACCCTAGAC
*
55022160 ATGGTCTTACATGAAATCAAATAACGATGCCAATGTCCC-AGAC
1 ATGGTCTTACATGAAATCAAATAACGATGCCAAT-ACCCTAGAC
55022203 ATGGTCTTACA
1 ATGGTCTTACA
55022214 CATAATCACA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
43 43 0.93
44 3 0.07
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (43 bp):
ATGGTCTTACATGAAATCAAATAACGATGCCAATACCCTAGAC
Found at i:55026457 original size:50 final size:50
Alignment explanation
Indices: 55026382--55026663 Score: 311
Period size: 50 Copynumber: 5.7 Consensus size: 50
55026372 ATCTATTTTG
* * **
55026382 AGGTCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTATTAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT
* *
55026432 AGGTCACGTGTGTGGTACTAAGTGCAGGCTACTACGTGTA-CCGAATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG-ATAATT
* * * * * * *
55026482 -GGTCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAA-TT
* * * * *
55026532 CGATCACGTGTGTAGTACTAAGTGCAGTCTACTACGTGTATCACATGATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT
* * *
55026582 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT
* *
55026632 -GGTC-CATGTGTAGTACTAAGTGGAGGCTACTA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
55026664 TGCGTACCAG
Statistics
Matches: 195, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
48 26 0.13
49 42 0.22
50 91 0.47
51 36 0.18
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT
Found at i:55032299 original size:19 final size:20
Alignment explanation
Indices: 55032262--55032299 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
55032252 ATAAGGTGGT
55032262 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
55032282 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
55032300 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:55039481 original size:46 final size:46
Alignment explanation
Indices: 55039431--55039555 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
55039421 TGGTTGAGCA
*
55039431 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
55039477 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
55039523 CCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
55039556 GGGGCGGGTT
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
45 11 0.15
46 62 0.85
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:55039817 original size:19 final size:20
Alignment explanation
Indices: 55039780--55039817 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
55039770 ATAAGGTGGT
55039780 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
55039800 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
55039818 TGGTGTACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:55042516 original size:42 final size:42
Alignment explanation
Indices: 55042453--55042549 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
55042443 ATGTCGCTGC
* *
55042453 CTATAGAATG-ATCATTTGATGTAAATTACGAATTGAAATAGA
1 CTAT-GAATGAATTATTTGATGTAAATTACGAATCGAAATAGA
*
55042495 CTATGAATGAATTATTTGATGTAAATTATGAATCGAAATAGA
1 CTATGAATGAATTATTTGATGTAAATTACGAATCGAAATAGA
55042537 CTATGAATGAATT
1 CTATGAATGAATT
55042550 TGTTAACTGT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
41 5 0.10
42 46 0.90
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (42 bp):
CTATGAATGAATTATTTGATGTAAATTACGAATCGAAATAGA
Found at i:55042645 original size:12 final size:14
Alignment explanation
Indices: 55042630--55042661 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
55042620 GTGAGAACAC
55042630 ATGTGT-AG-TACT
1 ATGTGTAAGCTACT
55042642 ATGTGTAAGCTACT
1 ATGTGTAAGCTACT
55042656 ATGTGT
1 ATGTGT
55042662 TTAAGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 2 0.11
14 10 0.56
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.41
Consensus pattern (14 bp):
ATGTGTAAGCTACT
Found at i:55042839 original size:50 final size:49
Alignment explanation
Indices: 55042772--55042901 Score: 161
Period size: 50 Copynumber: 2.6 Consensus size: 49
55042762 ACAACTTCGA
* *
55042772 TCACGTGTGTAGAACTAAGTGCAAGCTACTACGTGTATCAGATGCTTAGG
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGATT-GG
* * * * *
55042822 TCATGTGTGTAGTACTAAGTACAAGCTACTATGTGTATCGGATTATTGG
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGATTGG
* * *
55042871 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTA
55042902 TGCGTGCCAG
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
49 28 0.41
50 40 0.59
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGATTGG
Found at i:55044688 original size:15 final size:15
Alignment explanation
Indices: 55044668--55044728 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 15
55044658 TATGATATTA
55044668 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
* *
55044683 TATCTTGAATTTCTC
1 TATCTTGGATTTCTT
* *
55044698 TATATTGGACTTCTT
1 TATCTTGGATTTCTT
* * *
55044713 AATCCTGGTTTTCTT
1 TATCTTGGATTTCTT
55044728 T
1 T
55044729 TTATCTATAT
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:55047327 original size:55 final size:53
Alignment explanation
Indices: 55047199--55047391 Score: 192
Period size: 55 Copynumber: 3.6 Consensus size: 53
55047189 AGCATGAACT
* *
55047199 TGTCTTAACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCA
1 TGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATGCCA
* * * *
55047252 TGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATGGTAACTTATCAATGCCA
1 TGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATGCCA
* *** *
55047307 TGTCTTGACTTGGTCTTACATGATTTCCTTGCCTTA-GAAACCTTACCAATTGCCA
1 TGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTCACCAA-TGCCA
* * *
55047362 TGCCTTGGCATGGTCTTACATGGTATCCTT
1 TGTCTTGACATGGTCTTACATGGGATCCTT
55047392 AAACCCTAAT
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
52 2 0.02
53 33 0.29
54 8 0.07
55 70 0.61
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
TGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATGCCA
Found at i:55051560 original size:50 final size:49
Alignment explanation
Indices: 55051348--55051614 Score: 164
Period size: 50 Copynumber: 5.3 Consensus size: 49
55051338 GAGAACACAT
* * * * *
55051348 TGTAGTACTATGTGTAAGCTACTATGTGTTTTAAGATGGTTGTAGGTCACGTG
1 TGTAGTACTAAGTGCAAGCTACTA-GTG-TATCAGAT-GCT-TAGGTCACGTG
* * * * * *
55051401 TGTAGTACTAAGTGTAGGCCACTAGTGTACCAAATAG-TTAGGTGCATGT-
1 TGTAGTACTAAGTGCAAGCTACTAGTGTATCAGAT-GCTTAGGT-CACGTG
* * * * * ** * *
55051450 TGT-GTACTAAGTGCAGGCTATTATTCGTAGCTGACAACTTCGATCACGTG
1 TGTAGTACTAAGTGCAAGCTACTAGT-GTATCAGA-TGCTTAGGTCACGTG
* *
55051500 TGTAGAACTAAGTGCAAGCTACTACGTGTATCAGATGCTTAGGTCATGTG
1 TGTAGTACTAAGTGCAAGCTACTA-GTGTATCAGATGCTTAGGTCACGTG
* * ** * *
55051550 TGTAGTACTAAGTACAAGCTACTATGTGTATCGGATTATT-GGTCGCATG
1 TGTAGTACTAAGTGCAAGCTACTA-GTGTATCAGATGCTTAGGTCACGTG
55051599 TGTAGTACTAAGTGCA
1 TGTAGTACTAAGTGCA
55051615 GGTACTATGC
Statistics
Matches: 165, Mismatches: 42, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
48 18 0.11
49 38 0.23
50 56 0.34
51 28 0.17
52 4 0.02
53 21 0.13
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (49 bp):
TGTAGTACTAAGTGCAAGCTACTAGTGTATCAGATGCTTAGGTCACGTG
Found at i:55056823 original size:46 final size:46
Alignment explanation
Indices: 55056773--55056947 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
55056763 TGGTTGAGCA
55056773 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55056819 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
55056864 CATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55056911 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55056948 GGGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 22 0.20
46 50 0.46
47 24 0.22
49 4 0.04
50 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55056928 original size:92 final size:93
Alignment explanation
Indices: 55056770--55056940 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
55056760 GGATGGTTGA
* *
55056770 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55056835 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
55056863 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55056927 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
55056941 CTTATGGGGG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 51 0.68
93 24 0.32
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55064330 original size:46 final size:46
Alignment explanation
Indices: 55064280--55064408 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
55064270 TGGTTGAGCA
*
55064280 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
55064326 TCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
55064372 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55064409 GCGGGTTACA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:55065790 original size:20 final size:20
Alignment explanation
Indices: 55065765--55065829 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
55065755 TGTCTCATAA
55065765 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
** * * *
55065785 TCATGAGTTCAAATCACATAAA
1 TCATGAACTCAGA-C-CACAAC
55065807 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
55065827 TCA
1 TCA
55065830 ATGAGTTCAG
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
20 17 0.52
21 2 0.06
22 14 0.42
ACGTcount: A:0.42, C:0.29, G:0.09, T:0.20
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:55065818 original size:42 final size:42
Alignment explanation
Indices: 55065763--55065849 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
55065753 TGTGTCTCAT
55065763 AATCATGAACTCAGACCACAACTC-ATGAGTTCAAATCACATA
1 AATCATGAACTCAGACCACAACTCAATGAGTTCAAATCACA-A
*
55065805 AATCATGAACTCAGACCACAACTCAATGAGTTCAGATCACAA
1 AATCATGAACTCAGACCACAACTCAATGAGTTCAAATCACAA
55065847 AAT
1 AAT
55065850 TCCTAGTGAC
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
42 28 0.65
43 15 0.35
ACGTcount: A:0.44, C:0.25, G:0.10, T:0.21
Consensus pattern (42 bp):
AATCATGAACTCAGACCACAACTCAATGAGTTCAAATCACAA
Found at i:55065824 original size:22 final size:21
Alignment explanation
Indices: 55065763--55065825 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 21
55065753 TGTGTCTCAT
55065763 AATCATGAACTCAGACCAC-A
1 AATCATGAACTCAGACCACAA
* ** * *
55065783 ACTCATGAGTTCAAATCACATA
1 AATCATGAACTCAGACCACA-A
55065805 AATCATGAACTCAGACCACAA
1 AATCATGAACTCAGACCACAA
55065826 CTCAATGAGT
Statistics
Matches: 31, Mismatches: 10, Indels: 3
0.70 0.23 0.07
Matches are distributed among these distances:
20 14 0.45
21 1 0.03
22 16 0.52
ACGTcount: A:0.44, C:0.27, G:0.10, T:0.19
Consensus pattern (21 bp):
AATCATGAACTCAGACCACAA
Found at i:55067775 original size:43 final size:43
Alignment explanation
Indices: 55067682--55067829 Score: 131
Period size: 43 Copynumber: 3.4 Consensus size: 43
55067672 AATTACCAAG
* *
55067682 ATGTGATTACATGTAAGACCATGTCTGGGTCATTGTCAT--TGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCAT-T
*
55067724 ATTGTGATTACGTGTAAGA-CATGGTCTGGGACATTGGCATCATT
1 A-TGTGATTACATGTAAGACCAT-GTCTGGGACATTGGCATCATT
* * * * * * * * *
55067768 ATATGATTTCGTATAAAACCCTATCTGGGACAGTGGCATCAAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCATT
*
55067811 ATGTGATAACATGTAAGAC
1 ATGTGATTACATGTAAGAC
55067830 GATATCCAGG
Statistics
Matches: 84, Mismatches: 17, Indels: 9
0.76 0.15 0.08
Matches are distributed among these distances:
42 4 0.05
43 75 0.89
44 4 0.05
45 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCATT
Found at i:55082971 original size:40 final size:40
Alignment explanation
Indices: 55082888--55083073 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
55082878 TCGAATGATG
* * * *
55082888 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
55082928 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55082968 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55083008 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
55083049 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55083074 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55083080 original size:80 final size:79
Alignment explanation
Indices: 55082941--55083106 Score: 219
Period size: 80 Copynumber: 2.1 Consensus size: 79
55082931 GGACTAAGAT
* **
55082941 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
55083005 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* *
55083021 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGTATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
55083085 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
55083100 CCGAAGG
1 CCGAAGG
55083107 TACGTGATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
79 16 0.21
80 58 0.76
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:55092152 original size:16 final size:17
Alignment explanation
Indices: 55092120--55092153 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
55092110 TTATTGTCGA
55092120 AAAATAATTAAATATTAT
1 AAAATAATT-AATATTAT
55092138 AAAATAATT-ATATTAT
1 AAAATAATTAATATTAT
55092154 GTTAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATAATTAATATTAT
Found at i:55100504 original size:33 final size:33
Alignment explanation
Indices: 55100462--55100530 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
55100452 GGGCTAAGGC
*
55100462 CTGAATAGGGCTTTTGCCCAGACTGTAC-GATTA
1 CTGAATAGGGCTTTGGCCCAGACTGTACTGA-TA
55100495 CTGAATAGGGCTTTGGCCCAGACTGTACTGATA
1 CTGAATAGGGCTTTGGCCCAGACTGTACTGATA
55100528 CTG
1 CTG
55100531 TGTTGGTTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 32 0.94
34 2 0.06
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (33 bp):
CTGAATAGGGCTTTGGCCCAGACTGTACTGATA
Found at i:55102787 original size:29 final size:29
Alignment explanation
Indices: 55102728--55102788 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
55102718 ATTTATTTTA
*
55102728 CAATTTAACCCCTGAATTTACACTTTTCT
1 CAATTTAACCCCTGAATGTACACTTTTCT
* * *
55102757 CAATTTAATCCCT-AATGTGCATTTTTACT
1 CAATTTAACCCCTGAATGTACACTTTT-CT
55102786 CAA
1 CAA
55102789 AATCACTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (29 bp):
CAATTTAACCCCTGAATGTACACTTTTCT
Found at i:55113848 original size:28 final size:28
Alignment explanation
Indices: 55113816--55113871 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
55113806 ACTATGGCCA
*
55113816 AATGCTTCAAAGTGCAATAATGGAGCTT
1 AATGCTTCAAAGTACAATAATGGAGCTT
55113844 AATGCTTCAAAGTACAATAATGGAGCTT
1 AATGCTTCAAAGTACAATAATGGAGCTT
55113872 TTCTTCCCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (28 bp):
AATGCTTCAAAGTACAATAATGGAGCTT
Found at i:55115521 original size:27 final size:27
Alignment explanation
Indices: 55115484--55115544 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
55115474 AGTTAAATTC
55115484 AATG-TTATACGAACTTACTAAGCTTA
1 AATGCTTATACGAACTTACTAAGCTTA
55115510 AATGCTTATACGAACTTACTAAGCTTA
1 AATGCTTATACGAACTTACTAAGCTTA
55115537 AATGCTTA
1 AATGCTTA
55115545 CTCTATGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.34
Consensus pattern (27 bp):
AATGCTTATACGAACTTACTAAGCTTA
Found at i:55118437 original size:16 final size:16
Alignment explanation
Indices: 55118416--55118459 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
55118406 AGGTAAGTAT
55118416 TTTTTTCTTTTTATCA
1 TTTTTTCTTTTTATCA
* * * *
55118432 TTTTTTATTCTAATCC
1 TTTTTTCTTTTTATCA
55118448 TTTTTTCTTTTT
1 TTTTTTCTTTTT
55118460 GTGCAGCTAA
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTTCTTTTTATCA
Found at i:55125286 original size:45 final size:45
Alignment explanation
Indices: 55125236--55125330 Score: 181
Period size: 45 Copynumber: 2.1 Consensus size: 45
55125226 CTAGACATGA
*
55125236 CATGAGAATTATGAGATGAAATGATAATGTCTTGAAAGTGTGTTG
1 CATGAGAATTATGAGATGAAATGATAATGTCTTGAAAGTGTGTAG
55125281 CATGAGAATTATGAGATGAAATGATAATGTCTTGAAAGTGTGTAG
1 CATGAGAATTATGAGATGAAATGATAATGTCTTGAAAGTGTGTAG
55125326 CATGA
1 CATGA
55125331 TGAGCTCATC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (45 bp):
CATGAGAATTATGAGATGAAATGATAATGTCTTGAAAGTGTGTAG
Found at i:55132250 original size:43 final size:44
Alignment explanation
Indices: 55132203--55132338 Score: 149
Period size: 44 Copynumber: 3.2 Consensus size: 44
55132193 ATGATTAGCT
55132203 GAAGCTATAAC-G-ATCTTGCACAC-TTAGTGCCATCACATTAAAC
1 GAAGCTATAACAGTATC--GCACACTTTAGTGCCATCACATTAAAC
* *
55132246 GAAGCTATATCAGTATCGTACACTTTAGTGCCATCACATTAAAC
1 GAAGCTATAACAGTATCGCACACTTTAGTGCCATCACATTAAAC
* * * * *
55132290 GAAGCTATATCGGTATCGTACA-TTTAGTGCC-TCATA-TAACC
1 GAAGCTATAACAGTATCGCACACTTTAGTGCCATCACATTAAAC
55132331 GAAGCTAT
1 GAAGCTAT
55132339 TACAATTCAC
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
41 12 0.14
42 4 0.05
43 24 0.28
44 42 0.49
45 3 0.04
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (44 bp):
GAAGCTATAACAGTATCGCACACTTTAGTGCCATCACATTAAAC
Found at i:55132284 original size:44 final size:44
Alignment explanation
Indices: 55132222--55132338 Score: 179
Period size: 44 Copynumber: 2.8 Consensus size: 44
55132212 ACGATCTTGC
55132222 ACAC-TTAGTGCCATCACATTAAACGAAGCTATATCAGTATCGT
1 ACACTTTAGTGCCATCACATTAAACGAAGCTATATCAGTATCGT
*
55132265 ACACTTTAGTGCCATCACATTAAACGAAGCTATATCGGTATCGT
1 ACACTTTAGTGCCATCACATTAAACGAAGCTATATCAGTATCGT
* *
55132309 ACA-TTTAGTGCC-TCATA-TAACCGAAGCTAT
1 ACACTTTAGTGCCATCACATTAAACGAAGCTAT
55132339 TACAATTCAC
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
41 12 0.17
42 4 0.06
43 13 0.19
44 41 0.59
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (44 bp):
ACACTTTAGTGCCATCACATTAAACGAAGCTATATCAGTATCGT
Found at i:55148929 original size:43 final size:43
Alignment explanation
Indices: 55148836--55148932 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 43
55148826 TATTGAGATT
* * *
55148836 ACGTGTAAGACCATGTTCGGGACATTGGCATCATTAATTAATT
1 ACGTGTAAGACCATGTTCGGGACAGTGGCATCAATAATTAATA
* *
55148879 ACGTGTAAGACCCTGTGT-GGGACAGTGGCATCAAT-ATGTGATA
1 ACGTGTAAGACCATGT-TCGGGACAGTGGCATCAATAAT-TAATA
*
55148922 ACTTGTAAGAC
1 ACGTGTAAGAC
55148933 TATATCTGGG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 2 0.04
43 43 0.93
44 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (43 bp):
ACGTGTAAGACCATGTTCGGGACAGTGGCATCAATAATTAATA
Found at i:55154437 original size:24 final size:23
Alignment explanation
Indices: 55154360--55154441 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 23
55154350 CTGAGCTGAT
* * *
55154360 AAACAATAAGCTCATACAAGCTG
1 AAACAGTAAGCTCAAACGAGCTG
*
55154383 -AACAATAAGCTCAAACGAGCTG
1 AAACAGTAAGCTCAAACGAGCTG
* * *
55154405 AAACGGTAAGCTCCAATGAGCTG
1 AAACAGTAAGCTCAAACGAGCTG
55154428 AAAACAGTAAGCTC
1 -AAACAGTAAGCTC
55154442 TTTCGAGCTA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
22 20 0.40
23 18 0.36
24 12 0.24
ACGTcount: A:0.44, C:0.22, G:0.18, T:0.16
Consensus pattern (23 bp):
AAACAGTAAGCTCAAACGAGCTG
Found at i:55157292 original size:17 final size:18
Alignment explanation
Indices: 55157253--55157293 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
55157243 AATTATACAA
55157253 TTCAACCAATTAAATATT
1 TTCAACCAATTAAATATT
*
55157271 TTCAACCAATTGAATA-T
1 TTCAACCAATTAAATATT
55157288 TTCAAC
1 TTCAAC
55157294 ATATAACTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (18 bp):
TTCAACCAATTAAATATT
Found at i:55166963 original size:41 final size:41
Alignment explanation
Indices: 55166911--55166989 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
55166901 AACATGACTG
* *
55166911 TGTGTCACACACGGCTAAGACACACGC-CGGTGTCTCTAATC
1 TGTGTCACACACAGCTAAGACACACACTC-GTGTCTCTAATC
* *
55166952 TGTGTCCCACACAGCTGAGACACACACTCGTGTCTCTA
1 TGTGTCACACACAGCTAAGACACACACTCGTGTCTCTA
55166990 CCCGTGTGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 32 0.97
42 1 0.03
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (41 bp):
TGTGTCACACACAGCTAAGACACACACTCGTGTCTCTAATC
Found at i:55168689 original size:39 final size:40
Alignment explanation
Indices: 55168646--55168779 Score: 123
Period size: 39 Copynumber: 3.5 Consensus size: 40
55168636 ACCAGCTCAA
* * * *
55168646 AGCCTGCGAGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGCGAGACCTTAAGCCCGGACATAATTCCAACACAT
* * *
55168685 AGCCTAC-AGACCTTAAGTCCGGATATAATTCCAACACAT
1 AGCCTGCGAGACCTTAAGCCCGGACATAATTCCAACACAT
* * * * *
55168724 AGCCTGCG-GACCCTAAGTCCGAATATAATTCCAGCACAT
1 AGCCTGCGAGACCTTAAGCCCGGACATAATTCCAACACAT
*
55168763 AGCCTGCG-GACCCTAAG
1 AGCCTGCGAGACCTTAAG
55168780 TCCAGATATA
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
38 3 0.04
39 79 0.96
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (40 bp):
AGCCTGCGAGACCTTAAGCCCGGACATAATTCCAACACAT
Found at i:55168780 original size:39 final size:39
Alignment explanation
Indices: 55168674--55168782 Score: 164
Period size: 39 Copynumber: 2.8 Consensus size: 39
55168664 CCGGACATAT
* * * * *
55168674 TTCCAGCACGTAGCCTACAGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGAATATAA
*
55168713 TTCCAACACATAGCCTGCGGACCCTAAGTCCGAATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGAATATAA
55168752 TTCCAGCACATAGCCTGCGGACCCTAAGTCC
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCC
55168783 AGATATACAT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.21
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGAATATAA
Found at i:55172069 original size:46 final size:46
Alignment explanation
Indices: 55172017--55172145 Score: 186
Period size: 46 Copynumber: 2.8 Consensus size: 46
55172007 GGTTGAGCAT
* * *
55172017 CCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * *
55172063 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* *
55172109 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
55172146 CGGGTTACAT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:55177610 original size:13 final size:13
Alignment explanation
Indices: 55177594--55177623 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
55177584 TTAATATAAC
*
55177594 ATATATAACTTAT
1 ATATATAAATTAT
55177607 ATATATAAATTAT
1 ATATATAAATTAT
55177620 ATAT
1 ATAT
55177624 CTCTTGACTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATATAAATTAT
Found at i:55178302 original size:43 final size:43
Alignment explanation
Indices: 55178255--55178370 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 43
55178245 TGAGATTACA
* *
55178255 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTGTGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTA-TATGATTATG
** * *
55178298 TGTAAGACCATGTCTGTAATATTGGCATCGTTATATGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTATG
*
55178341 TGTAAGACTATGTCTGGGACATTGGCATCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG
55178371 ATATGAGATA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
43 60 0.97
44 2 0.03
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTATG
Found at i:55178394 original size:43 final size:42
Alignment explanation
Indices: 55178244--55178391 Score: 145
Period size: 43 Copynumber: 3.5 Consensus size: 42
55178234 GATTACCAAG
*
55178244 ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
1 ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
* ** ** *
55178286 ATTGTGATTATGTGTAAGACCATGTCTGTAATATTGGCATCGTT
1 A-TGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
*** *
55178330 AT-ATGATTTTGTGTAAGACTATGTCTGGGACATTGGCATCGAT
1 ATGA-GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
*
55178373 ATGAGATAACATGTAAGAC
1 ATGAGATTACATGTAAGAC
55178392 TATATCTGAG
Statistics
Matches: 84, Mismatches: 18, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 1 0.01
43 80 0.95
44 3 0.04
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.34
Consensus pattern (42 bp):
ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:55182828 original size:29 final size:29
Alignment explanation
Indices: 55182768--55182828 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
55182758 CTCAAGTACA
*
55182768 TTTTATTTTCTTGCATGTTTATTTCTTGT
1 TTTTATTTTCTTGCATGTTTATTTCTTAT
* * *
55182797 TTTTATTTTGTTTCTAT-TTTATTTTTTAT
1 TTTTATTTTCTTGC-ATGTTTATTTCTTAT
55182826 TTT
1 TTT
55182829 GCTTGCTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.11, C:0.07, G:0.07, T:0.75
Consensus pattern (29 bp):
TTTTATTTTCTTGCATGTTTATTTCTTAT
Found at i:55187377 original size:46 final size:47
Alignment explanation
Indices: 55187318--55187468 Score: 160
Period size: 53 Copynumber: 3.1 Consensus size: 47
55187308 CATATAATTA
* * *
55187318 CACACTAAAGCCATAGCCCAGCTATGGTCTTACACGG-ATTACATAT
1 CACACTAATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATAT
* * * * *
55187364 CACACTGATGCCATATCCCAGATATAGTCTTATACGGAAGCACATAAT
1 CACACTAATGCCATAGCCCAGCTATGGTCTTATACGGAATCACAT-AT
55187412 CACATCTCTCCAATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATAT
1 CACA---CT--AATGCCATAGCCCAGCTATGGTCTTATACGG-AATCACATAT
55187465 CACA
1 CACA
55187469 TGTTGCCATG
Statistics
Matches: 84, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
46 31 0.37
47 5 0.06
48 6 0.07
51 2 0.02
53 33 0.39
54 7 0.08
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (47 bp):
CACACTAATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATAT
Found at i:55189568 original size:21 final size:21
Alignment explanation
Indices: 55189542--55189619 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 21
55189532 ATATATCAAA
55189542 AACTCAGACCACAACTCAATG
1 AACTCAGACCACAACTCAATG
*
55189563 AGCTCAGATGCCACATA-T-ACATG
1 AACTCAGA--CCACA-ACTCA-ATG
* *
55189586 AACTCAGACCACTACTCAATC
1 AACTCAGACCACAACTCAATG
* *
55189607 AATTCAGATCACA
1 AACTCAGACCACA
55189620 TAATTCCTAG
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
20 1 0.02
21 24 0.55
22 2 0.05
23 16 0.36
24 1 0.02
ACGTcount: A:0.40, C:0.31, G:0.10, T:0.19
Consensus pattern (21 bp):
AACTCAGACCACAACTCAATG
Found at i:55204282 original size:28 final size:28
Alignment explanation
Indices: 55204214--55204423 Score: 332
Period size: 28 Copynumber: 7.5 Consensus size: 28
55204204 CATGAGATTG
* * * *
55204214 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
55204243 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
55204271 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
55204299 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
55204327 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
55204355 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
55204383 GCACTAAGTGTGCGAGGTT-ATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
55204410 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
55204424 GTCTTAATAT
Statistics
Matches: 171, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
27 20 0.12
28 133 0.78
29 18 0.11
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:55207568 original size:812 final size:812
Alignment explanation
Indices: 55205966--55208140 Score: 3652
Period size: 812 Copynumber: 2.7 Consensus size: 812
55205956 TGTTACAGGG
* * * * **
55205966 CATGCGGCCTTGTTTCAAA-CAAAAAATTTCTTGCGCTTTTGATCGAAAAATTTCTCACTGATGT
1 CATGCGGCCTTGTTTCAAATCAAGAAATTCCTTACGCTTTTGATCGATAAATCGCTCACTGATGT
* * *
55206030 ATTTCTTTCGAAACTCCTCTTGAAAGAATTCCCATGTGACCTTTTCTCTCGAAACCAACAAAATC
66 ATTTCTTTCGGAACTCCTCTTGAAAGAATTCCCATGTGACCTTTTCTCTCGGAACCAACGAAATC
* *
55206095 AGTGTCTTCCACCAATGATACGCCACATCCCTCAACAATGAAATAGCACACTTCATACATTCATC
131 AGCGTCTTCCACCAATGATACGCCACATCCCTCAACAATGAAATAGCACACTTCAGACATTCATC
* * * * *
55206160 AAGTGTGCAGGACAGCTCGTCGAATACCCAAATGGAATTCTCTAACCAAAATTTTTCCCTTTCGG
196 AGGTGTGCAGGACAGCTCATCGAATACCCGAATGGAATTCTCTAGCCAAAATTTTCCCCTTTCGG
* *
55206225 GATCATTATCGGTATTGGCCCTAAATTCCTCAGCTCCTTGCTTTTGAATTCTATCAACTAGGGTT
261 GATCATCATCGGCATTGGCCCTAAATTCCTCAGCTCCTTGCTTTTGAATTCTATCAACTAGGGTT
* * *
55206290 TTATGAAATCTCATAAAATCTATGCCTTGAGGCACTTGAGGTAGGCGTTAGGGATTTGGTAGGGG
326 TTATGAAATCTCATAAAATCTATGCCTTGAGGCACTTGAGGTACGAGTTAGGGATTTGGTGGGGG
* * * *
55206355 TGGAGGAGGTTGAGCATTCGGATTTGTTCGAACGAACTCCGTGTACTAGGCATCCATTATTTGAA
391 TGGACGAGGTTGAGCGTTCGGATTCGTTCGAACGAACTCCGTGTACTAGGCATCCATTATGTGAA
55206420 GAAAGGTTTCTCTACCTCATTCTCCTCTACTAATAGTCGTGGGTCTACTATCAGACGGCACTGCT
456 GAAAGGTTTCTCTACCTCATTCTCCTCTACTAATAGTCGTGGGTCTACTATCAGACGGCACTGCT
*
55206485 CCTTCAACGGGAGCAGGCGCATTACCTTCAACGGAAGTGAATTGCTCATCGGTCTCTTCCTTATA
521 CCTTCAACGGGAGCAGGCGCATTACCTTCAACGGAAGTGAATTGCTCATCGATCTCTTCCTTATA
* * * *
55206550 TCTCTCGCCTTAGCTTCAACTCTTATCCTTTCCTTGGTTACTTCGTCAGCTTTACAAGCCCGACC
586 TCTCTAGCCTCAGCTTCAACTCTTATCCTCTCCTTGGTTACTTCCTCAGCTTTACAAGCCCGACC
55206615 AACGAGCACAACAAATTCCTTCAGCTTAAGAATACCTACTAACACTCTTATGTCTTCATTAAGCC
651 AACGAGCACAACAAATTCCTTCAGCTTAAGAATACCTACTAACACTCTTATGTCTTCATTAAGCC
* *
55206680 CTTCTTCAAACCTTCTACACATTTAAGCCTTGGAGGATACACATTTTTAAGCATATTTTTTGAGT
716 CGTCTTCAAACCTTCTACACATTTAAGCCTCGGAGGATACACATTTTTAAGCATATTTTTTGAGT
*
55206745 CTGACAAACTCTCTTTCATACTCAGTGACGGA
781 CTGACAAACTCTCTTTCATACTCAGTGACAGA
55206777 CATGCGGCCTTGTTTCAAATCAAGAAATTCCTTACGCTTTTGATCGATAAATCGCTCACTGATGT
1 CATGCGGCCTTGTTTCAAATCAAGAAATTCCTTACGCTTTTGATCGATAAATCGCTCACTGATGT
*
55206842 ATTTCTTTCGGAACTCCTCTTGAAAGAGTTCCCATGTGACCTTTTCTCTCGGAACCAACGAAATC
66 ATTTCTTTCGGAACTCCTCTTGAAAGAATTCCCATGTGACCTTTTCTCTCGGAACCAACGAAATC
* *
55206907 AACGTCTTCCACCAATGATACGCCGCATCCCTCAACAATGAAATAGCACACTTCAGACATTCATC
131 AGCGTCTTCCACCAATGATACGCCACATCCCTCAACAATGAAATAGCACACTTCAGACATTCATC
* * *
55206972 AGGTGTGCAGGATAGCTCATCGAATACCCGAATGGAATTCTCTAGTCAAAATTTTGCCCTTTCGG
196 AGGTGTGCAGGACAGCTCATCGAATACCCGAATGGAATTCTCTAGCCAAAATTTTCCCCTTTCGG
* * *
55207037 GATCATCATCGACATTGGCCCTAAATTACTCGGCTCCTTGCTTTTGAATTCTATCAACTAGGGTT
261 GATCATCATCGGCATTGGCCCTAAATTCCTCAGCTCCTTGCTTTTGAATTCTATCAACTAGGGTT
*
55207102 TTATGAAATCTCATAAAATCTATGCCTTGAGGCACTTGAGGTACAAGTTAGGGATTTGGTGGGGG
326 TTATGAAATCTCATAAAATCTATGCCTTGAGGCACTTGAGGTACGAGTTAGGGATTTGGTGGGGG
*
55207167 TGGATGAGGTTGAGCGTTCGGATTCGTTCGAACGAACTCCGTGTACTAGGCATCCATTATGTGAA
391 TGGACGAGGTTGAGCGTTCGGATTCGTTCGAACGAACTCCGTGTACTAGGCATCCATTATGTGAA
* * *
55207232 GAATGGTTTCTCTACCTCATTCTCCTCTACTAATAGTCATGGGTCTACTATCATACGGCACTGCT
456 GAAAGGTTTCTCTACCTCATTCTCCTCTACTAATAGTCGTGGGTCTACTATCAGACGGCACTGCT
* *
55207297 CCTTCAACGGGAACAGGCGCATTACCTTCAACGGAAGTGACTTGCTCATCGATCTCTTCCTTATA
521 CCTTCAACGGGAGCAGGCGCATTACCTTCAACGGAAGTGAATTGCTCATCGATCTCTTCCTTATA
*
55207362 TCTCTAGCCTCAGCTTCGACTCTTATCCTCTCCTTGGTTACTTCCTCAGCTTTACAAGCCCGACC
586 TCTCTAGCCTCAGCTTCAACTCTTATCCTCTCCTTGGTTACTTCCTCAGCTTTACAAGCCCGACC
*
55207427 AATGAGCACAACAAATTCCTTCAGCTTAAGAATACCTACTAACACTCTTATGTCTTCATTAAGCC
651 AACGAGCACAACAAATTCCTTCAGCTTAAGAATACCTACTAACACTCTTATGTCTTCATTAAGCC
* *
55207492 CGTCTTCAAACCTTCTACACATTTTAGCCTCGGAGGATACACATTTTTGAGCA-ATTTTTTTGAG
716 CGTCTTCAAACCTTCTACACATTTAAGCCTCGGAGGATACACATTTTTAAGCATA-TTTTTTGAG
*
55207556 TCTGAGAAACTCTCTTTCATACTCAGTGACAGA
780 TCTGACAAACTCTCTTTCATACTCAGTGACAGA
* * *
55207589 CATGCAGCCTTGCTTCAAATCAAGAAATTCTTTACGCTTTTGATCGATAAATCGCTCACTGATGT
1 CATGCGGCCTTGTTTCAAATCAAGAAATTCCTTACGCTTTTGATCGATAAATCGCTCACTGATGT
*
55207654 ATTTCTTTCGGAACTCCTCTTGAAAGAATTCCCATGTGACATTTTCTCTCGGAACCAACGAAATC
66 ATTTCTTTCGGAACTCCTCTTGAAAGAATTCCCATGTGACCTTTTCTCTCGGAACCAACGAAATC
* * *
55207719 AGCGTCTTCCACCAATGATACGCCATATCCCTCAACAATGAAATAGCACACTTTAGACAATCATC
131 AGCGTCTTCCACCAATGATACGCCACATCCCTCAACAATGAAATAGCACACTTCAGACATTCATC
* * *
55207784 AGGTGTGCAAGACAGCTCATTGAATACCCGAATGGAATTCTCTAGCCAAATTTTTCCCCTTTCGG
196 AGGTGTGCAGGACAGCTCATCGAATACCCGAATGGAATTCTCTAGCCAAAATTTTCCCCTTTCGG
* * *
55207849 GATCATCATCGGCATTGGCCCTAAATTCCTCAGCTCCTTGCTTTTGAATTCCATCAGCTAAGGTT
261 GATCATCATCGGCATTGGCCCTAAATTCCTCAGCTCCTTGCTTTTGAATTCTATCAACTAGGGTT
* * *
55207914 TTATGAAATCTTATAAAATCTATGCCTAGAGGCACTTGAGGTACGGGTTAGGGATTTGGTGGGGG
326 TTATGAAATCTCATAAAATCTATGCCTTGAGGCACTTGAGGTACGAGTTAGGGATTTGGTGGGGG
* *
55207979 TGGACAAGGTTGAGCGTTCGGATTCGTTCGAACGAACTTCGTGTACTAGGCATCCATTATGTGAA
391 TGGACGAGGTTGAGCGTTCGGATTCGTTCGAACGAACTCCGTGTACTAGGCATCCATTATGTGAA
*
55208044 GAAAGGTTTCTCTACCTCATTCTCCTCTACTAACAGTCGTGGGTCTACTATCAGACGGCACTGCT
456 GAAAGGTTTCTCTACCTCATTCTCCTCTACTAATAGTCGTGGGTCTACTATCAGACGGCACTGCT
* *
55208109 CCTTCAACGGGAGCAAGCGCATTACTTTCAAC
521 CCTTCAACGGGAGCAGGCGCATTACCTTCAAC
55208141 ATCATTCACC
Statistics
Matches: 1274, Mismatches: 88, Indels: 3
0.93 0.06 0.00
Matches are distributed among these distances:
811 20 0.02
812 1254 0.98
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (812 bp):
CATGCGGCCTTGTTTCAAATCAAGAAATTCCTTACGCTTTTGATCGATAAATCGCTCACTGATGT
ATTTCTTTCGGAACTCCTCTTGAAAGAATTCCCATGTGACCTTTTCTCTCGGAACCAACGAAATC
AGCGTCTTCCACCAATGATACGCCACATCCCTCAACAATGAAATAGCACACTTCAGACATTCATC
AGGTGTGCAGGACAGCTCATCGAATACCCGAATGGAATTCTCTAGCCAAAATTTTCCCCTTTCGG
GATCATCATCGGCATTGGCCCTAAATTCCTCAGCTCCTTGCTTTTGAATTCTATCAACTAGGGTT
TTATGAAATCTCATAAAATCTATGCCTTGAGGCACTTGAGGTACGAGTTAGGGATTTGGTGGGGG
TGGACGAGGTTGAGCGTTCGGATTCGTTCGAACGAACTCCGTGTACTAGGCATCCATTATGTGAA
GAAAGGTTTCTCTACCTCATTCTCCTCTACTAATAGTCGTGGGTCTACTATCAGACGGCACTGCT
CCTTCAACGGGAGCAGGCGCATTACCTTCAACGGAAGTGAATTGCTCATCGATCTCTTCCTTATA
TCTCTAGCCTCAGCTTCAACTCTTATCCTCTCCTTGGTTACTTCCTCAGCTTTACAAGCCCGACC
AACGAGCACAACAAATTCCTTCAGCTTAAGAATACCTACTAACACTCTTATGTCTTCATTAAGCC
CGTCTTCAAACCTTCTACACATTTAAGCCTCGGAGGATACACATTTTTAAGCATATTTTTTGAGT
CTGACAAACTCTCTTTCATACTCAGTGACAGA
Found at i:55210125 original size:21 final size:21
Alignment explanation
Indices: 55210056--55210125 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
55210046 TATCACGAAC
55210056 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
** * **
55210077 TTGGATGCCACATATATC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
55210101 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
55210122 TCAG
1 TCAG
55210126 GTCACATAAT
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
20 2 0.06
21 12 0.35
22 5 0.15
23 5 0.15
24 8 0.24
25 2 0.06
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.23
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:55211709 original size:27 final size:26
Alignment explanation
Indices: 55211651--55211757 Score: 97
Period size: 27 Copynumber: 4.0 Consensus size: 26
55211641 TGGCTGCCAG
* * *
55211651 AACAGATAATGTGACAGAGTCACTAGA
1 AACAGATAATGTGGCAGAGCCACCA-A
* *
55211678 TACAGATAATCGTAGCAGAGCCACCAA
1 AACAGATAAT-GTGGCAGAGCCACCAA
*
55211705 AACAGATATATGTGGCAGAGCCACCAG
1 AACAGATA-ATGTGGCAGAGCCACCAA
** *
55211732 ATTAGATAATTGTGGCAAAGCCACCA
1 AACAGATAA-TGTGGCAGAGCCACCA
55211758 GGACGCTTCC
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.02
27 52 0.79
28 13 0.20
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.18
Consensus pattern (26 bp):
AACAGATAATGTGGCAGAGCCACCAA
Found at i:55211739 original size:54 final size:54
Alignment explanation
Indices: 55211651--55211757 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
55211641 TGGCTGCCAG
* * *
55211651 AACAGATAATGTGACAGAGTCACTAGATACAGATAATCGTAGCAGAGCCACCAA
1 AACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTAGCAAAGCCACCAA
* * * *
55211705 AACAGATATATGTGGCAGAGCCACCAGAT-TAGATAATTGTGGCAAAGCCACCA
1 AACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTAGCAAAGCCACCA
55211758 GGACGCTTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 28 0.62
55 17 0.38
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.18
Consensus pattern (54 bp):
AACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTAGCAAAGCCACCAA
Found at i:55211926 original size:28 final size:26
Alignment explanation
Indices: 55211864--55211926 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 26
55211854 AAAGTAACCC
* * *
55211864 TAGGGGTATAATAGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
55211890 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
55211918 TAGGGGTAT
1 TAGGGGTAT
55211927 TCAAGTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 21 0.66
28 11 0.34
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:55215577 original size:21 final size:23
Alignment explanation
Indices: 55215551--55215603 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
55215541 TTCAAGTATC
*
55215551 CAATTTATTTTCTTT-TT-CATT
1 CAATTTATTTTCTTTATTCCAAT
55215572 CAATTTA-TTTCTTTATTCCAAT
1 CAATTTATTTTCTTTATTCCAAT
*
55215594 CAATTGATTT
1 CAATTTATTT
55215604 GCTACTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.26
21 9 0.33
22 9 0.33
23 2 0.07
ACGTcount: A:0.25, C:0.15, G:0.02, T:0.58
Consensus pattern (23 bp):
CAATTTATTTTCTTTATTCCAAT
Found at i:55215603 original size:22 final size:20
Alignment explanation
Indices: 55215559--55215603 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
55215549 TCCAATTTAT
* *
55215559 TTTCTTTTTCATTCAATTTA
1 TTTCTTTTTCAATCAATTGA
55215579 TTTCTTTATTCCAATCAATTGA
1 TTTCTTT-TT-CAATCAATTGA
55215601 TTT
1 TTT
55215604 GCTACTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 2 0.10
22 12 0.57
ACGTcount: A:0.22, C:0.16, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTCTTTTTCAATCAATTGA
Found at i:55216739 original size:22 final size:21
Alignment explanation
Indices: 55216714--55216762 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
55216704 TACAGGGCTC
*
55216714 ACACGCCTATGTGGTCCGAGGG
1 ACACGCCTATGT-GACCGAGGG
* * *
55216736 ACACTCCTGTGTGACCTAGGG
1 ACACGCCTATGTGACCGAGGG
55216757 ACACGC
1 ACACGC
55216763 TGGTGTTGCA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.20, C:0.31, G:0.31, T:0.18
Consensus pattern (21 bp):
ACACGCCTATGTGACCGAGGG
Found at i:55220464 original size:151 final size:151
Alignment explanation
Indices: 55220230--55220624 Score: 567
Period size: 151 Copynumber: 2.6 Consensus size: 151
55220220 TAAGACAGTT
* * * * *
55220230 TTAGGTTACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGCCACATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGT
* ** * *
55220295 AGTACTAAGTGCAAGCTACTATGCGTACTTGAT-AGTTTCGATCATGTGTATAGTACTAAGTGCA
66 AGTACTAAGTGCAGGCTACTATGCGTACCCGATAAATTT-GATCACGTGTATAGTACTAAGTGCA
*
55220359 GCCTACTACGTGTATCAGATGG
130 GCCTACTACATGTATCAGATGG
* * * *
55220381 TTAGGTCACGTGTTTAGTACTAAATGCAGGCTACTACGTGTACCGGATTGATAGGTCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGT
* *
55220446 AGTACTAAGTGCAGGCTACTATGCGTACCCGTTAAATTTGATCACGTGTGTAGTACTAAGTGCAG
66 AGTACTAAGTGCAGGCTACTATGCGTACCCGATAAATTTGATCACGTGTATAGTACTAAGTGCAG
*
55220511 GCTACTACATGTATCAGATGG
131 CCTACTACATGTATCAGATGG
* * * * *
55220532 ATAAGTCACGTATGTAGTACTAAGTGCAGGTTACTATGTGTACCAGATTGATAGGTCACATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGT
55220597 AGTACTAAGTGCAGGCTACTATGCGTAC
66 AGTACTAAGTGCAGGCTACTATGCGTAC
55220625 ACGAGAGCTT
Statistics
Matches: 216, Mismatches: 27, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
151 212 0.98
152 4 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (151 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGT
AGTACTAAGTGCAGGCTACTATGCGTACCCGATAAATTTGATCACGTGTATAGTACTAAGTGCAG
CCTACTACATGTATCAGATGG
Found at i:55220491 original size:101 final size:101
Alignment explanation
Indices: 55220386--55220617 Score: 279
Period size: 101 Copynumber: 2.3 Consensus size: 101
55220376 GATGGTTAGG
* * * * * * *
55220386 TCACGTGTTTAGTACTAAATGCAGGCTACTACGTGTACCGGATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAATGCAGGCTACTACATGTACCAGATGGATAAGTCACATATGTAGTAC
55220451 TAAGTGCAGGCTACTATGCGTACCCGTTAAATTTGA
66 TAAGTGCAGGCTACTATGCGTACCCGTTAAATTTGA
* * *
55220487 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGATAAGTCACGTATGTAGTAC
1 TCACGTGTGTAGTACTAAATGCAGGCTACTACATGTACCAGATGGATAAGTCACATATGTAGTAC
* * * * * *
55220552 TAAGTGCAGGTTACTATGTGTACCAGATT-GA-TAGG
66 TAAGTGCAGGCTACTATGCGTACCCG-TTAAATTTGA
* *
55220587 TCACATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAATGCAGGCTACTA
55220618 TGCGTACACG
Statistics
Matches: 113, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
100 32 0.28
101 79 0.70
102 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAATGCAGGCTACTACATGTACCAGATGGATAAGTCACATATGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCGTTAAATTTGA
Found at i:55220569 original size:24 final size:24
Alignment explanation
Indices: 55220542--55220619 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
55220532 ATAAGTCACG
55220542 TATGTAGTACTAAGTGCAGGTTAC
1 TATGTAGTACTAAGTGCAGGTTAC
* * * *
55220566 TATGT-GTACCAGATTGATAGGTCAC
1 TATGTAGTACTA-AGTG-CAGGTTAC
* *
55220591 ATGTGTAGTACTAAGTGCAGGCTAC
1 -TATGTAGTACTAAGTGCAGGTTAC
55220616 TATG
1 TATG
55220620 CGTACACGAG
Statistics
Matches: 39, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
23 5 0.13
24 11 0.28
25 11 0.28
26 7 0.18
27 5 0.13
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (24 bp):
TATGTAGTACTAAGTGCAGGTTAC
Done.