Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 183 of 253
Found at i:59616752 original size:8 final size:8
Alignment explanation
Indices: 59616735--59616770 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
59616725 CTAGATCGGC
*
59616735 AAAAGTCG
1 AAAAGCCG
59616743 AAAAGCCG
1 AAAAGCCG
59616751 AAAAGCCG
1 AAAAGCCG
*
59616759 AAATGCCG
1 AAAAGCCG
59616767 AAAA
1 AAAA
59616771 CCGGTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.53, C:0.19, G:0.22, T:0.06
Consensus pattern (8 bp):
AAAAGCCG
Found at i:59627242 original size:21 final size:21
Alignment explanation
Indices: 59627173--59627246 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 21
59627163 TAACTCATAT
*
59627173 GAGTTTTAG-TTAACCCTTAC
1 GAGTTTCAGTTTAACCCTTAC
* * * *
59627193 GGGTTTCAGTTCAACTCTTAG
1 GAGTTTCAGTTTAACCCTTAC
* *
59627214 GAGCTTCAGTTTAACCCTTTC
1 GAGTTTCAGTTTAACCCTTAC
59627235 GAGTTTCAGTTT
1 GAGTTTCAGTTT
59627247 TAGCTTTTTT
Statistics
Matches: 41, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
20 7 0.17
21 34 0.83
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (21 bp):
GAGTTTCAGTTTAACCCTTAC
Found at i:59627285 original size:21 final size:21
Alignment explanation
Indices: 59627258--59627313 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
59627248 AGCTTTTTTA
59627258 AGCTTCCATTTAACTCTTATG
1 AGCTTCCATTTAACTCTTATG
* * *
59627279 GGTTTCCATTTAGCTCTTATG
1 AGCTTCCATTTAACTCTTATG
*
59627300 AGCTTCCGTTTAAC
1 AGCTTCCATTTAAC
59627314 CTTTTTTAGG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (21 bp):
AGCTTCCATTTAACTCTTATG
Found at i:59628350 original size:47 final size:44
Alignment explanation
Indices: 59628299--59628390 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 44
59628289 CAGATCTTAA
59628299 CTTAGAATTTAGTAGCTCAAGATATAAATAATTTAGTGACCATTACT
1 CTTAGAATTTAGTAGCTCAAGATATAAATAA---AGTGACCATTACT
59628346 CTTAGAATTTAGTAGCTCAAGATATAAATAAAGTGACCATTACT
1 CTTAGAATTTAGTAGCTCAAGATATAAATAAAGTGACCATTACT
59628390 C
1 C
59628391 GAGTGGACAG
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
44 14 0.31
47 31 0.69
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (44 bp):
CTTAGAATTTAGTAGCTCAAGATATAAATAAAGTGACCATTACT
Found at i:59638211 original size:47 final size:47
Alignment explanation
Indices: 59638137--59638406 Score: 216
Period size: 47 Copynumber: 5.8 Consensus size: 47
59638127 ATGGGTAAGG
*
59638137 TGCCGATGCCATGTCCCAGACACGGTCTTACACTAGCTCAT-ATCTCA
1 TGCCGATGCCATGTCCCAGACA-TGTCTTACACTAGCTCATCATCTCA
* * *
59638184 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAACT-ATCATCTCG
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCATCATCTCA
* * * * *
59638231 TAGCCTATG-CATGTCCCAGACATGTCTTACACTGGCTTA-CGTCACGA
1 T-GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCATCATCTC-A
* * * * * *
59638278 GGTCGATG-CAAGTCTCAGACATATCTTACACTAGCAC-TCATCTCGA
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCATCATCTC-A
* * * *
59638324 TACCGATGCCATGTCCCAGACATGGTCTTACATTGGCTC-TCATAATC-
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCATCAT-CTCA
* *
59638371 TGGCTGAT-ACATGTCCCAGACATGTCTTACACTAGC
1 T-GCCGATGCCATGTCCCAGACATGTCTTACACTAGC
59638407 CTACAATAAC
Statistics
Matches: 176, Mismatches: 37, Indels: 21
0.75 0.16 0.09
Matches are distributed among these distances:
46 68 0.39
47 82 0.47
48 24 0.14
49 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCA
Found at i:59638392 original size:94 final size:94
Alignment explanation
Indices: 59638138--59638406 Score: 252
Period size: 94 Copynumber: 2.9 Consensus size: 94
59638128 TGGGTAAGGT
* * * * *
59638138 GCCGATGCCATGTCCCAGACACGGTCTTACACTAG--CTCATATCTCATGTC-GATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATC-TGGCTGAT-ACATGTCC
*
59638200 CAGACATGGTCTTACACTAACTATCATCTCGTA
63 CAGACAT-GTCTTACACTAGCTATCATCTCGTA
* * * * * * *
59638233 GCCTATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTCA-C-GAGGTCGATGCAAGTCT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATCTG-GCT-GATACATGTCC
*
59638293 CAGACATATCTTACACTAGC-ACTCATCTCGATA
63 CAGACATGTCTTACACTAGCTA-TCATCTCG-TA
*
59638326 -CCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATCTGGCTGATACATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCTGGCTGATACATGTCCCAG
59638390 ACATGTCTTACACTAGC
66 ACATGTCTTACACTAGC
59638407 CTACAATAAC
Statistics
Matches: 139, Mismatches: 22, Indels: 27
0.74 0.12 0.14
Matches are distributed among these distances:
91 2 0.01
92 24 0.17
93 40 0.29
94 60 0.43
95 12 0.09
96 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCTGGCTGATACATGTCCCAG
ACATGTCTTACACTAGCTATCATCTCGTA
Found at i:59653006 original size:22 final size:22
Alignment explanation
Indices: 59652960--59653006 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
59652950 ATACCACATG
* *
59652960 AACTTACCTGGTCAAAATAAAA
1 AACTTACCTAGTCAAAACAAAA
*
59652982 AACTTACCTAGTCAAAACAACA
1 AACTTACCTAGTCAAAACAAAA
59653004 AAC
1 AAC
59653007 AACCTAATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.23, G:0.06, T:0.19
Consensus pattern (22 bp):
AACTTACCTAGTCAAAACAAAA
Found at i:59653631 original size:40 final size:40
Alignment explanation
Indices: 59653576--59653657 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
59653566 TAAGGACTAA
*
59653576 ATAGTTTTGAGCTTTCAAATATGGCTTCAGGTTTCCTTTT
1 ATAGTTTTGAGCTTTCAAACATGGCTTCAGGTTTCCTTTT
*
59653616 ATAGTTTTGAGCTTTCAAACATGGCTTCAGGTTTTCTTTT
1 ATAGTTTTGAGCTTTCAAACATGGCTTCAGGTTTCCTTTT
59653656 AT
1 AT
59653658 GTTCATTTGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.48
Consensus pattern (40 bp):
ATAGTTTTGAGCTTTCAAACATGGCTTCAGGTTTCCTTTT
Found at i:59655771 original size:4 final size:4
Alignment explanation
Indices: 59655749--59655782 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
59655739 AAATATTCAG
* *
59655749 TAAA TACA TAAA CAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
59655783 TATAGATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:59664157 original size:25 final size:25
Alignment explanation
Indices: 59664129--59664179 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
59664119 GAAAGAAAAG
59664129 TAAGTTGATTATCCTTTACTTTTCC
1 TAAGTTGATTATCCTTTACTTTTCC
59664154 TAAGTTGATTATCCTTTACTTTTCC
1 TAAGTTGATTATCCTTTACTTTTCC
59664179 T
1 T
59664180 TCTGTTACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.53
Consensus pattern (25 bp):
TAAGTTGATTATCCTTTACTTTTCC
Found at i:59664415 original size:18 final size:18
Alignment explanation
Indices: 59664387--59664436 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
59664377 ACATTTATGA
*
59664387 TTTCCTTTCTTTAACCTTT
1 TTTCTTTTCTTTAA-CTTT
*
59664406 TTT-TTTTCTTTTACTTT
1 TTTCTTTTCTTTAACTTT
59664423 TTTCTTTTCCTTTA
1 TTTCTTTT-CTTTA
59664437 CAATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 7 0.27
18 12 0.46
19 7 0.27
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTCTTTTCTTTAACTTT
Found at i:59672489 original size:31 final size:28
Alignment explanation
Indices: 59672433--59672495 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 28
59672423 TAGATATTTA
* *
59672433 TTATTTATTATTATTAAATAAAAGATGT
1 TTATTTATAATTATTAAATAAAAGATAT
*
59672461 TTATTTGATAATTAATTAAATTATAAGATAT
1 TTATTT-ATAATT-ATTAAA-TAAAAGATAT
59672492 TTAT
1 TTAT
59672496 GAGGTAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 6 0.21
29 5 0.17
30 6 0.21
31 12 0.41
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (28 bp):
TTATTTATAATTATTAAATAAAAGATAT
Found at i:59674425 original size:33 final size:33
Alignment explanation
Indices: 59674383--59674449 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
59674373 TGAAATAGTG
59674383 TATGAGTTAATTGAATATAATCATATGAATTAA
1 TATGAGTTAATTGAATATAATCATATGAATTAA
59674416 TATGAGTTAATTGAATATAATCATATGAATTAA
1 TATGAGTTAATTGAATATAATCATATGAATTAA
59674449 T
1 T
59674450 TATAATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (33 bp):
TATGAGTTAATTGAATATAATCATATGAATTAA
Found at i:59674523 original size:18 final size:18
Alignment explanation
Indices: 59674492--59674538 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
59674482 CCCAAGCCCA
59674492 AAATAAAAAC-AAAAAAT
1 AAATAAAAACAAAAAAAT
59674509 AAATAAAAACAAAAAAAT
1 AAATAAAAACAAAAAAAT
59674527 AAA-ACAAAACAA
1 AAATA-AAAACAA
59674539 TAATTAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.39
18 17 0.61
ACGTcount: A:0.83, C:0.09, G:0.00, T:0.09
Consensus pattern (18 bp):
AAATAAAAACAAAAAAAT
Found at i:59677401 original size:130 final size:130
Alignment explanation
Indices: 59677154--59677516 Score: 354
Period size: 131 Copynumber: 2.8 Consensus size: 130
59677144 TAAAAATTCT
* * ** * * *
59677154 TTAAAACGAAGACAAGATTTAATATTTGGCAATTCGTGGAATCGTGCCTTAACGTGTTGGGTTGC
1 TTAAAACGAAGACAATACTCGATGTTTGGCAATTCG-GGAATCGTGCCTTATCGTGCTGGGTTGC
* * * *
59677219 AATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTCCACCCATGTCTT-TT-AAAAG
65 GATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCAAAATTCCACCCATGT-TTATTAAAAAG
59677282 TCCC
129 --CC
* * * *
59677286 TT-AAACGAAGACAATACTCGGTGTTTGACAATTCGGGAATCATGCCTTATCGTGCTGGGTTGTG
1 TTAAAACGAAGACAATACTCGATGTTTGGCAATTCGGGAATCGTGCCTTATCGTGCTGGGTTGCG
* * * * * * *
59677350 ATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTAGATTTTCACTCATGTTTATTAAAAAGCT
66 ATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCAAAATTCCACCCATGTTTATTAAAAAGCC
* * ** * * * *
59677415 TTCAAAACGAAGGCGATGTTCGATGTTTGGCGATTTGAGAATCGTGCCCTATCGTGCTGGGTTGC
1 TT-AAAACGAAGACAATACTCGATGTTTGGCAATTCGGGAATCGTGCCTTATCGTGCTGGGTTGC
* * * *
59677480 GCTTTTTCATTTGTTCAAAACAATCGAAGATCCCTTC
65 GATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTC
59677517 GGAATTTCAC
Statistics
Matches: 187, Mismatches: 40, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
129 5 0.03
130 69 0.37
131 111 0.59
132 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (130 bp):
TTAAAACGAAGACAATACTCGATGTTTGGCAATTCGGGAATCGTGCCTTATCGTGCTGGGTTGCG
ATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCAAAATTCCACCCATGTTTATTAAAAAGCC
Found at i:59683833 original size:28 final size:27
Alignment explanation
Indices: 59683770--59683919 Score: 228
Period size: 27 Copynumber: 5.5 Consensus size: 27
59683760 ATATTAAGTC
* * *
59683770 CACACTCAGTGCTATATAATCAACTCG
1 CACACTTAGTGCTACATAGTCAACTCG
* *
59683797 CACAGTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAGTC-AACTCG
59683825 CACACTTAGTGCTACATAGTCAACTCG
1 CACACTTAGTGCTACATAGTCAACTCG
59683852 CACACTTAGTGCTACATAGTCAAACTCG
1 CACACTTAGTGCTACATAGTC-AACTCG
*
59683880 CACACTTAGTGCTACATAGTCAATTCG
1 CACACTTAGTGCTACATAGTCAACTCG
59683907 CACACTTAGTGCT
1 CACACTTAGTGCT
59683920 GCACAATTTA
Statistics
Matches: 115, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 63 0.55
28 52 0.45
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CACACTTAGTGCTACATAGTCAACTCG
Found at i:59683854 original size:55 final size:55
Alignment explanation
Indices: 59683770--59683919 Score: 246
Period size: 55 Copynumber: 2.7 Consensus size: 55
59683760 ATATTAAGTC
* * * *
59683770 CACACTCAGTGCTATATAATCAACTCGCACAGTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCG
*
59683825 CACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCG
1 CACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCG
*
59683880 CACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
59683920 GCACAATTTA
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (55 bp):
CACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCG
Found at i:59691656 original size:28 final size:27
Alignment explanation
Indices: 59691593--59691742 Score: 228
Period size: 27 Copynumber: 5.5 Consensus size: 27
59691583 ATTAAGTCCA
* * *
59691593 CACACTCAGTGCTATATAATCAACTCG
1 CACACTTAGTGCTACATAGTCAACTCG
* *
59691620 CACAGTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAGTC-AACTCG
59691648 CACACTTAGTGCTACATAGTCAACTCG
1 CACACTTAGTGCTACATAGTCAACTCG
59691675 CACACTTAGTGCTACATAGTCAAACTCG
1 CACACTTAGTGCTACATAGTC-AACTCG
*
59691703 CACACTTAGTGCTACATAGTCAATTCG
1 CACACTTAGTGCTACATAGTCAACTCG
59691730 CACACTTAGTGCT
1 CACACTTAGTGCT
59691743 GCACAATTTA
Statistics
Matches: 115, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 63 0.55
28 52 0.45
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CACACTTAGTGCTACATAGTCAACTCG
Found at i:59691677 original size:55 final size:55
Alignment explanation
Indices: 59691593--59691742 Score: 246
Period size: 55 Copynumber: 2.7 Consensus size: 55
59691583 ATTAAGTCCA
* * * *
59691593 CACACTCAGTGCTATATAATCAACTCGCACAGTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCG
*
59691648 CACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCG
1 CACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCG
*
59691703 CACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
59691743 GCACAATTTA
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (55 bp):
CACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCG
Found at i:59696840 original size:14 final size:14
Alignment explanation
Indices: 59696821--59696847 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59696811 TACTCACAAT
59696821 TATTTTTTATTATC
1 TATTTTTTATTATC
59696835 TATTTTTTATTAT
1 TATTTTTTATTAT
59696848 TAAATTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTTTTATTATC
Found at i:59696882 original size:17 final size:18
Alignment explanation
Indices: 59696862--59696899 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
59696852 TTTATATATT
59696862 ATATTA-ATTATTACAAA
1 ATATTATATTATTACAAA
* *
59696879 ATATTATTTTATTATAAA
1 ATATTATATTATTACAAA
59696897 ATA
1 ATA
59696900 AATTTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTATATTATTACAAA
Found at i:59696906 original size:17 final size:18
Alignment explanation
Indices: 59696869--59696916 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
59696859 ATTATATTAA
*
59696869 TTATTACAAAATATTATT
1 TTATTACAAAATATAATT
*
59696887 TTATTATAAAATA-AATT
1 TTATTACAAAATATAATT
59696904 TTAATTACCAAAA
1 TT-ATTA-CAAAA
59696917 CAAAGTTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 5 0.20
18 16 0.64
19 4 0.16
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (18 bp):
TTATTACAAAATATAATT
Found at i:59704388 original size:9 final size:9
Alignment explanation
Indices: 59704363--59704419 Score: 66
Period size: 9 Copynumber: 6.6 Consensus size: 9
59704353 GAGAGAAAGG
59704363 AGAAGAAAA
1 AGAAGAAAA
*
59704372 AGAAGAAGA
1 AGAAGAAAA
59704381 AGAAGAAGAA
1 AGAAGAA-AA
*
59704391 AGAATAAAA
1 AGAAGAAAA
59704400 AG-A-AAAA
1 AGAAGAAAA
59704407 AGAA-AAAA
1 AGAAGAAAA
59704415 AGAAG
1 AGAAG
59704420 GTAATGTAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
7 6 0.14
8 10 0.24
9 19 0.45
10 7 0.17
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (9 bp):
AGAAGAAAA
Found at i:59704642 original size:60 final size:60
Alignment explanation
Indices: 59704569--59704692 Score: 205
Period size: 60 Copynumber: 2.1 Consensus size: 60
59704559 GAACGTATTT
* *
59704569 TTTATAATTATTTTAAAATTAATTTGTTAGTAATTT-AGGATTATGCTATAAATTGTTGTG
1 TTTATAATTATTTTAAAACTAATTTATTAGTAATTTAAGG-TTATGCTATAAATTGTTGTG
*
59704629 TTTATAATTATTTTAAAACTAATTTATTAGTAATTTAAGGTTATGTTATAAATTGTTGTG
1 TTTATAATTATTTTAAAACTAATTTATTAGTAATTTAAGGTTATGCTATAAATTGTTGTG
59704689 TTTA
1 TTTA
59704693 GTTTAGTATT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
60 57 0.95
61 3 0.05
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.52
Consensus pattern (60 bp):
TTTATAATTATTTTAAAACTAATTTATTAGTAATTTAAGGTTATGCTATAAATTGTTGTG
Found at i:59704916 original size:15 final size:16
Alignment explanation
Indices: 59704891--59704920 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59704881 GTGATTTTTT
59704891 TAATGTAAATTTTATA
1 TAATGTAAATTTTATA
59704907 TAATGT-AATTTTAT
1 TAATGTAAATTTTAT
59704921 TTGATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
TAATGTAAATTTTATA
Found at i:59706995 original size:33 final size:33
Alignment explanation
Indices: 59706968--59707038 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
59706958 GTACTCTGCT
59706968 TCTTC-CGGCCCGTATCCACCGCCGTACTCCAC
1 TCTTCTCGGCCCGTATCCACCGCCGTACTCCAC
* *
59707000 TCTTCTCGGCCTGTATCCACCGTCGTACTCCAC
1 TCTTCTCGGCCCGTATCCACCGCCGTACTCCAC
59707033 TACTTC
1 T-CTTC
59707039 CAGCTCAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 5 0.14
33 26 0.74
34 4 0.11
ACGTcount: A:0.13, C:0.45, G:0.14, T:0.28
Consensus pattern (33 bp):
TCTTCTCGGCCCGTATCCACCGCCGTACTCCAC
Found at i:59707320 original size:76 final size:76
Alignment explanation
Indices: 59707232--59707465 Score: 321
Period size: 79 Copynumber: 3.1 Consensus size: 76
59707222 AATAACTTCA
* *
59707232 TATTTATATAATGACTTTTTCTCCATTTTAGTTATTAATTTTATGGTTTTTTTTACAATTTAAAT
1 TATTTATGTAATGACTTTTTCTCCATTTTAGTTATTAATTTTATGGTTTTTTTTGCAATTTAAAT
59707297 AGTAAACTTTG
66 AGTAAACTTTG
59707308 TATTTATGTAATGACTTTTT-TGCCATTTTAGTTATTAATTTTATGAGTTTTTTTTTTGCAATTT
1 TATTTATGTAATGACTTTTTCT-CCATTTTAGTTATTAATTTTATG-G--TTTTTTTTGCAATTT
*
59707372 AAATAG-ACAACTTTT
62 AAATAGTA-AACTTTG
* * * **
59707387 TATTTATGTAATGACTTTTTCACTATTTCAGTTATTAATTTTA-GGAGTTTTTTGCAATTTAAAT
1 TATTTATGTAATGACTTTTTCTCCATTTTAGTTATTAATTTTATGGTTTTTTTTGCAATTTAAAT
*
59707451 AATAAACTTTG
66 AGTAAACTTTG
59707462 TATT
1 TATT
59707466 ATTTACGTAA
Statistics
Matches: 141, Mismatches: 10, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
75 29 0.21
76 43 0.30
77 2 0.01
78 2 0.01
79 65 0.46
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.54
Consensus pattern (76 bp):
TATTTATGTAATGACTTTTTCTCCATTTTAGTTATTAATTTTATGGTTTTTTTTGCAATTTAAAT
AGTAAACTTTG
Found at i:59709270 original size:67 final size:65
Alignment explanation
Indices: 59709132--59709383 Score: 212
Period size: 68 Copynumber: 3.8 Consensus size: 65
59709122 CATAATTTTG
* * * * * *
59709132 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGT-TTATCTCG
1 GCTCTCTTGT-CTACATGGTGTACACATAGAACCACACATGCGACCTAGCTACA-TCATATCTCG
59709193 TA
64 TA
* * *
59709195 GCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACACATGCGACCTAGCTACAT-ATATCCC
1 GCTCTCTTGTCTACATGGTG---TACACATAGAACCACACATGCGACCTAGCTACATCATATCTC
59709259 GTA
63 GTA
* * *
59709262 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGAACCACACATGCGACCTAGCTACATCAT-A--TCTC
59709327 GTA
63 GTA
* * * * *
59709330 GCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACAT
1 GCTCTCTTGT-CTACATGGTGTACACAT-AGAACCACACATGCGACCTAGCTACAT
59709384 ACCATCTGTA
Statistics
Matches: 156, Mismatches: 21, Indels: 19
0.80 0.11 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 29 0.19
65 2 0.01
66 24 0.15
67 30 0.19
68 51 0.33
69 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGTACACATAGAACCACACATGCGACCTAGCTACATCATATCTCGTA
Found at i:59713440 original size:23 final size:23
Alignment explanation
Indices: 59713377--59713442 Score: 105
Period size: 23 Copynumber: 2.9 Consensus size: 23
59713367 ATACACGGAT
*
59713377 TCCAACCAAACACACCAAAATAA
1 TCCAACCAAACACACCAGAATAA
*
59713400 TCCAACTAAACACACCAGAATAA
1 TCCAACCAAACACACCAGAATAA
*
59713423 TCCACCCAAACACACCAGAA
1 TCCAACCAAACACACCAGAA
59713443 CGGCACTTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.52, C:0.36, G:0.03, T:0.09
Consensus pattern (23 bp):
TCCAACCAAACACACCAGAATAA
Found at i:59713640 original size:24 final size:24
Alignment explanation
Indices: 59713588--59713646 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
59713578 AGGGTATTCA
59713588 ACTT-TCATA-TTTCAATTCAATC
1 ACTTCTCATATTTTCAATTCAATC
*
59713610 ACTTTCTCATATTTTCCATTCAAATC
1 AC-TTCTCATATTTTCAATTC-AATC
59713636 A-TTCTCA-ATTT
1 ACTTCTCATATTT
59713647 AATCAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
22 2 0.06
23 6 0.19
24 11 0.34
25 8 0.25
26 5 0.16
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (24 bp):
ACTTCTCATATTTTCAATTCAATC
Found at i:59714340 original size:46 final size:46
Alignment explanation
Indices: 59714280--59714599 Score: 444
Period size: 46 Copynumber: 7.0 Consensus size: 46
59714270 TTTGACATGA
* * * * * *
59714280 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
59714326 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*** *** *
59714372 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
59714418 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
59714464 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
59714510 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
59714556 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
59714600 AGAGCACACT
Statistics
Matches: 251, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 247 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:59716772 original size:18 final size:20
Alignment explanation
Indices: 59716757--59716793 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
59716747 TAATAATAAA
*
59716757 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
59716777 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
59716794 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:59717360 original size:63 final size:63
Alignment explanation
Indices: 59717287--59717412 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
59717277 GATATCTATA
59717287 CATAATTTTACTTCATCTCAATTTCATTCATTTCAATATTGATACTTACCTTAAAATTTTACT
1 CATAATTTTACTTCATCTCAATTTCATTCATTTCAATATTGATACTTACCTTAAAATTTTACT
59717350 CATAATTTTACTTCATCTCAATTTCATTCATTTCAATATTGATACTTACCTTAAAATTTTACT
1 CATAATTTTACTTCATCTCAATTTCATTCATTTCAATATTGATACTTACCTTAAAATTTTACT
59717413 TACCATACAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.32, C:0.19, G:0.02, T:0.48
Consensus pattern (63 bp):
CATAATTTTACTTCATCTCAATTTCATTCATTTCAATATTGATACTTACCTTAAAATTTTACT
Found at i:59718098 original size:16 final size:16
Alignment explanation
Indices: 59718079--59718111 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
59718069 AAATAGTCTC
*
59718079 TGTTTCTTTTCTTCTT
1 TGTTTCTTTTATTCTT
59718095 TGTTTCTTTTATTCTT
1 TGTTTCTTTTATTCTT
59718111 T
1 T
59718112 TACTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTTATTCTT
Found at i:59718152 original size:3 final size:3
Alignment explanation
Indices: 59718136--59718183 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
59718126 TATGCATTAG
*
59718136 ATA ATA A-A ATTA ATA ATA ATA ATA ATA CATT ATA ATA AT- ATA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
59718181 ATA
1 ATA
59718184 TTTAATTCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 4 0.10
3 31 0.79
4 4 0.10
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:59718162 original size:21 final size:21
Alignment explanation
Indices: 59718136--59718183 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
59718126 TATGCATTAG
59718136 ATAATAAAAT-TAATAATAATA
1 ATAATAAAATATAATAAT-ATA
* *
59718157 ATAATACATTATAATAATATA
1 ATAATAAAATATAATAATATA
59718178 ATAATA
1 ATAATA
59718184 TTTAATTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAATAAAATATAATAATATA
Found at i:59723807 original size:29 final size:29
Alignment explanation
Indices: 59723775--59723834 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
59723765 TATAAAACAC
*
59723775 AAAAAATATATC-AAAATTCTAAAAAATTA
1 AAAAAATACATCAAAAATT-TAAAAAATTA
*
59723804 AAAAAATACATCAAAAATTTTAAAAATTA
1 AAAAAATACATCAAAAATTTAAAAAATTA
59723833 AA
1 AA
59723835 TAAGTTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (29 bp):
AAAAAATACATCAAAAATTTAAAAAATTA
Found at i:59729006 original size:5 final size:5
Alignment explanation
Indices: 59728998--59729052 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
59728988 TAAGTTAATA
* *
59728998 TATAT TATAA TATACT TAAGTAT TA-AG TATA- TATAT TATAT TATAT
1 TATAT TATAT TATA-T T-A-TAT TATAT TATAT TATAT TATAT TATAT
59729044 TATAT TATA
1 TATAT TATA
59729053 ATAAAACAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
4 7 0.17
5 28 0.67
6 2 0.05
7 3 0.07
8 2 0.05
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (5 bp):
TATAT
Found at i:59731708 original size:20 final size:20
Alignment explanation
Indices: 59731672--59731711 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
59731662 TATTTATAAC
*
59731672 ATAAAAAAATATTTTAAATT
1 ATAAAAAAATATATTAAATT
59731692 ATAAAAAAAGTA-ATTAAATT
1 ATAAAAAAA-TATATTAAATT
59731712 TAACATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
ATAAAAAAATATATTAAATT
Found at i:59732102 original size:26 final size:26
Alignment explanation
Indices: 59732073--59732125 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
59732063 GCCGCACTTT
59732073 CTTGTCACCTGTGCAGTAAGCACTCC
1 CTTGTCACCTGTGCAGTAAGCACTCC
59732099 CTTGTCACCTGTGCAGTAAGCACTCC
1 CTTGTCACCTGTGCAGTAAGCACTCC
59732125 C
1 C
59732126 AGCTAGACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.36, G:0.19, T:0.26
Consensus pattern (26 bp):
CTTGTCACCTGTGCAGTAAGCACTCC
Found at i:59735000 original size:22 final size:22
Alignment explanation
Indices: 59734974--59735018 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
59734964 ATTATTTGTA
59734974 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
59734996 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
59735018 T
1 T
59735019 GAGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:59739791 original size:23 final size:23
Alignment explanation
Indices: 59739763--59739810 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
59739753 AAACACCTAA
59739763 AAGAACTTGTTTGTAAAACATGT
1 AAGAACTTGTTTGTAAAACATGT
59739786 AAGAACTTGTTTGTAAAACATGT
1 AAGAACTTGTTTGTAAAACATGT
59739809 AA
1 AA
59739811 AAATAGGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (23 bp):
AAGAACTTGTTTGTAAAACATGT
Found at i:59740447 original size:42 final size:43
Alignment explanation
Indices: 59740365--59740465 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 43
59740355 TGTGTTATCA
* * * * * *
59740365 TGTAAGACCATATCTGGGATATGGTATTGATATGAGA-TTTTG
1 TGTAAGACCATATCTGGGACATGGCATCGAAATAAAATTTTTG
* *
59740407 TGTAAGACCATGTTTGGGACATGGCATCGAAATAAAATTTTTG
1 TGTAAGACCATATCTGGGACATGGCATCGAAATAAAATTTTTG
*
59740450 TATAAGACCATATCTG
1 TGTAAGACCATATCTG
59740466 ATATATGGCA
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
42 29 0.62
43 18 0.38
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGACATGGCATCGAAATAAAATTTTTG
Found at i:59752487 original size:46 final size:47
Alignment explanation
Indices: 59752364--59752492 Score: 208
Period size: 46 Copynumber: 2.8 Consensus size: 47
59752354 TGTAACCCGC
* * * *
59752364 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-AAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
59752410 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
59752456 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59752493 TGCTCAATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
46 77 0.99
47 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.19
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:59754751 original size:15 final size:13
Alignment explanation
Indices: 59754731--59754787 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
59754721 TATTTTAGAT
59754731 TTTGTTTCATTTTTA
1 TTTGTTT-A-TTTTA
59754746 TTTGTTTATTTTA
1 TTTGTTTATTTTA
*
59754759 TTTATTTA-TTTA
1 TTTGTTTATTTTA
* *
59754771 -GTATTTATTTTA
1 TTTGTTTATTTTA
59754783 TTTGT
1 TTTGT
59754788 GTTTAGTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 6 0.17
12 8 0.22
13 14 0.39
14 1 0.03
15 7 0.19
ACGTcount: A:0.18, C:0.02, G:0.07, T:0.74
Consensus pattern (13 bp):
TTTGTTTATTTTA
Found at i:59754792 original size:15 final size:15
Alignment explanation
Indices: 59754750--59754797 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
59754740 TTTTTATTTG
59754750 TTTATTT-TATTTA-
1 TTTATTTGTATTTAT
59754763 TTTATTTAGTATTTAT
1 TTTATTT-GTATTTAT
*
59754779 TTTATTTGTGTTTAGT
1 TTTATTTGTATTTA-T
59754795 TTT
1 TTT
59754798 TTTCCCCCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 7 0.23
15 12 0.40
16 11 0.37
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (15 bp):
TTTATTTGTATTTAT
Found at i:59768944 original size:20 final size:21
Alignment explanation
Indices: 59768908--59768947 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
59768898 AAGTTATTTT
59768908 AGTTGATAGTTTAAATTTATA
1 AGTTGATAGTTTAAATTTATA
59768929 AGTTGA-AGTTGT-AATTTAT
1 AGTTGATAGTT-TAAATTTAT
59768948 TATAATGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.47
Consensus pattern (21 bp):
AGTTGATAGTTTAAATTTATA
Found at i:59771760 original size:39 final size:40
Alignment explanation
Indices: 59771715--59771882 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
59771705 CGGGGTTTAG
* * *
59771715 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
59771754 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
59771794 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
59771834 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
59771875 CCGGATAT
1 CCGGATAT
59771883 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:59771865 original size:41 final size:40
Alignment explanation
Indices: 59771738--59771882 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
59771728 CTCGCACAAG
* * * * *
59771738 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
59771778 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
59771818 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
59771859 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
59771883 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:59773117 original size:37 final size:37
Alignment explanation
Indices: 59773069--59773142 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
59773059 CAAGAACTCC
*
59773069 TTCCTCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTCCTTAGAATTTTCGGCCAAAAGAAATGAA
59773106 TTCCTCCTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTCCTTAGAATTTTCGGCCAAAAGAAATGAA
59773143 AAAGGATGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (37 bp):
TTCCTCCTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:59779811 original size:39 final size:39
Alignment explanation
Indices: 59779753--59779931 Score: 110
Period size: 39 Copynumber: 4.6 Consensus size: 39
59779743 AATCAAGCAT
* *
59779753 CTTCGGGT-TT-AGCCGGATATAACCACTCGCACAAGGC
1 CTTCGGGTCTTAACCCGGATATAACCACTAGCACAAGGC
*** * *
59779790 CTTCGGGTCTTAACCCGGATATGGTCACTAGCATAATGC
1 CTTCGGGTCTTAACCCGGATATAACCACTAGCACAAGGC
* * ** * *
59779829 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAACCCGGATATAACCACTAGCAC-AAGGC
* ** * ** * *
59779869 CTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGC
1 CTTCGGGTCTTAACCCGGATATAACCAC-TAGCAC-AAGGC
* *
59779910 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAACCCGGATAT
59779932 CATTCGAGTA
Statistics
Matches: 117, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
37 8 0.07
38 2 0.02
39 49 0.42
40 29 0.25
41 29 0.25
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
CTTCGGGTCTTAACCCGGATATAACCACTAGCACAAGGC
Found at i:59779881 original size:40 final size:40
Alignment explanation
Indices: 59779788--59779931 Score: 184
Period size: 39 Copynumber: 3.6 Consensus size: 40
59779778 CTCGCACAAG
* * * * *
59779788 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCA-TAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
59779827 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
59779867 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
59779908 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
59779932 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 34 0.37
40 27 0.30
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:59782082 original size:47 final size:46
Alignment explanation
Indices: 59781978--59782106 Score: 199
Period size: 47 Copynumber: 2.8 Consensus size: 46
59781968 CATGTACCCG
* * *
59781978 CCATAAGCGAACTCGGACTCAACTC-ACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
59782023 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTACGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATT-CGCAT
59782070 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59782107 TGCTCAATCA
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
45 26 0.33
46 10 0.13
47 42 0.54
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59789098 original size:20 final size:20
Alignment explanation
Indices: 59789073--59789111 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
59789063 TATCTTAATA
59789073 TTTTCCTTAACATCAAACAG
1 TTTTCCTTAACATCAAACAG
59789093 TTTTCCTTAACATCAAACA
1 TTTTCCTTAACATCAAACA
59789112 TAATCTACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.36
Consensus pattern (20 bp):
TTTTCCTTAACATCAAACAG
Found at i:59789823 original size:46 final size:46
Alignment explanation
Indices: 59789672--59789847 Score: 202
Period size: 46 Copynumber: 3.8 Consensus size: 46
59789662 ATGTAACCGC
* *
59789672 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCAAGG-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC--GGACATTCGCAT
*
59789719 CCATAAGTGAACTCGGACTCAACTCAACGAGTT-GGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
59789768 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
59789811 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59789848 TGCTCAATCA
Statistics
Matches: 110, Mismatches: 8, Indels: 23
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 4 0.04
45 2 0.02
46 54 0.49
47 36 0.33
48 2 0.02
49 4 0.04
50 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59789838 original size:92 final size:93
Alignment explanation
Indices: 59789680--59789850 Score: 292
Period size: 92 Copynumber: 1.8 Consensus size: 93
59789670 GCCCATAAGT
*
59789680 GAACTTGGACTCAACTCAACGAGCTCAAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-AGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59789745 ACGAGTT-GGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
*
59789773 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59789837 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
59789851 TCAATCATCC
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
91 2 0.03
92 42 0.57
93 30 0.41
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59797988 original size:34 final size:34
Alignment explanation
Indices: 59797945--59798020 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
59797935 ACTCAATATT
*
59797945 TAATGAATATTTATTTTGTGAAATTTAATATAATA
1 TAAT-AATATTTATTTTGTGAAATTTAATAAAATA
59797980 TAATAATATTTATTTTGTGAAATTTAATAAAATA
1 TAATAATATTTATTTTGTGAAATTTAATAAAATA
*
59798014 TTATAAT
1 TAATAAT
59798021 TTAACTTTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 35 0.90
35 4 0.10
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.49
Consensus pattern (34 bp):
TAATAATATTTATTTTGTGAAATTTAATAAAATA
Found at i:59798564 original size:12 final size:12
Alignment explanation
Indices: 59798547--59798582 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
59798537 AAAATGAAAA
59798547 CTATAATTTTCC
1 CTATAATTTTCC
* *
59798559 CTATAATATTCG
1 CTATAATTTTCC
59798571 CTATAATTTTCC
1 CTATAATTTTCC
59798583 AACGAGGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.28, C:0.22, G:0.03, T:0.47
Consensus pattern (12 bp):
CTATAATTTTCC
Found at i:59800635 original size:42 final size:41
Alignment explanation
Indices: 59800588--59800710 Score: 147
Period size: 41 Copynumber: 3.0 Consensus size: 41
59800578 CAGTGATATA
* *
59800588 ATATCAGGCTTATTGCCTAGTAGGCTTTGATGCCGGTGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTT-ATACCGGTGTATG
*
59800630 ATATCAGGCTTATTGCCTAGCAGGCTTTATACCGGTGTATT
1 ATATCAGGCTTATTGCCTAGCAGGCTTTATACCGGTGTATG
* * * * * * *
59800671 AAATTAGGTTTACTGCCTAGCAAGCTCTGTACCGGTGTAT
1 ATATCAGGCTTATTGCCTAGCAGGCTTTATACCGGTGTAT
59800711 TATACTAGGC
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 44 0.62
42 27 0.38
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (41 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTATACCGGTGTATG
Found at i:59800729 original size:41 final size:40
Alignment explanation
Indices: 59800588--59800730 Score: 117
Period size: 41 Copynumber: 3.5 Consensus size: 40
59800578 CAGTGATATA
* * * * * *
59800588 ATATCAGGCTTATTGCCTAGTAGGCTTTGATGCCGGTGTATG
1 ATAT-AGGCTTACTGCCTAGCAAGCTCT-ATACCGGTGTATT
* * *
59800630 ATATCAGGCTTATTGCCTAGCAGGCTTTATACCGGTGTATT
1 ATAT-AGGCTTACTGCCTAGCAAGCTCTATACCGGTGTATT
* * *
59800671 AAATTAGGTTTACTGCCTAGCAAGCTCTGTACCGGTGTATT
1 ATA-TAGGCTTACTGCCTAGCAAGCTCTATACCGGTGTATT
59800712 ATACTAGGCTCTA-TGCCTA
1 ATA-TAGGCT-TACTGCCTA
59800731 ACAAATTTTA
Statistics
Matches: 87, Mismatches: 12, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
41 57 0.66
42 30 0.34
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (40 bp):
ATATAGGCTTACTGCCTAGCAAGCTCTATACCGGTGTATT
Found at i:59804992 original size:33 final size:33
Alignment explanation
Indices: 59804950--59805014 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
59804940 TCTGAAGTCT
* *
59804950 GAAGTTTTCTGGGACTTTCTGGTTACTATAGAC
1 GAAGTTTTCTGGGACTTCCTGGCTACTATAGAC
59804983 GAAGTTTTCTGGGACTTCCTGGCTACTATAGA
1 GAAGTTTTCTGGGACTTCCTGGCTACTATAGA
59805015 TGGTTCGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.37
Consensus pattern (33 bp):
GAAGTTTTCTGGGACTTCCTGGCTACTATAGAC
Found at i:59808476 original size:14 final size:14
Alignment explanation
Indices: 59808457--59808486 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
59808447 GAAGGATATA
59808457 TATATGTATTTAGT
1 TATATGTATTTAGT
*
59808471 TATATGTATTTGGT
1 TATATGTATTTAGT
59808485 TA
1 TA
59808487 CCATGGCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (14 bp):
TATATGTATTTAGT
Found at i:59809105 original size:96 final size:96
Alignment explanation
Indices: 59808941--59809123 Score: 264
Period size: 96 Copynumber: 1.9 Consensus size: 96
59808931 TAGGTTTTTG
* * *
59808941 TTTTCGGTGCTCTTCATTTTTCTCATCTATTCCATCATTGGACTATGTTTTTGGTCCTTTTTTTT
1 TTTTCAGTGCTCTTCATTTTTCTCATCTATTCCACCATTGGACTATGTTTTTGGTCCTATTTTTT
*
59809006 TCTTCTCAAATCTTTCAAACTTAAAAAATCT
66 TCTTCTCAAATCTATCAAACTTAAAAAATCT
* *
59809037 TTTTCAGTGCTCTTCA-TTTTCTCATCTATTCCACCATTAGG-CTCT-TTTTTTGTCTGCTATTT
1 TTTTCAGTGCTCTTCATTTTTCTCATCTATTCCACCATT-GGACTATGTTTTTGGTC--CTATTT
59809099 TTTTCTTCTCAAATCTATCAAACTT
63 TTTTCTTCTCAAATCTATCAAACTT
59809124 CAAATCTCTA
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
94 8 0.10
95 24 0.31
96 46 0.59
ACGTcount: A:0.19, C:0.22, G:0.08, T:0.51
Consensus pattern (96 bp):
TTTTCAGTGCTCTTCATTTTTCTCATCTATTCCACCATTGGACTATGTTTTTGGTCCTATTTTTT
TCTTCTCAAATCTATCAAACTTAAAAAATCT
Found at i:59809846 original size:13 final size:13
Alignment explanation
Indices: 59809812--59809839 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
59809802 TTATTTATTC
59809812 AATTAATTTAATT
1 AATTAATTTAATT
59809825 AATTAATTTAATT
1 AATTAATTTAATT
59809838 AA
1 AA
59809840 ATTATTTTCT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATTAATTTAATT
Found at i:59813969 original size:48 final size:48
Alignment explanation
Indices: 59813898--59814179 Score: 282
Period size: 48 Copynumber: 5.9 Consensus size: 48
59813888 TACTAGGGTT
* *
59813898 ATATGTGAGCTAGTGTAGGACCATGTCTGAGACATGGCATC-AGCTTTG
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTTTG
* **
59813946 ATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTCA
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTTG
* * * *
59813994 ATATGTAAG-TCAGTGTAAGACTATGTTTGGGACATGGCATCGACTTCG
1 ATATGTGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACTTTG
* * * * * *
59814042 CTATGTGAGCTAGTGTAAGACCATGTTTGGAACATAGAATCGACATTG
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTTG
* * * * * * * * *
59814090 TTGTATGAGCTAGTGTAGGACCATGTTTGGAACATGGCCTCGGCATT-
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTTG
* *
59814137 ATTATGAGATCTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 A-TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
59814180 GTATCGACTA
Statistics
Matches: 195, Mismatches: 35, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
48 193 0.99
49 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (48 bp):
ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTTG
Found at i:59829053 original size:137 final size:137
Alignment explanation
Indices: 59828807--59829220 Score: 774
Period size: 137 Copynumber: 3.0 Consensus size: 137
59828797 TTAAGTCCAT
*
59828807 GTTTTATTGGACCCTATGAAGTAACCGAGAAAATCAGACCGGTAGCATACTAATTAGCTTTACCG
1 GTTTTATTGGACCCTATGAAGTAACCGAGAAAATCAGACCGGTAGCATACTGATTAGCTTTACCG
*
59828872 TCTAAGTTAGAGAAGATCCATGATGTATTCCATGTGTCAATGTTACAATGTTACCGTTCTAACCC
66 TCTGAGTTAGAGAAGATCCATGATGTATTCCATGTGTCAATGTTACAATGTTACCGTTCTAACCC
*
59828937 TTCGCCC
131 TTCGCAC
59828944 GTTTTATTGGACCCTATGAAGTAACCGAGAAAATCAGACCGGTAGCATACTGATTAGCTTTACCG
1 GTTTTATTGGACCCTATGAAGTAACCGAGAAAATCAGACCGGTAGCATACTGATTAGCTTTACCG
*
59829009 TCTGAGTTAGAGAAGATCCATGATGTATTCCATGTGTAAATGTTACAATGTTACCGTTCTAACCC
66 TCTGAGTTAGAGAAGATCCATGATGTATTCCATGTGTCAATGTTACAATGTTACCGTTCTAACCC
*
59829074 TTCACAC
131 TTCGCAC
*
59829081 GTTTTATTGGACCCTATGAAGTAACCGAGAAAATCAGACTGGTAGCATACTGATTAGCTTTACCG
1 GTTTTATTGGACCCTATGAAGTAACCGAGAAAATCAGACCGGTAGCATACTGATTAGCTTTACCG
59829146 TCTGAGTTAGAGAAGATCCATGATGTATTCCATGTGTCAATGTTACAATGTTACCGTTCTAACCC
66 TCTGAGTTAGAGAAGATCCATGATGTATTCCATGTGTCAATGTTACAATGTTACCGTTCTAACCC
59829211 TTCGCAC
131 TTCGCAC
59829218 GTT
1 GTT
59829221 CTTTCACCAA
Statistics
Matches: 269, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 269 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (137 bp):
GTTTTATTGGACCCTATGAAGTAACCGAGAAAATCAGACCGGTAGCATACTGATTAGCTTTACCG
TCTGAGTTAGAGAAGATCCATGATGTATTCCATGTGTCAATGTTACAATGTTACCGTTCTAACCC
TTCGCAC
Found at i:59830724 original size:48 final size:48
Alignment explanation
Indices: 59830653--59830885 Score: 247
Period size: 48 Copynumber: 4.9 Consensus size: 48
59830643 TACTAAGCTT
* *
59830653 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACTTGGCATTGGC-TTCG
1 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT-G
* * *
59830701 ATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTCG
1 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT-G
* *
59830749 ATATGTGAGCCAGTGTAAGATCATGTTTAGAACATGGCATCGGCATTG
1 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTG
* * * * * * *
59830797 TTGTATGAGCTAGTGTAGGACCATGTTTGAAACATGGCCTCGGCATTG
1 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTG
* * * * *
59830845 TTATGAGAGCTAGTGGAAGACCATGTCTAGG-ACATGGCATC
1 ATATGTGAGCCAGTGTAAGACCATGT-TTGGAACATGGCATC
59830886 TGTATCTATA
Statistics
Matches: 156, Mismatches: 27, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
48 152 0.97
49 4 0.03
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (48 bp):
ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTG
Found at i:59833091 original size:15 final size:15
Alignment explanation
Indices: 59833071--59833101 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
59833061 AGCATTTGAG
59833071 TAGGTGATTTATAGC
1 TAGGTGATTTATAGC
59833086 TAGGTGATTTATAGC
1 TAGGTGATTTATAGC
59833101 T
1 T
59833102 TTTATTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.42
Consensus pattern (15 bp):
TAGGTGATTTATAGC
Found at i:59837653 original size:13 final size:13
Alignment explanation
Indices: 59837635--59837670 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
59837625 TTTGGATGTA
59837635 TTGTTGTGTTAAT
1 TTGTTGTGTTAAT
59837648 TTGTTGTGTTAAT
1 TTGTTGTGTTAAT
59837661 TTGTTGTGTT
1 TTGTTGTGTT
59837671 GAAGTTCCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.11, C:0.00, G:0.25, T:0.64
Consensus pattern (13 bp):
TTGTTGTGTTAAT
Found at i:59842635 original size:18 final size:18
Alignment explanation
Indices: 59842614--59842658 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
59842604 ACAATTTAAA
59842614 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
59842632 ATATTTAAATTTATTAATAT
1 ATA--TAAATTTATTAATAT
*
59842652 ATGTAAA
1 ATATAAA
59842659 AATAGCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 7 0.29
20 17 0.71
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:59842781 original size:14 final size:14
Alignment explanation
Indices: 59842762--59842788 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59842752 TCTAGAAAAG
59842762 TAAATCATTTTCCA
1 TAAATCATTTTCCA
59842776 TAAATCATTTTCC
1 TAAATCATTTTCC
59842789 GGAAAACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (14 bp):
TAAATCATTTTCCA
Found at i:59845524 original size:46 final size:46
Alignment explanation
Indices: 59845474--59845602 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
59845464 TGGTTGAGCA
* *
59845474 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
59845520 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
59845566 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59845603 GCGGGTTACA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:59853061 original size:46 final size:46
Alignment explanation
Indices: 59853006--59853130 Score: 232
Period size: 46 Copynumber: 2.7 Consensus size: 46
59852996 GGTTGAGCAT
*
59853006 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
59853052 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
59853098 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
59853131 CGGGCGGGTT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.19, C:0.24, G:0.30, T:0.27
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:59856254 original size:38 final size:37
Alignment explanation
Indices: 59856211--59856289 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 37
59856201 AAATTTTTGC
59856211 CCATCTTTCTCCCATGGCCAAAATTTACAAGAGGAAA
1 CCATCTTTCTCCCATGGCCAAAATTTACAAGAGGAAA
59856248 TCCATCTTTCTCCCATGGCCAAAATTTACAAGAGGAAA
1 -CCATCTTTCTCCCATGGCCAAAATTTACAAGAGGAAA
59856286 CCAT
1 CCAT
59856290 GGCTAGGGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 4 0.10
38 37 0.90
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (37 bp):
CCATCTTTCTCCCATGGCCAAAATTTACAAGAGGAAA
Found at i:59857181 original size:43 final size:42
Alignment explanation
Indices: 59857051--59857198 Score: 149
Period size: 42 Copynumber: 3.5 Consensus size: 42
59857041 AAGACTATGG
* * * *
59857051 GTAAGACCATATCTGGAATAT-GACATCTATATGAGACTT-CGT
1 GTAAGACCATATCTGGGATATGGA-ATCGATACGAGA-TTACAT
* * *
59857093 GTAAGACCATATCTGGGATATGGAATCGATATGAGATTTCGT
1 GTAAGACCATATCTGGGATATGGAATCGATACGAGATTACAT
* * *
59857135 GTAAGACCATAGT-TGGGCTGTTGGCATCGATACGAGATTACAT
1 GTAAGACCATA-TCTGGGAT-ATGGAATCGATACGAGATTACAT
59857178 GTAAGACCATATCTGGGATAT
1 GTAAGACCATATCTGGGATAT
59857199 AGATTGGTAT
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
41 2 0.02
42 52 0.57
43 37 0.41
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
GTAAGACCATATCTGGGATATGGAATCGATACGAGATTACAT
Found at i:59863569 original size:42 final size:41
Alignment explanation
Indices: 59863517--59863665 Score: 183
Period size: 42 Copynumber: 3.6 Consensus size: 41
59863507 CAGACTATGA
* *
59863517 GTAAGGCCATATCTGGGATATGGCATCTATATGAGACTTCGT
1 GTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTCGT
* *
59863559 GTAAGACCATATATGGGATATGGCATAGATATGAGATTTCGT
1 GTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTCGT
* * * *
59863601 GTAAGACCATAGCT-GGCTATTGGCATCGATACGAGATTACAT
1 GTAAGACCATATCTGGGATA-TGGCATCGATATGAGATT-CGT
59863643 GTAAGACCATATCTGGGATATGG
1 GTAAGACCATATCTGGGATATGG
59863666 TATTGGTATG
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
41 6 0.07
42 81 0.89
43 4 0.04
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (41 bp):
GTAAGACCATATCTGGGATATGGCATCGATATGAGATTCGT
Found at i:59865548 original size:20 final size:21
Alignment explanation
Indices: 59865523--59865561 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
59865513 TCCTTAAAAC
59865523 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
59865543 AGGGCAATACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
59865562 ACCGACTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.21, C:0.28, G:0.38, T:0.13
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:59866672 original size:47 final size:48
Alignment explanation
Indices: 59866601--59866862 Score: 265
Period size: 47 Copynumber: 5.6 Consensus size: 48
59866591 TAAGGTGCCT
* *
59866601 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATCTC-AAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCGAAGCCG
* * *
59866648 ACGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATCTCGAAGCCG
* * * *
59866696 ATG-CATGTCCCAGGCAT-GTCTTACACTGGCTTACGTCTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCGAAGCCG
* * * *
59866742 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTC-AATGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCGAA-GCCG
* * ** *
59866788 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-CTCGAAGCCG
59866836 ATG-CATGTCCCAGACAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
59866863 ATCCAACAAC
Statistics
Matches: 185, Mismatches: 22, Indels: 17
0.83 0.10 0.08
Matches are distributed among these distances:
45 1 0.01
46 75 0.41
47 78 0.42
48 30 0.16
49 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCGAAGCCG
Found at i:59866857 original size:140 final size:140
Alignment explanation
Indices: 59866605--59866862 Score: 369
Period size: 140 Copynumber: 1.8 Consensus size: 140
59866595 GTGCCTATGC
* *
59866605 CATGTCCTAGACATGGTCTTACACTGGCTCACATCTCAAGTCGACGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGTCGACGCCATGTCCCAGACATGGTC
* *
59866670 TTACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGGCATGTCTTACACTGGCTTACGTCTC
66 TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTC
59866735 GAGGCCGATG
131 GAGGCCGATG
* * *
59866745 CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAA-TGCTGATGCCATGTCCCAGACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGT-C-GACGCCATGTCCCAGACATGG
* * * *
59866808 TCTTACACTGGCTCTCATAAT-GTGGCTGATGCATGTCCCAGACATGTCTTACACT
64 TCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACT
59866863 ATCCAACAAC
Statistics
Matches: 104, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
138 1 0.01
139 22 0.21
140 80 0.77
141 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGTCGACGCCATGTCCCAGACATGGTC
TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTC
GAGGCCGATG
Found at i:59871910 original size:18 final size:18
Alignment explanation
Indices: 59871889--59871925 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
59871879 ACTCATGTAA
59871889 TTTTTCTTTTTG-ACTTTT
1 TTTTTC-TTTTGCACTTTT
59871907 TTTTTCTTTTGCACTTTT
1 TTTTTCTTTTGCACTTTT
59871925 T
1 T
59871926 AGGCTATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.05, C:0.14, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTTCTTTTGCACTTTT
Found at i:59872382 original size:23 final size:22
Alignment explanation
Indices: 59872333--59872382 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
59872323 CTTAATGCCT
* *
59872333 ATTT-ACAGTGTAATATATAAA
1 ATTTAACAGTCTAATATAAAAA
*
59872354 ACTTAACAGTCTAATAATAAAAA
1 ATTTAACAGTCTAAT-ATAAAAA
59872377 ATTTAA
1 ATTTAA
59872383 AATCAACTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 3 0.13
22 9 0.39
23 11 0.48
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.34
Consensus pattern (22 bp):
ATTTAACAGTCTAATATAAAAA
Found at i:59880825 original size:23 final size:26
Alignment explanation
Indices: 59880788--59880835 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
59880778 CCCCATTTTA
*
59880788 TTCTTTTGACTCATTC-CC-CTTGTC
1 TTCTTTAGACTCATTCTCCTCTTGTC
59880812 TTCTTTAG-CTCATTCTCCTCTTGT
1 TTCTTTAGACTCATTCTCCTCTTGT
59880836 ATAATCAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
24 9 0.43
25 5 0.24
ACGTcount: A:0.08, C:0.31, G:0.08, T:0.52
Consensus pattern (26 bp):
TTCTTTAGACTCATTCTCCTCTTGTC
Found at i:59886375 original size:362 final size:362
Alignment explanation
Indices: 59885692--59886395 Score: 1230
Period size: 362 Copynumber: 1.9 Consensus size: 362
59885682 AAGGAAGTAC
*
59885692 CTTTAGTTCGAGTGTAGGTGGTTCTTCGATTGACAATTTGGGTTGCACAAATTTTCTGACTTCCA
1 CTTTAGTTCGAGTGTAGGTGGTTCTTCGATTGACAATTTGGGTTGCACAAATTTTCTAACTTCCA
* *
59885757 ATTCCAATGGTTCAAACCGTGTGGATCAAATAAAATTCCTCGGGTTGGCTTCCATCACAGCCATG
66 ATTCCAACGGTTCAAACCATGTGGATCAAATAAAATTCCTCGGGTTGGCTTCCATCACAGCCATG
59885822 TTTTCTTCACATTCTTCATCCTCCAAAGGGTCAAACCCTAAGGATTTCTCCAATGGATCTTCTTC
131 TTTTCTTCACATTCTTCATCCTCCAAAGGGTCAAACCCTAAGGATTTCTCCAATGGATCTTCTTC
* *
59885887 AAGATGGCTTTACATAGAATTCAAGGTTTCTATTTCTTCCATAACTGAGCACTCTTCTGTCGGAT
196 AAGATGGCTTTACATAGAAATCAAGGTTTCTATTTCTTCCATAACTAAGCACTCTTCTGTCGGAT
* * *
59885952 CGGGAAATTTCATCGCTTTAAGAATGTTAAAAGTTACCTGATCATCTTGAACTCGCATGGTGAGT
261 CGAGAAATTTCATCGCTTTAAGAATGTTAAAAGTTACCTGATCATCTTAAACTCACATGGTGAGT
*
59886017 TCGCCTTTCTATACATCAATTAATGTTCTTCCCGTCA
326 TCACCTTTCTATACATCAATTAATGTTCTTCCCGTCA
*
59886054 CTTTAGTTGGAGTGTAGGTGGTTCTTCGATTGACAATTTGGGTTGCACAAATTTTCTAACTTCCA
1 CTTTAGTTCGAGTGTAGGTGGTTCTTCGATTGACAATTTGGGTTGCACAAATTTTCTAACTTCCA
* *
59886119 ATTCCAACGGTTCAAATCATGTGGATCGAATAAAATTCCTCGGGTTGGCTTCCATCACAGCCATG
66 ATTCCAACGGTTCAAACCATGTGGATCAAATAAAATTCCTCGGGTTGGCTTCCATCACAGCCATG
*
59886184 TTTTCTTCACATTCTTTATCCTCCAAAGGGTCAAACCCTAA-GACTTTCTCCAATGGATCTTCTT
131 TTTTCTTCACATTCTTCATCCTCCAAAGGGTCAAACCCTAAGGA-TTTCTCCAATGGATCTTCTT
* *
59886248 CAAGATGGCTTTACATAGAAATCAAGGTTTCTATTTCTTCCATAACTAAGCACTCTTTTTTCGGA
195 CAAGATGGCTTTACATAGAAATCAAGGTTTCTATTTCTTCCATAACTAAGCACTCTTCTGTCGGA
* *
59886313 TCGAGAAATTTTATCGCTTTAAGAATGTTAAAAGTTACCTGATCGTCTTAAACTCACATGGTGAG
260 TCGAGAAATTTCATCGCTTTAAGAATGTTAAAAGTTACCTGATCATCTTAAACTCACATGGTGAG
*
59886378 TTCACCTTTCTGTACATC
325 TTCACCTTTCTATACATC
59886396 TGTAACACCA
Statistics
Matches: 323, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
361 2 0.01
362 321 0.99
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.36
Consensus pattern (362 bp):
CTTTAGTTCGAGTGTAGGTGGTTCTTCGATTGACAATTTGGGTTGCACAAATTTTCTAACTTCCA
ATTCCAACGGTTCAAACCATGTGGATCAAATAAAATTCCTCGGGTTGGCTTCCATCACAGCCATG
TTTTCTTCACATTCTTCATCCTCCAAAGGGTCAAACCCTAAGGATTTCTCCAATGGATCTTCTTC
AAGATGGCTTTACATAGAAATCAAGGTTTCTATTTCTTCCATAACTAAGCACTCTTCTGTCGGAT
CGAGAAATTTCATCGCTTTAAGAATGTTAAAAGTTACCTGATCATCTTAAACTCACATGGTGAGT
TCACCTTTCTATACATCAATTAATGTTCTTCCCGTCA
Found at i:59887363 original size:81 final size:80
Alignment explanation
Indices: 59887224--59887404 Score: 231
Period size: 81 Copynumber: 2.2 Consensus size: 80
59887214 TTAGTTTACC
59887224 AAATTACCAAAATACCCCTGGCTTGTAAAATTACTAAAATACCCTTTATTTATAAAATTACCAAA
1 AAATTACCAAAATACCCCTGGCTTGTAAAATTACTAAAATACCC-TTATTTATAAAATTACCAAA
* *
59887289 ATACCCTTAGGTTGTA
65 ATACCCTCAAGTTGTA
* * * * * *
59887305 AAATTACCAAAATAACCCTGGTTTGTAAAATTA-TCAAAATACCAC-TAGTTTGTGAAATTATCG
1 AAATTACCAAAATACCCCTGGCTTGTAAAATTACT-AAAATACC-CTTA-TTTATAAAATTACCA
*
59887368 AAATACCCTCAATTTGTA
63 AAATACCCTCAAGTTGTA
59887386 AAATTACCAAAATACCCCT
1 AAATTACCAAAATACCCCT
59887405 AATTTACAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
80 3 0.03
81 83 0.95
82 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCCTGGCTTGTAAAATTACTAAAATACCCTTATTTATAAAATTACCAAAA
TACCCTCAAGTTGTA
Found at i:59887408 original size:27 final size:27
Alignment explanation
Indices: 59887224--59887443 Score: 192
Period size: 27 Copynumber: 8.1 Consensus size: 27
59887214 TTAGTTTACC
***
59887224 AAATTACCAAAATACCCCTGGCTTGTA
1 AAATTACCAAAATACCCCTAATTTGTA
* * * *
59887251 AAATTACTAAAATACCCTTTATTTATA
1 AAATTACCAAAATACCCCTAATTTGTA
* **
59887278 AAATTACCAAAATACCCTTAGGTTGTA
1 AAATTACCAAAATACCCCTAATTTGTA
* **
59887305 AAATTACCAAAATAACCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAATTTGTA
* * * *
59887332 AAATTATCAAAATACCACTAGTTTGTG
1 AAATTACCAAAATACCCCTAATTTGTA
* *
59887359 AAATTATCGAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AATTTGTA
**
59887386 AAATTACCAAAATACCCCTAATTTACA
1 AAATTACCAAAATACCCCTAATTTGTA
* *
59887413 AAATTA-CAGAAATACCCTTAACTTTATA
1 AAATTACCA-AAATACCCCTAA-TTTGTA
59887441 AAA
1 AAA
59887444 ATTATAGAAA
Statistics
Matches: 159, Mismatches: 30, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
26 5 0.03
27 142 0.89
28 12 0.08
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAATTTGTA
Found at i:59887513 original size:27 final size:27
Alignment explanation
Indices: 59887483--59887680 Score: 252
Period size: 27 Copynumber: 7.3 Consensus size: 27
59887473 TACTGAAATG
** *
59887483 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
59887510 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
59887537 CCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* **
59887564 CCCTCGATTTATAGAATTACTATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
59887591 CCCTCGATTTACAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
59887618 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * *
59887645 CCTTCAATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
59887672 CCCTCGATT
1 CCCTCGATT
59887681 GTGAAATTAC
Statistics
Matches: 151, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 151 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCGTTTTA
Found at i:59887558 original size:81 final size:81
Alignment explanation
Indices: 59887463--59887637 Score: 269
Period size: 81 Copynumber: 2.2 Consensus size: 81
59887453 ATACTATTGG
* * *
59887463 TTTACAAAATTACTGAAATGCCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATT
1 TTTACAAAATTACTGAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATT
59887528 ACCGTTTCACCCTCGA
66 ACCGTTTCACCCTCGA
*** *
59887544 TTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATT
1 TTTACAAAATTACTGAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATT
* *
59887609 ACTGTTTTACCCTCGA
66 ACCGTTTCACCCTCGA
59887625 TTTACAAAATTAC
1 TTTACAAAATTAC
59887638 CATTTTACCT
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 85 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (81 bp):
TTTACAAAATTACTGAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATT
ACCGTTTCACCCTCGA
Found at i:59887644 original size:81 final size:81
Alignment explanation
Indices: 59887483--59887680 Score: 288
Period size: 81 Copynumber: 2.4 Consensus size: 81
59887473 TACTGAAATG
* *
59887483 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
**
59887548 CAAAATTACTGTTTTA
66 CAAAATTACCATTTTA
* * *
59887564 CCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
59887629 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * * * *
59887645 CCTTCAATTTACAAAATTACCGTTTTACCCTCGATT
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATT
59887681 GTGAAATTAC
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 104 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:59887717 original size:27 final size:27
Alignment explanation
Indices: 59887693--59888149 Score: 497
Period size: 27 Copynumber: 16.9 Consensus size: 27
59887683 GAAATTACTA
* * *
59887693 AAATACCCTTGTAGGATAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
** * *
59887720 AAATACCCCTAGT-TTGTAAAATTACCA
1 AAATACCCCT-GTAGGGTAGAATTACCG
*** * *
59887747 AAATACCCCTAGT-TTATAAAATTACCA
1 AAATACCCCT-GTAGGGTAGAATTACCG
** *
59887774 AAATACCCCTAGT-TTGTAAAATTACCG
1 AAATACCCCT-GTAGGGTAGAATTACCG
* *
59887801 AAATACCCCTATAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
59887828 GAATACCCCTGTATGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
59887855 AAATACCCCTATAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
59887882 GAATACCCTTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
59887909 GAATACCCCTGTAGGATAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
59887936 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
59887963 AAATACCTCTATAGGGTAAAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
59887990 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
59888017 CAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
59888044 AAATACCCTTTTAGGTTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* ** *
59888071 AAATACCCCTATAGAATAAAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
59888098 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
59888125 AAATACCCCTGTAGGGTAGAATTAC
1 AAATACCCCTGTAGGGTAGAATTAC
59888150 TAAGATACCT
Statistics
Matches: 370, Mismatches: 58, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 1 0.00
27 367 0.99
28 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:59888636 original size:22 final size:22
Alignment explanation
Indices: 59888603--59888667 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
59888593 TTAAAGCCTT
* *
59888603 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
59888625 CT-ATATATGGCTCTGTGCCAAC
1 CTGAT-TATGGCTCTGTGCCAAC
*
59888647 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
59888668 ACGTATTTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 2 0.05
22 34 0.89
23 2 0.05
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:59888927 original size:27 final size:26
Alignment explanation
Indices: 59888833--59888927 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 26
59888823 TAAGTGCCTT
* *
59888833 TGCCACATTATCTGTTTCTGGTGGCTA
1 TGCCACAATATCTG-TTCTGGTGGCTC
*
59888860 TGCCACAAATATCTATTCTGGTGGCTC
1 TGCCAC-AATATCTGTTCTGGTGGCTC
* *
59888887 TGCCATAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGGCTC
*
59888914 TGTCACAATATCTG
1 TGCCACAATATCTG
59888928 ATAACTGAGC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 8 0.14
27 44 0.76
28 6 0.10
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGGCTC
Found at i:59889102 original size:6 final size:6
Alignment explanation
Indices: 59889087--59889255 Score: 200
Period size: 6 Copynumber: 27.8 Consensus size: 6
59889077 ATTCTGTTAC
* * *
59889087 CTGATG CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
59889136 CTGATT CTG-TCAC CTAATT CTAATT CTGATT CTGATT CTGATT CTGATT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT
* *
59889185 CTGATT TTGATT CTGATT CTGATT CTGATT CTGATT CTGATT TTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT
59889233 CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGA-TT CTGAT
59889256 AATGTTTCTT
Statistics
Matches: 142, Mismatches: 13, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
5 4 0.03
6 130 0.92
7 6 0.04
8 2 0.01
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (6 bp):
CTGATT
Found at i:59895262 original size:17 final size:17
Alignment explanation
Indices: 59895232--59895264 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
59895222 CGTGTGACAC
*
59895232 ACATGGTCATGTGGCAT
1 ACATGGCCATGTGGCAT
59895249 ACATGGCCATGTGGCA
1 ACATGGCCATGTGGCA
59895265 CGGTCATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.24
Consensus pattern (17 bp):
ACATGGCCATGTGGCAT
Found at i:59895768 original size:20 final size:20
Alignment explanation
Indices: 59895740--59895780 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
59895730 AAATGAAGTA
59895740 ATATATTATAGCTCCGGTCT
1 ATATATTATAGCTCCGGTCT
*
59895760 ATATCTTATAGCTCCGGTCT
1 ATATATTATAGCTCCGGTCT
59895780 A
1 A
59895781 GCAACTGGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (20 bp):
ATATATTATAGCTCCGGTCT
Found at i:59897311 original size:13 final size:13
Alignment explanation
Indices: 59897295--59897345 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
59897285 TTAACCTACT
59897295 TATTTAAAATATA
1 TATTTAAAATATA
* *
59897308 TATTTAAAACAAA
1 TATTTAAAATATA
59897321 TATATTACAAA-ATA
1 TAT-TTA-AAATATA
59897335 TATTTAAAATA
1 TATTTAAAATA
59897346 ATGAAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
12 3 0.09
13 18 0.56
14 8 0.25
15 3 0.09
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (13 bp):
TATTTAAAATATA
Found at i:59899190 original size:16 final size:16
Alignment explanation
Indices: 59899165--59899199 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
59899155 TTTATTACTA
59899165 TTGTAACGTTTTAAAG
1 TTGTAACGTTTTAAAG
*
59899181 TTGTAGCGTTTTAAAG
1 TTGTAACGTTTTAAAG
59899197 TTG
1 TTG
59899200 AGTCATCAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.46
Consensus pattern (16 bp):
TTGTAACGTTTTAAAG
Found at i:59900777 original size:33 final size:33
Alignment explanation
Indices: 59900732--59900834 Score: 197
Period size: 33 Copynumber: 3.1 Consensus size: 33
59900722 CCTATGTTTG
*
59900732 GTTTGTATATATGTAAATGCTATGTTTTTAAAC
1 GTTTATATATATGTAAATGCTATGTTTTTAAAC
59900765 GTTTATATATATGTAAATGCTATGTTTTTAAAC
1 GTTTATATATATGTAAATGCTATGTTTTTAAAC
59900798 GTTTATATATATGTAAATGCTATGTTTTTAAAC
1 GTTTATATATATGTAAATGCTATGTTTTTAAAC
59900831 GTTT
1 GTTT
59900835 TGTACATACA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 69 1.00
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.50
Consensus pattern (33 bp):
GTTTATATATATGTAAATGCTATGTTTTTAAAC
Found at i:59902698 original size:10 final size:10
Alignment explanation
Indices: 59902672--59902732 Score: 61
Period size: 10 Copynumber: 6.0 Consensus size: 10
59902662 CTATTTTTTC
*
59902672 CATAAAAACT
1 CATAAAAAAT
*
59902682 -ATTAAAAAT
1 CATAAAAAAT
59902691 CATAAAAATAT
1 CATAAAAA-AT
*
59902702 AATAAAAAAT
1 CATAAAAAAT
59902712 CATAAAAAAT
1 CATAAAAAAT
*
59902722 TATCAAAAAAT
1 CAT-AAAAAAT
59902733 ATTATATATT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
9 7 0.17
10 19 0.45
11 16 0.38
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (10 bp):
CATAAAAAAT
Found at i:59902729 original size:20 final size:20
Alignment explanation
Indices: 59902675--59902732 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
59902665 TTTTTTCCAT
* *
59902675 AAAAACTATTAAAAATCATA
1 AAAAATTATAAAAAATCATA
*
59902695 AAAATATAATAAAAAATCATA
1 AAAA-ATTATAAAAAATCATA
59902716 AAAAATTATCAAAAAAT
1 AAAAATTAT-AAAAAAT
59902733 ATTATATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 8 0.25
21 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAATTATAAAAAATCATA
Found at i:59902801 original size:19 final size:19
Alignment explanation
Indices: 59902767--59902837 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 19
59902757 ATGATAAAAT
*
59902767 AATTTCTATTAAATTATGAA
1 AATTT-TATAAAATTATGAA
59902787 AATTTTATAAAATTAATGAA
1 AATTTTATAAAATT-ATGAA
59902807 ACATGTTTA-AAATATT-T-AA
1 A-AT-TTTATAAA-ATTATGAA
59902826 AATTTTATAAAA
1 AATTTTATAAAA
59902838 ACGTATTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
17 5 0.11
18 5 0.11
19 11 0.24
20 12 0.27
21 5 0.11
22 7 0.16
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (19 bp):
AATTTTATAAAATTATGAA
Found at i:59905969 original size:26 final size:26
Alignment explanation
Indices: 59905932--59906015 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
59905922 TGATACAAAT
* *
59905932 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
59905958 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
59905984 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
59906010 TGATAA
1 TGATAA
59906016 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:59907475 original size:25 final size:26
Alignment explanation
Indices: 59907447--59907498 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
59907437 TTTACAGTTT
59907447 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
59907472 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
59907498 T
1 T
59907499 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:59911686 original size:26 final size:26
Alignment explanation
Indices: 59911648--59911731 Score: 134
Period size: 26 Copynumber: 3.2 Consensus size: 26
59911638 TGATACAAAT
*
59911648 TGATAAT-AGGTTAGGTAAATGTTCCA
1 TGATAATGA-GTTAGGTAAATGTTTCA
59911674 TGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATGAGTTAGGTAAATGTTTCA
*
59911700 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGAGTTAGGTAAATGTTTCA
59911726 TGATAA
1 TGATAA
59911732 GAATTTCATG
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
26 54 0.98
27 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGAGTTAGGTAAATGTTTCA
Found at i:59915637 original size:22 final size:22
Alignment explanation
Indices: 59915612--59915656 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
59915602 TGAGACAAGG
59915612 TCAGAATGATTTCGGGTTCCCC
1 TCAGAATGATTTCGGGTTCCCC
59915634 TCAGAATGATTTCGGGTTCCCC
1 TCAGAATGATTTCGGGTTCCCC
59915656 T
1 T
59915657 GTTCTGACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (22 bp):
TCAGAATGATTTCGGGTTCCCC
Found at i:59923348 original size:28 final size:30
Alignment explanation
Indices: 59923294--59923358 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 30
59923284 AAATGTTTTT
*
59923294 ATAAAAATAAATTAATTTTTATATTTTATA-
1 ATAAAAATAAA-TAATTTATATATTTTATAC
*
59923324 ATAAAAATAAA-AATTTATAGT-TTTTTTAC
1 ATAAAAATAAATAATTTATA-TATTTTATAC
59923353 ATAAAA
1 ATAAAA
59923359 TATTTTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 13 0.42
29 7 0.23
30 11 0.35
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (30 bp):
ATAAAAATAAATAATTTATATATTTTATAC
Found at i:59927311 original size:47 final size:46
Alignment explanation
Indices: 59927240--59927507 Score: 271
Period size: 46 Copynumber: 5.7 Consensus size: 46
59927230 ATTTGTGAGC
*
59927240 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGAG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCGAGATGAGAG
59927287 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-AG
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGAGATG-AGAG
* * * * *
59927333 CCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTACAAAATGTG-T
1 -CAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAGATGAGAG
* * * *
59927378 CAGTATAAGACCATGTCTGGGACATGGCATCAGCACAGATATGTGAGAG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTC-GAGA--TGAGAG
* *
59927427 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATGGATGAG-T
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGA--GATGAGAG
59927475 CAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGG
59927508 AATTATACCC
Statistics
Matches: 186, Mismatches: 20, Indels: 30
0.79 0.08 0.13
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 59 0.32
47 50 0.27
48 13 0.07
49 7 0.04
50 31 0.17
51 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAGAG
Found at i:59929806 original size:296 final size:296
Alignment explanation
Indices: 59929269--59929864 Score: 1129
Period size: 296 Copynumber: 2.0 Consensus size: 296
59929259 TTTCAATTTC
*
59929269 ATCTGTCGAAACCATTCTTTTGAAAACGGGGATCGACTTTGTTTGAAAGTGAAAATTAAAACGGG
1 ATCTGTCGAAACCATTCTTTTGAAAACGAGGATCGACTTTGTTTGAAAGTGAAAATTAAAACGGG
59929334 AGTCGCCACCAATCTTTTATTAGGTGTGATCGGATCACCTTTGTTTTAATAAATCAATTTTAGTT
66 AGTCGCCACCAATCTTTTATTAGGTGTGATCGGATCACCTTTGTTTTAATAAATCAATTTTAGTT
59929399 TACTAAAACAGGGCCTTTGGTCTACGAAACTTGAGAGAATGAGTTCGGGAGTCAGTTACATGCGA
131 TACTAAAACAGGGCCTTTGGTCTACGAAACTTGAGAGAATGAGTTCGGGAGTCAGTTACATGCGA
* *
59929464 GGAAGGATTAGCACCCTCGACACGCCCAAAAATTGGTACGGAATTGATTAGTTAGTGTCTTAATG
196 GGAAGGATTAGCACCCTCGACACACCCAAAAATTGGTACCGAATTGATTAGTTAGTGTCTTAATG
59929529 TCGAAAATTAAAAACCAGGAAGGGACTTGAAATACG
261 TCGAAAATTAAAAACCAGGAAGGGACTTGAAATACG
59929565 ATCTGTCGAAACCATTCTTTTGAAAACGAGGATCGACTTTGTTTGAAAGTGAAAATTAAAACGGG
1 ATCTGTCGAAACCATTCTTTTGAAAACGAGGATCGACTTTGTTTGAAAGTGAAAATTAAAACGGG
59929630 AGTCGCCACCAATCTTTTATTAGGTGTGATCGGATCACCTTTGTTTTAATAAATCAATTTTAGTT
66 AGTCGCCACCAATCTTTTATTAGGTGTGATCGGATCACCTTTGTTTTAATAAATCAATTTTAGTT
59929695 TACTAAAACAGGGCCTTTGGTCTACGAAACTTGAGAGAATGAGTTCGGGAGTCAGTTACATGCGA
131 TACTAAAACAGGGCCTTTGGTCTACGAAACTTGAGAGAATGAGTTCGGGAGTCAGTTACATGCGA
* *
59929760 TGAAGGATTAGCACCCTCGACACACGCAAAAATTGGTACCGAATTGATTAGTTAGTGTCTTAATG
196 GGAAGGATTAGCACCCTCGACACACCCAAAAATTGGTACCGAATTGATTAGTTAGTGTCTTAATG
* *
59929825 TCGAAAATTAAAAATCGGGAAGGGACTTGAAATACG
261 TCGAAAATTAAAAACCAGGAAGGGACTTGAAATACG
59929861 ATCT
1 ATCT
59929865 TTTTATTAAT
Statistics
Matches: 293, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
296 293 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (296 bp):
ATCTGTCGAAACCATTCTTTTGAAAACGAGGATCGACTTTGTTTGAAAGTGAAAATTAAAACGGG
AGTCGCCACCAATCTTTTATTAGGTGTGATCGGATCACCTTTGTTTTAATAAATCAATTTTAGTT
TACTAAAACAGGGCCTTTGGTCTACGAAACTTGAGAGAATGAGTTCGGGAGTCAGTTACATGCGA
GGAAGGATTAGCACCCTCGACACACCCAAAAATTGGTACCGAATTGATTAGTTAGTGTCTTAATG
TCGAAAATTAAAAACCAGGAAGGGACTTGAAATACG
Found at i:59930541 original size:17 final size:17
Alignment explanation
Indices: 59930500--59930532 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
59930490 ACAATAATAT
59930500 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
59930517 AAAATATATATATGTA
1 AAAATATATATATGTA
59930533 TATAATATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:59930778 original size:16 final size:16
Alignment explanation
Indices: 59930758--59930791 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
59930748 TTTATTTTTT
*
59930758 ATTTTT-TTAAGACCA
1 ATTTTTATTTAGACCA
59930773 ATTTTTATTTAGACCA
1 ATTTTTATTTAGACCA
59930789 ATT
1 ATT
59930792 ACAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTTTTATTTAGACCA
Found at i:59931355 original size:15 final size:16
Alignment explanation
Indices: 59931334--59931376 Score: 79
Period size: 15 Copynumber: 2.8 Consensus size: 16
59931324 TTTTTTTGGT
59931334 TTTTTTTTGCTGGAAA
1 TTTTTTTTGCTGGAAA
59931350 TTTTTTTTGCTGG-AA
1 TTTTTTTTGCTGGAAA
59931365 TTTTTTTTGCTG
1 TTTTTTTTGCTG
59931377 CTCTTTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.12, C:0.07, G:0.19, T:0.63
Consensus pattern (16 bp):
TTTTTTTTGCTGGAAA
Found at i:59931636 original size:29 final size:28
Alignment explanation
Indices: 59931588--59931675 Score: 79
Period size: 30 Copynumber: 3.0 Consensus size: 28
59931578 ACTTCTGGGG
*
59931588 CTAAATGTAATTTTTAGAAAATTTAGGGT
1 CTAAATGTAA-TTTAAGAAAATTTAGGGT
*
59931617 -TAAAATGTAATTTAAGGAAAGTTTAGGGGT
1 CT-AAATGTAATTTAA-GAAAATTTA-GGGT
* *
59931647 CTAAGTGAAATTTAAAGAAAAGTTTAGGG
1 CTAAATGTAATTT-AAGAAAA-TTTAGGG
59931676 GTCAAAATAC
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
28 5 0.10
29 16 0.33
30 20 0.42
31 7 0.15
ACGTcount: A:0.41, C:0.02, G:0.23, T:0.34
Consensus pattern (28 bp):
CTAAATGTAATTTAAGAAAATTTAGGGT
Found at i:59931690 original size:31 final size:29
Alignment explanation
Indices: 59931603--59931690 Score: 81
Period size: 31 Copynumber: 3.0 Consensus size: 29
59931593 TGTAATTTTT
* *
59931603 AGAAAA-TTTA-GGGTTAAAATGTAATTTA
1 AGAAAAGTTTAGGGGTCAAAAT-AAATTTA
* * *
59931631 AGGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAAGTTTAGGGGTCAAAAT-AAATTT-A
59931662 AGAAAAGTTTAGGGGTCAAAATACAATTT
1 AGAAAAGTTTAGGGGTCAAAATA-AATTT
59931691 TTTTTATTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
28 5 0.10
29 4 0.08
30 14 0.29
31 25 0.52
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.31
Consensus pattern (29 bp):
AGAAAAGTTTAGGGGTCAAAATAAATTTA
Found at i:59932228 original size:75 final size:75
Alignment explanation
Indices: 59931941--59932787 Score: 991
Period size: 75 Copynumber: 10.9 Consensus size: 75
59931931 AAAAGCCAAA
* * *
59931941 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----
*
59932006 TTTTTTTGAAAAACAG
60 TTTTTTTGAAAGACAG
* ** * * *
59932022 AAATTGAAAATATCTCAGGGTGTGATTTGAGGTTCAACTCACCTCTCTCAATATGAGTTGATTGA
1 AAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATATGA---G-TTGA
*
59932087 TTTTTTTGAAA-AGTAG
60 TTTTTTTGAAAGA-CAG
* * * *
59932103 AAATTAAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AAATTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
59932167 TTTTGAAAGACAG
63 TTTTGAAAGACAG
**
59932180 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* *
59932245 TGAAAGAAAA
66 TGAAAGACAG
*
59932255 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
59932320 TGAAAGACAG
66 TGAAAGACAG
* *
59932330 AAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTGGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
59932395 TGAAAGATAG
66 TGAAAGACAG
** *
59932405 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTAATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
* *
59932470 TTTAAAAGGCAG
64 TTTGAAAGACAG
**
59932482 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTGTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTT
*
59932547 TGAAAGACATAAATTGAACAG
65 T---TG----AAA--G-ACAG
* *
59932568 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACCCACCTCTCGCAATATGAGTTGAGTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* *
59932633 TGAAAAATAG
66 TGAAAGACAG
* ** **
59932643 AAATTGAAAATATCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT
1 AAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
59932706 TTTGAAAAACAG
64 TTTGAAAGACAG
* * *
59932718 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
59932783 TGAAA
66 TGAAA
59932788 TAGAAATAAA
Statistics
Matches: 674, Mismatches: 65, Indels: 60
0.84 0.08 0.08
Matches are distributed among these distances:
73 35 0.05
74 1 0.00
75 311 0.46
76 4 0.01
77 137 0.20
78 5 0.01
80 1 0.00
81 103 0.15
82 1 0.00
83 6 0.01
84 1 0.00
85 9 0.01
86 60 0.09
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (75 bp):
AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAGACAG
Found at i:59932710 original size:388 final size:378
Alignment explanation
Indices: 59931898--59932794 Score: 1076
Period size: 388 Copynumber: 2.3 Consensus size: 378
59931888 TCTGAAGTTT
* * * *
59931898 AACTCATCTCTCG-AATTATGAGTTGA-CTTTTAAAAAAGCCAAAAAATTGAAAATACCTCAGCG
1 AACTCACCTCTCGCAA-TATGAGTTGATTTTTTGAAAAA--C-AGAAATTGAAAATACCTCAGCG
* *
59931961 TGTGACCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAAACAGAAAT
62 TGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTTG-AAAATAGAAAT
* ** * * * *
59932026 TGAAAATATCTCAGGGTGTGATTTGAGGTTCAACTCACCTCTCTCAATATGAGTTGATTGATTTT
120 TGAAAATACCTCAACGTGT-ACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATT-ATTTT
* *
59932091 TTTGAAAAGTAGAAATTAAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATA
183 TTTGAAAAGCAGAAATTAAAAATACCTCA-CACGTGAACCGAGGCTCAACTCACCTCTCGCAATA
* * **
59932156 TGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATT
247 TGAGTTGATTTTTTAGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACCCACC
* **
59932221 TCTCGCAATATGAGTTGATTTTTTTGAAAGAAAAAAATTGAAAATACCTCAACGTGTCTTGAGGC
312 TCTCGCAATATGAGTTGAGTTTTTTGAAAGAAAAAAATTGAAAATACCTCAACGTGTCCCGAGGC
59932286 TC
377 TC
* * * *
59932288 AACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTAAAAATACCTCAACGTGT
1 AACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGT
* *
59932353 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTGGATTTTTTTGAAAGATAGAAATTGAAAATAC
65 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ATAGAAATTGAAAATAC
**
59932418 CTCAACGTGT-CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTAATT-TTTTTTT-AAAAGGC
129 CTCAACGTGTACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTATTTTTTTGAAAA-GC
* * * **
59932480 AGAAATTGAAAATACCTCA-ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
193 AGAAATTAAAAATACCTCACACGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
59932543 GTTTTGAAAGACATAAATTGAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACCCAC
257 -TTTT---AG----AAA--G-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACCCAC
* * **
59932608 CTCTCGCAATATGAGTTGAGTTTTTTGAAA-AATAGAAATTGAAAATATCTCGGCGTGTGACCCG
311 CTCTCGCAATATGAGTTGAGTTTTTTGAAAGAA-AAAAATTGAAAATACCTCAACGTGT--CCCG
59932672 AGGCTC
373 AGGCTC
*
59932678 AACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGTC
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTC
59932742 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAATAGAAAT
66 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAAAT
59932795 AAAAACATCA
Statistics
Matches: 441, Mismatches: 46, Indels: 44
0.83 0.09 0.08
Matches are distributed among these distances:
376 1 0.00
377 37 0.08
378 8 0.02
379 26 0.06
381 33 0.07
382 3 0.01
383 31 0.07
385 3 0.01
386 8 0.02
387 38 0.09
388 166 0.38
389 22 0.05
390 55 0.12
391 2 0.00
392 8 0.02
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (378 bp):
AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTC
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAAATTGAAAATACCT
CAACGTGTACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTATTTTTTTGAAAAGCAGA
AATTAAAAATACCTCACACGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
AGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACCCACCTCTCGCAATATGAG
TTGAGTTTTTTGAAAGAAAAAAATTGAAAATACCTCAACGTGTCCCGAGGCTC
Found at i:59932793 original size:73 final size:73
Alignment explanation
Indices: 59932566--59932794 Score: 314
Period size: 73 Copynumber: 3.1 Consensus size: 73
59932556 TAAATTGAAC
* * * *
59932566 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACCCACCTCTCGCAATATGAGTTGAGTTT
1 AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
59932631 TTTGAAAAAT
66 TTTG--AAAT
* * *
59932641 AGAAATTGAAAATATCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*** *
59932706 TTTGAAAAAC
64 TTTTTGAAAT
*
59932716 AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
59932781 TTTGAAAT
66 TTTGAAAT
59932789 AGAAAT
1 AGAAAT
59932795 AAAAACATCA
Statistics
Matches: 133, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
73 49 0.37
75 47 0.35
77 37 0.28
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (73 bp):
AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTTGAAAT
Found at i:59939471 original size:20 final size:20
Alignment explanation
Indices: 59939446--59939487 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
59939436 GTTATCGGCG
59939446 TGGTATGCACAACTAGTGTT
1 TGGTATGCACAACTAGTGTT
59939466 TGGTATGCACAACTAGTGTT
1 TGGTATGCACAACTAGTGTT
59939486 TG
1 TG
59939488 AATCGTACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (20 bp):
TGGTATGCACAACTAGTGTT
Found at i:59944406 original size:296 final size:296
Alignment explanation
Indices: 59943871--59944464 Score: 1125
Period size: 296 Copynumber: 2.0 Consensus size: 296
59943861 AGTCGCCAAG
59943871 CTGTCGAAACCATTCTTTTGAAAACGGGGATCGACTTTGTTTGAAAGTGAAAATTAAAACGGGAG
1 CTGTCGAAACCATTCTTTTGAAAACGGGGATCGACTTTGTTTGAAAGTGAAAATTAAAACGGGAG
*
59943936 TCGCCACCAATCTTTTATTAGGTGTGATCGGATCACCTTTGTTTTAATAAATCAATTTTAGTTTA
66 TCGCCACCAATCATTTATTAGGTGTGATCGGATCACCTTTGTTTTAATAAATCAATTTTAGTTTA
*
59944001 CTAAAACAGGGCCTTTGGTCTACGAAACTTGAGAGAATGAGTTCGGGAGTCAGTTACGTGCGAGG
131 CTAAAACAGGGCCTTTGGTCTACGAAACTTGAGAGAATGAGTTCGGGAGTCAGTTACGTGAGAGG
*
59944066 AAGGATTAGCACCCTCGACACGCCCAAAAATTAGTACTGAATTGATTAGTTAGTGTCTTAATGTC
196 AAGGATTAGCACCCTCGACACGCCCAAAAATTAGTACCGAATTGATTAGTTAGTGTCTTAATGTC
* *
59944131 GAAAATTAAAAATCGGGAAGGGACTTGAAATACGAT
261 AAAAATTAAAAATCAGGAAGGGACTTGAAATACGAT
59944167 CTGTCGAAACCATTCTTTTGAAAACGGGGATCGACTTTGTTTGAAAGTGAAAATTAAAACGGGAG
1 CTGTCGAAACCATTCTTTTGAAAACGGGGATCGACTTTGTTTGAAAGTGAAAATTAAAACGGGAG
59944232 TCGCCACCAATCATTTATTAGGTGTGATCGGATCACCTTTGTTTTAATAAATCAATTTTAGTTTA
66 TCGCCACCAATCATTTATTAGGTGTGATCGGATCACCTTTGTTTTAATAAATCAATTTTAGTTTA
59944297 CTAAAACAGGGCCTTTGGTCTACGAAACTTGAGAGAATGAGTTCGGGAGTCAGTTACGTGAGAGG
131 CTAAAACAGGGCCTTTGGTCTACGAAACTTGAGAGAATGAGTTCGGGAGTCAGTTACGTGAGAGG
* *
59944362 AAGGATTAGCACCCTCGACATGCCCAAAAATTGGTACCGAATTGATTAGTTAGTGTCTTAATGTC
196 AAGGATTAGCACCCTCGACACGCCCAAAAATTAGTACCGAATTGATTAGTTAGTGTCTTAATGTC
59944427 AAAAATTAAAAATCAGGAAGGGACTTGAAATACGAT
261 AAAAATTAAAAATCAGGAAGGGACTTGAAATACGAT
59944463 CT
1 CT
59944465 TTTCTATTAA
Statistics
Matches: 291, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
296 291 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (296 bp):
CTGTCGAAACCATTCTTTTGAAAACGGGGATCGACTTTGTTTGAAAGTGAAAATTAAAACGGGAG
TCGCCACCAATCATTTATTAGGTGTGATCGGATCACCTTTGTTTTAATAAATCAATTTTAGTTTA
CTAAAACAGGGCCTTTGGTCTACGAAACTTGAGAGAATGAGTTCGGGAGTCAGTTACGTGAGAGG
AAGGATTAGCACCCTCGACACGCCCAAAAATTAGTACCGAATTGATTAGTTAGTGTCTTAATGTC
AAAAATTAAAAATCAGGAAGGGACTTGAAATACGAT
Found at i:59945146 original size:19 final size:19
Alignment explanation
Indices: 59945101--59945148 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
59945091 TACAACAATA
*
59945101 ATATAAAATAATGATATGT
1 ATATAATATAATGATATGT
* *
59945120 ACAAAATATATAT-ATATGT
1 ATATAATATA-ATGATATGT
59945139 ATATAATATA
1 ATATAATATA
59945149 GTTATAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (19 bp):
ATATAATATAATGATATGT
Found at i:59945394 original size:15 final size:16
Alignment explanation
Indices: 59945374--59945407 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
59945364 TGTTTTATTT
59945374 ATTTTT-TTAAGACCA
1 ATTTTTGTTAAGACCA
*
59945389 ATTTTTGTTTAGACCA
1 ATTTTTGTTAAGACCA
59945405 ATT
1 ATT
59945408 ACAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (16 bp):
ATTTTTGTTAAGACCA
Found at i:59945966 original size:15 final size:16
Alignment explanation
Indices: 59945945--59945987 Score: 79
Period size: 15 Copynumber: 2.8 Consensus size: 16
59945935 TTTTTTTGGT
59945945 TTTTTTTTGCTGGAAA
1 TTTTTTTTGCTGGAAA
59945961 TTTTTTTTGCTGG-AA
1 TTTTTTTTGCTGGAAA
59945976 TTTTTTTTGCTG
1 TTTTTTTTGCTG
59945988 CTCTTTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.12, C:0.07, G:0.19, T:0.63
Consensus pattern (16 bp):
TTTTTTTTGCTGGAAA
Done.