Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 107 of 333
Found at i:34376163 original size:11 final size:11
Alignment explanation
Indices: 34376149--34376180 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
34376139 TCAAGTAAGT
34376149 TTCAAAAAAAA
1 TTCAAAAAAAA
34376160 TTCAAAAAAAA
1 TTCAAAAAAAA
34376171 TT-AAAAAAAA
1 TTCAAAAAAAA
34376181 AAACAAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (11 bp):
TTCAAAAAAAA
Found at i:34378785 original size:14 final size:14
Alignment explanation
Indices: 34378766--34378810 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
34378756 AACTCATCTT
*
34378766 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
34378780 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
34378793 AATTTAATTTAATG
1 AGTTTAATTTAATG
34378807 AGTT
1 AGTT
34378811 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:34379820 original size:29 final size:29
Alignment explanation
Indices: 34379787--34379844 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
34379777 ATAACCAAAC
*
34379787 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
34379816 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
34379845 ATTTGAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:34379839 original size:15 final size:15
Alignment explanation
Indices: 34379793--34379840 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
34379783 AAACCTACAA
*
34379793 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
34379808 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
34379822 AAACTTCATATCCAT
1 AAACTTCATATCCAT
34379837 AAAC
1 AAAC
34379841 CCATATTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:34381263 original size:39 final size:39
Alignment explanation
Indices: 34381183--34381263 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
34381173 GAACACATAT
* **
34381183 TAATGATACTCAAACTATGACATAATTAAAGACTCGTAC
1 TAATGATACTCAAACTATGACATAATTAAAGACACAAAC
**
34381222 TAATGATGTTCAAACTATGACATAATTAAAGACACAAAC
1 TAATGATACTCAAACTATGACATAATTAAAGACACAAAC
34381261 TAA
1 TAA
34381264 AATAACTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.27
Consensus pattern (39 bp):
TAATGATACTCAAACTATGACATAATTAAAGACACAAAC
Found at i:34386570 original size:45 final size:45
Alignment explanation
Indices: 34386511--34386664 Score: 211
Period size: 45 Copynumber: 3.4 Consensus size: 45
34386501 CGATGTCGAT
* * *
34386511 GTCCCAGACATGGTCTTACACGTAACCACATAGATCGATGTCAAT
1 GTCCCAGACGTGGTCTTACACGTAACCACATAGATCGATGCCAAC
* *
34386556 GTCCTAGACGTGGTCTTACATGTAACCACATAGATCGATGCCAAC
1 GTCCCAGACGTGGTCTTACACGTAACCACATAGATCGATGCCAAC
* ** *
34386601 GTCCCAAACGTGGTCTTACACAAAAACA-ATTAGATCGATGCCAAC
1 GTCCCAGACGTGGTCTTACACGTAACCACA-TAGATCGATGCCAAC
34386646 GTCCCAGACGTGGTCTTAC
1 GTCCCAGACGTGGTCTTAC
34386665 TCTGAAACAC
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 1 0.01
45 95 0.99
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (45 bp):
GTCCCAGACGTGGTCTTACACGTAACCACATAGATCGATGCCAAC
Found at i:34391038 original size:27 final size:26
Alignment explanation
Indices: 34390990--34391041 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
34390980 GCAAGGCTGC
*
34390990 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
34391016 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
34391042 TTACAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:34391210 original size:27 final size:27
Alignment explanation
Indices: 34391180--34391296 Score: 146
Period size: 27 Copynumber: 4.3 Consensus size: 27
34391170 GGTAAAATCG
* * *
34391180 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
*
34391207 TAATTCTGCCCTAC-AGGGTTATTTCGA
1 TAATTCTACCCTACAAGGG-TATTTCGA
* *
34391234 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
34391261 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
34391288 TAATTCTAC
1 TAATTCTAC
34391297 AACTTATCCA
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 4 0.05
27 72 0.91
28 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:34391254 original size:54 final size:54
Alignment explanation
Indices: 34391180--34391296 Score: 162
Period size: 54 Copynumber: 2.2 Consensus size: 54
34391170 GGTAAAATCG
* * * *
34391180 TAATTTTACCCCACAAGGGTATCTCGATAATTCTGCCCTACAGGGTTATTTCGA
1 TAATTCTACCCCACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGA
* * * *
34391234 TAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCCACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGA
34391288 TAATTCTAC
1 TAATTCTAC
34391297 AACTTATCCA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (54 bp):
TAATTCTACCCCACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGA
Found at i:34393706 original size:49 final size:49
Alignment explanation
Indices: 34393642--34393915 Score: 215
Period size: 49 Copynumber: 5.7 Consensus size: 49
34393632 TATCCATCAA
*
34393642 GTCGATGCCATGTCCCAGACATGGTTTTACACTAACTATCAAAATTGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATTGAG
* * * * *
34393691 GTCGATGCCATGTCCCATACATGGTCTTACACTAGCTCATC--CA-TCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAACT-ATCAAAATTGAG
* * *
34393738 GTCGATGCCATGTCCCAAACATGGTCTTACACTGACTATCAAAATCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATTGAG
* *** * * *** *
34393787 GCCGACAACATGTCCCAGACATGGTCTTACACTAGCTCTCACATACCCG-T
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCA-A-AATTGAG
* * * **
34393837 GCCGATGCCATGCCCCAGACATGGTCTTACACTGAC-A-C-ATCTTGTAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATTG-AG
* *
34393884 CT-AATG-CATGTCCCAGACATGGTCTTACACTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTA
34393916 GCTCTCACAT
Statistics
Matches: 177, Mismatches: 40, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
45 26 0.15
46 7 0.04
47 36 0.20
48 3 0.02
49 68 0.38
50 34 0.19
51 3 0.02
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATTGAG
Found at i:34393739 original size:96 final size:96
Alignment explanation
Indices: 34393599--34393919 Score: 375
Period size: 96 Copynumber: 3.4 Consensus size: 96
34393589 TATAATGCCA
* * * *
34393599 ATGCTATGTCCCAGACATGGTCTTTCACTGGCTTATCCATCAAGTCGATGCCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAGACAT
* *
34393664 GGTTTTACACTAACTATCAAAATTGAGGTCG
66 GGTCTTACACTGACTATCAAAATTGAGGTCG
* *
34393695 ATGCCATGTCCCATACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAAACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAGACAT
* *
34393760 GGTCTTACACTGACTATCAAAATCGAGGCCG
66 GGTCTTACACTGACTATCAAAATTGAGGTCG
*** ** *
34393791 ACAACATGTCCCAGACATGGTCTTACACTAGCTC-TCACATACCCGTGCCGATGCCATGCCCCAG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-CAT-CAAGT--CGATGCCATGTCCCAG
** * *
34393855 ACATGGTCTTACACTGAC-A-C-ATCTTGTAGCT-A
62 ACATGGTCTTACACTGACTATCAAAATTG-AGGTCG
34393887 ATG-CATGTCCCAGACATGGTCTTACACTAGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC
34393920 TCACATATCC
Statistics
Matches: 194, Mismatches: 26, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
95 32 0.16
96 123 0.63
97 6 0.03
98 1 0.01
99 32 0.16
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAGACAT
GGTCTTACACTGACTATCAAAATTGAGGTCG
Found at i:34395756 original size:16 final size:18
Alignment explanation
Indices: 34395725--34395757 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
34395715 AACTCGTCAC
34395725 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
34395743 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
34395758 AATTCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:34400290 original size:19 final size:19
Alignment explanation
Indices: 34400266--34400302 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
34400256 AAATTTAGTC
*
34400266 CTATATTTATTATATTATT
1 CTATATTAATTATATTATT
34400285 CTATATTAATTATATTAT
1 CTATATTAATTATATTAT
34400303 GGATTGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
CTATATTAATTATATTATT
Found at i:34414767 original size:47 final size:47
Alignment explanation
Indices: 34414710--34415013 Score: 428
Period size: 47 Copynumber: 6.4 Consensus size: 47
34414700 ATTGATGTAC
* * *
34414710 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
34414757 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * *
34414806 AAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
34414853 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
34414900 AAATGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
34414947 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
34414994 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
34415014 TCCCGAAGGG
Statistics
Matches: 236, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 190 0.81
49 46 0.19
ACGTcount: A:0.35, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:34418591 original size:43 final size:43
Alignment explanation
Indices: 34418491--34418613 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 43
34418481 AATTAAGAAT
* * * * * **
34418491 TCCAAACTCATTAAGTGGTCCGGGTTCGTTATATATG-TGGCA
1 TCCAAGCTCATTGAGTGGTCCGAGTTCATTATAGATGCAAGCA
34418533 TCCAAGCTCATTGAGTGGTCCGAGTTCATTATAGATGCAAGCA
1 TCCAAGCTCATTGAGTGGTCCGAGTTCATTATAGATGCAAGCA
* * * * *
34418576 TCCGAGCTTATTGAGTGGTCTGAGTTCATAATGGATGC
1 TCCAAGCTCATTGAGTGGTCCGAGTTCATTATAGATGC
34418614 GATACATGTG
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 32 0.47
43 36 0.53
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
TCCAAGCTCATTGAGTGGTCCGAGTTCATTATAGATGCAAGCA
Found at i:34422325 original size:42 final size:43
Alignment explanation
Indices: 34422243--34422341 Score: 112
Period size: 42 Copynumber: 2.3 Consensus size: 43
34422233 TCCCGGATAT
* * ** *
34422243 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCTCAGACAG
1 GGTCTTACACGTAAGTCAATATCGATGCCAATGTCCCAGACAG
*
34422286 GGTCTTACACG-AAGTCAA-ATACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAAGTCAATAT-CGATGCCAATGTCCCAGACAG
*
34422328 GGTCTTATACGTAA
1 GGTCTTACACGTAA
34422342 ATCTCAATCG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.04
42 33 0.70
43 12 0.26
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAAGTCAATATCGATGCCAATGTCCCAGACAG
Found at i:34422442 original size:47 final size:47
Alignment explanation
Indices: 34422371--34422464 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
34422361 TCCCAGACAC
*
34422371 AGTCTTATACGATGTCTCAAACAGATGTCAACTTTTCTCTAGAAACA
1 AGTCTTATACGATATCTCAAACAGATGTCAACTTTTCTCTAGAAACA
* *
34422418 AGTCTTATACGATATCTCAGACAGATGTCAACTTTTCTTTAGAAACA
1 AGTCTTATACGATATCTCAAACAGATGTCAACTTTTCTCTAGAAACA
34422465 TACAGAGCTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (47 bp):
AGTCTTATACGATATCTCAAACAGATGTCAACTTTTCTCTAGAAACA
Found at i:34438624 original size:13 final size:13
Alignment explanation
Indices: 34438606--34438633 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
34438596 CATATATGCA
34438606 CATATTTACAAAC
1 CATATTTACAAAC
34438619 CATATTTACAAAC
1 CATATTTACAAAC
34438632 CA
1 CA
34438634 AAACATATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (13 bp):
CATATTTACAAAC
Found at i:34438968 original size:12 final size:12
Alignment explanation
Indices: 34438951--34438975 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34438941 TAACAAACCT
34438951 TTCATATGCTTA
1 TTCATATGCTTA
34438963 TTCATATGCTTA
1 TTCATATGCTTA
34438975 T
1 T
34438976 ATGCAAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TTCATATGCTTA
Found at i:34439180 original size:39 final size:39
Alignment explanation
Indices: 34439089--34439230 Score: 221
Period size: 40 Copynumber: 3.6 Consensus size: 39
34439079 ACGATATCTT
* * *
34439089 GCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATGTC-GATC
* *
34439129 GCATACTAAGTGCCATATATAGCTGAAGCTATGTCGATC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATGTCGATC
34439168 GCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATGTCG-ATC
34439208 GCACACTAAGTGCCATATATAGC
1 GCACACTAAGTGCCATATATAGC
34439231 AGATTTGTCG
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 37 0.39
40 57 0.61
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (39 bp):
GCACACTAAGTGCCATATATAGCCGAAGCTATGTCGATC
Found at i:34440885 original size:25 final size:27
Alignment explanation
Indices: 34440848--34440900 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
34440838 TCAAACATGC
34440848 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
34440874 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
34440900 A
1 A
34440901 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:34442422 original size:26 final size:26
Alignment explanation
Indices: 34442392--34442447 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
34442382 TGAAATGCCC
34442392 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
34442418 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
34442444 ATCA
1 ATCA
34442448 ATTTTTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:34443731 original size:9 final size:9
Alignment explanation
Indices: 34443709--34443764 Score: 58
Period size: 9 Copynumber: 5.9 Consensus size: 9
34443699 TTATTTTATG
34443709 TAAAAGAAA
1 TAAAAGAAA
* *
34443718 GAAAATAAA
1 TAAAAGAAA
34443727 TAAAAGAAA
1 TAAAAGAAA
34443736 TACTAAAGATAA
1 TA--AAAGA-AA
34443748 TAAAAGAAA
1 TAAAAGAAA
*
34443757 GAAAAGAA
1 TAAAAGAA
34443765 TGAAAGTGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 25 0.64
10 5 0.13
11 5 0.13
12 4 0.10
ACGTcount: A:0.73, C:0.02, G:0.12, T:0.12
Consensus pattern (9 bp):
TAAAAGAAA
Found at i:34445773 original size:48 final size:48
Alignment explanation
Indices: 34445708--34445954 Score: 422
Period size: 48 Copynumber: 5.1 Consensus size: 48
34445698 GCTGAAATTG
* *
34445708 ATGTATGAGATAAGTATATGTGGTAAAGACGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
34445756 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
34445804 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
* *
34445854 ATATATGAGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
34445902 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
34445950 ATGTA
1 ATGTA
34445955 GGCGATGTGT
Statistics
Matches: 188, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
48 141 0.75
49 4 0.02
50 43 0.23
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:34445889 original size:98 final size:98
Alignment explanation
Indices: 34445708--34445951 Score: 420
Period size: 98 Copynumber: 2.5 Consensus size: 98
34445698 GCTGAAATTG
* * *
34445708 ATGTATGAGATAAGTATATGTGGTAAAGACGAATGGCTAATGTG-AA-ATATGTATGAGATATGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGT
34445771 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
66 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
34445804 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATATATATGAGATATGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGT
*
34445869 ATATGTGGTAAAGCTGAATGGCTAATGTGAAAT
66 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
34445902 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
34445952 GTAGGCGATG
Statistics
Matches: 139, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
96 41 0.29
97 2 0.01
98 96 0.69
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (98 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGT
ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:34446209 original size:37 final size:37
Alignment explanation
Indices: 34446101--34446209 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
34446091 GGAAATATAT
*
34446101 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTA
*
34446138 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTA
* * *
34446175 TCCGGGTAAGACTCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
34446210 CATCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTA
Found at i:34447518 original size:40 final size:40
Alignment explanation
Indices: 34447463--34447781 Score: 413
Period size: 40 Copynumber: 8.0 Consensus size: 40
34447453 GAGAGTTATA
* *
34447463 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
34447503 TATATCCGGGTTAAGTACCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
34447543 TATATCCGGGCTAAGTCCCGAAGAACATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
34447583 TATATCCAGGCTAAGTCCCGAAGATCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
34447623 TGTATCCGGGCTAAGTCCCGAAGAGCATTTGTCCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * * * * *
34447663 TATATCTGAGCTAAGTCTCAAAGAGCATTTGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
34447703 TATATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
34447743 TATATCCGGGCTAGGTCCTGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
34447782 ATGTGTATTC
Statistics
Matches: 239, Mismatches: 40, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 239 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:34447995 original size:25 final size:25
Alignment explanation
Indices: 34447945--34447995 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
34447935 TGTGTAACAA
* *
34447945 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
34447970 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
34447995 C
1 C
34447996 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:34451298 original size:48 final size:48
Alignment explanation
Indices: 34451233--34451479 Score: 413
Period size: 48 Copynumber: 5.1 Consensus size: 48
34451223 GCTGAAATTG
*
34451233 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
34451281 ATGTATGAGATATGTATATGTGATAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
34451329 ATGTATGAGATATGTATATGTGGAAAAGCCGAATGGTTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
34451377 ATATATACGAGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAAT
1 ATGTAT--GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
34451427 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
34451475 ATGTA
1 ATGTA
34451480 GGCGATGTGT
Statistics
Matches: 185, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
48 141 0.76
50 44 0.24
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:34451418 original size:98 final size:96
Alignment explanation
Indices: 34451233--34451476 Score: 407
Period size: 98 Copynumber: 2.5 Consensus size: 96
34451223 GCTGAAATTG
* *
34451233 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTAT
34451298 ATGTGATAAAGCCGAATGGCTAATGTGAAAT
66 ATGTGATAAAGCCGAATGGCTAATGTGAAAT
* *
34451329 ATGTATGAGATATGTATATGTGGAAAAGCCGAATGGTTAATGTGAAATATATATACGAGATATGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATAT--GAGATATGT
* *
34451394 ATATGTGGTAAAGCTGAATGGCTAATGTGAAAT
64 ATATGTGATAAAGCCGAATGGCTAATGTGAAAT
*
34451427 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
34451477 GTAGGCGATG
Statistics
Matches: 137, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
96 50 0.36
98 87 0.64
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (96 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTAT
ATGTGATAAAGCCGAATGGCTAATGTGAAAT
Found at i:34451726 original size:37 final size:37
Alignment explanation
Indices: 34451626--34451734 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
34451616 GGAAATATAT
* *
34451626 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
34451663 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
34451700 TCCGGGTAAGACCCGATAACTTCGTGTGGAAATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
34451735 CATCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:34458149 original size:26 final size:26
Alignment explanation
Indices: 34458103--34458155 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
34458093 TCAAACATGC
*
34458103 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
34458129 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
34458155 A
1 A
34458156 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:34459676 original size:26 final size:26
Alignment explanation
Indices: 34459646--34459701 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
34459636 TGAAATGCCC
34459646 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34459672 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34459698 ATCA
1 ATCA
34459702 ATTTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:34462993 original size:34 final size:33
Alignment explanation
Indices: 34462955--34463020 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 33
34462945 ATTTCAATCA
* * * *
34462955 GGGCCTTAGCCCATTACAGTATCAGTATCAGTGT
1 GGGCCTGAGCCAATCACAGTAACAGTAT-AGTGT
34462989 GGGCCTGAGCCAATCACAGTAACAGTATAGTG
1 GGGCCTGAGCCAATCACAGTAACAGTATAGTG
34463021 CAGATATGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (33 bp):
GGGCCTGAGCCAATCACAGTAACAGTATAGTGT
Found at i:34466239 original size:2 final size:2
Alignment explanation
Indices: 34466234--34466266 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
34466224 CATATATATA
34466234 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
34466267 AGTCAACTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:34474207 original size:55 final size:54
Alignment explanation
Indices: 34474140--34474394 Score: 233
Period size: 55 Copynumber: 4.8 Consensus size: 54
34474130 ATTAGGGTTT
*
34474140 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * ** * * *
34474195 AAGGAAATCATGTAAGATCATGTTAAGACATGGC-ATTGATAACTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
34474250 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
34474303 AAGGATACCATGTAAGACCCTGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* ** *
34474352 AAGGATACCACGTAAGACCATGAAAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
34474395 GTACCCGCGT
Statistics
Matches: 163, Mismatches: 30, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
49 38 0.23
52 7 0.04
53 39 0.24
54 12 0.07
55 63 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:34481047 original size:27 final size:27
Alignment explanation
Indices: 34481016--34481193 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
34481006 TAAATTGTAC
34481016 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34481043 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
34481069 ATGCACTAAGTGCGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34481097 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34481125 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34481152 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34481179 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34481194 GAGTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34481157 original size:82 final size:81
Alignment explanation
Indices: 34481017--34481172 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
34481007 AAATTGTACA
* *
34481017 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGC
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGC
34481082 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
34481098 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
* *
34481162 GTGCGAGTTGA
64 GCGCGAATTGA
34481173 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGC
GCGAATTGACCATGCG
Found at i:34481184 original size:82 final size:81
Alignment explanation
Indices: 34481013--34481193 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
34481003 GATTAAATTG
* *
34481013 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34481078 GTGCGCGAATTGACCA
66 GTGCGCGAATTGACCA
* * ** *
34481094 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* * **
34481158 AAGTGTGCGAGTTGATTA
64 AAGTGCGCGAATTGACCA
* *
34481176 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
34481194 GAGTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGCGCGAATTGACCA
Found at i:34496388 original size:35 final size:35
Alignment explanation
Indices: 34496349--34496421 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
34496339 CACATTTATG
34496349 TATGATAATTCAATGCACTTCATGTACCATAGAAA
1 TATGATAATTCAATGCACTTCATGTACCATAGAAA
*
34496384 TATGATAATTCAATGCACTTCATGTACCATAGACA
1 TATGATAATTCAATGCACTTCATGTACCATAGAAA
34496419 TAT
1 TAT
34496422 TTTTAAATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (35 bp):
TATGATAATTCAATGCACTTCATGTACCATAGAAA
Found at i:34496814 original size:30 final size:30
Alignment explanation
Indices: 34496780--34496840 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
34496770 TCCTTAACTC
34496780 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
34496810 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
34496840 A
1 A
34496841 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:34504335 original size:40 final size:39
Alignment explanation
Indices: 34504280--34504510 Score: 302
Period size: 40 Copynumber: 5.8 Consensus size: 39
34504270 CGGATGATAA
* * *
34504280 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* *
34504320 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* * *
34504360 CCGGGCTAAGTCCCGAAGGAATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
*
34504400 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
*
34504440 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
* *
34504480 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
34504511 AGCTATATTC
Statistics
Matches: 174, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 8 0.05
40 166 0.95
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATT
Found at i:34504493 original size:120 final size:120
Alignment explanation
Indices: 34504280--34504498 Score: 352
Period size: 120 Copynumber: 1.8 Consensus size: 120
34504270 CGGATGATAA
* *
34504280 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
*
34504345 TGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGAATTTGTGCGAGTTATTACAT
66 TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGAATTTGTGCGAGTTATTACAT
*
34504400 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACTA-TATCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAG-TGACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
* *
34504463 GGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGG
64 GGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGG
34504499 CATTGAGCGA
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
119 1 0.01
120 89 0.98
121 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGAATTTGTGCGAGTTATTACAT
Found at i:34508115 original size:20 final size:20
Alignment explanation
Indices: 34508090--34508134 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
34508080 AGGGACTAAA
*
34508090 ATGAAAAATTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
* *
34508110 ATGAAAAATTCTGAAATTTT
1 ATGAAAAATTCTAAAATTTG
34508130 ATGAA
1 ATGAA
34508135 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:34510234 original size:21 final size:20
Alignment explanation
Indices: 34510208--34510247 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
34510198 GCATTACGGT
34510208 AAGTTGGGCCTCAAGGGGCTG
1 AAGTTGGGCC-CAAGGGGCTG
*
34510229 AAGTTGGGCCCAATGGGCT
1 AAGTTGGGCCCAAGGGGCT
34510248 TTCGGGCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.20, C:0.20, G:0.40, T:0.20
Consensus pattern (20 bp):
AAGTTGGGCCCAAGGGGCTG
Found at i:34510624 original size:20 final size:21
Alignment explanation
Indices: 34510589--34510645 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
34510579 TGATACGTGG
34510589 GATATGATAT--ACATGAT-T
1 GATATGATATGCACATGATAT
34510607 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
*
34510628 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
34510646 GAATTCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Found at i:34510742 original size:25 final size:25
Alignment explanation
Indices: 34510695--34510765 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
34510685 GAGGAAGTGC
* **
34510695 AAAAGGGCTTATTCCCCAGTTTATTG
1 AAAAGGGCTT-TGCCCCAGTTTACCG
34510721 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
34510746 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
34510766 ATTAAAGAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 32 0.76
26 10 0.24
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:34512924 original size:42 final size:41
Alignment explanation
Indices: 34512841--34512925 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 41
34512831 TGCTCAAAAT
* * *
34512841 TGTGCACATGGGCAGAGACACGGGCTTGTGTCTCAGTCGTG
1 TGTGCACATGGCCAGAGACACGGGCGTGTGTCTCAGCCGTG
**
34512882 TGTGCCACATGGCCTAGA-ACACGGGCGTGTGTCTTGGCCGTG
1 TGTG-CACATGGCC-AGAGACACGGGCGTGTGTCTCAGCCGTG
34512924 TG
1 TG
34512926 AAACCTGCAC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
41 4 0.11
42 30 0.81
43 3 0.08
ACGTcount: A:0.15, C:0.24, G:0.36, T:0.25
Consensus pattern (41 bp):
TGTGCACATGGCCAGAGACACGGGCGTGTGTCTCAGCCGTG
Found at i:34517503 original size:26 final size:26
Alignment explanation
Indices: 34517433--34517621 Score: 148
Period size: 27 Copynumber: 7.1 Consensus size: 26
34517423 AAACATACAT
* * *
34517433 CACATAGAGGTAAAACAATCATCTTAC
1 CACATA-AGGAAAAACAGTCATTTTAC
* * * *
34517460 CATAAAAGTACAAAACAGTTATTTTAC
1 CACATAAGGA-AAAACAGTCATTTTAC
34517487 CACATAAGGAAAAACAGTCATTTTAC
1 CACATAAGGAAAAACAGTCATTTTAC
* * * *
34517513 CTCATAAGGGCAAAACAATCATTTCAC
1 CACATAA-GGAAAAACAGTCATTTTAC
* *
34517540 C-CTATAAGGGCAAAGCAGTCATTTTAC
1 CAC-ATAA-GGAAAAACAGTCATTTTAC
* *
34517567 CCCATAAGGACAAAATAGTCATTTTAC
1 CACATAAGGA-AAAACAGTCATTTTAC
* *
34517594 CTCATAAGGGAAAACTAGTCA-TTTAC
1 CACATAAGGAAAAAC-AGTCATTTTAC
34517620 CA
1 CA
34517622 ATTTGAGGGT
Statistics
Matches: 131, Mismatches: 25, Indels: 13
0.78 0.15 0.08
Matches are distributed among these distances:
26 36 0.27
27 94 0.72
28 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (26 bp):
CACATAAGGAAAAACAGTCATTTTAC
Found at i:34517567 original size:54 final size:53
Alignment explanation
Indices: 34517469--34517617 Score: 165
Period size: 54 Copynumber: 2.8 Consensus size: 53
34517459 CCATAAAAGT
* * * * * *
34517469 ACAAAACAGTTATTTTACCACATAAGGAAAAACAGTCATTTTACCTCATAAGG
1 ACAAAACAATCATTTCACCTCATAAGGGAAAACAGTCATTTTACCCCATAAGG
* *
34517522 GCAAAACAATCATTTCACC-CTATAAGGGCAAAGCAGTCATTTTACCCCATAAGG
1 ACAAAACAATCATTTCACCTC-ATAAGGG-AAAACAGTCATTTTACCCCATAAGG
* * *
34517576 ACAAAATAGTCATTTTACCTCATAAGGGAAAACTAGTCATTT
1 ACAAAACAATCATTTCACCTCATAAGGGAAAAC-AGTCATTT
34517618 ACCAATTTGA
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
52 1 0.01
53 25 0.31
54 53 0.66
55 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (53 bp):
ACAAAACAATCATTTCACCTCATAAGGGAAAACAGTCATTTTACCCCATAAGG
Found at i:34517608 original size:80 final size:78
Alignment explanation
Indices: 34517435--34517621 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 78
34517425 ACATACATCA
* * *
34517435 CATAGAGGTAAAACAATCATCTTACCATAAAAGTACAAAACAGTTATTTTACCACATAAGGAAAA
1 CATA-AGGGAAAACAATCAT-TTACCATAAAAGGACAAAACAGTCATTTTACCACATAAGGAAAA
34517500 ACAGTCATTTTACCT
64 ACAGTCATTTTACCT
* * * * *
34517515 CATAAGGGCAAAACAATCATTTCACCCTATAAGGGCAAAGCAGTCATTTTACCCCATAAGGACAA
1 CATAAGGG-AAAACAATCATTT-ACCATAAAAGGACAAAACAGTCATTTTACCACATAAGGA-AA
*
34517580 AATAGTCATTTTACCT
63 AACAGTCATTTTACCT
*
34517596 CATAAGGGAAAACTAGTCATTTACCA
1 CATAAGGGAAAAC-AATCATTTACCA
34517622 ATTTGAGGGT
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
79 5 0.05
80 55 0.60
81 32 0.35
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (78 bp):
CATAAGGGAAAACAATCATTTACCATAAAAGGACAAAACAGTCATTTTACCACATAAGGAAAAAC
AGTCATTTTACCT
Found at i:34524740 original size:96 final size:96
Alignment explanation
Indices: 34524638--34524894 Score: 446
Period size: 98 Copynumber: 2.7 Consensus size: 96
34524628 GATAATTGTG
34524638 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
34524703 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATAGCCGATGTGATGA
34524734 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
1 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
34524797 ATATGTGATAAGGCCTAATAGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATAGCCGATGTGATGA
* * *
34524830 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
34524895 GTGACAGGGC
Statistics
Matches: 153, Mismatches: 4, Indels: 8
0.93 0.02 0.05
Matches are distributed among these distances:
94 48 0.31
95 2 0.01
96 50 0.33
97 2 0.01
98 51 0.33
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (96 bp):
ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
ATGTGATAAGGCCTAATAGCCGATGTGATGA
Found at i:34524962 original size:47 final size:47
Alignment explanation
Indices: 34524638--34524949 Score: 464
Period size: 47 Copynumber: 6.6 Consensus size: 47
34524628 GATAATTGTG
* *
34524638 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
34524685 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
34524734 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
34524783 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
34524830 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
34524877 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGGCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
34524924 ATGTGAAAGTGTATA-AGTGTGATAAG
1 ATGTGAAAGTGTATATA-TGTGATAAG
34524950 TCCCGAAAGG
Statistics
Matches: 246, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 149 0.61
49 96 0.39
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:34527148 original size:38 final size:38
Alignment explanation
Indices: 34527084--34527158 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
34527074 AATCCGAGTT
*
34527084 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
34527122 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
34527159 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:34527271 original size:40 final size:40
Alignment explanation
Indices: 34527212--34527532 Score: 464
Period size: 40 Copynumber: 8.1 Consensus size: 40
34527202 AGGTCTCGAC
*
34527212 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
34527251 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
34527291 GATGTACCCGGGCTAAGTCCTGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
34527331 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
34527371 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* ** *
34527411 GATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * ** * *
34527451 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * *
34527491 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
34527531 GA
1 GA
34527533 CGTGTATTCG
Statistics
Matches: 255, Mismatches: 26, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
39 4 0.02
40 251 0.98
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:34531009 original size:49 final size:49
Alignment explanation
Indices: 34530949--34531358 Score: 626
Period size: 49 Copynumber: 8.6 Consensus size: 49
34530939 GATAATTGTG
34530949 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
34530996 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
34531043 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
34531092 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
34531141 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGCTGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
34531190 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
34531239 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
34531286 ATGTGAAAGTG--TATATATGTGA-CAGGACCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGG-CCTAATGGCCGATGTGATGA
*
34531333 ATATGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
34531359 TCTCGAAGGG
Statistics
Matches: 338, Mismatches: 17, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
46 3 0.01
47 137 0.41
48 5 0.01
49 193 0.57
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:34531444 original size:39 final size:39
Alignment explanation
Indices: 34531401--34531480 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
34531391 GGGTTAAAAC
34531401 CCCACAGGCTTTATGCGAGAGTATTATCCTGATTAATGT
1 CCCACAGGCTTTATGCGAGAGTATTATCCTGATTAATGT
34531440 CCCACAGGCTTTATGCGAGAGTATTATCCTGATTAATGT
1 CCCACAGGCTTTATGCGAGAGTATTATCCTGATTAATGT
34531479 CC
1 CC
34531481 GTAGGCTTCG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (39 bp):
CCCACAGGCTTTATGCGAGAGTATTATCCTGATTAATGT
Found at i:34537050 original size:14 final size:14
Alignment explanation
Indices: 34537031--34537081 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 14
34537021 CATGCAAATT
34537031 AAAAGAAAAAAGAA
1 AAAAGAAAAAAGAA
34537045 AAAAGAAAAGAA-AGA
1 AAAAGAAAA-AAGA-A
34537060 AAAAGAAAGAAAGAA
1 AAAAGAAA-AAAGAA
34537075 AAGAAGA
1 AA-AAGA
34537082 GAGAACGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 10 0.31
15 16 0.50
16 6 0.19
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAGAA
Found at i:34537055 original size:19 final size:20
Alignment explanation
Indices: 34537031--34537079 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
34537021 CATGCAAATT
34537031 AAAAGAAAAAAGAAA-AAAG
1 AAAAGAAAAAAGAAAGAAAG
34537050 AAAAGAAAGAAAAAGAAAGAAAG
1 AAAAG--A-AAAAAGAAAGAAAG
34537073 AAAAGAA
1 AAAAGAA
34537080 GAGAGAACGC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 5 0.19
20 1 0.04
21 2 0.08
22 9 0.35
23 9 0.35
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAAGAAAAAAGAAAGAAAG
Found at i:34537060 original size:4 final size:4
Alignment explanation
Indices: 34537032--34537075 Score: 51
Period size: 4 Copynumber: 11.8 Consensus size: 4
34537022 ATGCAAATTA
34537032 AAAG AAA- AAAG AAA- AAAG AAAAG AAAG -AA- AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG -AAAG AAAG AAAG AAAG AAAG AAAG AAA
34537076 AGAAGAGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
3 10 0.29
4 21 0.60
5 4 0.11
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:34537062 original size:23 final size:23
Alignment explanation
Indices: 34537032--34537079 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
34537022 ATGCAAATTA
34537032 AAAGAAAAAAGAAA-AAAGAAAAG
1 AAAG-AAAAAGAAAGAAAGAAAAG
34537055 AAAGAAAAAGAAAGAAAGAAAAG
1 AAAGAAAAAGAAAGAAAGAAAAG
34537078 AA
1 AA
34537080 GAGAGAACGC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (23 bp):
AAAGAAAAAGAAAGAAAGAAAAG
Found at i:34541297 original size:22 final size:23
Alignment explanation
Indices: 34541261--34541303 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
34541251 ATGAAATGAT
34541261 ATGGTAATATGCTTGAAATTGGA
1 ATGGTAATATGCTTGAAATTGGA
* *
34541284 ATGGTGATAT-CTTGTAATTG
1 ATGGTAATATGCTTGAAATTG
34541304 TAAGCTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.30, C:0.05, G:0.26, T:0.40
Consensus pattern (23 bp):
ATGGTAATATGCTTGAAATTGGA
Found at i:34551932 original size:39 final size:40
Alignment explanation
Indices: 34551818--34551998 Score: 226
Period size: 40 Copynumber: 4.5 Consensus size: 40
34551808 GCTGCTCGTT
*
34551818 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
34551858 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
34551898 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
34551937 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
34551978 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
34551999 TGGACATCAT
Statistics
Matches: 123, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 75 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:34551962 original size:79 final size:80
Alignment explanation
Indices: 34551820--34551998 Score: 222
Period size: 79 Copynumber: 2.2 Consensus size: 80
34551810 TGCTCGTTCA
* *
34551820 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
34551885 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
**
34551900 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
34551962 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
34551979 AAAGCCTTCGGGACTTAGCC
1 AATGCCTTCGGGACTTAGCC
34551999 TGGACATCAT
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 4 0.05
79 59 0.69
80 23 0.27
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:34560139 original size:79 final size:80
Alignment explanation
Indices: 34559997--34560179 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 80
34559987 TACTCGTTCA
* * *
34559997 AATGCCTTCGAGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGA
1 AATGCCTTCG-GGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGA
* *
34560061 T-TTAGTAAC-TCGCACC
65 TATGA-TAACTTAGCA-C
**
34560077 AATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGGA-CTTAACCCGGA
*
34560140 TATGATCACTTAGCAC
65 TATGATAACTTAGCAC
*
34560156 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
34560180 CATCATTCGA
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAT
ATGATAACTTAGCAC
Found at i:34560179 original size:40 final size:41
Alignment explanation
Indices: 34559995--34560179 Score: 213
Period size: 40 Copynumber: 4.6 Consensus size: 41
34559985 GCTACTCGTT
* * *
34559995 CAAATGCCTTCGAGACATAGCCCGGTTA-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* *
34560035 CAAATGCCTTCAGGACTTAACCCGGAT-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
*
34560075 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* * * *
34560114 CAAATGCCTTC-GGATCTTAGTCCGGATATGA-TCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATTAGTAAC-TCGCA
34560155 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34560180 CATCATTCGA
Statistics
Matches: 124, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 75 0.60
41 14 0.11
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
Found at i:34568281 original size:79 final size:81
Alignment explanation
Indices: 34568172--34568354 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
34568162 TACTCGTTGA
* *
34568172 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
34568235 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
34568252 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
34568315 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
34568331 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
34568355 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:34568354 original size:40 final size:40
Alignment explanation
Indices: 34568171--34568354 Score: 232
Period size: 40 Copynumber: 4.6 Consensus size: 40
34568161 CTACTCGTTG
* *
34568171 AAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
* *
34568211 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
*
34568251 CAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCAC
* * * *
34568290 AAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC
1 AAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCAC
34568331 AAA-GCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGA
34568355 CATCATTCGA
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 79 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
Found at i:34572782 original size:49 final size:52
Alignment explanation
Indices: 34572710--34572886 Score: 213
Period size: 52 Copynumber: 3.5 Consensus size: 52
34572700 ACTAGTGACT
*
34572710 CAAGTGTGGTAATATGTGAAGGCCACTTTGAGAAG-A-GATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAACGATAGCTTTGGTCA
*
34572759 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAACGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAACGATAGCTTTGGTCA
* * * *
34572811 CAACTATGGTACTATGTGAAGGCCACTTTGTA-AAGAATG-TAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTG-AGAAGAACGATAGCTTTGGTC-A
* * *
34572862 CAAGGGTCGTACTATGTGCAGGCCA
1 CAAGTGTGGTACTATGTGAAGGCCA
34572887 TGGGGTATCC
Statistics
Matches: 111, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
49 33 0.30
50 3 0.03
51 34 0.31
52 41 0.37
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAACGATAGCTTTGGTCA
Found at i:34572876 original size:51 final size:51
Alignment explanation
Indices: 34572705--34572886 Score: 196
Period size: 51 Copynumber: 3.6 Consensus size: 51
34572695 ATGTCACTAG
*
34572705 TGACT-CAAGTGTGGTAATATGTGAAGGCCACTTTG-AGAAG-AGATAGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTA-AAGAAGATAGCTT
* * *
34572754 GGTC-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAACGATAGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAA-GATAGCTT
* * *
34572805 TG-GTCACAACTATGGTACTATGTGAAGGCCACTTTGTAAAGAATG-TAGCTT
1 TGACT-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAA-GATAGCTT
* * *
34572856 TGACTACAAGGGTCGTACTATGTGCAGGCCA
1 TGACTACAAGTGTGGTACTATGTGAAGGCCA
34572887 TGGGGTATCC
Statistics
Matches: 110, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
49 34 0.31
50 1 0.01
51 38 0.35
52 37 0.34
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (51 bp):
TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAGATAGCTT
Found at i:34574965 original size:39 final size:39
Alignment explanation
Indices: 34574920--34575079 Score: 284
Period size: 39 Copynumber: 4.1 Consensus size: 39
34574910 ATGCAAGACA
*
34574920 CTGGAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
34574959 CTGGAAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
34574998 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
34575037 CTGGAAATGTGTCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
34575076 CTGG
1 CTGG
34575080 TGCTGGTAAT
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 116 1.00
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:34580680 original size:39 final size:39
Alignment explanation
Indices: 34580616--34580772 Score: 266
Period size: 38 Copynumber: 4.1 Consensus size: 39
34580606 ATGCAAGACA
*
34580616 CTGGAAATGTATTC-GGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
34580654 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
34580693 -TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
34580731 CTGGAAATGTGTCCGGGCTAAAGACCCGCAGGCTT-GTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
34580769 CTGG
1 CTGG
34580773 TGCTGGTAAT
Statistics
Matches: 114, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
38 58 0.51
39 56 0.49
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:34580724 original size:77 final size:76
Alignment explanation
Indices: 34580617--34580765 Score: 262
Period size: 77 Copynumber: 1.9 Consensus size: 76
34580607 TGCAAGACAC
* *
34580617 TGGAAATGTATTCGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCG
1 TGGAAATGTATCCGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCCG
34580682 CAGGCTTCGTG
66 CAGGCTTCGTG
*
34580693 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTGTCCGGGCTAAAGACCC
1 TGGAAATGTATCC-GGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCC
34580758 GCAGGCTT
65 GCAGGCTT
34580766 GTGCTGGTGC
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
76 12 0.17
77 57 0.83
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.23
Consensus pattern (76 bp):
TGGAAATGTATCCGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCCG
CAGGCTTCGTG
Found at i:34587925 original size:27 final size:27
Alignment explanation
Indices: 34587893--34588194 Score: 358
Period size: 27 Copynumber: 11.2 Consensus size: 27
34587883 GTAGGCTAGC
* *
34587893 ATTACCGAAATACCCTTGTAAGGTAGAA
1 ATTACCGAAATACCCCTGTAGGGTA-AA
* *
34587921 A-TACCGAAATACCCTTGTGGGGTAGAA
1 ATTACCGAAATACCCCTGTAGGGTA-AA
34587948 A-TACCGAAATACCCCTGTAGGGTAAA
1 ATTACCGAAATACCCCTGTAGGGTAAA
**
34587974 ATTACTAAAATACCCCTGTAGGGTAAA
1 ATTACCGAAATACCCCTGTAGGGTAAA
* * *
34588001 ATTACTGAAATACCCCTGCAAGGTAAA
1 ATTACCGAAATACCCCTGTAGGGTAAA
* * *
34588028 ATTATCGAAATACCCCTATAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAAA
**
34588055 ATTACTAAAATACCCCTGTAGGGTAAA
1 ATTACCGAAATACCCCTGTAGGGTAAA
* * *
34588082 ATTACTGAAATACCCCTGTAAGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAAA
* *
34588109 ATTATCGAAATACCCCTATAGGGTAAA
1 ATTACCGAAATACCCCTGTAGGGTAAA
*
34588136 ATTACTGAAATACCCCTGTAGGGT-AA
1 ATTACCGAAATACCCCTGTAGGGTAAA
* * *
34588162 ATTACCGAGATACCCTTGTGGGGTAAA
1 ATTACCGAAATACCCCTGTAGGGTAAA
34588189 ATTACC
1 ATTACC
34588195 ATTTTACCCC
Statistics
Matches: 237, Mismatches: 35, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
26 25 0.11
27 211 0.89
28 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (27 bp):
ATTACCGAAATACCCCTGTAGGGTAAA
Found at i:34588455 original size:27 final size:26
Alignment explanation
Indices: 34588417--34588499 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
34588407 TGGAGGAAGC
34588417 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
* *
34588444 GTTCTGGTGGCTCTGCCATAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * *
34588470 GTATCTGGTGACTTTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
34588497 GTT
1 GTT
34588500 GACCGATCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 10 0.20
27 39 0.80
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:34588590 original size:20 final size:20
Alignment explanation
Indices: 34588543--34588590 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
34588533 CGAAGGCTGT
*
34588543 GTGCCGTTATTGTGGGCTTC
1 GTGCCGATATTGTGGGCTTC
**
34588563 GTATCGATATTGTGGGCTTC
1 GTGCCGATATTGTGGGCTTC
34588583 GTGCCGAT
1 GTGCCGAT
34588591 TATAGACCCG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.10, C:0.19, G:0.33, T:0.38
Consensus pattern (20 bp):
GTGCCGATATTGTGGGCTTC
Found at i:34588639 original size:22 final size:22
Alignment explanation
Indices: 34588607--34588665 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
34588597 CCCGTTATCG
*
34588607 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
34588629 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
34588651 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
34588666 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:34588853 original size:27 final size:27
Alignment explanation
Indices: 34588823--34588930 Score: 112
Period size: 27 Copynumber: 4.0 Consensus size: 27
34588813 ATTTTGTTAA
* *
34588823 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* * *
34588850 GTGGCTATGCCATAAATATCTATTT-TG
1 GTGGCTCTGCCA-CAATATCTGTTTCTG
* *
34588877 GTGGCTCTGCCACAGTATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
34588904 GTGACTCTGTCACAATATCTG-TTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
34588930 G
1 G
34588931 CAGCCATGCT
Statistics
Matches: 66, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
26 13 0.20
27 44 0.67
28 9 0.14
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.39
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:34591239 original size:27 final size:27
Alignment explanation
Indices: 34591009--34591242 Score: 270
Period size: 27 Copynumber: 8.7 Consensus size: 27
34590999 AATCTCATAT
* * *
34591009 CTGTAGGCTAGCATTACTGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* * *
34591036 TTGTAAGGTAGAAATACCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* * *
34591063 TTGTGGGGTAGAAATACCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
34591090 CTATAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
*
34591117 CTGTAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
34591144 CTGTAAGGTAGAATTATCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* **
34591171 CTGTAAGGTAGAATTACTAAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
34591198 CTGTAGGTTAGAATTACCGAGATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* * *
34591225 TTGTGGGGTAAAATTACC
1 CTGTAGGGTAGAATTACC
34591243 ATTTTACCCC
Statistics
Matches: 178, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 178 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACCGAAATACCC
Found at i:34591503 original size:27 final size:26
Alignment explanation
Indices: 34591465--34591547 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
34591455 TGGAGGAAGC
34591465 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
* *
34591492 GTTCTGGAGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * *
34591518 GTATCTGGTGACTTTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
34591545 GTT
1 GTT
34591548 GACCGATCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 10 0.20
27 39 0.80
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:34591689 original size:22 final size:22
Alignment explanation
Indices: 34591664--34591713 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
34591654 GATGGCTCTG
34591664 TGCCAACCTAAATATGGCTTCA
1 TGCCAACCTAAATATGGCTTCA
* * * * *
34591686 TGCCATCTTGACTATGGCTTCG
1 TGCCAACCTAAATATGGCTTCA
34591708 TGCCAA
1 TGCCAA
34591714 ACGTATTTAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (22 bp):
TGCCAACCTAAATATGGCTTCA
Found at i:34591920 original size:27 final size:26
Alignment explanation
Indices: 34591887--34591972 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 26
34591877 CATTACCTAT
* *
34591887 TTCTGGTGGCTATGCCACAAATATCTG
1 TTCTGGTGGCTCTGTCAC-AATATCTG
*
34591914 TTTTGGTGGCTCTGTCACAATATCTG
1 TTCTGGTGGCTCTGTCACAATATCTG
*
34591940 TATCTGGTGACTCTGTCACAATATCTG
1 T-TCTGGTGGCTCTGTCACAATATCTG
34591967 TTCTGG
1 TTCTGG
34591973 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 14 0.26
27 39 0.74
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (26 bp):
TTCTGGTGGCTCTGTCACAATATCTG
Found at i:34615230 original size:39 final size:39
Alignment explanation
Indices: 34615137--34615242 Score: 169
Period size: 38 Copynumber: 2.7 Consensus size: 39
34615127 TCTGAAAGTT
*
34615137 GGGCTAAAGTCCCGCAGGCTTCGTGTTGGAAATGTATCC
1 GGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCC
*
34615176 -GGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTGTCC
1 GGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCC
* *
34615214 GGGCTAAAGACCCGCAGGCTTTGTGCTGG
1 GGGCTAAAGTCCCGCAGGCTTCGTGCTGG
34615243 TGCTGGTAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
38 36 0.58
39 26 0.42
ACGTcount: A:0.19, C:0.25, G:0.33, T:0.24
Consensus pattern (39 bp):
GGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCC
Found at i:34617913 original size:27 final size:27
Alignment explanation
Indices: 34617883--34618051 Score: 250
Period size: 27 Copynumber: 6.3 Consensus size: 27
34617873 AGGCATAATT
* *
34617883 GTCATTTTACCATATAGGGGTATTACG
1 GTCATTTTACCTTACAGGGGTATTACG
* *
34617910 GTCATTTTACCTTGCAGGGGTATTACA
1 GTCATTTTACCTTACAGGGGTATTACG
*
34617937 GTCATTTTACCCTT-CAGGGGCATTACG
1 GTCATTTTA-CCTTACAGGGGTATTACG
*
34617964 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCTTACAGGGGTATTACG
34617991 GTCATTTTACCTTACAGGGGTATTACG
1 GTCATTTTACCTTACAGGGGTATTACG
*
34618018 GTCATTTTACCTTACATGGGTATTACG
1 GTCATTTTACCTTACAGGGGTATTACG
*
34618045 ATCATTT
1 GTCATTT
34618052 ACAAACCGGA
Statistics
Matches: 129, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
26 3 0.02
27 122 0.95
28 4 0.03
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCTTACAGGGGTATTACG
Found at i:34618077 original size:26 final size:27
Alignment explanation
Indices: 34618049--34618110 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
34618039 ATTACGATCA
*
34618049 TTTACAAACC-GGAGGTATTTCAATAAT
1 TTTACAAACCAAG-GGTATTTCAATAAT
* *
34618076 TTTACAAATCAAGGGTATTTCGATAAT
1 TTTACAAACCAAGGGTATTTCAATAAT
34618103 TTTACAAA
1 TTTACAAA
34618111 TCGAGGCCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
TTTACAAACCAAGGGTATTTCAATAAT
Found at i:34624491 original size:23 final size:23
Alignment explanation
Indices: 34624465--34624511 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
34624455 TTATCATTGA
34624465 AATGATTTATTTGCTTATGGCTT
1 AATGATTTATTTGCTTATGGCTT
34624488 AATGATTTATTTGCTTATGGCTT
1 AATGATTTATTTGCTTATGGCTT
34624511 A
1 A
34624512 CTAAGCTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.09, G:0.17, T:0.51
Consensus pattern (23 bp):
AATGATTTATTTGCTTATGGCTT
Found at i:34628923 original size:15 final size:14
Alignment explanation
Indices: 34628883--34628932 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 14
34628873 ATCTCAACAT
*
34628883 CTCAAATTTTCCTC
1 CTCAAATTCTCCTC
34628897 CTCAAA-TC-CCTC
1 CTCAAATTCTCCTC
34628909 CTCAAA-TCT-CTC
1 CTCAAATTCTCCTC
34628921 CTCAAATCTCTC
1 CTCAAAT-TCTC
34628933 AAACCGAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 21 0.68
13 1 0.03
14 9 0.29
ACGTcount: A:0.24, C:0.42, G:0.00, T:0.34
Consensus pattern (14 bp):
CTCAAATTCTCCTC
Found at i:34628929 original size:12 final size:12
Alignment explanation
Indices: 34628894--34628932 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
34628884 TCAAATTTTC
*
34628894 CTCCTCAAATCC
1 CTCCTCAAATCT
34628906 CTCCTCAAATCT
1 CTCCTCAAATCT
34628918 CTCCTCAAATCT
1 CTCCTCAAATCT
34628930 CTC
1 CTC
34628933 AAACCGAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.23, C:0.46, G:0.00, T:0.31
Consensus pattern (12 bp):
CTCCTCAAATCT
Found at i:34630074 original size:23 final size:23
Alignment explanation
Indices: 34630044--34630090 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
34630034 AGGTGCAGTG
34630044 AAAAAAGGGAAACCCTTATTCAT
1 AAAAAAGGGAAACCCTTATTCAT
* *
34630067 AAAAAAGGGAAACGCTTGTTCAT
1 AAAAAAGGGAAACCCTTATTCAT
34630090 A
1 A
34630091 CCCTTAAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (23 bp):
AAAAAAGGGAAACCCTTATTCAT
Found at i:34637849 original size:47 final size:47
Alignment explanation
Indices: 34637798--34638116 Score: 498
Period size: 47 Copynumber: 6.7 Consensus size: 47
34637788 TTAGGATTCT
* * *
34637798 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
34637845 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
34637892 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
34637939 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
34637988 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
34638035 ATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGGCTGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCG
* * *
34638082 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
34638117 TCCCGAAGGG
Statistics
Matches: 256, Mismatches: 11, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
46 6 0.02
47 201 0.79
48 2 0.01
49 47 0.18
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:34637873 original size:25 final size:25
Alignment explanation
Indices: 34637845--34637923 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
34637835 CTAATGGCCG
34637845 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ***
34637870 ATGTGAT-AAGGCCTAA-TGGCCA-
1 ATGTGATGAATGTGAAAGTGTATAT
34637892 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
34637917 ATGTGAT
1 ATGTGAT
34637924 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:34637978 original size:143 final size:143
Alignment explanation
Indices: 34637819--34638116 Score: 503
Period size: 143 Copynumber: 2.1 Consensus size: 143
34637809 GTGAACATGC
*
34637819 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
* *
34637884 AATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGA
66 AATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCCTGAATGGCCAACGTGATGA
34637948 ATGTGAAAGTGTAT
130 ATGTGAAAGTGTAT
34637962 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
* * * *
34638027 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCTGAGTGGCCAACGTGATGGA
66 AATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAGGCCTGAATGGCCAACGTGATGAA
34638092 TGTGAAAGTGTAT
131 TGTGAAAGTGTAT
34638105 A-A-ATGTGATAAG
1 ATATATGTGATAAG
34638117 TCCCGAAGGG
Statistics
Matches: 147, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
141 10 0.07
142 6 0.04
143 131 0.89
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAGGCCTGAATGGCCAACGTGATGAA
TGTGAAAGTGTAT
Found at i:34638291 original size:37 final size:37
Alignment explanation
Indices: 34638238--34638310 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
34638228 AGCTCTAAAG
* * *
34638238 ACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAAT
1 ACCCGATAACTACGTGTGGAGATTATGTCCGGGTAAT
*
34638275 ACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAA
1 ACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
34638311 GACTTCGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (37 bp):
ACCCGATAACTACGTGTGGAGATTATGTCCGGGTAAT
Found at i:34639776 original size:119 final size:120
Alignment explanation
Indices: 34639528--34639798 Score: 386
Period size: 119 Copynumber: 2.3 Consensus size: 120
34639518 GAGAATTGAG
* *
34639528 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTCCCG
**
34639593 AAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTTCCGAAGAGCATTCATGCT
66 AAGAGCATTCGTGCTAGTGATATATCCGGACTAACCTCCGAAGAGCATTCATGCT
* * * *
34639648 AGTGATATATCCAGGTTAA-TCCTGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCG
1 AGTGATATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTCCCG
*
34639712 AAGAGCATTCGTGCTAGTGATATATCCGTG-CTAAACCT-CGAAGAGCATTCGTGCT
66 AAGAGCATTCGTGCTAGTGATATATCCG-GACT-AACCTCCGAAGAGCATTCATGCT
* * * *
34639767 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCAGGCTAAGTCCCGAAGAGCA
34639799 ATCATGCTGG
Statistics
Matches: 133, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
119 101 0.76
120 32 0.24
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (120 bp):
AGTGATATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTCCCG
AAGAGCATTCGTGCTAGTGATATATCCGGACTAACCTCCGAAGAGCATTCATGCT
Found at i:34639810 original size:40 final size:40
Alignment explanation
Indices: 34639528--34639798 Score: 393
Period size: 40 Copynumber: 6.8 Consensus size: 40
34639518 GAGAATTGAG
34639528 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
34639568 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
34639608 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
34639648 AGTGATATATCCAGGTTAA-TCCTGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
34639687 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
34639727 AGTGATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
* * *
34639767 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
34639799 ATCATGCTGG
Statistics
Matches: 203, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
39 33 0.16
40 168 0.83
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:34643500 original size:47 final size:47
Alignment explanation
Indices: 34643449--34643906 Score: 742
Period size: 47 Copynumber: 9.7 Consensus size: 47
34643439 TTAGGATTCT
* * *
34643449 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
34643496 ATGTGATGAATGTGAAAGTGTATATCTGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
34643543 ATGTGATGAATGTGAAAGTGTATATATATGTGATAATG-CTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
34643591 ATGTGATGAATGTGAAAGTGTATATATGTGATAA-GCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
34643637 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
34643684 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
34643731 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
34643778 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
34643825 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
34643872 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
34643907 TCCCGAAGGG
Statistics
Matches: 388, Mismatches: 18, Indels: 10
0.93 0.04 0.02
Matches are distributed among these distances:
45 1 0.00
46 59 0.15
47 284 0.73
48 30 0.08
49 14 0.04
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:34644088 original size:37 final size:37
Alignment explanation
Indices: 34644032--34644110 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
34644022 CCGAGCTCTA
* * *
34644032 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
34644069 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
34644106 AAGAC
1 AAGAC
34644111 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:34650546 original size:12 final size:11
Alignment explanation
Indices: 34650518--34650550 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
34650508 GGGACCTATT
34650518 TGTAAAATGT-
1 TGTAAAATGTG
34650528 TGTAAAATGTG
1 TGTAAAATGTG
34650539 TGGTAAAATGTG
1 T-GTAAAATGTG
34650551 AATAAATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 1 0.05
12 10 0.48
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (11 bp):
TGTAAAATGTG
Found at i:34655990 original size:26 final size:27
Alignment explanation
Indices: 34655959--34656021 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
34655949 CTGTGGAATG
34655959 GGTTTTTGAAAA-TTTTTC-AAAAATT
1 GGTTTTTGAAAAGTTTTTCTAAAAATT
* * **
34655984 GGATTTTCAAAAGTTTTTCTAAACCTT
1 GGTTTTTGAAAAGTTTTTCTAAAAATT
34656011 GGTTTTTGAAA
1 GGTTTTTGAAA
34656022 GAGATGATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
25 10 0.33
26 6 0.20
27 14 0.47
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (27 bp):
GGTTTTTGAAAAGTTTTTCTAAAAATT
Found at i:34656022 original size:26 final size:25
Alignment explanation
Indices: 34655959--34656022 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
34655949 CTGTGGAATG
*
34655959 GGTTTTTGAAAATTTTTCAAAAATT
1 GGTTTTTGAAAGTTTTTCAAAAATT
** **
34655984 GGATTTTCAAAAGTTTTTCTAAACCTT
1 GG-TTTTTGAAAGTTTTTC-AAAAATT
34656011 GGTTTTTGAAAG
1 GGTTTTTGAAAG
34656023 AGATGATTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
25 2 0.07
26 21 0.70
27 7 0.23
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (25 bp):
GGTTTTTGAAAGTTTTTCAAAAATT
Found at i:34665643 original size:34 final size:34
Alignment explanation
Indices: 34665599--34665727 Score: 123
Period size: 34 Copynumber: 3.8 Consensus size: 34
34665589 GTATCAGTAG
* * *
34665599 GGCCTAAGCCCATATCAGTAACAGTGGCAATCTA
1 GGCCTTAGCCCATTTCAGTAACAGTAGCAATCTA
*
34665633 GGCCTTAGCCCATTTCAGTAACAGTAGCAGTCTA
1 GGCCTTAGCCCATTTCAGTAACAGTAGCAATCTA
** * * * * *
34665667 GGTTTTATCCCATTTCAGTAATAGTAATCAATTTG
1 GGCCTTAGCCCATTTCAGTAACAGT-AGCAATCTA
** *
34665702 GGTTTTAGCCCATTTCAGTAATAGTA
1 GGCCTTAGCCCATTTCAGTAACAGTA
34665728 ATCAGTGTAG
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
34 52 0.64
35 29 0.36
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (34 bp):
GGCCTTAGCCCATTTCAGTAACAGTAGCAATCTA
Found at i:34665714 original size:35 final size:35
Alignment explanation
Indices: 34665626--34665731 Score: 133
Period size: 35 Copynumber: 3.1 Consensus size: 35
34665616 GTAACAGTGG
** * *
34665626 CAATCTAGGCCTTAGCCCATTTCAGTAACAGT-AG
1 CAATCTAGGTTTTAGCCCATTTCAGTAATAGTAAT
* *
34665660 CAGTCTAGGTTTTATCCCATTTCAGTAATAGTAAT
1 CAATCTAGGTTTTAGCCCATTTCAGTAATAGTAAT
* *
34665695 CAATTTGGGTTTTAGCCCATTTCAGTAATAGTAAT
1 CAATCTAGGTTTTAGCCCATTTCAGTAATAGTAAT
34665730 CA
1 CA
34665732 GTGTAGTAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
34 27 0.44
35 34 0.56
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (35 bp):
CAATCTAGGTTTTAGCCCATTTCAGTAATAGTAAT
Found at i:34666205 original size:27 final size:27
Alignment explanation
Indices: 34666171--34666298 Score: 175
Period size: 27 Copynumber: 4.7 Consensus size: 27
34666161 GGGTATTTCA
*
34666171 GTCATTTTATCACATAAGGGCAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
*
34666198 GTCTTTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
** *
34666225 ACCATTTTATCACATGAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* * *
34666252 GTCATTTTATCATATTAGGGCAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
*
34666279 GTCATTTTATCACATGAGGG
1 GTCATTTTATCACATAAGGG
34666299 TTCAGGTACG
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGCAAAATC
Found at i:34670685 original size:50 final size:49
Alignment explanation
Indices: 34670560--34670735 Score: 235
Period size: 50 Copynumber: 3.5 Consensus size: 49
34670550 TAAGGTCGCA
* * * *
34670560 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACG
* ** *
34670611 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* *
34670661 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
34670710 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
34670736 TGCCTACCAG
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
49 30 0.27
50 46 0.42
51 34 0.31
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:34670747 original size:99 final size:101
Alignment explanation
Indices: 34670560--34670747 Score: 272
Period size: 99 Copynumber: 1.9 Consensus size: 101
34670550 TAAGGTCGCA
* * *
34670560 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTTCGATCACATGTGTAGTACTAAG
** *
34670625 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCATG
66 TGCAGGCTACTACGCCTACCAGATGGTTAGGTCATG
* * *
34670661 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCGCATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTTCGATCACATGTGTAGTACTAAG
*
34670724 TGCAGGCTACTATGCCTACCAGAT
66 TGCAGGCTACTACGCCTACCAGAT
34670748 AGCTTTGGCT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 38 0.49
100 2 0.03
101 37 0.48
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTTCGATCACATGTGTAGTACTAAG
TGCAGGCTACTACGCCTACCAGATGGTTAGGTCATG
Found at i:34673496 original size:16 final size:15
Alignment explanation
Indices: 34673458--34673496 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
34673448 TGGATTCTCG
*
34673458 TATCATGGATTTCTT
1 TATCTTGGATTTCTT
34673473 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
34673488 TATTCTTGG
1 TA-TCTTGG
34673497 CCTCTCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:34682609 original size:20 final size:20
Alignment explanation
Indices: 34682584--34682649 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
34682574 AACAGGGGTC
34682584 ACACGCCCGTGTGGTTTGGG
1 ACACGCCCGTGTGGTTTGGG
34682604 ACACGCCCGTGTGGTTTGGG
1 ACACGCCCGTGTGGTTTGGG
* *
34682624 ACACGCCAGTGTGGCTTGGG
1 ACACGCCCGTGTGGTTTGGG
34682644 ACACGC
1 ACACGC
34682650 TCATGTGGGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.14, C:0.27, G:0.38, T:0.21
Consensus pattern (20 bp):
ACACGCCCGTGTGGTTTGGG
Found at i:34682656 original size:20 final size:19
Alignment explanation
Indices: 34682593--34682657 Score: 85
Period size: 20 Copynumber: 3.3 Consensus size: 19
34682583 CACACGCCCG
*
34682593 TGTGGTTTGGGACACGCCCG
1 TGTGGTTTGGGACACG-CCA
34682613 TGTGGTTTGGGACACGCCA
1 TGTGGTTTGGGACACGCCA
*
34682632 GTGTGGCTTGGGACACGCTCA
1 -TGTGGTTTGGGACACGC-CA
34682653 TGTGG
1 TGTGG
34682658 GCAGGTCGTG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 2 0.05
20 37 0.90
21 2 0.05
ACGTcount: A:0.12, C:0.22, G:0.40, T:0.26
Consensus pattern (19 bp):
TGTGGTTTGGGACACGCCA
Found at i:34688840 original size:19 final size:19
Alignment explanation
Indices: 34688816--34688855 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
34688806 TTCATCTCTC
* * *
34688816 TTTTTTTTATTTTTTCTTA
1 TTTTTTCTATTCTATCTTA
34688835 TTTTTTCTATTCTATCTTA
1 TTTTTTCTATTCTATCTTA
34688854 TT
1 TT
34688856 ACCTCGAAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTCTATTCTATCTTA
Found at i:34700015 original size:50 final size:49
Alignment explanation
Indices: 34699849--34700022 Score: 258
Period size: 49 Copynumber: 3.5 Consensus size: 49
34699839 CTGGTACGCA
* * * *
34699849 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
*
34699898 TAGTAGCTTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
** * *
34699947 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCAGTACACG
34699997 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
34700023 TGCGACCTCA
Statistics
Matches: 114, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 76 0.67
50 38 0.33
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
Found at i:34701682 original size:13 final size:13
Alignment explanation
Indices: 34701664--34701689 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34701654 AAGAAATATA
34701664 ACACGGGCGTGTC
1 ACACGGGCGTGTC
34701677 ACACGGGCGTGTC
1 ACACGGGCGTGTC
34701690 CCTGTCGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:34704118 original size:25 final size:25
Alignment explanation
Indices: 34704089--34704184 Score: 156
Period size: 25 Copynumber: 3.8 Consensus size: 25
34704079 TCAGCTTGTT
* *
34704089 AATTTGTTCTCAATATTTCCGGTTA
1 AATTTGCTCTTAATATTTCCGGTTA
34704114 AATTTGCTCTTAATATTTCCGGTTA
1 AATTTGCTCTTAATATTTCCGGTTA
34704139 AATTTGCTCTTAATATTTCCGGTTA
1 AATTTGCTCTTAATATTTCCGGTTA
* *
34704164 AATTTGCCCTTATTATTTCCG
1 AATTTGCTCTTAATATTTCCG
34704185 AATAAGTTAC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 67 1.00
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.48
Consensus pattern (25 bp):
AATTTGCTCTTAATATTTCCGGTTA
Found at i:34705066 original size:45 final size:45
Alignment explanation
Indices: 34705002--34705311 Score: 412
Period size: 45 Copynumber: 7.0 Consensus size: 45
34704992 TATCGTACAG
* * * *
34705002 TACTATTCGGGCCTTTGAGCCTAGCAGGCTAAAATTCTGGTGATA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
34705047 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGATA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
34705092 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATTCTGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
34705137 TACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
34705182 TACTATTCGGGCCTTTGAGCCTAGTAGGGTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
** * * *
34705227 TACTATTTAGGCCTTCGAGCCTAGCAGGCTATAATACCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
34705272 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGC-AAAATACCGGTGA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
34705312 ATGAATTCAG
Statistics
Matches: 244, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
42 12 0.05
43 17 0.07
44 3 0.01
45 211 0.86
46 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:34711796 original size:25 final size:25
Alignment explanation
Indices: 34711761--34711831 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
34711751 TAAGCTTGTT
* *
34711761 AATTTGTTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATATTTCCGGTTA
*
34711786 AATTTGCTCTTAATATTTTCGGTTA
1 AATTTGCTCTTAATATTTCCGGTTA
* *
34711811 AATTTGCCCTTATTATTTCCG
1 AATTTGCTCTTAATATTTCCG
34711832 AATAAGTTAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.24, C:0.15, G:0.11, T:0.49
Consensus pattern (25 bp):
AATTTGCTCTTAATATTTCCGGTTA
Found at i:34712714 original size:45 final size:45
Alignment explanation
Indices: 34712644--34712954 Score: 414
Period size: 45 Copynumber: 7.0 Consensus size: 45
34712634 TATCGTACAG
* * * *
34712644 TACTATTTGGGCTTTTGAGCCTAGCAGGCTATAATACCGGTGATA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
34712689 TACTATTCGGGCCTTTGAACATAGCAGGCTATAATGCCGGTAAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
34712734 TACTATTCGGGCCTTTGAGCCAAGCAGGCTATAATGCCGATGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
34712779 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
34712824 TACTATTCAGGGCCTTTGAGCCTAGCAGGCTATAATGTCGGTGAGA
1 TACTATTC-GGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
** * *
34712870 TACTATTCAAGCCTTTGAGTCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
34712915 TGA-TA-TCGAG-CTTCGAGCCTGGCAGGC-AAAATGCCGGTGA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
34712955 ATGAATTCAG
Statistics
Matches: 239, Mismatches: 25, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
42 12 0.05
43 14 0.06
44 4 0.02
45 164 0.69
46 45 0.19
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:34715990 original size:31 final size:31
Alignment explanation
Indices: 34715950--34716010 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
34715940 AATGTGAAAG
*
34715950 TTGCTTGCTACTTGTTAAAGTGCTTATTTGA
1 TTGCCTGCTACTTGTTAAAGTGCTTATTTGA
34715981 TTGCCTGCTACTTGTTAAAGTGCTTATTTG
1 TTGCCTGCTACTTGTTAAAGTGCTTATTTG
34716011 GTTTGGCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.18, C:0.15, G:0.20, T:0.48
Consensus pattern (31 bp):
TTGCCTGCTACTTGTTAAAGTGCTTATTTGA
Found at i:34726005 original size:20 final size:20
Alignment explanation
Indices: 34725982--34726022 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
34725972 CAAAACTTGT
34725982 ATAA-CTATCAACAAACATTC
1 ATAATCTATCAACAAAC-TTC
*
34726002 ATAATCTATCAAGAAACTTC
1 ATAATCTATCAACAAACTTC
34726022 A
1 A
34726023 AAATACATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.49, C:0.22, G:0.02, T:0.27
Consensus pattern (20 bp):
ATAATCTATCAACAAACTTC
Found at i:34729739 original size:40 final size:40
Alignment explanation
Indices: 34729695--34729921 Score: 337
Period size: 40 Copynumber: 5.7 Consensus size: 40
34729685 CCAACCCAAT
* * * **
34729695 TGCCTTCAGGATTTAGCCCGGATGTAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACAAA
* * * *
34729735 TGCCTTCGGGACTTAACCTGGAAATAGCAACCAACACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACAAA
34729775 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACAAA
34729815 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACAAA
* **
34729855 TGCCTTCGGGACTTAACCCGAAAATAACAACCAGCATGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACAAA
*
34729895 TGCCTTCGGGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGAAATAA
34729922 TCCTCAATTG
Statistics
Matches: 169, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 169 1.00
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.18
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACAAA
Found at i:34740700 original size:27 final size:27
Alignment explanation
Indices: 34740663--34740813 Score: 239
Period size: 27 Copynumber: 5.6 Consensus size: 27
34740653 TAAATTGTGC
* *
34740663 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
34740690 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
34740717 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
34740744 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
34740772 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
34740799 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34740814 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 92 0.78
28 26 0.22
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:34740782 original size:82 final size:81
Alignment explanation
Indices: 34740663--34740813 Score: 248
Period size: 82 Copynumber: 1.9 Consensus size: 81
34740653 TAAATTGTGC
*
34740663 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTG
1 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTAAGTG
34740728 TGCGAGTTGACTATGT
66 TGCGAGTTGACTATGT
* * * *
34740744 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAAT-TGAATATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTAAGT
34740809 GTGCG
65 GTGCG
34740814 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
81 17 0.27
82 47 0.73
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (81 bp):
AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTAAGTG
TGCGAGTTGACTATGT
Done.