Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 107 of 325
Found at i:34550757 original size:82 final size:81
Alignment explanation
Indices: 34550639--34550794 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
34550629 TGCTATACAA
* * *
34550639 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
34550704 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
34550721 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
34550785 CACTTAGTGC
65 CACTTAGTGC
34550795 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34554456 original size:68 final size:64
Alignment explanation
Indices: 34554346--34554599 Score: 212
Period size: 68 Copynumber: 3.9 Consensus size: 64
34554336 ATACAGATGG
** * * * * *
34554346 TATGTAGCTAGGTCACATGTATAGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACAAGAC
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTAC--GAG
34554409 ATTA
62 A-TA
* *
34554413 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
34554478 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
34554543 TA
63 TA
* * *
34554545 AAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGCT
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCT
34554600 GAACTATATG
Statistics
Matches: 153, Mismatches: 26, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 20 0.13
64 24 0.16
65 3 0.02
66 23 0.15
67 35 0.23
68 46 0.30
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:34556195 original size:55 final size:56
Alignment explanation
Indices: 34556130--34556244 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
34556120 AGCATGGCTG
* *
34556130 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
34556186 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
34556241 CCAG
1 CCAG
34556245 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:34556207 original size:27 final size:27
Alignment explanation
Indices: 34556155--34556244 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
34556145 GTGACAGAGT
34556155 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
34556184 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
34556211 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
34556239 CACCAG
1 CACCAG
34556245 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:34556442 original size:28 final size:28
Alignment explanation
Indices: 34556350--34556442 Score: 141
Period size: 28 Copynumber: 3.3 Consensus size: 28
34556340 AAATTAACCC
* * *
34556350 TAGGGGTATAAAGGTCATTTTGCATATA
1 TAGGGGTATAATGGTAATTTTGCATACA
* *
34556378 TAAGGGTAGAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
34556406 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
34556434 TAGGGGTAT
1 TAGGGGTAT
34556443 TCTAGTACAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:34559305 original size:47 final size:47
Alignment explanation
Indices: 34559227--34559491 Score: 404
Period size: 47 Copynumber: 5.6 Consensus size: 47
34559217 CCCTTCGGGA
* * * * * *
34559227 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34559274 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34559321 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34559368 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34559417 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34559466 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
34559492 CACAATTATC
Statistics
Matches: 204, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 108 0.53
49 96 0.47
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34559401 original size:49 final size:49
Alignment explanation
Indices: 34559227--34559491 Score: 411
Period size: 49 Copynumber: 5.6 Consensus size: 49
34559217 CCCTTCGGGA
* * * * *
34559227 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34559274 CTTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34559321 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34559368 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34559417 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34559466 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
34559492 CACAATTATC
Statistics
Matches: 205, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
46 1 0.00
47 97 0.47
49 107 0.52
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34563023 original size:40 final size:40
Alignment explanation
Indices: 34562897--34563257 Score: 483
Period size: 40 Copynumber: 9.1 Consensus size: 40
34562887 CAAATACACG
* * * *
34562897 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * * *
34562937 ACACCAGCACGAATGCTCTTCGGG-TTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
34562976 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
34563016 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
** * *
34563056 TCACTAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * * * *
34563096 TCACTTGAACGAATGCGCTTTGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
34563136 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
34563176 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
34563216 TCAGTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
34563255 TCA
1 TCA
34563258 TCGAGACCTT
Statistics
Matches: 279, Mismatches: 41, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
39 38 0.14
40 241 0.86
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:34563133 original size:120 final size:120
Alignment explanation
Indices: 34562897--34563257 Score: 537
Period size: 120 Copynumber: 3.0 Consensus size: 120
34562887 CAAATACACG
* * * * *
34562897 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTC-GGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGG
34562961 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
66 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
* *
34563016 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGG
* * * *
34563081 TTTAGCACGGATATATCACTTGAACGAATGCGCTTTGGAACTTAGTCCGGATACA
66 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
* *
34563136 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGG
* * * * * *
34563201 CTTAGCCCGGATACATCAGTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT-CA
66 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
34563255 TCA
1 TCA
34563258 TCGAGACCTT
Statistics
Matches: 216, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
119 59 0.27
120 157 0.73
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGG
TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
Found at i:34563382 original size:38 final size:38
Alignment explanation
Indices: 34563310--34563384 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
34563300 GAATTTTAAT
*
34563310 CCGGACATAATCTCTGTACATAGCCATCGAGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGAGTCTTTAC
* * *
34563348 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGAGTCTTTA
34563385 AACTCGGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGAGTCTTTAC
Found at i:34565609 original size:22 final size:22
Alignment explanation
Indices: 34565581--34565633 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
34565571 ACTTTCACAT
34565581 TCATCACATCGGCCATTAGGCC
1 TCATCACATCGGCCATTAGGCC
*
34565603 TCATCACATCGGCTATTAGGCC
1 TCATCACATCGGCCATTAGGCC
*
34565625 TTATCACAT
1 TCATCACAT
34565634 ATATACACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (22 bp):
TCATCACATCGGCCATTAGGCC
Found at i:34565704 original size:49 final size:49
Alignment explanation
Indices: 34565603--34565843 Score: 445
Period size: 49 Copynumber: 5.0 Consensus size: 49
34565593 CCATTAGGCC
*
34565603 TCATCACATCGGCTATTAGGCCTTATCAC--ATATATACACTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
34565650 TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
34565699 TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
34565748 TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
34565797 TCATCACATCGGCCATTAGGCCTTATCACATATATATACA--TTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
34565844 CACAATTATC
Statistics
Matches: 191, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
47 35 0.18
49 156 0.82
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (49 bp):
TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
Found at i:34565727 original size:118 final size:116
Alignment explanation
Indices: 34565508--34565729 Score: 336
Period size: 118 Copynumber: 1.9 Consensus size: 116
34565498 CCCTTCGGGA
* * * * *
34565508 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAGATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAGATATATACAC
34565573 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATCGGCTATTAGGC
* * * *
34565624 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTAT--CAGATATATAC
*
34565689 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACAT
34565730 ATATATACAC
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
116 44 0.47
118 50 0.53
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (116 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAGATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATCGGCTATTAGGC
Found at i:34570444 original size:40 final size:40
Alignment explanation
Indices: 34570370--34570511 Score: 234
Period size: 40 Copynumber: 3.6 Consensus size: 40
34570360 AACCCAAGTA
* *
34570370 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
34570409 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
34570449 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
34570489 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
34570512 CATTCGAATA
Statistics
Matches: 97, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 12 0.12
40 84 0.87
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:34576859 original size:21 final size:21
Alignment explanation
Indices: 34576833--34576879 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
34576823 GGGAGCAGGC
34576833 GCTACACTCTCAAGATCATCA
1 GCTACACTCTCAAGATCATCA
34576854 GCTACACTCTCAAGATCATCA
1 GCTACACTCTCAAGATCATCA
34576875 GCTAC
1 GCTAC
34576880 CGCTCGGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.34, G:0.11, T:0.23
Consensus pattern (21 bp):
GCTACACTCTCAAGATCATCA
Found at i:34578470 original size:40 final size:40
Alignment explanation
Indices: 34578396--34578537 Score: 234
Period size: 40 Copynumber: 3.6 Consensus size: 40
34578386 AACCCAAGTA
* *
34578396 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
34578435 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
34578475 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
34578515 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
34578538 CATTCGAATA
Statistics
Matches: 97, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 12 0.12
40 84 0.87
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:34582976 original size:55 final size:56
Alignment explanation
Indices: 34582911--34583015 Score: 142
Period size: 56 Copynumber: 1.9 Consensus size: 56
34582901 AGCGTGGCTT
* *
34582911 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGTGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCAGTGCCA
* * *
34582967 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCA
34583016 TAGCCACTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
55 21 0.49
56 22 0.51
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCAGTGCCA
Found at i:34582988 original size:27 final size:27
Alignment explanation
Indices: 34582936--34583015 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 27
34582926 GTGACAGAGT
*
34582936 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGGGC
*
34582965 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
34582992 CACCAGAACAGATAATTTGTGGCA
1 CACCAGAACAGAT-ATTTGTGGCA
34583016 TAGCCACTAG
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.51
28 16 0.34
29 7 0.15
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:34583178 original size:28 final size:28
Alignment explanation
Indices: 34583131--34583251 Score: 224
Period size: 28 Copynumber: 4.3 Consensus size: 28
34583121 AAATTAACCC
* *
34583131 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
34583159 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
34583187 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
34583215 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
34583243 TAGGGGTAT
1 TAGGGGTAT
34583252 TCTAGTACAT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 91 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:34591798 original size:41 final size:40
Alignment explanation
Indices: 34591604--34591862 Score: 330
Period size: 40 Copynumber: 6.5 Consensus size: 40
34591594 AAGCCAAGTA
* * *
34591604 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
34591642 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34591682 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
34591722 CCTTCGGGACTTAGCCCGGATGTAATAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34591762 CCTTCGGGACTTAGCCCGGAATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG-ATATAGTAACTCGCACAAATG
*
34591803 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
34591844 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34591863 TTATCATCCG
Statistics
Matches: 199, Mismatches: 15, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
38 12 0.06
39 17 0.09
40 103 0.52
41 63 0.32
42 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34599847 original size:40 final size:40
Alignment explanation
Indices: 34599754--34600009 Score: 351
Period size: 40 Copynumber: 6.5 Consensus size: 40
34599744 AAGCCAAGTA
* * *
34599754 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
34599792 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34599832 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34599872 CCTTCGGGACTTAGCCCGGATGTAATAACT-GCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34599911 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
34599951 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
34599991 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34600010 TTATCATCCG
Statistics
Matches: 200, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
38 12 0.06
39 56 0.28
40 132 0.66
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34599918 original size:79 final size:80
Alignment explanation
Indices: 34599754--34600009 Score: 351
Period size: 79 Copynumber: 3.2 Consensus size: 80
34599744 AAGCCAAGTA
* * * *
34599754 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* *
34599816 GTAACTCGCACCAATG
65 GTAACTAGCACAAATG
* *
34599832 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
34599897 TAACT-GCACAAATG
66 TAACTAGCACAAATG
* *
34599911 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACTA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TA
* *
34599975 GTCACTAGCGCAAATG
65 GTAACTAGCACAAATG
34599991 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34600010 TTATCATCCG
Statistics
Matches: 160, Mismatches: 13, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
78 13 0.08
79 89 0.56
80 58 0.36
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTAGCACAAATG
Found at i:34599989 original size:119 final size:119
Alignment explanation
Indices: 34599788--34600009 Score: 365
Period size: 119 Copynumber: 1.9 Consensus size: 119
34599778 CTACTCGCTC
* *
34599788 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
*
34599853 ATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATAACTGCACA
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATAACTGCACA
* *
34599907 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-
1 AATGCCTTCGGGACATAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
* *
34599971 ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
66 A-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
34600010 TTATCATCCG
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
118 1 0.01
119 94 0.99
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATAACTGCACA
Found at i:34607469 original size:43 final size:43
Alignment explanation
Indices: 34607419--34607503 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
34607409 TTGTGATTCT
** *
34607419 GATATGTGTTTACAAGTAAGACC-CTGTCTGGGACAGTGGCATC
1 GATATGTGGCTACAAGTAAGACCAC-GTCTGGAACAGTGGCATC
* *
34607462 GATATGTGGCTACATGTAAGACCACGTCTGGAACATTGGCAT
1 GATATGTGGCTACAAGTAAGACCACGTCTGGAACAGTGGCAT
34607504 TGTAAGATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 35 0.97
44 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (43 bp):
GATATGTGGCTACAAGTAAGACCACGTCTGGAACAGTGGCATC
Found at i:34620488 original size:49 final size:48
Alignment explanation
Indices: 34620435--34620608 Score: 204
Period size: 49 Copynumber: 3.5 Consensus size: 48
34620425 CTAGTACGCA
* * *
34620435 TAGTAGCCTGCACTTAGTTCTACACATGCGACCAATTATGCAGTACATG
1 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTAT-CAGTACACG
* * * ** *
34620484 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACATGCGACC-AATTATCAG-TACACG
* *
34620534 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGCACACG
1 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTAT-CAGTACACG
*
34620583 TAGTGGCCTACACTTAGTACTACACA
1 TAGTAGCCTACACTTAGTACTACACA
34620609 CGTGACCTCA
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
49 66 0.62
50 41 0.38
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (48 bp):
TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCAGTACACG
Found at i:34620606 original size:99 final size:99
Alignment explanation
Indices: 34620435--34620616 Score: 292
Period size: 99 Copynumber: 1.8 Consensus size: 99
34620425 CTAGTACGCA
* * * * * *
34620435 TAGTAGCCTGCACTTAGTTCTACACATGCGACCAATTATGCAGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCAGCACACGTAGTAGCCTACACTTA
34620500 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACCTAACCATCTGATACACG
* *
34620534 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGCACACGTAGTGGCCTACACTTA
1 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCAGCACACGTAGTAGCCTACACTTA
34620599 GTACTACACACGTGACCT
66 GTACTACACACGTGACCT
34620617 CATAATAGAT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCAGCACACGTAGTAGCCTACACTTA
GTACTACACACGTGACCTAACCATCTGATACACG
Found at i:34623352 original size:15 final size:15
Alignment explanation
Indices: 34623332--34623368 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
34623322 CTACAAGTTA
34623332 CAAGATAAAGAAATC
1 CAAGATAAAGAAATC
34623347 CAAGATAAAGAAATC
1 CAAGATAAAGAAATC
*
34623362 CATGATA
1 CAAGATA
34623369 CGAGAATCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (15 bp):
CAAGATAAAGAAATC
Found at i:34626567 original size:50 final size:49
Alignment explanation
Indices: 34626458--34626687 Score: 316
Period size: 49 Copynumber: 4.6 Consensus size: 49
34626448 TAGTACGCAT
* *
34626458 GTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTA
1 GTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACGTA
** *
34626507 GTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 GTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGGTACACGTA
* * * *
34626557 GTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATA
1 GTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCTGGTACACGTA
* * * *
34626608 GTAGCCTGCACTTAGTACTACACATGCGACCAAGTATCCGGTACACGTA
1 GTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACGTA
34626657 GTAGCCTGCACTTAGTACTACACACGTGACC
1 GTAGCCTGCACTTAGTACTACACACGTGACC
34626688 TTACAATAGA
Statistics
Matches: 157, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
49 70 0.45
50 49 0.31
51 38 0.24
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (49 bp):
GTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACGTA
Found at i:34628759 original size:16 final size:16
Alignment explanation
Indices: 34628738--34628776 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
34628728 TTTTAAAGTT
34628738 TAATTAAG-TAATATGA
1 TAATTAAGTTAA-ATGA
*
34628754 TAATTAAGTTAAATGT
1 TAATTAAGTTAAATGA
34628770 TAATTAA
1 TAATTAA
34628777 ACAAAAGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (16 bp):
TAATTAAGTTAAATGA
Found at i:34629595 original size:40 final size:40
Alignment explanation
Indices: 34629540--34629697 Score: 226
Period size: 40 Copynumber: 4.0 Consensus size: 40
34629530 ATTGTATGAC
* *
34629540 TGCACATATGTGCCCTTATTTGTACTTCGGTACCCCTGAT
1 TGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAT
*
34629580 TGCACATACATGCCCTTGTTTGTACTTCGGTACCCCTGAT
1 TGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAT
* * *
34629620 TGCAGATGCGTGCCCTTGTTTGTACTTCGATACCCCTGAT
1 TGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAT
* * * *
34629660 TGCACATATGTGCCCCTGTTTTTACTTTGGTACCCCTG
1 TGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTG
34629698 CCTGTTTGTA
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.16, C:0.28, G:0.19, T:0.37
Consensus pattern (40 bp):
TGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAT
Found at i:34629704 original size:24 final size:24
Alignment explanation
Indices: 34629674--34629721 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
34629664 CATATGTGCC
* *
34629674 CCTGTTTTTACTTTGGTACCCCTG
1 CCTGTTTGTACTTCGGTACCCCTG
34629698 CCTGTTTGTACTTCGGTACCCCTG
1 CCTGTTTGTACTTCGGTACCCCTG
34629722 ATTGCACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.08, C:0.31, G:0.19, T:0.42
Consensus pattern (24 bp):
CCTGTTTGTACTTCGGTACCCCTG
Found at i:34629718 original size:64 final size:64
Alignment explanation
Indices: 34629636--34629761 Score: 216
Period size: 64 Copynumber: 2.0 Consensus size: 64
34629626 TGCGTGCCCT
* *
34629636 TGTTTGTACTTCGATACCCCTGATTGCACATATGTGCCCCTGTTTTTACTTTGGTACCCCTGCC
1 TGTTTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTGCC
* *
34629700 TGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTTGTATTTTGGTACCCCTG
1 TGTTTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTG
34629762 ATTGTACTCA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.13, C:0.29, G:0.19, T:0.39
Consensus pattern (64 bp):
TGTTTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTGCC
Found at i:34629756 original size:40 final size:40
Alignment explanation
Indices: 34629698--34629795 Score: 126
Period size: 40 Copynumber: 2.5 Consensus size: 40
34629688 GGTACCCCTG
*
34629698 CCTGTTTGTACTTCGGTACCCCTGATTGCACAT-ACGTGCC
1 CCTGTTTGTACTTCGGTACCCCTGATTGCAC-TCACATGCC
* * *
34629738 CCTGTTTGTATTTTGGTACCCCTGATTGTACTCACATGCC
1 CCTGTTTGTACTTCGGTACCCCTGATTGCACTCACATGCC
* *
34629778 CCTGTTTATACTCCGGTA
1 CCTGTTTGTACTTCGGTA
34629796 ACTTTGAATC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.02
40 48 0.98
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.37
Consensus pattern (40 bp):
CCTGTTTGTACTTCGGTACCCCTGATTGCACTCACATGCC
Found at i:34629778 original size:104 final size:104
Alignment explanation
Indices: 34629596--34629789 Score: 282
Period size: 104 Copynumber: 1.9 Consensus size: 104
34629586 TACATGCCCT
* * *
34629596 TGTTTGTACTTCGGTACCCCTGATTGCAGATGCGTGCCCTTGTTTGTACTTCGATACCCCTGATT
1 TGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGATT
** *
34629661 GCACATATGTGCCCCTGTTTTTACTTTGGTACCCCTGCC
66 GCACATACATGCCCCTGTTTATACTTTGGTACCCCTGCC
* * *
34629700 TGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTTGTATTTTGGTACCCCTGATT
1 TGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGATT
*
34629765 GTAC-TCACATGCCCCTGTTTATACT
66 GCACAT-ACATGCCCCTGTTTATACT
34629790 CCGGTAACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
103 1 0.01
104 78 0.99
ACGTcount: A:0.14, C:0.28, G:0.19, T:0.38
Consensus pattern (104 bp):
TGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGATT
GCACATACATGCCCCTGTTTATACTTTGGTACCCCTGCC
Found at i:34636097 original size:27 final size:26
Alignment explanation
Indices: 34636049--34636108 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
34636039 GTGAGGCTGC
*
34636049 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
34636076 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
34636102 TAGATAT
1 CAGATAT
34636109 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:34640488 original size:17 final size:18
Alignment explanation
Indices: 34640456--34640489 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34640446 CACTCCTAAA
34640456 ATGATTTCGATCTTTCTC
1 ATGATTTCGATCTTTCTC
*
34640474 ATGATTTTG-TCTTTCT
1 ATGATTTCGATCTTTCT
34640490 GTATGCTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.15, C:0.18, G:0.12, T:0.56
Consensus pattern (18 bp):
ATGATTTCGATCTTTCTC
Found at i:34642494 original size:27 final size:26
Alignment explanation
Indices: 34642446--34642505 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
34642436 GCGAGGCAGC
*
34642446 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
34642473 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
34642499 CAGATAT
1 CAGATAT
34642506 ATATATGTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:34645360 original size:12 final size:13
Alignment explanation
Indices: 34645343--34645371 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
34645333 CTCATACATG
34645343 AATAAATAAA-GC
1 AATAAATAAATGC
34645355 AATAAATAAATGC
1 AATAAATAAATGC
34645368 AATA
1 AATA
34645372 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:34647465 original size:16 final size:16
Alignment explanation
Indices: 34647440--34647475 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
34647430 GAGAAACCAT
*
34647440 TTGGATTGATTAAGGG
1 TTGGACTGATTAAGGG
34647456 TTGGACTGATTAAGGG
1 TTGGACTGATTAAGGG
34647472 TTGG
1 TTGG
34647476 TAGTATTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.03, G:0.39, T:0.36
Consensus pattern (16 bp):
TTGGACTGATTAAGGG
Found at i:34654171 original size:40 final size:38
Alignment explanation
Indices: 34654078--34654171 Score: 109
Period size: 38 Copynumber: 2.4 Consensus size: 38
34654068 TAGTTAAAGT
* *
34654078 CTTTAATTATGTCATAATCTAAACATCATTAATATGAG
1 CTTTAATTATGTCATAATATAAACATCATTAATAAGAG
* *
34654116 CTTTAATTATGTCATAATATGAACAT-ATTTAATAAGGG
1 CTTTAATTATGTCATAATATAAACATCA-TTAATAAGAG
*
34654154 TTTTTTAATTATGTCATA
1 --CTTTAATTATGTCATA
34654172 GTTTAGGACA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
37 1 0.02
38 32 0.67
40 15 0.31
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (38 bp):
CTTTAATTATGTCATAATATAAACATCATTAATAAGAG
Found at i:34654213 original size:39 final size:38
Alignment explanation
Indices: 34654156--34654238 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 38
34654146 AATAAGGGTT
* *
34654156 TTTTAATTATGTCATAGTTTAGGACATCTTAAATATATG
1 TTTTAAATATGTCATAGTTTA-GACATCTTAAATACATG
* * *
34654195 TTTTAAATATGTCCTAGTTTAGACGTCTTTAATACATG
1 TTTTAAATATGTCATAGTTTAGACATCTTAAATACATG
34654233 TCTTTA
1 T-TTTA
34654239 GTTTAGACAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
38 15 0.39
39 23 0.61
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (38 bp):
TTTTAAATATGTCATAGTTTAGACATCTTAAATACATG
Found at i:34656512 original size:54 final size:54
Alignment explanation
Indices: 34656448--34656655 Score: 233
Period size: 55 Copynumber: 3.9 Consensus size: 54
34656438 TTGGTAAGAT
*
34656448 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGAGATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* *
34656502 AAGGAGATCATGTAAGACCATGTCAAGGCATGGCATTGATGAGTTACTATAAGGC
1 AAGGAGATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGGC
* * * * *
34656557 AA--AGGTCCCATGTAAGACCATACCAAGGCATGGCATTGGTGAGTTC-ATAAGGG
1 AAGGAGAT--CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * * * * *
34656610 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGAGATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC
34656656 AAAAAGGAAA
Statistics
Matches: 132, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
53 43 0.33
54 43 0.33
55 46 0.35
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (54 bp):
AAGGAGATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
Found at i:34658038 original size:20 final size:21
Alignment explanation
Indices: 34657998--34658047 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
34657988 AATAGAAATA
34657998 AAAATATTTATAAAAATATAT
1 AAAATATTTATAAAAATATAT
* *
34658019 AAAATATTTAGAATATATATAAT
1 AAAATATTTATAA-AAATAT-AT
34658042 AAAATA
1 AAAATA
34658048 GATATAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 12 0.48
22 5 0.20
23 8 0.32
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAATATTTATAAAAATATAT
Found at i:34658074 original size:22 final size:22
Alignment explanation
Indices: 34658030--34658085 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
34658020 AAATATTTAG
34658030 AATATATATAATAAAATAGATAT
1 AATATATA-AATAAAATAGATAT
*
34658053 AATATATAAAT-AAATTGAATAT
1 AATATATAAATAAAATAG-ATAT
34658075 AATAT-TAAATA
1 AATATATAAATA
34658086 TATAAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 10 0.33
22 12 0.40
23 8 0.27
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
AATATATAAATAAAATAGATAT
Found at i:34661180 original size:40 final size:40
Alignment explanation
Indices: 34661134--34661354 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
34661124 TATTCGAATG
* *
34661134 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGTTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
34661174 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
34661214 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
34661254 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
34661294 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
34661334 ATAT-C-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
34661355 TACTTGGGTT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
38 14 0.08
39 1 0.01
40 152 0.89
41 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:34666930 original size:47 final size:47
Alignment explanation
Indices: 34666879--34667211 Score: 424
Period size: 47 Copynumber: 7.4 Consensus size: 47
34666869 GATGTACAAG
*
34666879 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
34666926 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
34666973 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
34667020 GTGTGTATATGTGATAA-GCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
34667066 --GTGTATATGAGATAAGACCTAATGGCCAATGTGATGAATGTG-AA
1 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * * * *
34667110 ----G---A---GATAAGACCTAATAGCCGATGTGATGGATGTGAAG
1 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
34667147 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
34667194 GTGTATAAATGTGATAAG
1 GTGTGTATATGTGATAAG
34667212 TCCCGAAGGG
Statistics
Matches: 254, Mismatches: 20, Indels: 24
0.85 0.07 0.08
Matches are distributed among these distances:
36 29 0.11
37 1 0.00
39 1 0.00
42 1 0.00
44 17 0.07
45 25 0.10
46 28 0.11
47 152 0.60
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
Found at i:34667114 original size:36 final size:36
Alignment explanation
Indices: 34667074--34667146 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
34667064 AAGTGTATAT
*
34667074 GAGATAAGACCTAATGGCCAATGTGATGAATGTGAA
1 GAGATAAGACCTAATAGCCAATGTGATGAATGTGAA
* *
34667110 GAGATAAGACCTAATAGCCGATGTGATGGATGTGAA
1 GAGATAAGACCTAATAGCCAATGTGATGAATGTGAA
34667146 G
1 G
34667147 GTGTATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.37, C:0.11, G:0.30, T:0.22
Consensus pattern (36 bp):
GAGATAAGACCTAATAGCCAATGTGATGAATGTGAA
Found at i:34667190 original size:83 final size:80
Alignment explanation
Indices: 34667032--34667192 Score: 223
Period size: 83 Copynumber: 2.0 Consensus size: 80
34667022 GTGTATATGT
* *
34667032 GATAAGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGAGATAAGACCTAATGGCCAATG
1 GATAAGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATGAGATAAGACCGAATGGCCAATG
34667097 TGATGAATGTGAAGA
66 TGATGAATGTGAAGA
* * * * *
34667112 GATAAGACCTAATAGCCGATGTGATGGATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCA
1 GATAAG-CCTAATAGCCAATGTGATGAATGTGAAAGTG--TATATGAGATAAGACCGAATGGCCA
*
34667177 ATGTGATGGATGTGAA
63 ATGTGATGAATGTGAA
34667193 AGTGTATAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
80 6 0.09
81 27 0.39
83 37 0.53
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (80 bp):
GATAAGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATGAGATAAGACCGAATGGCCAATG
TGATGAATGTGAAGA
Found at i:34669113 original size:40 final size:40
Alignment explanation
Indices: 34669054--34669228 Score: 287
Period size: 40 Copynumber: 4.4 Consensus size: 40
34669044 CAGTATGTTA
34669054 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * *
34669094 TATTCGGGCTAAGTCCCGAAGAGCATTCGTGCTGCTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
34669134 TATCCGGACTAGGTCCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
34669174 TATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
34669214 TATCCGGGCTAAGTC
1 TATCCGGGCTAAGTC
34669229 ATTTCAATGT
Statistics
Matches: 122, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 122 1.00
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.27
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
Found at i:34672996 original size:47 final size:47
Alignment explanation
Indices: 34672937--34673413 Score: 643
Period size: 47 Copynumber: 10.4 Consensus size: 47
34672927 GATGTACAAG
* *
34672937 GTGTGTATATGTGATAAGTCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* * *
34672984 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
*
34673031 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* *
34673078 GTGTGTATATGTGATAAAACCTAATGGCCAATGTGGTGAATGTGAAA
1 GTGTGTATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
*
34673125 GTGTGTATATGTGATAAGACCTAATGACCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* *
34673172 GTGTGTACATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* *
34673219 GTGTGTATATGTGATAAGACTTGATGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* * *
34673266 GTGTATACATGAGATAAGACCTAATGGCCAATGTGATGAATGTG-AA
1 GTGTGTATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* * *
34673312 ----G---A---GATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTGTATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* * * *
34673349 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTGTATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* * *
34673396 GAGTATAAATGTGATAAG
1 GTGTGTATATGTGATAAG
34673414 TCCCGAAGGG
Statistics
Matches: 384, Mismatches: 35, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
36 30 0.08
37 1 0.00
39 1 0.00
44 1 0.00
46 2 0.01
47 349 0.91
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
GTGTGTATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
Found at i:34673318 original size:36 final size:36
Alignment explanation
Indices: 34673276--34673348 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
34673266 GTGTATACAT
34673276 GAGATAAGACCTAATGGCCAATGTGATGAATGTGAA
1 GAGATAAGACCTAATGGCCAATGTGATGAATGTGAA
* *
34673312 GAGATAAGACCTAATGGCCGATGTGATGGATGTGAA
1 GAGATAAGACCTAATGGCCAATGTGATGAATGTGAA
34673348 G
1 G
34673349 GTGTATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.36, C:0.11, G:0.32, T:0.22
Consensus pattern (36 bp):
GAGATAAGACCTAATGGCCAATGTGATGAATGTGAA
Found at i:34673336 original size:83 final size:84
Alignment explanation
Indices: 34673231--34673403 Score: 240
Period size: 83 Copynumber: 2.1 Consensus size: 84
34673221 GTGTATATGT
* * *
34673231 GATAAGACTTGATGGCCAATGTGATGAATGTGAAAGTGTATACATGAGATAAGACCTAATGGCCA
1 GATAAGACCTAATGGCCAATGTGATGAATGTGAAAGTGTATACATGAGATAAGACCGAATGGCCA
34673296 ATGTGATGAATGTG-AAGA
66 ATGTGATGAATGTGAAAGA
* * * * * *
34673314 GATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCA
1 GATAAGACCTAATGGCCAATGTGATGAATGTGAAAGTGTATACATGAGATAAGACCGAATGGCCA
*
34673379 ATGTGATGGATGTGAAAGA
66 ATGTGATGAATGTGAAAGA
34673398 GTATAA
1 G-ATAA
34673404 ATGTGATAAG
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
83 69 0.88
84 5 0.06
85 4 0.05
ACGTcount: A:0.35, C:0.09, G:0.30, T:0.25
Consensus pattern (84 bp):
GATAAGACCTAATGGCCAATGTGATGAATGTGAAAGTGTATACATGAGATAAGACCGAATGGCCA
ATGTGATGAATGTGAAAGA
Found at i:34678209 original size:21 final size:21
Alignment explanation
Indices: 34678183--34678225 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
34678173 GTGCAACAAG
*
34678183 GGAAACTTTAACTAATAAACT
1 GGAAACTTTAACGAATAAACT
34678204 GGAAACTTTAACGAATAAACT
1 GGAAACTTTAACGAATAAACT
34678225 G
1 G
34678226 TACTAATTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.26
Consensus pattern (21 bp):
GGAAACTTTAACGAATAAACT
Found at i:34681463 original size:49 final size:50
Alignment explanation
Indices: 34681391--34681519 Score: 165
Period size: 50 Copynumber: 2.6 Consensus size: 50
34681381 TAATGTCGAT
*
34681391 GCCATGTCCCAGACATGGTCTTACACTGACTATCA-AAATT-GAGACCGGC
1 GCCATGTCCCAGACATGGTCTTACACTGACTATCACAAATTCG-GACCGAC
* * * * *
34681440 GCCATGTCCTAGACATGGTCTTACACT-AGCTCTCACATATTCGTACCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTATCACAAATTCGGACCGAC
34681490 GCCATGTCCCAGACATGGTCTTACACTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGAC
34681520 ACCTCTATAC
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
48 1 0.01
49 31 0.45
50 35 0.51
51 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTATCACAAATTCGGACCGAC
Found at i:34681507 original size:50 final size:48
Alignment explanation
Indices: 34681387--34681653 Score: 193
Period size: 49 Copynumber: 5.6 Consensus size: 48
34681377 GGCATAATGT
* *
34681387 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCA-AAATT-GAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTG-CT-TCACATATTCG-TAC
** *
34681436 CGGCGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATTCGTAC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GCT-TCACATATTCGTAC
** * * *
34681486 CGATGCCATGTCCCAGACATGGTCTTACACTGACACCTC-TATACGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTG-CTTCACATATTCGTAC
* * *
34681534 CGATGCCAT-TCCCAGACATGGTTTTACACTG--GCACAT-TTCATAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGCTTCACATATTCGTA-C
* * *
34681579 CGATG-AATGTCCCAAACAT-GTCTTACACTGGCTT-ACAT-CTCG-AGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GCTTCACATATTCGTA--C
*
34681625 TGATG-CATGTCCCAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
34681654 AGCGCACAAA
Statistics
Matches: 178, Mismatches: 29, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
44 16 0.09
45 18 0.10
46 34 0.19
47 21 0.12
48 16 0.09
49 36 0.20
50 36 0.20
51 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGCTTCACATATTCGTAC
Found at i:34681644 original size:46 final size:46
Alignment explanation
Indices: 34681485--34681653 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
34681475 CATATTCGTA
* * *
34681485 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACATCT-CACG-G
* * **
34681533 CCGATGCCAT-TCCCAGACATGGTTTTACACTGGCACATTTCATAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACATCTCACGG
* *
34681578 CCGATG-AATGTCCCAAACAT-GTCTTACACTGGCTTACATCTCGA-GG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC--ACATCTC-ACGG
*
34681624 CTGATG-CATGTCCCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
34681654 AGCGCACAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
44 14 0.14
45 16 0.16
46 35 0.34
47 27 0.26
48 10 0.10
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACATCTCACGG
Found at i:34686080 original size:40 final size:40
Alignment explanation
Indices: 34686019--34686239 Score: 320
Period size: 40 Copynumber: 5.5 Consensus size: 40
34686009 TATTCGGATG
* * *
34686019 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
34686059 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
34686099 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
34686139 ATATCCGGGCTAAGTACCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
34686179 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
34686219 ATATCC-GACTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
34686240 ATACTTGGGT
Statistics
Matches: 164, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 12 0.07
40 150 0.91
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:34690308 original size:117 final size:118
Alignment explanation
Indices: 34690128--34690346 Score: 293
Period size: 117 Copynumber: 1.9 Consensus size: 118
34690118 TCCTCGTTCA
*
34690128 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
34690193 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGATTTAGTAACTCGCAC
* * **
34690246 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
34690308 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCG
34690347 GACATCATTC
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
116 4 0.05
117 64 0.73
118 20 0.23
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (118 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGATTTAGTAACTCGCAC
Found at i:34690348 original size:40 final size:40
Alignment explanation
Indices: 34690126--34690348 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
34690116 ACTCCTCGTT
* *
34690126 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
34690166 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
34690206 CAAATGCCTTCGGGACTTAACCC-GATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
34690245 C-AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
34690283 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
34690324 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34690349 CATCATTCAA
Statistics
Matches: 162, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
37 7 0.04
38 28 0.17
39 26 0.16
40 89 0.55
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:34703375 original size:31 final size:31
Alignment explanation
Indices: 34703337--34703400 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
34703327 CCTTTTCATA
34703337 TTTCATATTT-GATAACAATGGGCCGAAGCCT
1 TTTCATATTTCG-TAACAATGGGCCGAAGCCT
** *
34703368 TTTCATATTTCGTATTATTGGGCCGAAGCCT
1 TTTCATATTTCGTAACAATGGGCCGAAGCCT
34703399 TT
1 TT
34703401 ACTATAAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCGTAACAATGGGCCGAAGCCT
Found at i:34703644 original size:23 final size:23
Alignment explanation
Indices: 34703608--34703687 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 23
34703598 CTAGAGGCCT
* **
34703608 AGCCTCTTTTAATAACTTAGGCAA
1 AGCC-CTTTCAATAACTGGGGCAA
34703632 AGCCCTTTCAATAACTGGGGCAAA
1 AGCCCTTTCAATAACTGGGGC-AA
34703656 AGCCCTTTCAATAACTGGGGCATA
1 AGCCCTTTCAATAACTGGGGCA-A
34703680 AGCCCTTT
1 AGCCCTTT
34703688 TTCACTTCCT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
23 15 0.29
24 36 0.71
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (23 bp):
AGCCCTTTCAATAACTGGGGCAA
Found at i:34703764 original size:20 final size:20
Alignment explanation
Indices: 34703739--34703777 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
34703729 TATGAATACA
34703739 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
34703759 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
34703778 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:34703783 original size:20 final size:20
Alignment explanation
Indices: 34703740--34703784 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
34703730 ATGAATACAT
**
34703740 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
34703760 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
34703780 CATGT
1 CATGT
34703785 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:34708611 original size:40 final size:41
Alignment explanation
Indices: 34708563--34708745 Score: 211
Period size: 40 Copynumber: 4.6 Consensus size: 41
34708553 GCTACTCGTT
*
34708563 CAAATGCCTTCGGGACATAGCCCGG-TTATGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATGGTAACTCGCA
* * *
34708603 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATGGTAACTCGCA
*
34708643 CAAATGCCTTCGGG-CTTAGCCCGGAATTA--GTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTATGGTAACTCGCA
* * *
34708682 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATGGTAAC-TCGCA
34708723 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
34708746 AACATCATTC
Statistics
Matches: 122, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
38 4 0.03
39 30 0.25
40 75 0.61
41 13 0.11
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATGGTAACTCGCA
Found at i:34708680 original size:79 final size:80
Alignment explanation
Indices: 34708563--34708745 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 80
34708553 GCTACTCGTT
* *
34708563 CAAATGCCTTCGGGACATAGCCCGGTTATGGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-GGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
34708627 GATTTAGTAAC-TCGCA
64 GATATAGTAACTTAGCA
* **
34708643 CAAATGCCTTCGGG-CTTAGCCCGGAATTA-GTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGG--TTAGGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
34708706 GATATGGTCACTTAGCA
64 GATATAGTAACTTAGCA
34708723 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
34708746 AACATCATTC
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
78 3 0.03
79 52 0.58
80 31 0.35
81 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTAGGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:34716086 original size:79 final size:82
Alignment explanation
Indices: 34715975--34716159 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
34715965 GCTACTCGTT
* * *
34715975 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
34716038 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
34716055 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
34716118 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
34716135 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34716160 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:34716159 original size:40 final size:40
Alignment explanation
Indices: 34715956--34716159 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
34715946 CGGAATTTAA
** *
34715956 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
34715996 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
34716036 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34716075 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
34716115 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
34716155 CCGGA
1 CCGGA
34716160 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:34719282 original size:42 final size:42
Alignment explanation
Indices: 34719128--34719287 Score: 162
Period size: 42 Copynumber: 3.8 Consensus size: 42
34719118 TACTGTGCCA
* ** *
34719128 ATGCCAT-TCCCACATATGGTCTTACATATA-TCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATTG
* ** **
34719168 ATGCCAATATCCCAGCTATGGTCTTACACAAAGTCTCATATCA
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAGTCTCATATTG
** *
34719211 ATGCCATATCCCAGATATGGTCTGGCACGTTGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATTG
* **
34719253 ATGTCATATCCTTGATATGGTCTTACACGTAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCT
34719288 TAGTAACCAT
Statistics
Matches: 96, Mismatches: 21, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
40 5 0.05
41 2 0.02
42 77 0.80
43 12 0.12
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATTG
Found at i:34726168 original size:40 final size:41
Alignment explanation
Indices: 34726108--34726328 Score: 298
Period size: 40 Copynumber: 5.6 Consensus size: 41
34726098 TATTCGAATG
*
34726108 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
34726148 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
*
34726188 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
*
34726228 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
34726268 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
34726308 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
34726329 ATACTTGGGT
Statistics
Matches: 162, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 1 0.01
39 14 0.09
40 142 0.88
41 5 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:34726596 original size:22 final size:22
Alignment explanation
Indices: 34726556--34726597 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
34726546 GAATGTGCAT
*
34726556 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
34726578 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
34726598 TCGAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:34734429 original size:40 final size:41
Alignment explanation
Indices: 34734369--34734589 Score: 289
Period size: 40 Copynumber: 5.6 Consensus size: 41
34734359 TATTCGAATG
*
34734369 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
34734409 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
*
34734449 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
34734489 ATATCCGGGCTAAG-TCCCGAAGGCATTTATTCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
34734529 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCAAGTTG-TT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
34734569 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
34734590 ATACTTGGGT
Statistics
Matches: 160, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
38 1 0.01
39 14 0.09
40 140 0.88
41 5 0.03
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:34739998 original size:38 final size:39
Alignment explanation
Indices: 34739944--34740039 Score: 131
Period size: 38 Copynumber: 2.5 Consensus size: 39
34739934 AATTAGTTTA
* * *
34739944 AGTCTTTAATTATGTCATCATTTGAACATCATTAATATG
1 AGTCTTTAATTATGTCATAATCTGAACATCATTAATAAG
*
34739983 AG-CTTTAATTATGTCATAATCTGAACATCTTTAATAAG
1 AGTCTTTAATTATGTCATAATCTGAACATCATTAATAAG
* *
34740021 GGTTTTTAATTATGTCATA
1 AGTCTTTAATTATGTCATA
34740040 GTTTAGGACA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
38 33 0.66
39 17 0.34
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (39 bp):
AGTCTTTAATTATGTCATAATCTGAACATCATTAATAAG
Found at i:34746795 original size:65 final size:65
Alignment explanation
Indices: 34746691--34746817 Score: 254
Period size: 65 Copynumber: 2.0 Consensus size: 65
34746681 TCATTATTTC
34746691 ATGAATTAATAATCGTAAGCTTAAAGTACATACCTGTACCTGGAAACACAAAATTTACATACATT
1 ATGAATTAATAATCGTAAGCTTAAAGTACATACCTGTACCTGGAAACACAAAATTTACATACATT
34746756 ATGAATTAATAATCGTAAGCTTAAAGTACATACCTGTACCTGGAAACACAAAATTTACATAC
1 ATGAATTAATAATCGTAAGCTTAAAGTACATACCTGTACCTGGAAACACAAAATTTACATAC
34746818 TTTTTCATAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.28
Consensus pattern (65 bp):
ATGAATTAATAATCGTAAGCTTAAAGTACATACCTGTACCTGGAAACACAAAATTTACATACATT
Found at i:34748400 original size:29 final size:29
Alignment explanation
Indices: 34748343--34748444 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 29
34748333 TACCTATATC
* * *
34748343 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
*
34748371 TGGCCCATTTGGCCCAAATCAC-TTGTATA
1 TGGCCCATTAGGCCCAAATCACATT-TATA
*
34748400 TGGCCCATTGGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
*
34748429 TGGCCCGTTAGGCCCA
1 TGGCCCATTAGGCCCA
34748445 GTCGCATTCA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 15 0.23
29 47 0.73
30 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:34751765 original size:17 final size:18
Alignment explanation
Indices: 34751743--34751777 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
34751733 TTACATTGAA
34751743 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
34751760 GTGTTTTCATTGAAAACC
1 GTGTTTTCAGTGAAAACC
34751778 CTTAGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:34752876 original size:28 final size:29
Alignment explanation
Indices: 34752844--34752958 Score: 146
Period size: 29 Copynumber: 4.0 Consensus size: 29
34752834 TACCTGTATT
* *
34752844 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
34752872 TGGCCCATTAGGCCCAAATCACATGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* *
34752901 TGGCCCATTAGGCCCAAATCACATTAAGA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
34752930 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
34752958 T
1 T
34752959 TCATGCTCAC
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
28 26 0.34
29 50 0.65
30 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:34757422 original size:28 final size:28
Alignment explanation
Indices: 34757390--34757475 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
34757380 TACCTGTATC
* *
34757390 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
34757418 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* * *
34757447 TGGCCCGTTAGGCCCAGTCCCATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
34757475 T
1 T
34757476 TCATGCTCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 25 0.50
29 25 0.50
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:34757727 original size:16 final size:16
Alignment explanation
Indices: 34757685--34757720 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
34757675 GTAGCCAAAC
34757685 TTTCAGCTTTTCGACA
1 TTTCAGCTTTTCGACA
*
34757701 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGACA
34757717 TTTC
1 TTTC
34757721 GACTTTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.25, G:0.14, T:0.47
Consensus pattern (16 bp):
TTTCAGCTTTTCGACA
Found at i:34760049 original size:25 final size:25
Alignment explanation
Indices: 34760015--34760066 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
34760005 AATGAGTATG
34760015 TATGTGCCATAACATGTTTGCTTAT
1 TATGTGCCATAACATGTTTGCTTAT
34760040 TATGTGCCATAACATGTTTGCTTAT
1 TATGTGCCATAACATGTTTGCTTAT
34760065 TA
1 TA
34760067 AAATCTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.44
Consensus pattern (25 bp):
TATGTGCCATAACATGTTTGCTTAT
Found at i:34766657 original size:17 final size:18
Alignment explanation
Indices: 34766631--34766664 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34766621 TTTATTTTTA
34766631 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
34766648 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
34766665 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:34767289 original size:17 final size:17
Alignment explanation
Indices: 34767253--34767290 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
34767243 CCTAAATTTT
* *
34767253 AATTATTTAATTTTTCA
1 AATTATTTAATTATTAA
34767270 AATTATTTAATTATTAA
1 AATTATTTAATTATTAA
34767287 AATT
1 AATT
34767291 TTATATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
AATTATTTAATTATTAA
Found at i:34783930 original size:50 final size:50
Alignment explanation
Indices: 34783873--34783972 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
34783863 TTGCATTTAT
*
34783873 TATTGACATGAAATATCTTAGAAATGCATATTTGATGATAACGTGTGAAA
1 TATTGACATGAAATATCTTAGAAATGCATATTTGACGATAACGTGTGAAA
34783923 TATTGACATGAAATATCTTAGAAATGCATATTTGACGATAACGTGTGAAA
1 TATTGACATGAAATATCTTAGAAATGCATATTTGACGATAACGTGTGAAA
34783973 AATGTCTCGG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (50 bp):
TATTGACATGAAATATCTTAGAAATGCATATTTGACGATAACGTGTGAAA
Found at i:34784862 original size:27 final size:27
Alignment explanation
Indices: 34784832--34784885 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
34784822 TGATTTGCCA
34784832 AATGAAGGCATGTAAAAATAAGTTTAT
1 AATGAAGGCATGTAAAAATAAGTTTAT
34784859 AATGAAGGCATGTAAAAATAAGTTTAT
1 AATGAAGGCATGTAAAAATAAGTTTAT
34784886 CTCTTTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.30
Consensus pattern (27 bp):
AATGAAGGCATGTAAAAATAAGTTTAT
Found at i:34788812 original size:23 final size:22
Alignment explanation
Indices: 34788786--34788846 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
34788776 TCGTTAGTGT
*
34788786 TTACCGTTTCAGCTC-GTATGAGC
1 TTACCGTTT-AGCTCAATA-GAGC
* *
34788809 TTACTGTTTTGCTCAATAGAGC
1 TTACCGTTTAGCTCAATAGAGC
34788831 TTACCGTTTTAGCTCA
1 TTACCG-TTTAGCTCA
34788847 CTGTTTATCA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
22 13 0.42
23 18 0.58
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (22 bp):
TTACCGTTTAGCTCAATAGAGC
Found at i:34795630 original size:25 final size:25
Alignment explanation
Indices: 34795602--34795657 Score: 58
Period size: 27 Copynumber: 2.2 Consensus size: 25
34795592 ATATACATCG
* *
34795602 CATAGGGGCAAAATAGTCATCTTAC
1 CATAAGGGAAAAATAGTCATCTTAC
* *
34795627 CATATAAGGGAAAAATAGTCATTTTAT
1 C--ATAAGGGAAAAATAGTCATCTTAC
34795654 CATA
1 CATA
34795658 TATAGGGGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
25 4 0.16
27 21 0.84
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (25 bp):
CATAAGGGAAAAATAGTCATCTTAC
Found at i:34795641 original size:27 final size:28
Alignment explanation
Indices: 34795611--34795664 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
34795601 GCATAGGGGC
34795611 AAAATAGTCATCTTACCATATA-AGGGA
1 AAAATAGTCATCTTACCATATATAGGGA
* *
34795638 AAAATAGTCATTTTATCATATATAGGG
1 AAAATAGTCATCTTACCATATATAGGG
34795665 GGTCTAGGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (28 bp):
AAAATAGTCATCTTACCATATATAGGGA
Found at i:34810425 original size:27 final size:27
Alignment explanation
Indices: 34810378--34810441 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
34810368 AAATATTCTC
34810378 TAAATTAAT-AAATATTAATTTATCGA
1 TAAATTAATAAAATATTAATTTATCGA
*
34810404 TAAATTAATAAAATATTCATTTATCGA
1 TAAATTAATAAAATATTAATTTATCGA
*
34810431 TAAACTAATAA
1 TAAATTAATAA
34810442 TCTCGATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 9 0.26
27 26 0.74
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTTATCGA
Found at i:34810449 original size:17 final size:17
Alignment explanation
Indices: 34810427--34810459 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34810417 TATTCATTTA
*
34810427 TCGATAAACTAATAATC
1 TCGATAAAATAATAATC
34810444 TCGATAAAATAATAAT
1 TCGATAAAATAATAAT
34810460 TTTTTCGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (17 bp):
TCGATAAAATAATAATC
Found at i:34811090 original size:39 final size:41
Alignment explanation
Indices: 34811017--34811097 Score: 114
Period size: 40 Copynumber: 2.0 Consensus size: 41
34811007 CAGTATCAAG
*
34811017 GAGCACCAATGTGCTAAGCAGGGCACAAATGTGCAT-ACAA
1 GAGCACCAAAGTGCTAAGCAGGGCACAAATGTGCATAACAA
*
34811057 GAGCACCAAAGTGC-AAGCAGGGCACTAGA-GTGCATAACAA
1 GAGCACCAAAGTGCTAAGCAGGGCAC-AAATGTGCATAACAA
34811097 G
1 G
34811098 GAACACATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
39 17 0.46
40 20 0.54
ACGTcount: A:0.38, C:0.22, G:0.27, T:0.12
Consensus pattern (41 bp):
GAGCACCAAAGTGCTAAGCAGGGCACAAATGTGCATAACAA
Found at i:34811110 original size:39 final size:39
Alignment explanation
Indices: 34811025--34811150 Score: 91
Period size: 39 Copynumber: 3.2 Consensus size: 39
34811015 AGGAGCACCA
*
34811025 ATGTGCTAAGCAGGGCAC-AAATGTGCAT-ACAA-GAGCACC
1 ATGTGC-AAGCAGGGCACTAAA-GTGCATAACAAGGAACA-C
* *
34811064 AAAGTGCAAGCAGGGCACTAGAGTGCATAACAAGGAACAC
1 -ATGTGCAAGCAGGGCACTAAAGTGCATAACAAGGAACAC
* * * * *
34811104 ATGTGCAATCAAGGGCA-TCATAGTGTA-AACAAGGCACAG
1 ATGTGCAAGC-AGGGCACT-AAAGTGCATAACAAGGAACAC
34811143 ATGTGCAA
1 ATGTGCAA
34811151 TCAGAAGCAA
Statistics
Matches: 72, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
39 44 0.61
40 24 0.33
41 4 0.06
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.15
Consensus pattern (39 bp):
ATGTGCAAGCAGGGCACTAAAGTGCATAACAAGGAACAC
Found at i:34811822 original size:41 final size:41
Alignment explanation
Indices: 34811756--34811833 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
34811746 CCACAGGGGT
* *
34811756 TTCACACGGCCTGGAACACGCCCGTGTCTCAGGCCCGTATCC
1 TTCACACCGCCAGGAACACGCCCGTGTCTCA-GCCCGTATCC
* *
34811798 TTCACACCGCCAGG-ACATGCCCGTGTCTTAGCCCGT
1 TTCACACCGCCAGGAACACGCCCGTGTCTCAGCCCGT
34811834 GTGCAAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 6 0.19
41 14 0.44
42 12 0.38
ACGTcount: A:0.17, C:0.40, G:0.23, T:0.21
Consensus pattern (41 bp):
TTCACACCGCCAGGAACACGCCCGTGTCTCAGCCCGTATCC
Found at i:34816681 original size:40 final size:40
Alignment explanation
Indices: 34816629--34816779 Score: 216
Period size: 40 Copynumber: 3.8 Consensus size: 40
34816619 GCCGTCGGGT
* *
34816629 CTTAGCCCGGATATGGTCACTAGCACAAATGCCTTCGAGA
1 CTTAGCCCGGATATGGTAACTCGCACAAATGCCTTCGAGA
* *
34816669 CTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGAGA
1 CTTAGCCCGGATATGGTAACTCGCACAAATGCCTTCGAGA
*
34816709 CTTAGCCCGGA-ATTGGTAACTCGCACAAATGCCTTCGGGA
1 CTTAGCCCGGATA-TGGTAACTCGCACAAATGCCTTCGAGA
*
34816749 CTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CTTAGCCCGGATA-TGGTAACTCGCACAAATG
34816780 TCATCGGTTT
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTAGCCCGGATATGGTAACTCGCACAAATGCCTTCGAGA
Found at i:34823517 original size:84 final size:85
Alignment explanation
Indices: 34823335--34823518 Score: 194
Period size: 84 Copynumber: 2.2 Consensus size: 85
34823325 GGGAATCACA
* * **** *
34823335 TACACATAGAA-TCATACCAATGTCATATCCCAGATATGGTCTTACATGGGATCTCATATCGATG
1 TACACATA-AACTCATACCAATGCCATATCCCAGACATGGTCTTACACAAAATCTCATAACGATG
**
34823399 CCAATAGCCCAGCTATGGTCT
65 CCAATAGCCCAAATATGGTCT
** * * * *
34823420 TACAC-TATTCTCATATCGATGCCATGTCCCAGACATGGTCTTACACAAAATCTCATAACGATGT
1 TACACATAAACTCATACCAATGCCATATCCCAGACATGGTCTTACACAAAATCTCATAACGATGC
*
34823484 C-ATATCCCAAATATGGTCT
66 CAATAGCCCAAATATGGTCT
34823503 TACACATAAACTCATA
1 TACACATAAACTCATA
34823519 ACCCTAATGT
Statistics
Matches: 79, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
83 20 0.25
84 54 0.68
85 5 0.06
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.29
Consensus pattern (85 bp):
TACACATAAACTCATACCAATGCCATATCCCAGACATGGTCTTACACAAAATCTCATAACGATGC
CAATAGCCCAAATATGGTCT
Found at i:34823519 original size:42 final size:42
Alignment explanation
Indices: 34823335--34823520 Score: 162
Period size: 42 Copynumber: 4.4 Consensus size: 42
34823325 GGGAATCACA
* * *
34823335 TACACATAGAA-TCATACCAATGTCATATCCCAGATATGGTCT
1 TACACATA-AACTCATAACGATGCCATATCCCAGATATGGTCT
**** * * * *
34823377 TACATGGGATCTCATATCGATGCCAATAGCCCAGCTATGGTCT
1 TACACATAAACTCATAACGATGCC-ATATCCCAGATATGGTCT
** * * *
34823420 TACAC-TATTCTCATATCGATGCCATGTCCCAGACATGGTCT
1 TACACATAAACTCATAACGATGCCATATCCCAGATATGGTCT
* *
34823461 TACACA-AAATCTCATAACGATGTCATATCCCAAATATGGTCT
1 TACACATAAA-CTCATAACGATGCCATATCCCAGATATGGTCT
34823503 TACACATAAACTCATAAC
1 TACACATAAACTCATAAC
34823521 CCTAATGTCA
Statistics
Matches: 114, Mismatches: 25, Indels: 10
0.77 0.17 0.07
Matches are distributed among these distances:
41 21 0.18
42 70 0.61
43 23 0.20
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (42 bp):
TACACATAAACTCATAACGATGCCATATCCCAGATATGGTCT
Found at i:34838325 original size:6 final size:6
Alignment explanation
Indices: 34838314--34838423 Score: 82
Period size: 6 Copynumber: 17.8 Consensus size: 6
34838304 AACTAGCATT
* *
34838314 AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * * *
34838363 AGTATC AGGTAA-C AAAATC AAAATC AGAATC AGTATC ATGTAA-C AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
*
34838413 AAAATC AGAAT
1 AGAATC AGAAT
34838424 GTGAATGCAA
Statistics
Matches: 83, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
5 5 0.06
6 67 0.81
7 8 0.10
8 3 0.04
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:34838352 original size:31 final size:31
Alignment explanation
Indices: 34838314--34838423 Score: 157
Period size: 31 Copynumber: 3.5 Consensus size: 31
34838304 AACTAGCATT
* * * *
34838314 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
34838345 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
34838376 AAAATCAAAATCAGAATCAGTATCATGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
34838407 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
34838424 GTGAATGCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:34838862 original size:27 final size:27
Alignment explanation
Indices: 34838832--34839056 Score: 206
Period size: 27 Copynumber: 8.3 Consensus size: 27
34838822 AAGGTAAAAT
* *
34838832 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
34838859 GGTAATTCTACCTTAC-AGGAGTATTTT
1 GGTAATTTTACCCTACAAGG-GTATTTC
* * * * *
34838886 AGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
34838913 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
34838940 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
34838967 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
**
34838994 AAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
34839021 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
34839048 GGTAATTTT
1 GGTAATTTT
34839057 GTAAATCGAG
Statistics
Matches: 166, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
26 9 0.05
27 148 0.89
28 9 0.05
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:34838891 original size:54 final size:54
Alignment explanation
Indices: 34838833--34839056 Score: 236
Period size: 54 Copynumber: 4.1 Consensus size: 54
34838823 AGGTAAAATG
* * * *
34838833 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTAC-AGGAGTATTTTA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGG-GTATTTCA
* * * * * *
34838887 GTAATTCTACCCTATAGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
* * * ** * *
34838941 GTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
* * *
34838995 AT-ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTT-TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
34839049 GTAATTTT
1 GTAATTTT
34839057 GTAAATCGAG
Statistics
Matches: 141, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
53 3 0.02
54 131 0.93
55 7 0.05
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (54 bp):
GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
Found at i:34838966 original size:81 final size:81
Alignment explanation
Indices: 34838831--34839046 Score: 326
Period size: 81 Copynumber: 2.7 Consensus size: 81
34838821 AAAGGTAAAA
* * * *
34838831 TGGTAATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTTAGTAATTCT
1 TGGT-ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCT
*
34838895 ACCCTATAGGGGTATTT
65 ACCCTACAGGGGTATTT
*
34838912 TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTA
1 TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTA
34838977 CCCTACAGGGGTATTT
66 CCCTACAGGGGTATTT
** * *
34838993 TAATATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTT
1 TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
34839047 CGGTAATTTT
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
80 4 0.03
81 119 0.97
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (81 bp):
TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTA
CCCTACAGGGGTATTT
Found at i:34839134 original size:27 final size:26
Alignment explanation
Indices: 34839099--34839541 Score: 337
Period size: 27 Copynumber: 16.4 Consensus size: 26
34839089 TCAGGGGCAC
*
34839099 TTTGGTAATTTTACAAGTCGAGGGTAT
1 TTTGGTAATTTTACAA-TCAAGGGTAT
** * * *
34839126 TTTAATAATTTTATAGGTCGAGGGTAT
1 TTTGGTAATTTTACA-ATCAAGGGTAT
* *
34839153 TTTAGTAATTTCACAAATCAAGGGTAT
1 TTTGGTAATTTTAC-AATCAAGGGTAT
* *
34839180 TTTGGTAATTTTACAAACTAGGGGTAT
1 TTTGGTAATTTTACAATC-AAGGGTAT
* * *
34839207 TTTGATAATTTTACAAACCAGGGGTAT
1 TTTGGTAATTTTAC-AATCAAGGGTAT
*
34839234 TTTGGTAATTTTACAAATCAGGGGTAT
1 TTTGGTAATTTTAC-AATCAAGGGTAT
* *
34839261 TTTGGTAATTTTATAAACAAAGGGTAT
1 TTTGGTAATTTTACAATC-AAGGGTAT
* * *
34839288 TTTAGTAATTTTACAAACCAGGGGTAT
1 TTTGGTAATTTTAC-AATCAAGGGTAT
** *
34839315 TTTGGTAATTTTGTAAACTAAGGGTAT
1 TTTGGTAATTTTACAATC-AAGGGTAT
* * *
34839342 TTTGGTAATTATACAAACCAGGGGTAT
1 TTTGGTAATTTTAC-AATCAAGGGTAT
* * *
34839369 TTTGGTGATTTTATAAACCAAGGGTAT
1 TTTGGTAATTTTA-CAATCAAGGGTAT
* * * *
34839396 TCTAGTAATTTTACAAACCAGGGGTAT
1 TTTGGTAATTTTAC-AATCAAGGGTAT
** *
34839423 TTTGGTAATTTTGTAAACTAAGGGTAT
1 TTTGGTAATTTTACAATC-AAGGGTAT
* * *
34839450 TTTTGTAATTTTACAAACCAGGGGTAT
1 TTTGGTAATTTTAC-AATCAAGGGTAT
* * * *
34839477 TTTTGTGATTTTATAAACCAAGGGTAT
1 TTTGGTAATTTTA-CAATCAAGGGTAT
* * *
34839504 TTTAGTAATTTTACAAACCAGGGGTAT
1 TTTGGTAATTTTAC-AATCAAGGGTAT
34839531 TTTGGTAATTT
1 TTTGGTAATTT
34839542 GGTAAACTAA
Statistics
Matches: 340, Mismatches: 62, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
26 12 0.04
27 315 0.93
28 13 0.04
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (26 bp):
TTTGGTAATTTTACAATCAAGGGTAT
Found at i:34839134 original size:54 final size:53
Alignment explanation
Indices: 34839077--34839541 Score: 511
Period size: 54 Copynumber: 8.6 Consensus size: 53
34839067 GGTAAAATGA
* * * * * * *
34839077 TAATTCTATAAATCAGGGGCACTTTGGTAATTTTACAAGTCGAGGGTATTTTAA
1 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAA-ACAAGGGTATTTTAG
* ** * * *
34839131 TAATTTTATAGGTC-GAGGGTATTTTAGTAATTTCACAAATCAAGGGTATTTTGG
1 TAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTTAG
* * *
34839185 TAATTTTACAAA-CTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTTAG
*
34839239 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAG
1 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTTAG
* ** *
34839293 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTTAG
* * * * *
34839347 TAATTATACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAG
1 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTTAG
* ** *
34839401 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTTG
1 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTTAG
* * * *
34839455 TAATTTTACAAACCAGGGGTATTTTTGTGATTTTATAAACCAAGGGTATTTTAG
1 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTTAG
*
34839509 TAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 TAATTTTACAAATCAGGGGTATTTTGGTAATTT
34839542 GGTAAACTAA
Statistics
Matches: 359, Mismatches: 43, Indels: 18
0.85 0.10 0.04
Matches are distributed among these distances:
53 4 0.01
54 351 0.98
55 4 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (53 bp):
TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACAAGGGTATTTTAG
Found at i:34839162 original size:81 final size:79
Alignment explanation
Indices: 34839077--34839533 Score: 423
Period size: 81 Copynumber: 5.6 Consensus size: 79
34839067 GGTAAAATGA
* * * * * * *
34839077 TAATTCTATAAATCAGGGGCACTTTGGTAATTTTACAAGTCGAGGGTATTTTAATAATTTTATAG
1 TAATT-TACAAATCAGGGGTATTTTGGTAATTTTACAA-ACAAGGGTATTTTAATAATTTTACAA
**
34839142 GTC-GAGGGTATTTTAG
64 ACCAG-GGGTATTTTAG
* * *
34839158 TAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAA
1 TAATTT-ACAAATCAGGGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTTAATAATTTTACAA
*
34839223 ACCAGGGGTATTTTGG
64 ACCAGGGGTATTTTAG
* *
34839239 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAA
1 TAA-TTTACAAATCAGGGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTTAATAATTTTACAA
*
34839304 ACCAGGGGTATTTTGG
64 ACCAGGGGTATTTTAG
** * * * ** * *
34839320 TAATTTTGTAAA-CTAAGGGTATTTTGGTAATTATACAAACCAGGGGTATTTTGGTGATTTTATA
1 TAA-TTTACAAATC-AGGGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTTAATAATTTTACA
* *
34839384 AACCAAGGGTATTCTAG
63 AACCAGGGGTATTTTAG
* ** **
34839401 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTTGTAATTTTACAA
1 TAA-TTTACAAATCAGGGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTTAATAATTTTACAA
*
34839466 ACCAGGGGTATTTTTG
64 ACCAGGGGTATTTTAG
* * * * * *
34839482 TGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTT
1 T-AATTTACAAATCAGGGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTT
34839534 GGTAATTTGG
Statistics
Matches: 315, Mismatches: 51, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
80 4 0.01
81 303 0.96
82 8 0.03
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (79 bp):
TAATTTACAAATCAGGGGTATTTTGGTAATTTTACAAACAAGGGTATTTTAATAATTTTACAAAC
CAGGGGTATTTTAG
Found at i:34839548 original size:27 final size:27
Alignment explanation
Indices: 34839147--34839541 Score: 511
Period size: 27 Copynumber: 14.6 Consensus size: 27
34839137 TATAGGTCGA
* * * *
34839147 GGGTATTTTAGTAATTTCACAAATCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
34839174 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
34839201 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
34839228 GGGTATTTTGGTAATTTTACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
34839255 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
34839282 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** * *
34839309 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
34839336 GGGTATTTTGGTAATTATACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
34839363 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
34839390 GGGTATTCTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** * *
34839417 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
34839444 GGGTATTTTTGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
34839471 GGGTATTTTTGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
34839498 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
34839525 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
34839542 GGTAAACTAA
Statistics
Matches: 313, Mismatches: 55, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 313 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:34839548 original size:54 final size:54
Alignment explanation
Indices: 34839147--34839541 Score: 583
Period size: 54 Copynumber: 7.3 Consensus size: 54
34839137 TATAGGTCGA
* * * * * *
34839147 GGGTATTTTAGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * * * *
34839201 GGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
*
34839255 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * * *
34839309 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTATACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
34839363 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * *
34839417 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTTGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
34839471 GGGTATTTTTGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
34839525 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
34839542 GGTAAACTAA
Statistics
Matches: 306, Mismatches: 35, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 306 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:34840892 original size:23 final size:23
Alignment explanation
Indices: 34840864--34840909 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
34840854 GTTTTGGCCG
34840864 AACCCTTGAAGGTTTTGTTTCTT
1 AACCCTTGAAGGTTTTGTTTCTT
*
34840887 AACCCTTGGAGGTTTTGTTTCTT
1 AACCCTTGAAGGTTTTGTTTCTT
34840910 TTCTTTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.15, C:0.17, G:0.20, T:0.48
Consensus pattern (23 bp):
AACCCTTGAAGGTTTTGTTTCTT
Found at i:34844905 original size:40 final size:40
Alignment explanation
Indices: 34844849--34844926 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
34844839 AAAACCACAG
* *
34844849 CTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACACCA
1 CTATAGATCGACCATTAGCGGCGCTTTCTGAAAAACACCA
* * *
34844889 CTATAGGTCGACCATTAGCTGCTCTTTCTGAAAAACAC
1 CTATAGATCGACCATTAGCGGCGCTTTCTGAAAAACAC
34844927 TACAAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (40 bp):
CTATAGATCGACCATTAGCGGCGCTTTCTGAAAAACACCA
Found at i:34845060 original size:114 final size:114
Alignment explanation
Indices: 34844860--34845166 Score: 368
Period size: 114 Copynumber: 2.7 Consensus size: 114
34844850 TATAGATCGA
* * *
34844860 GCATTAGCGGCGCTTTTTGAAAAACACCACTATAGGTCGACCATTAGC-TGCTCTTTCTGAAAAA
1 GCATTAGCGGCACTTTTTGAAAAACACCACTATAGGTCGAGCATTAGCAT-CGCTTTCTGAAAAA
** *
34844924 CACTACAAAAAAATTAAGCACAACGCCGTCGTTTTATGTGAGCTTTAATG
65 CACCGCAAAAAAATTAAGCACAACGCCGTCGTTTTATATGAGCTTTAATG
* * * * *
34844974 GCATTAGTGGTACTTTTTAAAAAATACCATTATAGGTCGAGCATTAGCATCGCTTTCTGAAAAAC
1 GCATTAGCGGCACTTTTTGAAAAACACCACTATAGGTCGAGCATTAGCATCGCTTTCTGAAAAAC
* * * *
34845039 GCCGCAAAAAAATTAAGCACAACGTCGTCGTTTTCTATGAGCTTTAGTG
66 ACCGCAAAAAAATTAAGCACAACGCCGTCGTTTTATATGAGCTTTAATG
* * ** * * *
34845088 GCATTAGCGGCGCTTTTTGAAAAACACC-GTATAGACCAAGCATTAGCAGCGCTTTTTGAAAAAC
1 GCATTAGCGGCACTTTTTGAAAAACACCACTATAGGTCGAGCATTAGCATCGCTTTCTGAAAAAC
* *
34845152 CCCG-TAAAAAATTAA
66 ACCGCAAAAAAATTAA
34845167 TTTAGTTTAT
Statistics
Matches: 164, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
112 10 0.06
113 33 0.20
114 120 0.73
115 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.28
Consensus pattern (114 bp):
GCATTAGCGGCACTTTTTGAAAAACACCACTATAGGTCGAGCATTAGCATCGCTTTCTGAAAAAC
ACCGCAAAAAAATTAAGCACAACGCCGTCGTTTTATATGAGCTTTAATG
Found at i:34845233 original size:21 final size:21
Alignment explanation
Indices: 34845209--34845258 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
34845199 GCTTATAATT
*
34845209 TAGGTTTTTTGGTTTATGGTC
1 TAGGTTTTATGGTTTATGGTC
* *
34845230 TAGGATTTATGGTTTATGGTT
1 TAGGTTTTATGGTTTATGGTC
34845251 TAAGGTTT
1 T-AGGTTT
34845259 GGGGGTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.16, C:0.02, G:0.28, T:0.54
Consensus pattern (21 bp):
TAGGTTTTATGGTTTATGGTC
Found at i:34845746 original size:14 final size:14
Alignment explanation
Indices: 34845729--34845772 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
34845719 TGGGGTTAAA
*
34845729 GGTTTATAGTTTAG
1 GGTTTATGGTTTAG
*
34845743 GGTTTAGGGTTTAG
1 GGTTTATGGTTTAG
34845757 GGTTTATGGTTTAG
1 GGTTTATGGTTTAG
34845771 GG
1 GG
34845773 GTAGGGGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (14 bp):
GGTTTATGGTTTAG
Found at i:34845747 original size:7 final size:7
Alignment explanation
Indices: 34845737--34845772 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
34845727 AAGGTTTATA
34845737 GTTTAGG
1 GTTTAGG
34845744 GTTTAGG
1 GTTTAGG
34845751 GTTTAGG
1 GTTTAGG
*
34845758 GTTTATG
1 GTTTAGG
34845765 GTTTAGG
1 GTTTAGG
34845772 G
1 G
34845773 GTAGGGGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.14, C:0.00, G:0.42, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:34845780 original size:28 final size:28
Alignment explanation
Indices: 34845704--34845782 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 28
34845694 AAATATTTAA
* *
34845704 TTATGGTTTAAGGGTTGGGGTTAAAGGT
1 TTATGGTTTAGGGGTAGGGGTTAAAGGT
* * * *
34845732 TTATAGTTTAGGGTTTA-GGGTTTAGGGT
1 TTATGGTTTAGGG-GTAGGGGTTAAAGGT
34845760 TTATGGTTTAGGGGTAGGGGTTA
1 TTATGGTTTAGGGGTAGGGGTTA
34845783 TGATGTAATA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
27 2 0.05
28 37 0.93
29 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.39, T:0.42
Consensus pattern (28 bp):
TTATGGTTTAGGGGTAGGGGTTAAAGGT
Found at i:34845781 original size:21 final size:21
Alignment explanation
Indices: 34845737--34845778 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
34845727 AAGGTTTATA
*
34845737 GTTTAGGGTTTAGGGTTTAGG
1 GTTTAGGGTTTAGGGTGTAGG
*
34845758 GTTTATGGTTTAGGG-GTAGG
1 GTTTAGGGTTTAGGGTGTAGG
34845778 G
1 G
34845779 GTTATGATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.14, C:0.00, G:0.45, T:0.40
Consensus pattern (21 bp):
GTTTAGGGTTTAGGGTGTAGG
Found at i:34845870 original size:21 final size:21
Alignment explanation
Indices: 34845808--34845881 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
34845798 TGTTTTGGGG
* * * *
34845808 TTTAGGGTTTATGATTTAAGA
1 TTTAAGGTTTAAGGTTTATGA
* **
34845829 TTTAAGGTTTAATGTCCATGA
1 TTTAAGGTTTAAGGTTTATGA
*
34845850 TTTAAGGTTTAGGGTTTATGA
1 TTTAAGGTTTAAGGTTTATGA
* *
34845871 TATAATGTTTA
1 TTTAAGGTTTA
34845882 TTATTTTCGG
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.28, C:0.03, G:0.22, T:0.47
Consensus pattern (21 bp):
TTTAAGGTTTAAGGTTTATGA
Found at i:34845914 original size:21 final size:21
Alignment explanation
Indices: 34845890--34845943 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
34845880 TATTATTTTC
*
34845890 GGTTTA-GAGTTTTTGGTTTGG
1 GGTTTATG-GTTTATGGTTTGG
*
34845911 GGTTTATGGTTTATGGTTTAG
1 GGTTTATGGTTTATGGTTTGG
*
34845932 AGTTTATGGTTT
1 GGTTTATGGTTT
34845944 TTTGTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.54
Consensus pattern (21 bp):
GGTTTATGGTTTATGGTTTGG
Found at i:34845950 original size:21 final size:21
Alignment explanation
Indices: 34845898--34845950 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
34845888 TCGGTTTAGA
* *
34845898 GTTTTTGGTTTGGGGTTTATG
1 GTTTTTGGTTTAGAGTTTATG
*
34845919 GTTTATGGTTTAGAGTTTATG
1 GTTTTTGGTTTAGAGTTTATG
*
34845940 GTTTTTTGTTT
1 GTTTTTGGTTT
34845951 TATAGTTAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.09, C:0.00, G:0.30, T:0.60
Consensus pattern (21 bp):
GTTTTTGGTTTAGAGTTTATG
Found at i:34847728 original size:3 final size:3
Alignment explanation
Indices: 34847720--34847748 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
34847710 TGATTTGGGT
34847720 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
34847749 TACTGTCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:34850913 original size:43 final size:44
Alignment explanation
Indices: 34850759--34851082 Score: 262
Period size: 43 Copynumber: 7.6 Consensus size: 44
34850749 ATAATTTTTT
* * *
34850759 TAAAGGTCATGTTTTTTAGCGGCGTTTGT-GAGAAAAGCGCC-GT
1 TAAAGGTCATGTTCTTTAGCGGCGTTTCTAG-GAAAAGCGCCAGC
* * * * * * * *
34850802 TAAAGAT-TTTTTCTATAGCGGCGTTTGT-GGGAAAGTGTC-GC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTCTAGGAAAAGCGCCAGC
* *
34850843 TAAAGGTCATGCT-TTTAGCGGCGTTTCTAGGAAAAGTG-CAGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTCTAGGAAAAGCGCCAGC
* *
34850885 TAAAGGGT-ATGTTCTTTAGCGACGTTTCTAGGAAAAGCGTC-GC
1 TAAA-GGTCATGTTCTTTAGCGGCGTTTCTAGGAAAAGCGCCAGC
* * * *
34850928 TAAAGGTCATGTTCTTTATCGGCGTTTGT-GGGAATGCGCCA-C
1 TAAAGGTCATGTTCTTTAGCGGCGTTTCTAGGAAAAGCGCCAGC
* * * *
34850970 TAAAGGTCATGTGCTTTAGCGGGGTTTGTAGGAAAAGCACC-GC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTCTAGGAAAAGCGCCAGC
* * * *
34851013 TAAAGGTCATGTTCTTTAGCGACATTTATAGGAAAAGCGCCA-T
1 TAAAGGTCATGTTCTTTAGCGGCGTTTCTAGGAAAAGCGCCAGC
**
34851056 TAAAAATCATGTT-TTATAGCGGCGTTT
1 TAAAGGTCATGTTCTT-TAGCGGCGTTT
34851083 TTTTCATGAA
Statistics
Matches: 227, Mismatches: 42, Indels: 24
0.77 0.14 0.08
Matches are distributed among these distances:
41 28 0.12
42 78 0.34
43 120 0.53
44 1 0.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.32
Consensus pattern (44 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTCTAGGAAAAGCGCCAGC
Found at i:34850973 original size:85 final size:84
Alignment explanation
Indices: 34850759--34851082 Score: 305
Period size: 85 Copynumber: 3.8 Consensus size: 84
34850749 ATAATTTTTT
* ** * * * *
34850759 TAAAGGTCATGTTTTTTAGCGGCGTTTGTGAGAAAAGCGCCGTTAAAGATTTTTTCTATAGCGGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTG-GAAAAGCGCCACTAAAGGTATGTTCTTTAGCGGC
* *
34850824 GTTTGT-GGGAAAGTGTCGC
65 GTTTGTAGGAAAAGCGTCGC
* * *
34850843 TAAAGGTCATGCT-TTTAGCGGCGTTTCTAGGAAAAGTG-CAGCTAAAGGGTATGTTCTTTAGCG
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGT-GGAAAAGCGCCA-CTAAA-GGTATGTTCTTTAGCG
* *
34850906 ACGTTTCTAGGAAAAGCGTCGC
63 GCGTTTGTAGGAAAAGCGTCGC
* * * * *
34850928 TAAAGGTCATGTTCTTTATCGGCGTTTGTGGGAATGCGCCACTAAAGGTCATGTGCTTTAGCGGG
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGAAAAGCGCCACTAAAGGT-ATGTTCTTTAGCGGC
**
34850993 GTTTGTAGGAAAAGCACCGC
65 GTTTGTAGGAAAAGCGTCGC
* * * * **
34851013 TAAAGGTCATGTTCTTTAGCGACATTTATAGGAAAAGCGCCATTAAAAATCATGTT-TTATAGCG
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGT-GGAAAAGCGCCACTAAAGGT-ATGTTCTT-TAGCG
34851077 GCGTTT
63 GCGTTT
34851083 TTTTCATGAA
Statistics
Matches: 195, Mismatches: 36, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
82 1 0.01
83 25 0.13
84 34 0.17
85 90 0.46
86 45 0.23
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.32
Consensus pattern (84 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGAAAAGCGCCACTAAAGGTATGTTCTTTAGCGGCG
TTTGTAGGAAAAGCGTCGC
Found at i:34851066 original size:128 final size:127
Alignment explanation
Indices: 34850759--34851082 Score: 361
Period size: 128 Copynumber: 2.6 Consensus size: 127
34850749 ATAATTTTTT
* * * * * *
34850759 TAAAGGTCATGTTTTTTAGCGGCGTTTGT-GAGAAAAGCGCCGTTAAAGAT-TTTTTCTATAGCG
1 TAAAGGTCATGTTCTTTAGCGACGTTTATAG-GAAAAGCGCCGTTAAAGATCATGTTCTTTAGCG
* * * **
34850822 GCGTTTGTGGGAAAGTGTCGCTAAAGGTCATGCTTTTAGCGGCGTTTCTAGGAAAAGTGCAGC
65 GCGTTTGTGGGAAAGCGCCACTAAAGGTCATGCTTTTAGCGGCGTTTCTAGGAAAAGCACAGC
* * * * *
34850885 TAAAGGGT-ATGTTCTTTAGCGACGTTTCTAGGAAAAGCGTCGCTAAAGGTCATGTTCTTTATCG
1 TAAA-GGTCATGTTCTTTAGCGACGTTTATAGGAAAAGCGCCGTTAAAGATCATGTTCTTTAGCG
* * * *
34850949 GCGTTTGTGGGAATGCGCCACTAAAGGTCATG-TGCTTTAGCGGGGTTTGTAGGAAAAGCACCGC
65 GCGTTTGTGGGAAAGCGCCACTAAAGGTCATGCT--TTTAGCGGCGTTTCTAGGAAAAGCACAGC
* * *
34851013 TAAAGGTCATGTTCTTTAGCGACATTTATAGGAAAAGCGCCATTAAAAATCATGTT-TTATAGCG
1 TAAAGGTCATGTTCTTTAGCGACGTTTATAGGAAAAGCGCCGTTAAAGATCATGTTCTT-TAGCG
34851077 GCGTTT
65 GCGTTT
34851083 TTTTCATGAA
Statistics
Matches: 164, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
126 39 0.24
127 46 0.28
128 79 0.48
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.32
Consensus pattern (127 bp):
TAAAGGTCATGTTCTTTAGCGACGTTTATAGGAAAAGCGCCGTTAAAGATCATGTTCTTTAGCGG
CGTTTGTGGGAAAGCGCCACTAAAGGTCATGCTTTTAGCGGCGTTTCTAGGAAAAGCACAGC
Found at i:34855070 original size:37 final size:35
Alignment explanation
Indices: 34855008--34855077 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 35
34854998 TTCCAAAAAT
*
34855008 AATATTATTTTAATAGTTTAATATTAAATTTAATTG
1 AATATTATTTTAATAATTTAATATT-AATTTAATTG
*
34855044 AATACTTATTTTAATAATATT-TTATTAATTTAAT
1 AATA-TTATTTTAATAAT-TTAATATTAATTTAAT
34855078 ATTAAAGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 12 0.40
37 16 0.53
38 2 0.07
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (35 bp):
AATATTATTTTAATAATTTAATATTAATTTAATTG
Done.