Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 90 of 167
Found at i:29717364 original size:45 final size:45
Alignment explanation
Indices: 29717300--29717389 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
29717290 TGACTGCACT
29717300 CCATCATCTTCTTCCATGGTTCTAGCTGTGATGCTTAGCTTTCCA
1 CCATCATCTTCTTCCATGGTTCTAGCTGTGATGCTTAGCTTTCCA
*
29717345 CCATCATCTTCTTCCATGGTTCTGGCTGTGATGCTTAGCTTTCCA
1 CCATCATCTTCTTCCATGGTTCTAGCTGTGATGCTTAGCTTTCCA
29717390 GTGTAAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.14, C:0.29, G:0.17, T:0.40
Consensus pattern (45 bp):
CCATCATCTTCTTCCATGGTTCTAGCTGTGATGCTTAGCTTTCCA
Found at i:29720126 original size:18 final size:18
Alignment explanation
Indices: 29720103--29720141 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
29720093 TAAATATGTA
29720103 ATTATATA-GTGAAAATAT
1 ATTATATATGTGAAAA-AT
*
29720121 ATTATATATGTTAAAAAT
1 ATTATATATGTGAAAAAT
29720139 ATT
1 ATT
29720142 TTAATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (18 bp):
ATTATATATGTGAAAAAT
Found at i:29741956 original size:28 final size:29
Alignment explanation
Indices: 29741920--29741976 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
29741910 TTTTTTGTTT
*
29741920 TTTTGTTTTTGGT-ATATTTTGGTAAATAA
1 TTTTGTTTTT-ATAATATTTTGGTAAATAA
29741949 TTTT-TTTTTATAATATTTTGGTAAATAA
1 TTTTGTTTTTATAATATTTTGGTAAATAA
29741977 AAAAAAGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 1 0.04
28 21 0.81
29 4 0.15
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (29 bp):
TTTTGTTTTTATAATATTTTGGTAAATAA
Found at i:29743679 original size:19 final size:19
Alignment explanation
Indices: 29743651--29743687 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
29743641 TATTATTATT
29743651 ATTATAAAATTACACGAAC
1 ATTATAAAATTACACGAAC
* *
29743670 ATTATCAAATTATACGAA
1 ATTATAAAATTACACGAA
29743688 ATATTACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (19 bp):
ATTATAAAATTACACGAAC
Found at i:29760356 original size:30 final size:30
Alignment explanation
Indices: 29760284--29760356 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
29760274 GTTTGAATTT
* *
29760284 TTTTTTCAGATTAAGATCTAAATTTGATAA
1 TTTTTTCATATTAAGATCTAAATTTGACAA
* *
29760314 TTTTTCTCATATT-AGAGTTTAAATTTGGCAA
1 TTTTT-TCATATTAAGA-TCTAAATTTGACAA
29760345 TTTTTTCATATT
1 TTTTTTCATATT
29760357 GGGGACTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 15 0.41
31 22 0.59
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.52
Consensus pattern (30 bp):
TTTTTTCATATTAAGATCTAAATTTGACAA
Found at i:29760557 original size:59 final size:57
Alignment explanation
Indices: 29760494--29760612 Score: 143
Period size: 58 Copynumber: 2.1 Consensus size: 57
29760484 CAAATTTAGG
* *
29760494 GCCTAACTTGGACTAAAAAAAAGTTTA-GCCCCAATGTGTGAACAATTG-TCAAGTTCAGA
1 GCCTAACTTGAAC--AAAAAAAGTTTAGGCCCCAATGTGGGAACAATTGCT-AAGTTCA-A
* * *
29760553 GCCTAATTTGAACAAAAAAAGTTTAGGCTCCAATGTGGGAAGAATTGCTAAGTTCAA
1 GCCTAACTTGAACAAAAAAAGTTTAGGCCCCAATGTGGGAACAATTGCTAAGTTCAA
29760610 GCC
1 GCC
29760613 CCAAAATATG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
57 16 0.30
58 25 0.47
59 12 0.23
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (57 bp):
GCCTAACTTGAACAAAAAAAGTTTAGGCCCCAATGTGGGAACAATTGCTAAGTTCAA
Found at i:29776049 original size:59 final size:59
Alignment explanation
Indices: 29775986--29776135 Score: 140
Period size: 59 Copynumber: 2.5 Consensus size: 59
29775976 TGAATTAGGC
* ** * *
29775986 AATTGTTCTCACATTTGGG-TTGAATTTTTTTTTTGTTCAAGTTAAGTCCTGAACTAGAT
1 AATTGTTCTCACATTGGGGCTT-AAACTTTTTTTTATCCAAGTTAAGTCCTGAACTAGAT
* * * ** *
29776045 AATTGTTCTTATATTGGGGCTTAAACTTTTTTTTATCCAAGTTAGGTCCTGAACTTTAC
1 AATTGTTCTCACATTGGGGCTTAAACTTTTTTTTATCCAAGTTAAGTCCTGAACTAGAT
* * * * *
29776104 AAATGTTCCCACATTAGGACTTGAACTTTTTT
1 AATTGTTCTCACATTGGGGCTTAAACTTTTTT
29776136 CATGCAAGTT
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
59 70 0.97
60 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (59 bp):
AATTGTTCTCACATTGGGGCTTAAACTTTTTTTTATCCAAGTTAAGTCCTGAACTAGAT
Found at i:29779142 original size:19 final size:20
Alignment explanation
Indices: 29779120--29779158 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
29779110 TCAAATTTAT
29779120 TTTTTAAACTTA-AATATTC
1 TTTTTAAACTTATAATATTC
* *
29779139 TTTTTACATTTATAATATTC
1 TTTTTAAACTTATAATATTC
29779159 GAATGCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTAAACTTATAATATTC
Found at i:29790013 original size:17 final size:17
Alignment explanation
Indices: 29789993--29790089 Score: 59
Period size: 17 Copynumber: 5.4 Consensus size: 17
29789983 ATTTCAAGAT
29789993 TTATGTAATATTTTTAA
1 TTATGTAATATTTTTAA
* ***
29790010 TTATGTAGTGATTCAAAGA
1 TTATGTAAT-ATTTTTA-A
*
29790029 CTTATGTAATGTTTTTAA
1 -TTATGTAATATTTTTAA
* ***
29790047 TTATGTAGTGATTCAAAGA
1 TTATGTAAT-ATTTTTA-A
29790066 TTTATGTAATATTTTTAA
1 -TTATGTAATATTTTTAA
29790084 TTATGT
1 TTATGT
29790090 TGTGATTCAA
Statistics
Matches: 56, Mismatches: 18, Indels: 12
0.65 0.21 0.14
Matches are distributed among these distances:
17 22 0.39
18 9 0.16
19 9 0.16
20 16 0.29
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (17 bp):
TTATGTAATATTTTTAA
Found at i:29790034 original size:37 final size:37
Alignment explanation
Indices: 29789988--29790099 Score: 197
Period size: 37 Copynumber: 3.0 Consensus size: 37
29789978 TGTTAATTTC
29789988 AAGATTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGATTTATGTAATATTTTTAATTATGTAGTGATTCA
* *
29790025 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGATTTATGTAATATTTTTAATTATGTAGTGATTCA
*
29790062 AAGATTTATGTAATATTTTTAATTATGTTGTGATTCA
1 AAGATTTATGTAATATTTTTAATTATGTAGTGATTCA
29790099 A
1 A
29790100 TTCGGGTAAT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.48
Consensus pattern (37 bp):
AAGATTTATGTAATATTTTTAATTATGTAGTGATTCA
Found at i:29790035 original size:20 final size:19
Alignment explanation
Indices: 29790009--29790073 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
29789999 AATATTTTTA
29790009 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
* ***
29790028 ACTTATGTAATG-TTTTTA-
1 A-TTATGTAGTGATTCAAAG
29790046 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
29790065 ATTTATGTA
1 A-TTATGTA
29790074 ATATTTTTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
17 9 0.26
18 4 0.12
19 5 0.15
20 16 0.47
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.45
Consensus pattern (19 bp):
ATTATGTAGTGATTCAAAG
Found at i:29794541 original size:74 final size:74
Alignment explanation
Indices: 29794418--29794561 Score: 218
Period size: 74 Copynumber: 1.9 Consensus size: 74
29794408 ATGGCCCCCC
* *
29794418 AAGGTTTAAATTTTTTACAATTTAGCCCTTTGTAGAGATACTATGGCCCTCCCAAAAATATAAGT
1 AAGGTTTAAATTTTTTACAATTTACCCCTTTGTAGAGATACTATAGCCCTCCCAAAAATATAAGT
29794483 AGGCCATCA
66 AGGCCATCA
* * * *
29794492 AAGGTTTAAGA-TTTTTGCAATTTTCCCCTTTGTATATATACTATAGCCCTCCCAAAAATATAAG
1 AAGGTTTAA-ATTTTTTACAATTTACCCCTTTGTAGAGATACTATAGCCCTCCCAAAAATATAAG
29794556 TAGGCC
65 TAGGCC
29794562 TCTCCAAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 62 0.98
75 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (74 bp):
AAGGTTTAAATTTTTTACAATTTACCCCTTTGTAGAGATACTATAGCCCTCCCAAAAATATAAGT
AGGCCATCA
Found at i:29800146 original size:13 final size:13
Alignment explanation
Indices: 29800128--29800154 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
29800118 TTATTTATTT
29800128 ATTTTGAATTATA
1 ATTTTGAATTATA
29800141 ATTTTGAATTATA
1 ATTTTGAATTATA
29800154 A
1 A
29800155 GAGGAGAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (13 bp):
ATTTTGAATTATA
Found at i:29817792 original size:6 final size:6
Alignment explanation
Indices: 29817769--29818650 Score: 1674
Period size: 6 Copynumber: 146.7 Consensus size: 6
29817759 CTCTTGTACT
* * * * * * *
29817769 TACATA TACATA TACACA TGCACA TGCACA TGCACA TGCACA TGCACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
*
29817817 TGCACA TAGACACA TACACA TACACA TACACA TACACA TACACA TACACA
1 TACACA T--ACACA TACACA TACACA TACACA TACACA TACACA TACACA
29817867 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
29817915 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
29817963 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
29818011 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
29818059 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
29818107 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
29818155 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
29818203 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
29818251 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
29818299 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
29818347 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
29818395 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
29818443 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
29818491 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
29818539 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
29818587 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
29818635 TACACA TACACA TACA
1 TACACA TACACA TACA
29818651 TATATTGTCA
Statistics
Matches: 871, Mismatches: 3, Indels: 4
0.99 0.00 0.00
Matches are distributed among these distances:
6 866 0.99
8 5 0.01
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.17
Consensus pattern (6 bp):
TACACA
Found at i:29846718 original size:28 final size:26
Alignment explanation
Indices: 29846687--29846738 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 26
29846677 ACATTCAATC
*
29846687 AAAGCTTTCTTCTCTCTTTTTCTTTACG
1 AAAGC-TTCTTCT-TCTTCTTCTTTACG
29846715 AAAGCTTCTTCTTCTTCTTCTTTA
1 AAAGCTTCTTCTTCTTCTTCTTTA
29846739 ATTCAACTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 11 0.48
27 7 0.30
28 5 0.22
ACGTcount: A:0.15, C:0.25, G:0.06, T:0.54
Consensus pattern (26 bp):
AAAGCTTCTTCTTCTTCTTCTTTACG
Found at i:29853643 original size:108 final size:107
Alignment explanation
Indices: 29853317--29853853 Score: 792
Period size: 107 Copynumber: 5.0 Consensus size: 107
29853307 AATTAAGATA
* * *
29853317 TAAAAGGATATTTGGCTATTTGGTCCG-ACG-GGAAATCGAGACCCAACACATTAGGGTACGTTT
1 TAAAAGGATATTCGGCTATTTGGT-CGAACGAGGAAATCGAAACCCAACACATTAGGGCACGTTT
* *
29853380 TCTCAAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAATT
65 TCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATT
* * * *
29853423 TAAAAGGATATTCGGCTATTTGGTCGAACAAGGTAATAGAAACCCAACACATTAGGGCACGTTTC
1 TAAAAGGATATTCGGCTATTTGGTCGAACGAGGAAATCGAAACCCAACACATTAGGGCACGTTTT
*
29853488 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAATT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATT
* *
29853530 TAAAAGGATATTCGGCTATTTGGTCGAACGAGAAAGATCGAAACCCAACACATTAGGGCACTTTT
1 TAAAAGGATATTCGGCTATTTGGTCGAACGAGGAA-ATCGAAACCCAACACATTAGGGCACGTTT
* *
29853595 TCTCGAATTTCCAAATGCAAAACATTGTCTTATTTTGAAAATT
65 TCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATT
* ** *
29853638 TAAAAGGATATTCGGCTATTTGGTCGAACGAGGTAATCGAAACCCAGTACATTAGGGCACGTTTC
1 TAAAAGGATATTCGGCTATTTGGTCGAACGAGGAAATCGAAACCCAACACATTAGGGCACGTTTT
*
29853703 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATT
** * * *
29853745 TAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAGATCGAAACCCAGCACATTAGGGCACATTT
1 TAAAAGGATATTCGGCTATTTGGTCGAACGAGGAA-ATCGAAACCCAACACATTAGGGCACGTTT
*
29853810 TCTCGAACTTT-CAAACGCAAAACATTGCCTAATTTTGAAAATT
65 TCTCGAA-TTTCCAAACGCAAAACATTGCCTTATTTTGAAAATT
29853853 T
1 T
29853854 TTTTAAGGAT
Statistics
Matches: 391, Mismatches: 35, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
105 2 0.01
106 25 0.06
107 198 0.51
108 163 0.42
109 3 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (107 bp):
TAAAAGGATATTCGGCTATTTGGTCGAACGAGGAAATCGAAACCCAACACATTAGGGCACGTTTT
CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATT
Found at i:29853692 original size:215 final size:215
Alignment explanation
Indices: 29853317--29853853 Score: 857
Period size: 215 Copynumber: 2.5 Consensus size: 215
29853307 AATTAAGATA
* * * *
29853317 TAAAAGGATATTTGGCTATTTGGTCCG-ACG-GGAA-ATCGAGACCCAACACATTAGGGTACGTT
1 TAAAAGGATATTTGGCTATTTGGT-CGAACGAGAAAGATCGAAACCCAACACATTAGGGCACATT
* *
29853379 TTCTCAAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAATTTAAAAGGATATTCGGCTATTT
65 TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATTTAAAAGGATATTCGGCTATTT
29853444 GGTCGAACAAGGTAATAGAAACCCAACACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAA
130 GGTCGAACAAGGTAATAGAAACCCAACACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAA
29853509 CATTGCCTTATTTTAAAAATT
195 CATTGCCTTATTTTAAAAATT
* *
29853530 TAAAAGGATATTCGGCTATTTGGTCGAACGAGAAAGATCGAAACCCAACACATTAGGGCACTTTT
1 TAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAGATCGAAACCCAACACATTAGGGCACATTT
* *
29853595 TCTCGAATTTCCAAATGCAAAACATTGTCTTATTTTGAAAATTTAAAAGGATATTCGGCTATTTG
66 TCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATTTAAAAGGATATTCGGCTATTTG
* * **
29853660 GTCGAACGAGGTAATCGAAACCCAGTACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAAC
131 GTCGAACAAGGTAATAGAAACCCAACACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAAC
* *
29853725 ATTGCCTTATTTTGAAATTT
196 ATTGCCTTATTTTAAAAATT
* *
29853745 TAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAGATCGAAACCCAGCACATTAGGGCACATTT
1 TAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAGATCGAAACCCAACACATTAGGGCACATTT
*
29853810 TCTCGAACTTT-CAAACGCAAAACATTGCCTAATTTTGAAAATTT
66 TCTCGAA-TTTCCAAACGCAAAACATTGCCTTATTTTGAAAATTT
29853854 TTTTAAGGAT
Statistics
Matches: 298, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
212 2 0.01
213 26 0.09
214 3 0.01
215 264 0.89
216 3 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (215 bp):
TAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAGATCGAAACCCAACACATTAGGGCACATTT
TCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATTTAAAAGGATATTCGGCTATTTG
GTCGAACAAGGTAATAGAAACCCAACACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAAC
ATTGCCTTATTTTAAAAATT
Found at i:29854076 original size:4 final size:4
Alignment explanation
Indices: 29854067--29854103 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
29854057 CAATAATGAG
29854067 AATA AATA AATA AATAA AATA AAT- AATA AAT- AATA AA
1 AATA AATA AATA AAT-A AATA AATA AATA AATA AATA AA
29854104 ATCTATGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
3 6 0.20
4 20 0.67
5 4 0.13
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:29854078 original size:17 final size:17
Alignment explanation
Indices: 29854067--29854099 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
29854057 CAATAATGAG
29854067 AATAAATAAATAAATAA
1 AATAAATAAATAAATAA
29854084 AATAAAT-AATAAATAA
1 AATAAATAAATAAATAA
29854100 TAAAATCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AATAAATAAATAAATAA
Found at i:29854096 original size:7 final size:8
Alignment explanation
Indices: 29854067--29854103 Score: 51
Period size: 7 Copynumber: 4.8 Consensus size: 8
29854057 CAATAATGAG
29854067 AATAAATA
1 AATAAATA
29854075 AATAAATAA
1 AATAAAT-A
29854084 AATAAAT-
1 AATAAATA
29854091 AATAAAT-
1 AATAAATA
29854098 AATAAA
1 AATAAA
29854104 ATCTATGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 13 0.46
8 7 0.25
9 8 0.29
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAATA
Found at i:29854255 original size:8 final size:8
Alignment explanation
Indices: 29854242--29854270 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
29854232 TAAAAAAAAG
29854242 AATATATA
1 AATATATA
29854250 AATATATA
1 AATATATA
29854258 AATATATA
1 AATATATA
29854266 AATAT
1 AATAT
29854271 GTATATGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
AATATATA
Found at i:29854444 original size:3 final size:3
Alignment explanation
Indices: 29854436--29854462 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
29854426 TAAATAAGCA
29854436 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
29854463 GATGATGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:29854467 original size:3 final size:3
Alignment explanation
Indices: 29854461--29854490 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
29854451 AATAATAATA
29854461 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
29854491 TAATATGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:29855988 original size:85 final size:84
Alignment explanation
Indices: 29855898--29856566 Score: 264
Period size: 85 Copynumber: 7.8 Consensus size: 84
29855888 AGTCTGTTCC
* * *
29855898 ACTGCAACTTCAGGGAGATAAGACTGTATGCGATCTGCTCTACTGCAACTTTAGAGAGATAAGAT
1 ACTGCAACTTCAGGGAGATAAGACTGTATTCGATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
29855963 CTATGGTTTTATTCCGCTCT
66 CTATGGTTTTA-TCCGCTCT
* * *
29855983 ACTGCAACTTCAGGGAGATAGGA-TTTATTTCTTTCG-TCTGCTCCACTGCAACTTCAGGGAGAT
1 ACTGCAACTTCAGGGAGATAAGACTGTA-----TTCGATCTGCTCCACTGCAACTTCAGAGAGAT
***
29856046 AAGA-C--TGGATACGATCCGCTCT
61 AAGATCTATGG-TTTTATCCGCTCT
* * * * *
29856068 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTCTAAT-TCGCTCCACTGTAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATAAGA-CTGT-ATTC-GATCT-GCTCCACTGCAACTTCAGAGAGATA
* ** * * *
29856132 GGAT-TGATTTTTTTCGTCTGCTCC
62 AGATCT-ATGGTTTT-ATCCGCTCT
* * * * *
29856156 ACTGCAACTTCAGGAAGATAAGACTAG-ATACGATCTGTTCTACTACAACTTCAGAGAGATAAGA
1 ACTGCAACTTCAGGGAGATAAGACT-GTATTCGATCTGCTCCACTGCAACTTCAGAGAGATAAGA
* *
29856220 TCTGTGGTTTTGATCCACT-T
65 TCTATGGTTTT-ATCCGCTCT
* * * * * * * *
29856240 -CATCACAACTTTAGGGAGATAGGATTGATTTCTTTCG-TCTACTCCATTGCAACTTCAGGGAGA
1 AC-T-GCAACTTCAGGGAGATAAGACTG---T-ATTCGATCTGCTCCACTGCAACTTCAGAGAGA
* * *
29856303 TAAGACTGTAT-G--TGATCTGCTCT
60 TAAGA-TCTATGGTTTTATCCGCTCT
* * * ** *
29856326 ACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTCAG-GAAGATA
1 ACTGCAACTTCAGGGAGATAAGA-CTGT--ATTCGATCTGCTCCACTGCAACTTCAGAG-AGATA
* * *
29856390 GGAT-TGAT--TTCT-TCCGTCTGTTCC
62 AGATCT-ATGGTTTTATCCG-C---TCT
* * * * * ** * *
29856414 ATTGCAACTTCAGGAAGATAAGACTGGATACGATCTACTATACTACGACTTCAGAGAGATAAGAT
1 ACTGCAACTTCAGGGAGATAAGACTGTATTCGATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
** * *
29856479 CTATTACTTTAATCTGCTCCT
66 CTA-TGGTTTTATCCGCT-CT
* * * * * *
29856500 -CTACAACTTCAGGGAGATAGGATTATCTG-CTTCAATCTGCTCCACTGCAACCTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATA--A-GA-CTGTATTCGATCTGCTCCACTGCAACTTCAGAGAGATA
29856563 AGAT
62 AGAT
29856567 TTGTACTTTC
Statistics
Matches: 422, Mismatches: 110, Indels: 101
0.67 0.17 0.16
Matches are distributed among these distances:
83 6 0.01
84 16 0.04
85 222 0.53
86 16 0.04
87 10 0.02
88 137 0.32
89 15 0.04
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (84 bp):
ACTGCAACTTCAGGGAGATAAGACTGTATTCGATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
CTATGGTTTTATCCGCTCT
Found at i:29855989 original size:44 final size:44
Alignment explanation
Indices: 29855898--29856389 Score: 204
Period size: 44 Copynumber: 11.5 Consensus size: 44
29855888 AGTCTGTTCC
* *
29855898 ACTGCAACTTCAGGGAGATAAGACTGTATGCG----A-TCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGA-TCTATG-GTTTTATTCCGCTCT
* *
29855939 ACTGCAACTTTAGAGAGATAAGATCTATGGTTTTATTCCGCTCT
1 ACTGCAACTTCAGGGAGATAAGATCTATGGTTTTATTCCGCTCT
* * * ** * *
29855983 ACTGCAACTTCAGGGAGATAGGATTTAT-TTCTTTCGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCTATGGT-TTTATTCCGCTCT
***
29856027 ACTGCAACTTCAGGGAGATAAGA-C--TGGATACGA-TCCGCTCT
1 ACTGCAACTTCAGGGAGATAAGATCTATGG-TTTTATTCCGCTCT
* * * *
29856068 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTCTAATT-CGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCTATGGTT-TTATTCCGCTCT
* * ** ** * *
29856112 ACTGTAACTTCAGGGAGATAGGAT-TGATTTTTTTCGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCT-ATGGTTTTATTCCGCTCT
* * *** * *
29856156 ACTGCAACTTCAGGAAGATAAGA-CTA-GATACGA-TCTGTTCT
1 ACTGCAACTTCAGGGAGATAAGATCTATGGTTTTATTCCGCTCT
* * * *
29856197 ACTACAACTTCAGAGAGATAAGATCTGTGGTTTTGA-TCCACT-T
1 ACTGCAACTTCAGGGAGATAAGATCTATGGTTTT-ATTCCGCTCT
* * * * ** ** *
29856240 -CATCACAACTTTAGGGAGATAGGAT-TGAT-TTCTTTCGTCTACTCC
1 AC-T-GCAACTTCAGGGAGATAAGATCT-ATGGT-TTTATTCCGCTCT
* * * *
29856285 ATTGCAACTTCAGGGAGATAAGACTGTAT-G--TGA-TCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGA-TCTATGGTTTTATTCCGCTCT
* * * * *
29856326 ACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCTATGGTTTTATTCCGCTCT
*
29856370 ACTGCAACTTCAGGAAGATA
1 ACTGCAACTTCAGGGAGATA
29856390 GGATTGATTT
Statistics
Matches: 334, Mismatches: 85, Indels: 61
0.70 0.18 0.13
Matches are distributed among these distances:
39 1 0.00
40 8 0.02
41 104 0.31
42 6 0.02
43 16 0.05
44 193 0.58
45 5 0.01
46 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATCTATGGTTTTATTCCGCTCT
Found at i:29856061 original size:129 final size:129
Alignment explanation
Indices: 29855889--29856565 Score: 860
Period size: 129 Copynumber: 5.2 Consensus size: 129
29855879 TTTTGTTTTA
* * * *
29855889 GTCTGTTCCACTGCAACTTCAGGGAGATAAGACTGTATGCGATCTGCTCTACTGCAACTTTAGAG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCTGCTCTACTGCAACTTCAGAG
* * *
29855954 AGATAAGATCTATGGTTTTATTCCGCTCTACTGCAACTTCAGGGAGATAGGATTTATTTCTTTC
66 AGATAAGATCTGTGGTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTGATTTCTTTC
*
29856018 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCCGCTCTACTGCAACTTCAGAG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCTGCTCTACTGCAACTTCAGAG
* * * * *
29856083 AGATAAGATCTGTGGTTCTAATTCGCTCCACTGTAACTTCAGGGAGATAGGATTGATTTTTTTC
66 AGATAAGATCTGTGGTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTGATTTCTTTC
* * * *
29856147 GTCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGATACGATCTGTTCTACTACAACTTCAGAG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCTGCTCTACTGCAACTTCAGAG
* * * *
29856212 AGATAAGATCTGTGGTTTTGATCCACT-T-CATCACAACTTTAGGGAGATAGGATTGATTTCTTT
66 AGATAAGATCTGTGGTTTTAATCCGCTCTAC-T-GCAACTTCAGGGAGATAGGATTGATTTCTTT
29856275 C
129 C
* * * **
29856276 GTCTACTCCATTGCAACTTCAGGGAGATAAGACTGTATGTGATCTGCTCTACTGCAACTTCAGAG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCTGCTCTACTGCAACTTCAGAG
* * * *
29856341 AGATAAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTGATTTCTTCC
66 AGATAAGATCTGTGGTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTGATTTCTTTC
* * * * * * *
29856405 GTCTGTTCCATTGCAACTTCAGGAAGATAAGACTGGATACGATCTACTATACTACGACTTCAGAG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCTGCTCTACTGCAACTTCAGAG
* *** * * *
29856470 AGATAAGATCTATTACTTTAATCTGCTCCT-CTACAACTTCAGGGAGATAGGATT-ATCTGC-TT
66 AGATAAGATCTGTGGTTTTAATCCGCT-CTACTGCAACTTCAGGGAGATAGGATTGAT-TTCTTT
29856532 C
129 C
* *
29856533 AATCTGCTCCACTGCAACCTCAGGGAGATAAGA
1 -GTCTGCTCCACTGCAACTTCAGGGAGATAAGA
29856566 TTTGTACTTT
Statistics
Matches: 471, Mismatches: 70, Indels: 14
0.85 0.13 0.03
Matches are distributed among these distances:
127 1 0.00
128 5 0.01
129 462 0.98
130 2 0.00
131 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (129 bp):
GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCTGCTCTACTGCAACTTCAGAG
AGATAAGATCTGTGGTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTGATTTCTTTC
Found at i:29856517 original size:44 final size:44
Alignment explanation
Indices: 29856455--29856609 Score: 143
Period size: 44 Copynumber: 3.5 Consensus size: 44
29856445 GATCTACTAT
* * *
29856455 ACTACGACTTCAGAGAGATAAGATCTAT-TACTTTAATCTGCTCC
1 ACTACAACTTCAGGGAGATAAGAT-TATCTACTTCAATCTGCTCC
* * *
29856499 TCTACAACTTCAGGGAGATAGGATTATCTGCTTCAATCTGCTCC
1 ACTACAACTTCAGGGAGATAAGATTATCTACTTCAATCTGCTCC
* * * * * *
29856543 ACTGCAACCTCAGGGAGATAAGATT-TGTACTTTCAATTTTCCCC
1 ACTACAACTTCAGGGAGATAAGATTATCTAC-TTCAATCTGCTCC
* * *
29856587 ACTGCATCTTCAGGGGGATAAGA
1 ACTACAACTTCAGGGAGATAAGA
29856610 CTTTGGTTCT
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
43 6 0.07
44 85 0.93
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
ACTACAACTTCAGGGAGATAAGATTATCTACTTCAATCTGCTCC
Found at i:29856871 original size:50 final size:50
Alignment explanation
Indices: 29856805--29857384 Score: 236
Period size: 50 Copynumber: 11.5 Consensus size: 50
29856795 TAGCTTTAAT
*
29856805 CAAGATTCACCAATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAG
* * ** ** * *
29856855 CAAGATTCACCGATGTGGTTTTAATCTATTCCACTGCACCGCCTA--TGAGG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATG--TAGGGGAAG
* * * * * * * *
29856905 TAAGATTCGCTGCTGTAGCTTTAATATTTTTAA-TCGTAATGTCA-GAGAAG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACT-GCAATGT-AGGGGAAG
* ** ***
29856955 CAAGATTCACCGTTGTGGCTTTAATCTTTTT-ACTGCACCGCCTGGG-AG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAG
* * * * * * * *
29857003 ATAAGATTCACTGCTGTAGCTTTAATCTTTTTAACCGAAATGTCAGAGAAAG
1 -CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGT-AGGGGAAG
* ** ** * ***
29857055 CAAGATTCACCGTTGTGGCTTTAATCTGCTCCACTGCACTGCCTGGGAAG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAG
* ** * * * * * * *
29857105 TAAGATTTGCTGATTTAGCTTTAATCTTTTTAACCGAAATGTCAGAGAAAG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGT-AGGGGAAG
* ** ** * ***
29857156 CAAGATTCACCGTTGTGGCTTTAATCTGCTCCACTGCACTGCCTGGGAAG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAG
* ** * * * * * * *
29857206 TAAGATTTGCTGATTTAGCTTTAATCTTTTTAACCGAAATGTCAGAGAAAG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGT-AGGGGAAG
* ** ** * ***
29857257 CAAGATTCACCGTTGTGGCTTTAATCTGCTCCACTGCACTGCCTGGGAAG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAG
* ** * * * * * * *
29857307 TAAGATTTGCTGATTTAGCTTTAATCTTTTTAACCGAAATGTCAGAGAAAG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGT-AGGGGAAG
*
29857358 CAAGATTCACCGTTGTGGCTTTAATCT
1 CAAGATTCACCGATGTGGCTTTAATCT
29857385 GCTCCACTGC
Statistics
Matches: 349, Mismatches: 167, Indels: 27
0.64 0.31 0.05
Matches are distributed among these distances:
48 3 0.01
49 35 0.10
50 190 0.54
51 117 0.34
52 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (50 bp):
CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAG
Found at i:29856878 original size:75 final size:75
Alignment explanation
Indices: 29856730--29856880 Score: 171
Period size: 75 Copynumber: 2.0 Consensus size: 75
29856720 GTCGGAGAAA
* * * * * * *
29856730 CAAGATTCACCAATTTGGCTTTAATCTGTTCCACTGCATCGCTTGGGGAGTAAGATTCGCTGTTG
1 CAAGATTCACCAATGTGGCTTTAATCTGTTCAACTGCATCGCTAGGGGAGCAAGATTCACCGATG
29856795 TAGCTTTAAT
66 TAGCTTTAAT
* *
29856805 CAAGATTCACCAATGTGGCTTTAATCTTTTTAACTGCAAT-G-TAGGGGAAGCAAGATTCACCGA
1 CAAGATTCACCAATGTGGCTTTAATCTGTTCAACTGC-ATCGCTAGGGG-AGCAAGATTCACCGA
* *
29856868 TGTGGTTTTAAT
64 TGTAGCTTTAAT
29856880 C
1 C
29856881 TATTCCACTG
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
74 5 0.08
75 56 0.89
76 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (75 bp):
CAAGATTCACCAATGTGGCTTTAATCTGTTCAACTGCATCGCTAGGGGAGCAAGATTCACCGATG
TAGCTTTAAT
Found at i:29856908 original size:125 final size:125
Alignment explanation
Indices: 29856681--29856929 Score: 358
Period size: 125 Copynumber: 2.0 Consensus size: 125
29856671 TTTGGAAAGT
* * * *
29856681 AAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTT
1 AAGATTCACCAATGTGGCTTTAATCTTTTTAACTGCAATGTAGGAGAAACAAGATTCACCAATGT
* * * *
29856746 GGCTTTAATCTGTTCCACTGCATCGCTTGGGGAGTAAGATTCGCTGTTGTAGCTTTAATC
66 GGCTTTAATCTATTCCACTGCACCGCTTGGAGAGTAAGATTCGCTGCTGTAGCTTTAATC
* * *
29856806 AAGATTCACCAATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGT
1 AAGATTCACCAATGTGGCTTTAATCTTTTTAACTGCAATGTAGGAGAAACAAGATTCACCAATGT
*
29856871 GGTTTTAATCTATTCCACTGCACCGCCTAT-GAG-GTAAGATTCGCTGCTGTAGCTTTAAT
66 GGCTTTAATCTATTCCACTGCACCG-CT-TGGAGAGTAAGATTCGCTGCTGTAGCTTTAAT
29856930 ATTTTTAATC
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
125 105 0.95
126 4 0.04
127 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (125 bp):
AAGATTCACCAATGTGGCTTTAATCTTTTTAACTGCAATGTAGGAGAAACAAGATTCACCAATGT
GGCTTTAATCTATTCCACTGCACCGCTTGGAGAGTAAGATTCGCTGCTGTAGCTTTAATC
Found at i:29857127 original size:101 final size:101
Alignment explanation
Indices: 29856822--29857411 Score: 900
Period size: 101 Copynumber: 5.9 Consensus size: 101
29856812 CACCAATGTG
* * * * * * **
29856822 GCTTTAATCTTTTTAACTGCAATGT-AGGGGAAGCAAGATTCACCGATGTGGTTTTAATCTATTC
1 GCTTTAATCTTTTTAACCGAAATGTCAGAGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTC
* ** * * * *
29856886 CACTGCACCGCCTATGAGGTAAGATTCGCTGCTGTA
66 CACTGCACTGCCTGGGAAGTAAGATTTGCTGATTTA
* * * * *
29856922 GCTTTAATATTTTTAATCGTAATGTCAGAG-AAGCAAGATTCACCGTTGTGGCTTTAATCT-TTT
1 GCTTTAATCTTTTTAACCGAAATGTCAGAGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTC
* * ** * *
29856985 TACTGCACCGCCTGGG-AGATAAGATTCACTGCTGTA
66 CACTGCACTGCCTGGGAAG-TAAGATTTGCTGATTTA
29857021 GCTTTAATCTTTTTAACCGAAATGTCAGAGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTC
1 GCTTTAATCTTTTTAACCGAAATGTCAGAGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTC
29857086 CACTGCACTGCCTGGGAAGTAAGATTTGCTGATTTA
66 CACTGCACTGCCTGGGAAGTAAGATTTGCTGATTTA
29857122 GCTTTAATCTTTTTAACCGAAATGTCAGAGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTC
1 GCTTTAATCTTTTTAACCGAAATGTCAGAGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTC
29857187 CACTGCACTGCCTGGGAAGTAAGATTTGCTGATTTA
66 CACTGCACTGCCTGGGAAGTAAGATTTGCTGATTTA
29857223 GCTTTAATCTTTTTAACCGAAATGTCAGAGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTC
1 GCTTTAATCTTTTTAACCGAAATGTCAGAGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTC
29857288 CACTGCACTGCCTGGGAAGTAAGATTTGCTGATTTA
66 CACTGCACTGCCTGGGAAGTAAGATTTGCTGATTTA
29857324 GCTTTAATCTTTTTAACCGAAATGTCAGAGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTC
1 GCTTTAATCTTTTTAACCGAAATGTCAGAGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTC
*
29857389 CACTGCACTGCTTGGGAAGTAAG
66 CACTGCACTGCCTGGGAAGTAAG
29857412 GCTTTGTTTT
Statistics
Matches: 460, Mismatches: 25, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
98 1 0.00
99 58 0.13
100 79 0.17
101 320 0.70
102 2 0.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (101 bp):
GCTTTAATCTTTTTAACCGAAATGTCAGAGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTC
CACTGCACTGCCTGGGAAGTAAGATTTGCTGATTTA
Found at i:29858608 original size:42 final size:42
Alignment explanation
Indices: 29858549--29858649 Score: 175
Period size: 42 Copynumber: 2.4 Consensus size: 42
29858539 AAATCACCAT
*
29858549 ATGCCCCAATCTGATCAAAATTTGAATTGCTCTGATTACCTC
1 ATGCCCCATTCTGATCAAAATTTGAATTGCTCTGATTACCTC
*
29858591 ATGCCCCATTCTGATCAAAATTTGAATTTCTCTGATTACCTC
1 ATGCCCCATTCTGATCAAAATTTGAATTGCTCTGATTACCTC
*
29858633 ATGCCCTATTCTGATCA
1 ATGCCCCATTCTGATCA
29858650 TATTTGAGCC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.36
Consensus pattern (42 bp):
ATGCCCCATTCTGATCAAAATTTGAATTGCTCTGATTACCTC
Found at i:29858754 original size:14 final size:14
Alignment explanation
Indices: 29858735--29858768 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
29858725 AGCCTCTCCA
29858735 TTTTTCATTTTCAT
1 TTTTTCATTTTCAT
*
29858749 TTTTTCATTTTTAT
1 TTTTTCATTTTCAT
29858763 TTTTTC
1 TTTTTC
29858769 CCCGACTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTCATTTTCAT
Found at i:29863193 original size:107 final size:107
Alignment explanation
Indices: 29863048--29864004 Score: 1619
Period size: 107 Copynumber: 8.9 Consensus size: 107
29863038 GGAACTCGAG
* * * *
29863048 ACCCAACACATTAGGGTACGTTTTCTCAAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAAT
1 ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAAT
29863113 TTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAACAAA
66 TTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAACAAA
29863155 ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAAT
1 ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAAT
29863220 TTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAACAAA
66 TTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAACAAA
29863262 ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAAT
1 ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAAT
29863327 TTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAACAAA
66 TTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAACAAA
*
29863369 ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAA
1 ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTA-TTTTAAAAA
* * *
29863434 TTTAAAAGGATATTCGGCTATTTGGTCGAACGAGGTAATCGAA
65 TTTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAACAAA
* *
29863477 ACCCAGCACATAAAGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAAT
1 ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAAT
29863542 TTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAACAAA
66 TTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAACAAA
29863584 ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAAT
1 ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAAT
29863649 TTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAACAAA
66 TTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAACAAA
* *
29863691 ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
1 ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAAT
* * *
29863756 TTAAAAGGATATTTAGCTATTTGGTCGAACGA-GAAAGATCGAA
66 TTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAA-A-CAAA
* * * * *
29863799 ACCCAACACATTAGGGCACTTTTTCTCGAATCTCCAAACGCAAAACATTGCCTTATTTTTGAAAA
1 ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTA-TTTTAAAAA
* * *
29863864 TTTAAAAGGATATTCGGCTATTTGGTCGAACGAGGTAATCGAA
65 TTTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAACAAA
* * * *
29863907 ACCCAGCACATAAAGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
1 ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAAT
*
29863972 TTAAAAGGATATTTAGCTATTTGGTCGAACGAG
66 TTAAAAGGATATTCAGCTATTTGGTCGAACGAG
29864005 AAAGATCGAA
Statistics
Matches: 806, Mismatches: 39, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
106 3 0.00
107 553 0.69
108 208 0.26
109 39 0.05
110 3 0.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (107 bp):
ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAAT
TTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAACAAA
Found at i:29863638 original size:322 final size:321
Alignment explanation
Indices: 29863048--29864004 Score: 1644
Period size: 322 Copynumber: 3.0 Consensus size: 321
29863038 GGAACTCGAG
* * * * *
29863048 ACCCAACACATTAGGGTACGTTTTCTCAAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAAT
1 ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAAT
* *
29863113 TTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAACAAAACCCAGCACATTAGGGCACGTTT
66 TTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAATCGAAACCCAGCACATTAGGGCACGTTT
29863178 CCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAATTTAAAAGGATATTCAGCTATTTG
131 CCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAATTTAAAAGGATATTCAGCTATTTG
29863243 GTCGAACGAGGTAAACAAAACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAAC
196 GTCGAACGAGGTAAACAAAACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAAC
29863308 ATTGCCTTATTTTAAAAATTTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAACAAA
261 ATTGCCTTATTTTAAAAATTTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAACAAA
29863369 ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAA
1 ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTA-TTTTGAAAA
* * *
29863434 TTTAAAAGGATATTCGGCTATTTGGTCGAACGAGGTAATCGAAACCCAGCACATAAAGGCACGTT
65 TTTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAATCGAAACCCAGCACATTAGGGCACGTT
29863499 TCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAATTTAAAAGGATATTCAGCTATTT
130 TCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAATTTAAAAGGATATTCAGCTATTT
29863564 GGTCGAACGAGGTAAACAAAACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAA
195 GGTCGAACGAGGTAAACAAAACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAA
29863629 CATTGCCTTATTTTAAAAATTTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAACAAA
260 CATTGCCTTATTTTAAAAATTTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAACAAA
*
29863691 ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
1 ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAAT
* ** * *
29863756 TTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAGATCGAAACCCAACACATTAGGGCACTTT
66 TTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTA-ATCGAAACCCAGCACATTAGGGCACGTT
* * * *
29863821 TTCTCGAATCTCCAAACGCAAAACATTGCCTTATTTTTGAAAATTTAAAAGGATATTCGGCTATT
130 TCCTCGAATTTCCAAACGCAAAACATTGCCTTA-TTTTAAAAATTTAAAAGGATATTCAGCTATT
* * * *
29863886 TGGTCGAACGAGGTAATCGAAACCCAGCACATAAAGGCACGTTTCCTCGAATTTCCAAACGCAAA
194 TGGTCGAACGAGGTAAACAAAACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAA
* * *
29863951 ACATTGCCTTATTTTGAAATTTTAAAAGGATATTTAGCTATTTGGTCGAACGAG
259 ACATTGCCTTATTTTAAAAATTTAAAAGGATATTCAGCTATTTGGTCGAACGAG
29864005 AAAGATCGAA
Statistics
Matches: 603, Mismatches: 30, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
321 92 0.15
322 370 0.61
323 141 0.23
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (321 bp):
ACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAAT
TTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAATCGAAACCCAGCACATTAGGGCACGTTT
CCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAATTTAAAAGGATATTCAGCTATTTG
GTCGAACGAGGTAAACAAAACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAAC
ATTGCCTTATTTTAAAAATTTAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAACAAA
Found at i:29868043 original size:21 final size:20
Alignment explanation
Indices: 29868015--29868054 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
29868005 GTCAATAACC
29868015 AAAAGTTCCCACAAACAGAT
1 AAAAGTTCCCACAAACAGAT
**
29868035 AAAATGTTCTGACAAACAGA
1 AAAA-GTTCCCACAAACAGA
29868055 CATATATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.50, C:0.20, G:0.12, T:0.17
Consensus pattern (20 bp):
AAAAGTTCCCACAAACAGAT
Found at i:29868766 original size:21 final size:21
Alignment explanation
Indices: 29868742--29868832 Score: 130
Period size: 21 Copynumber: 4.3 Consensus size: 21
29868732 GACACACATC
*
29868742 CGTGTGACCAAGTTATAC-GT
1 CGTGTGACCAAGTTACACGGT
* *
29868762 CCGTGTGACTAAGTTACACGAT
1 -CGTGTGACCAAGTTACACGGT
*
29868784 CGTGTGACGAAGTTACACGGT
1 CGTGTGACCAAGTTACACGGT
29868805 CGTGTGACCAAGTTACACGGT
1 CGTGTGACCAAGTTACACGGT
29868826 CGTGTGA
1 CGTGTGA
29868833 GTAGCCCGTG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 62 0.98
22 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
CGTGTGACCAAGTTACACGGT
Found at i:29872324 original size:22 final size:22
Alignment explanation
Indices: 29872299--29872365 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
29872289 CTTATCGTTC
*
29872299 TGCACTTCGATGCCTACTATTT
1 TGCACTTCGATGCATACTATTT
* * *
29872321 TGCACTACGATGCTTAGTGA-TT
1 TGCACTTCGATGCATACT-ATTT
* *
29872343 TGCACTTCGGTGCATACTGTTT
1 TGCACTTCGATGCATACTATTT
29872365 T
1 T
29872366 ATTAGTGCAC
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
22 34 0.97
23 1 0.03
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.40
Consensus pattern (22 bp):
TGCACTTCGATGCATACTATTT
Found at i:29872629 original size:21 final size:21
Alignment explanation
Indices: 29872582--29872629 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
29872572 GTGTAAAGAT
29872582 AAATT-GTGAATGAAATGATA
1 AAATTAGTGAATGAAATGATA
*
29872602 AAGATTAGTG-ATGAAATTATGA
1 AA-ATTAGTGAATGAAATGAT-A
29872624 AAATTA
1 AAATTA
29872630 CATGTATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.08
21 16 0.67
22 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (21 bp):
AAATTAGTGAATGAAATGATA
Found at i:29881631 original size:20 final size:20
Alignment explanation
Indices: 29881606--29881646 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
29881596 GTACATTCAG
29881606 ATTTATTTTGAGACTTAATT
1 ATTTATTTTGAGACTTAATT
29881626 ATTTATTTTGAGACTTAATT
1 ATTTATTTTGAGACTTAATT
29881646 A
1 A
29881647 ACTCACATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.05, G:0.10, T:0.54
Consensus pattern (20 bp):
ATTTATTTTGAGACTTAATT
Found at i:29883214 original size:719 final size:719
Alignment explanation
Indices: 29882326--29883756 Score: 2862
Period size: 719 Copynumber: 2.0 Consensus size: 719
29882316 ACATTCATTG
29882326 AGTTACACATTAAATATTTAATTATAAATTTGTTCGACTTTGGGGGTTGTTTGAGAGTGTAGTCG
1 AGTTACACATTAAATATTTAATTATAAATTTGTTCGACTTTGGGGGTTGTTTGAGAGTGTAGTCG
29882391 CCCAAGGCTGGATGAGGCCCAATTTTTTTTTTTAGTTTTTAATGTGGGAAAAAATCAGATTAAAA
66 CCCAAGGCTGGATGAGGCCCAATTTTTTTTTTTAGTTTTTAATGTGGGAAAAAATCAGATTAAAA
29882456 TTAATTAATTAAATGCCTAGGACGTTCATTTTTTCACCATAAATGTTTCATCTCCTAAGGCCCCA
131 TTAATTAATTAAATGCCTAGGACGTTCATTTTTTCACCATAAATGTTTCATCTCCTAAGGCCCCA
29882521 AAACTTTTTAGCTTTTTATATTACATTTTATAATTTTTTTAAAAGGGCCCAATTTATTATTTCGC
196 AAACTTTTTAGCTTTTTATATTACATTTTATAATTTTTTTAAAAGGGCCCAATTTATTATTTCGC
29882586 CTAAGGCCTTAAAAATGTCAATAACGAGCCTACTATTAAGAATGATCCAATTGGTAAACATAGAT
261 CTAAGGCCTTAAAAATGTCAATAACGAGCCTACTATTAAGAATGATCCAATTGGTAAACATAGAT
29882651 TAAATCTATAACCTTACGCATAATATAGGACTAATGACATAATTTAACCAAATAGATTAAACTGT
326 TAAATCTATAACCTTACGCATAATATAGGACTAATGACATAATTTAACCAAATAGATTAAACTGT
29882716 GATAATTGGATTAGGATTAAAATTTTAAAATTCGAAAAGTATAAGAACTAAAATTAATCAAATTA
391 GATAATTGGATTAGGATTAAAATTTTAAAATTCGAAAAGTATAAGAACTAAAATTAATCAAATTA
29882781 AAGTAATGTACTAAATCTATAATTTACAGAAAGTACAAGGTCTAATAACACAATTTCACCTAATT
456 AAGTAATGTACTAAATCTATAATTTACAGAAAGTACAAGGTCTAATAACACAATTTCACCTAATT
29882846 ATCCAACTCCCCACAAGTTAAAGTTTGCTACCTACCTCTTGAATTCTTAATAAATGTAACCTTTT
521 ATCCAACTCCCCACAAGTTAAAGTTTGCTACCTACCTCTTGAATTCTTAATAAATGTAACCTTTT
29882911 TCCCACTTTTGTTGGAATCACCTGAGGTAAAAGTCAAATTCAACCAAATAACACAAAATCATAAT
586 TCCCACTTTTGTTGGAATCACCTGAGGTAAAAGTCAAATTCAACCAAATAACACAAAATCATAAT
29882976 ATGAAACCATTAGTGATTATAAACCGATTGGGTTGATTTAATTTGAATTATGTATTTGATAATCT
651 ATGAAACCATTAGTGATTATAAACCGATTGGGTTGATTTAATTTGAATTATGTATTTGATAATCT
29883041 TACA
716 TACA
29883045 AGTTACACATTAAATATTTAATTATAAATTTGTTCGACTTTGGGGGTTGTTTGAGAGTGTAGTCG
1 AGTTACACATTAAATATTTAATTATAAATTTGTTCGACTTTGGGGGTTGTTTGAGAGTGTAGTCG
29883110 CCCAAGGCTGGATGAGGCCCAATTTTTTTTTTTAGTTTTTAATGTGGGAAAAAATCAGATTAAAA
66 CCCAAGGCTGGATGAGGCCCAATTTTTTTTTTTAGTTTTTAATGTGGGAAAAAATCAGATTAAAA
29883175 TTAATTAATTAAATGCCTAGGACGTTCATTTTTTCACCATAAATGTTTCATCTCCTAAGGCCCCA
131 TTAATTAATTAAATGCCTAGGACGTTCATTTTTTCACCATAAATGTTTCATCTCCTAAGGCCCCA
29883240 AAACTTTTTAGCTTTTTATATTACATTTTATAATTTTTTTAAAAGGGCCCAATTTATTATTTCGC
196 AAACTTTTTAGCTTTTTATATTACATTTTATAATTTTTTTAAAAGGGCCCAATTTATTATTTCGC
29883305 CTAAGGCCTTAAAAATGTCAATAACGAGCCTACTATTAAGAATGATCCAATTGGTAAACATAGAT
261 CTAAGGCCTTAAAAATGTCAATAACGAGCCTACTATTAAGAATGATCCAATTGGTAAACATAGAT
29883370 TAAATCTATAACCTTACGCATAATATAGGACTAATGACATAATTTAACCAAATAGATTAAACTGT
326 TAAATCTATAACCTTACGCATAATATAGGACTAATGACATAATTTAACCAAATAGATTAAACTGT
29883435 GATAATTGGATTAGGATTAAAATTTTAAAATTCGAAAAGTATAAGAACTAAAATTAATCAAATTA
391 GATAATTGGATTAGGATTAAAATTTTAAAATTCGAAAAGTATAAGAACTAAAATTAATCAAATTA
29883500 AAGTAATGTACTAAATCTATAATTTACAGAAAGTACAAGGTCTAATAACACAATTTCACCTAATT
456 AAGTAATGTACTAAATCTATAATTTACAGAAAGTACAAGGTCTAATAACACAATTTCACCTAATT
29883565 ATCCAACTCCCCACAAGTTAAAGTTTGCTACCTACCTCTTGAATTCTTAATAAATGTAACCTTTT
521 ATCCAACTCCCCACAAGTTAAAGTTTGCTACCTACCTCTTGAATTCTTAATAAATGTAACCTTTT
29883630 TCCCACTTTTGTTGGAATCACCTGAGGTAAAAGTCAAATTCAACCAAATAACACAAAATCATAAT
586 TCCCACTTTTGTTGGAATCACCTGAGGTAAAAGTCAAATTCAACCAAATAACACAAAATCATAAT
29883695 ATGAAACCATTAGTGATTATAAACCGATTGGGTTGATTTAATTTGAATTATGTATTTGATAA
651 ATGAAACCATTAGTGATTATAAACCGATTGGGTTGATTTAATTTGAATTATGTATTTGATAA
29883757 AATGTTAAAA
Statistics
Matches: 712, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
719 712 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (719 bp):
AGTTACACATTAAATATTTAATTATAAATTTGTTCGACTTTGGGGGTTGTTTGAGAGTGTAGTCG
CCCAAGGCTGGATGAGGCCCAATTTTTTTTTTTAGTTTTTAATGTGGGAAAAAATCAGATTAAAA
TTAATTAATTAAATGCCTAGGACGTTCATTTTTTCACCATAAATGTTTCATCTCCTAAGGCCCCA
AAACTTTTTAGCTTTTTATATTACATTTTATAATTTTTTTAAAAGGGCCCAATTTATTATTTCGC
CTAAGGCCTTAAAAATGTCAATAACGAGCCTACTATTAAGAATGATCCAATTGGTAAACATAGAT
TAAATCTATAACCTTACGCATAATATAGGACTAATGACATAATTTAACCAAATAGATTAAACTGT
GATAATTGGATTAGGATTAAAATTTTAAAATTCGAAAAGTATAAGAACTAAAATTAATCAAATTA
AAGTAATGTACTAAATCTATAATTTACAGAAAGTACAAGGTCTAATAACACAATTTCACCTAATT
ATCCAACTCCCCACAAGTTAAAGTTTGCTACCTACCTCTTGAATTCTTAATAAATGTAACCTTTT
TCCCACTTTTGTTGGAATCACCTGAGGTAAAAGTCAAATTCAACCAAATAACACAAAATCATAAT
ATGAAACCATTAGTGATTATAAACCGATTGGGTTGATTTAATTTGAATTATGTATTTGATAATCT
TACA
Found at i:29884801 original size:9 final size:9
Alignment explanation
Indices: 29884784--29884815 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
29884774 TTAATTTTTG
*
29884784 TTAATTATT
1 TTAAATATT
29884793 TTAAATATT
1 TTAAATATT
29884802 TTAAATATT
1 TTAAATATT
29884811 TTAAA
1 TTAAA
29884816 GTCAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTAAATATT
Found at i:29892119 original size:26 final size:25
Alignment explanation
Indices: 29892059--29892119 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
29892049 CTAAACACTT
*
29892059 TTAAATAAACAATTAATAGAATCAA
1 TTAATTAAACAATTAATAGAATCAA
** *
29892084 TTGGTCAAACAAATTAATAGAATCAA
1 TTAATTAAAC-AATTAATAGAATCAA
29892110 TTAATTAAAC
1 TTAATTAAAC
29892120 CAATCACTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.30
Consensus pattern (25 bp):
TTAATTAAACAATTAATAGAATCAA
Found at i:29894584 original size:37 final size:37
Alignment explanation
Indices: 29894481--29894635 Score: 93
Period size: 37 Copynumber: 4.2 Consensus size: 37
29894471 AGTACACTCT
* **
29894481 ATCGAGCCAAATCTTATTGTTATACTGAATGAAGTTCA
1 ATCGAG-CAAATCATACCGTTATACTGAATGAAGTTCA
* * * *
29894519 ATCGAGCAAATCATACTGATATATTGAATGGAGCTT-A
1 ATCGAGCAAATCATACCGTTATACTGAATGAAG-TTCA
* * * *
29894556 A-CTGAGCAGATCTTACCGTTATACTGAATGATGTTTA
1 ATC-GAGCAAATCATACCGTTATACTGAATGAAGTTCA
* * * *
29894593 ATCAAGAAAATTC-TACTGTTATACT-AAGTGAATTTCA
1 ATCGAGCAAA-TCATACCGTTATACTGAA-TGAAGTTCA
*
29894630 AACGAG
1 ATCGAG
29894636 TAGAAGTCTA
Statistics
Matches: 90, Mismatches: 21, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
36 5 0.06
37 74 0.82
38 11 0.12
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (37 bp):
ATCGAGCAAATCATACCGTTATACTGAATGAAGTTCA
Found at i:29897659 original size:24 final size:25
Alignment explanation
Indices: 29897600--29897660 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
29897590 GTGAGCCATG
* **
29897600 TAACAGAAAGCTTATCCGAGCTTAA
1 TAACAGAAAGCTCATAAGAGCTTAA
* *
29897625 TAACAGTAAGCTCATAAGAGTTTAA
1 TAACAGAAAGCTCATAAGAGCTTAA
29897650 -AACAGAAAGCT
1 TAACAGAAAGCT
29897661 AATGTGAGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.23
Consensus pattern (25 bp):
TAACAGAAAGCTCATAAGAGCTTAA
Found at i:29897673 original size:24 final size:25
Alignment explanation
Indices: 29897600--29897673 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 25
29897590 GTGAGCCATG
* **
29897600 TAACAGAAAGCTTATCCGAGCTTAA
1 TAACAGAAAGCTAATAAGAGCTTAA
* * *
29897625 TAACAGTAAGCTCATAAGAGTTTAA
1 TAACAGAAAGCTAATAAGAGCTTAA
**
29897650 -AACAGAAAGCTAATGTGAGCTTAA
1 TAACAGAAAGCTAATAAGAGCTTAA
29897674 CGGGTAACTC
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 19 0.49
25 20 0.51
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (25 bp):
TAACAGAAAGCTAATAAGAGCTTAA
Found at i:29897888 original size:64 final size:64
Alignment explanation
Indices: 29897772--29897891 Score: 168
Period size: 64 Copynumber: 1.9 Consensus size: 64
29897762 AGCTTGATAT
* * * *
29897772 CAGGACGCTCATAAAGAGCTGCAGTATGTCCTCAATATATACAAGATAAATACCGATCATATAA
1 CAGGACGCTCACAAAGAGCTGCAGTATGTCCGCAACACATACAAGATAAATACCGATCATATAA
* * * *
29897836 CAGGACGCTCACAAAGAGCTGCGGTATGTCCGCAACACATATAGGATCAATACCGA
1 CAGGACGCTCACAAAGAGCTGCAGTATGTCCGCAACACATACAAGATAAATACCGA
29897892 CCGGATGCTC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (64 bp):
CAGGACGCTCACAAAGAGCTGCAGTATGTCCGCAACACATACAAGATAAATACCGATCATATAA
Found at i:29904512 original size:18 final size:18
Alignment explanation
Indices: 29904486--29904520 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29904476 TTTTTGAATG
*
29904486 GTATTATAAAAAAAATTA
1 GTATGATAAAAAAAATTA
*
29904504 GTATGATAAAAATAATT
1 GTATGATAAAAAAAATT
29904521 TATGAAGAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (18 bp):
GTATGATAAAAAAAATTA
Found at i:29906601 original size:16 final size:16
Alignment explanation
Indices: 29906570--29906606 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
29906560 ATGTGAAGAA
29906570 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
29906586 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
29906602 TATTA
1 TATTA
29906607 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:29912261 original size:20 final size:19
Alignment explanation
Indices: 29912236--29912273 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
29912226 CAAATTTTTT
*
29912236 AAAATTTTAAATATTTATAA
1 AAAATTTCAAA-ATTTATAA
29912256 AAAATTTCAAAATTTATA
1 AAAATTTCAAAATTTATA
29912274 TACAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATTTCAAAATTTATAA
Found at i:29919015 original size:16 final size:17
Alignment explanation
Indices: 29918994--29919027 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
29918984 ACATAATTAT
*
29918994 TAGTAA-AAGGTTAATA
1 TAGTAATAAGGTAAATA
29919010 TAGTAATAAGGTAAATA
1 TAGTAATAAGGTAAATA
29919027 T
1 T
29919028 TAAATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
TAGTAATAAGGTAAATA
Found at i:29919904 original size:42 final size:42
Alignment explanation
Indices: 29919848--29919947 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
29919838 CTATATGAAC
* **
29919848 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAATG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACA
*
29919890 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACA
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACA
*
29919932 AGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
29919948 TACCGAGAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACA
Found at i:29926965 original size:3 final size:3
Alignment explanation
Indices: 29926957--29926999 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
29926947 CGATTAAAAA
* *
29926957 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATT ATC AAC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
29927000 AGTACAGTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:29933087 original size:3 final size:3
Alignment explanation
Indices: 29933079--29933119 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
29933069 ATCCTCATCT
* *
29933079 TCC TCC TCC TCC TCT TCT TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
29933120 TTCTTGTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (3 bp):
TCC
Found at i:29933097 original size:18 final size:18
Alignment explanation
Indices: 29933070--29933110 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
29933060 TTTCATTTCA
29933070 TCCTCATCTTCCTCCTCC
1 TCCTCATCTTCCTCCTCC
*
29933088 TCCTCTTCTTCCTCCTCC
1 TCCTCATCTTCCTCCTCC
29933106 TCCTC
1 TCCTC
29933111 CTCCTCCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.02, C:0.56, G:0.00, T:0.41
Consensus pattern (18 bp):
TCCTCATCTTCCTCCTCC
Found at i:29941027 original size:17 final size:18
Alignment explanation
Indices: 29940995--29941028 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
29940985 AAAAGTTGTG
*
29940995 ATAATTACACATTTAAAA
1 ATAATTACAAATTTAAAA
29941013 ATAATTA-AAATTTAAA
1 ATAATTACAAATTTAAA
29941029 CTACAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAATTACAAATTTAAAA
Found at i:29941434 original size:20 final size:20
Alignment explanation
Indices: 29941405--29941444 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
29941395 CCAATTCAAC
*
29941405 AAATACAAATAAAATAAAAG
1 AAATAAAAATAAAATAAAAG
*
29941425 AAATAAAAATAAATTAAAAG
1 AAATAAAAATAAAATAAAAG
29941445 TCCAATAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAATAAAAG
Found at i:29956965 original size:21 final size:22
Alignment explanation
Indices: 29956928--29957017 Score: 101
Period size: 24 Copynumber: 3.9 Consensus size: 22
29956918 AAGAATGTTC
*
29956928 AAAGAAAAAAAACAAAGAAAAAGA
1 AAAGAAAAAAAA-AGA-AAAAAGA
29956952 AAAGAAAAAAAAAGAAAAAAGA
1 AAAGAAAAAAAAAGAAAAAAGA
*
29956974 AAA-AAGAAAAAAGAAAAAAGAAA
1 AAAGAAAAAAAAAGAAAAAAG--A
*
29956997 AAAGAAAAGAAAAGAAGAAAA
1 AAAGAAAAAAAAAGAA-AAAA
29957018 AGGAGAGGCC
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
21 16 0.28
22 10 0.17
23 6 0.10
24 22 0.38
25 4 0.07
ACGTcount: A:0.84, C:0.01, G:0.14, T:0.00
Consensus pattern (22 bp):
AAAGAAAAAAAAAGAAAAAAGA
Found at i:29956969 original size:7 final size:7
Alignment explanation
Indices: 29956928--29957018 Score: 118
Period size: 7 Copynumber: 13.3 Consensus size: 7
29956918 AAGAATGTTC
29956928 AAAGAAA
1 AAAGAAA
*
29956935 AAA-AAC
1 AAAGAAA
29956941 AAAG-AA
1 AAAGAAA
29956947 AAAGAAA
1 AAAGAAA
*
29956954 AGAAAAAA
1 A-AAGAAA
29956962 AAAGAAA
1 AAAGAAA
29956969 AAAGAAA
1 AAAGAAA
29956976 AAAGAAA
1 AAAGAAA
29956983 AAAGAAA
1 AAAGAAA
29956990 AAAGAAA
1 AAAGAAA
29956997 AAAG--A
1 AAAGAAA
29957002 AAAGAAA
1 AAAGAAA
29957009 AGAAGAAA
1 A-AAGAAA
29957017 AA
1 AA
29957019 GGAGAGGCCA
Statistics
Matches: 74, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
5 5 0.07
6 10 0.14
7 46 0.62
8 13 0.18
ACGTcount: A:0.85, C:0.01, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:29957018 original size:1 final size:1
Alignment explanation
Indices: 29956932--29957009 Score: 57
Period size: 1 Copynumber: 78.0 Consensus size: 1
29956922 ATGTTCAAAG
* * * * * * * * *
29956932 AAAAAAAACAAAGAAAAAGAAAAGAAAAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
29956997 AAAGAAAAGAAAA
1 AAAAAAAAAAAAA
29957010 GAAGAAAAAG
Statistics
Matches: 55, Mismatches: 22, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.86, C:0.01, G:0.13, T:0.00
Consensus pattern (1 bp):
A
Found at i:29957471 original size:106 final size:106
Alignment explanation
Indices: 29957284--29958036 Score: 1267
Period size: 106 Copynumber: 7.1 Consensus size: 106
29957274 GGGGCACCTA
29957284 TTTTTCATCTTATTCATCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAGC
1 TTTTTCATCTTATTCATCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAGC
29957349 CTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATC
66 CTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATC
*
29957390 TCTTTCATCTTATTCATCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAGC
1 TTTTTCATCTTATTCATCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAGC
*
29957455 CTTGTTTTCAATAAAATTTCATCTTATCCATTGTGATAATC
66 CTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATC
*
29957496 TCTTTCATCTTATTCATCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAGC
1 TTTTTCATCTTATTCATCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAGC
*
29957561 CTTGTTTTCAATAAAATTTCATCTTATCCATTGTGATAATC
66 CTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATC
* * *
29957602 TCTTTCATCTTATTCATCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTAAAC
1 TTTTTCATCTTATTCATCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAGC
*
29957667 CTTGTTCTCAATAAAATTTCATCTTATCCATTGTGACAATC
66 CTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATC
* * *
29957708 TTTTTCATCTTATTCAGTTCGTATCTTAGCAAGATTTGCTATCTTGATTGATTTATTCATTTTGA
1 TTTTTCATCTTATTCA--TCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGA
29957773 GCCTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATC
64 GCCTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATC
* *
29957816 TTTTTCATCTTATTCATCTTATCTTAGCAAAATTTTCTATCTTGATTAATTTATTCATTTTGAAC
1 TTTTTCATCTTATTCATCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAGC
*
29957881 TTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATC
66 CTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATC
* * *
29957922 TTTTTCATCTTATTCAGTTCGTT-TCTTAGCAAGATTTGCTATCTTGATTGATTTATTCATTTTA
1 TTTTTCATCTTATTCA--TC-TTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTG
* *
29957986 AGCCTTGTTCTCAATAAAATTTCATCTTGTCTATT-TGGATAATC
63 AGCCTTGTTCTCAATAAAATTTCATCTTATCCATTGT-GATAATC
29958030 TTTTTCA
1 TTTTTCA
29958037 AGCATGTTTT
Statistics
Matches: 614, Mismatches: 27, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
106 427 0.70
107 1 0.00
108 184 0.30
109 2 0.00
ACGTcount: A:0.26, C:0.17, G:0.08, T:0.49
Consensus pattern (106 bp):
TTTTTCATCTTATTCATCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAGC
CTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATC
Found at i:29957653 original size:212 final size:213
Alignment explanation
Indices: 29957284--29958036 Score: 1280
Period size: 214 Copynumber: 3.5 Consensus size: 213
29957274 GGGGCACCTA
29957284 TTTTTCATCTTATTCA-TCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAG
1 TTTTTCATCTTATTCAGTCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAG
29957348 CCTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATCTCTTTCATCTTATTCATCTTATC
66 CCTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATCTCTTTCATCTTATTCATCTTATC
* *
29957413 TTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAGCCTTGTTTTCAATAAAATTTCATC
131 TTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAACCTTGTTCTCAATAAAATTTCATC
29957478 TTATCCATTGTGATAATC
196 TTATCCATTGTGATAATC
*
29957496 TCTTTCATCTTATTCA-TCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAG
1 TTTTTCATCTTATTCAGTCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAG
*
29957560 CCTTGTTTTCAATAAAATTTCATCTTATCCATTGTGATAATCTCTTTCATCTTATTCATCTTATC
66 CCTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATCTCTTTCATCTTATTCATCTTATC
*
29957625 TTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTAAACCTTGTTCTCAATAAAATTTCATC
131 TTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAACCTTGTTCTCAATAAAATTTCATC
*
29957690 TTATCCATTGTGACAATC
196 TTATCCATTGTGATAATC
* * *
29957708 TTTTTCATCTTATTCAGTTCGTATCTTAGCAAGATTTGCTATCTTGATTGATTTATTCATTTTGA
1 TTTTTCATCTTATTCAG-TCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGA
*
29957773 GCCTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATCTTTTTCATCTTATTCATCTTAT
65 GCCTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATCTCTTTCATCTTATTCATCTTAT
* *
29957838 CTTAGCAAAATTTTCTATCTTGATTAATTTATTCATTTTGAACTTTGTTCTCAATAAAATTTCAT
130 CTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAACCTTGTTCTCAATAAAATTTCAT
29957903 CTTATCCATTGTGATAATC
195 CTTATCCATTGTGATAATC
* * *
29957922 TTTTTCATCTTATTCAGTTCGTT-TCTTAGCAAGATTTGCTATCTTGATTGATTTATTCATTTTA
1 TTTTTCATCTTATTCAG-TC-TTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTG
* * *
29957986 AGCCTTGTTCTCAATAAAATTTCATCTTGTCTATT-TGGATAATCTTTTTCA
64 AGCCTTGTTCTCAATAAAATTTCATCTTATCCATTGT-GATAATCTCTTTCA
29958037 AGCATGTTTT
Statistics
Matches: 517, Mismatches: 20, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
212 221 0.43
213 1 0.00
214 294 0.57
215 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.08, T:0.49
Consensus pattern (213 bp):
TTTTTCATCTTATTCAGTCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAG
CCTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATCTCTTTCATCTTATTCATCTTATC
TTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAACCTTGTTCTCAATAAAATTTCATC
TTATCCATTGTGATAATC
Found at i:29958722 original size:15 final size:15
Alignment explanation
Indices: 29958702--29958741 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
29958692 CGACATTCTG
29958702 CATTCATACAAATAT
1 CATTCATACAAATAT
* *
29958717 CATTCATGCAATTAT
1 CATTCATACAAATAT
*
29958732 AATTCATACA
1 CATTCATACA
29958742 CACCTAGTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.35
Consensus pattern (15 bp):
CATTCATACAAATAT
Found at i:29959009 original size:46 final size:46
Alignment explanation
Indices: 29958948--29959310 Score: 516
Period size: 46 Copynumber: 7.9 Consensus size: 46
29958938 GACTAAAAGC
* **
29958948 AGCAGATCTTATCTTCCTGTATTTGGCAGGGGAG-GAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTG-GATCGAAGAT
* * * *
29958994 AGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAAG-AGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCAG-AGTGGATCGAAGAT
* * *
29959040 AGTAGATCTTGTCTTCCTATATTTGGCAGCAGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAAGAT
*
29959086 AGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATTGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAAGAT
29959132 AGCAGATCTTGTCTTCCTGTATTTGGCAGC-GAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCAG-AGTGGATCGAAGAT
*
29959178 AGCAGATTTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAAGAT
* ** *
29959224 AGCAGATCTTGTCTTCCTATATTTTACAGCTGAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAAGAT
* *
29959270 AGCAAATCTTGTCTTACTGTATTTGGCAGCAGAGTGGATCG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCG
29959311 GCAGCGGAGT
Statistics
Matches: 286, Mismatches: 27, Indels: 8
0.89 0.08 0.02
Matches are distributed among these distances:
45 3 0.01
46 280 0.98
47 3 0.01
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (46 bp):
AGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAAGAT
Found at i:29959201 original size:138 final size:139
Alignment explanation
Indices: 29958948--29959445 Score: 633
Period size: 138 Copynumber: 3.5 Consensus size: 139
29958938 GACTAAAAGC
* ** *
29958948 AGCAGATCTTATCTTCCTGTATTTGGCAGGGGAG-GAGATCGAAGATAGCAGATCTTGTCTTCTT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTG-GATCGAAGATAGCAGATCTTGTCTTCCT
* * * * *
29959012 GTATTTGGCAGCGGAAG-AGATCAAAGATAGTAGATCTTGTCTTCCTATATTTGGCAGCAGAGTA
65 GTATTTGGCAGCGGAAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTG
29959076 GATCGAAGAT
130 GATCGAAGAT
*
29959086 AGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATTGAAGATAGCAGATCTTGTCTTCCTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTG
*
29959151 TATTTGGCAGC-GAAGTGGATCGAAGATAGCAGATTTTGTCTTCCTGTATTTGGCAGCAGAGTGG
66 TATTTGGCAGCGGAAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGG
29959215 ATCGAAGAT
131 ATCGAAGAT
* ** * * *
29959224 AGCAGATCTTGTCTTCCTATATTTTACAGCTGAGTGGATCGAAGATAGCAAATCTTGTCTTACTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTG
*
29959289 TATTTGGCAGCAGAGTGGATCGGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTTTCTGTAT
66 TATTT-G--GC--A---G--CGG-A----AGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
** *
29959354 TTGGCAGTGGAGTGGATAGAAGAT
116 TTGGCAGCAGAGTGGATCGAAGAT
*
29959378 AGCAAATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTG
29959443 TAT
66 TAT
29959446 CAAAAAAAAA
Statistics
Matches: 312, Mismatches: 30, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
137 4 0.01
138 183 0.59
139 2 0.01
141 2 0.01
143 1 0.00
146 1 0.00
148 1 0.00
149 1 0.00
150 1 0.00
154 116 0.37
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (139 bp):
AGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTG
TATTTGGCAGCGGAAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGG
ATCGAAGAT
Found at i:29959315 original size:16 final size:16
Alignment explanation
Indices: 29959294--29959326 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
29959284 TACTGTATTT
29959294 GGCAGCAGAGTGGATC
1 GGCAGCAGAGTGGATC
*
29959310 GGCAGCGGAGTGGATC
1 GGCAGCAGAGTGGATC
29959326 G
1 G
29959327 AAGATAGCAG
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:0.21, C:0.18, G:0.48, T:0.12
Consensus pattern (16 bp):
GGCAGCAGAGTGGATC
Found at i:29959352 original size:62 final size:62
Alignment explanation
Indices: 29959250--29959370 Score: 197
Period size: 62 Copynumber: 2.0 Consensus size: 62
29959240 CTATATTTTA
*
29959250 CAGCTGAGTGGATCGAAGATAGCAAATCTTGTCTTACTGTATTTGGCAGCAGAGTGGATCGG
1 CAGCGGAGTGGATCGAAGATAGCAAATCTTGTCTTACTGTATTTGGCAGCAGAGTGGATCGG
* * **
29959312 CAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTTTCTGTATTTGGCAGTGGAGTGGAT
1 CAGCGGAGTGGATCGAAGATAGCAAATCTTGTCTTACTGTATTTGGCAGCAGAGTGGAT
29959371 AGAAGATAGC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (62 bp):
CAGCGGAGTGGATCGAAGATAGCAAATCTTGTCTTACTGTATTTGGCAGCAGAGTGGATCGG
Found at i:29959377 original size:46 final size:46
Alignment explanation
Indices: 29959310--29959445 Score: 227
Period size: 46 Copynumber: 3.0 Consensus size: 46
29959300 AGAGTGGATC
*
29959310 GGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTTTCTGTATTT
1 GGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTT
* * *
29959356 GGCAGTGGAGTGGATAGAAGATAGCAAATCTTGTCTTCCTGTATTT
1 GGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTT
*
29959402 GGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
1 GGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
29959446 CAAAAAAAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.31
Consensus pattern (46 bp):
GGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTT
Found at i:29959391 original size:108 final size:108
Alignment explanation
Indices: 29959202--29959418 Score: 355
Period size: 108 Copynumber: 2.0 Consensus size: 108
29959192 TCCTGTATTT
* *
29959202 GGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTATATTTTACAGCTGAGTGGATCGAA
1 GGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGACAGCTGAGTGGATAGAA
29959267 GATAGCAAATCTTGTCTTACTGTATTTGGCAGCAGAGTGGATC
66 GATAGCAAATCTTGTCTTACTGTATTTGGCAGCAGAGTGGATC
* * * *
29959310 GGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTTTCTGTATTTGGCAG-TGGAGTGGATAGA
1 GGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGACAGCT-GAGTGGATAGA
*
29959374 AGATAGCAAATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATC
65 AGATAGCAAATCTTGTCTTACTGTATTTGGCAGCAGAGTGGATC
29959418 G
1 G
29959419 AAGATAGCAG
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
107 1 0.01
108 100 0.99
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (108 bp):
GGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGACAGCTGAGTGGATAGAA
GATAGCAAATCTTGTCTTACTGTATTTGGCAGCAGAGTGGATC
Found at i:29959436 original size:154 final size:154
Alignment explanation
Indices: 29959156--29959445 Score: 463
Period size: 154 Copynumber: 1.9 Consensus size: 154
29959146 TCCTGTATTT
* *
29959156 GGCAGCGAAGTGGATCGAAGATAGCAGATTTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAA
1 GGCAGCGAAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATAGAA
* * *
29959221 GATAGCAGATCTTGTCTTCCTATATTTTACAGCTGAGTGGATCGAAGATAGCAAATCTTGTCTTA
66 GATAGCAAATCTTGTCTTCCTATATTTGACAGCAGAGTGGATCGAAGATAGCAAATCTTGTCTTA
29959286 CTGTATTTGGCAGCAGAGTGGATC
131 CTGTATTTGGCAGCAGAGTGGATC
* * **
29959310 GGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTTTCTGTATTTGGCAGTGGAGTGGATAGAA
1 GGCAGCGAAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATAGAA
* * * *
29959375 GATAGCAAATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTC
66 GATAGCAAATCTTGTCTTCCTATATTTGACAGCAGAGTGGATCGAAGATAGCAAATCTTGTCTTA
29959440 CTGTAT
131 CTGTAT
29959446 CAAAAAAAAA
Statistics
Matches: 123, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
154 123 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (154 bp):
GGCAGCGAAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATAGAA
GATAGCAAATCTTGTCTTCCTATATTTGACAGCAGAGTGGATCGAAGATAGCAAATCTTGTCTTA
CTGTATTTGGCAGCAGAGTGGATC
Found at i:29960763 original size:16 final size:16
Alignment explanation
Indices: 29960742--29960775 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
29960732 AATATATACA
*
29960742 TTTTTTCTTTCTTTAT
1 TTTTTTCTTTATTTAT
*
29960758 TTTTTTGTTTATTTAT
1 TTTTTTCTTTATTTAT
29960774 TT
1 TT
29960776 ATATACATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.06, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTTTTCTTTATTTAT
Found at i:29963492 original size:24 final size:24
Alignment explanation
Indices: 29963444--29963497 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
29963434 ATATTAATAA
*
29963444 TTTATTTTTAAAATTTTAAATATAT
1 TTTATTATTAAAA-TTTAAATATAT
29963469 TTTATTATTAAAA-TTAAATCATAT
1 TTTATTATTAAAATTTAAAT-ATAT
29963493 TTTAT
1 TTTAT
29963498 AAGTGCTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 6 0.22
24 9 0.33
25 12 0.44
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTATTATTAAAATTTAAATATAT
Found at i:29964049 original size:114 final size:111
Alignment explanation
Indices: 29963930--29964309 Score: 395
Period size: 114 Copynumber: 3.3 Consensus size: 111
29963920 GTTTTCCGCC
* * * *
29963930 TATTCGGGGATTTAGCGGCATTTTTTATGAAGCGCCGCTAAAGCTCAAGGATTTAGCGGTGTTTT
1 TATTCGGGGATTTAGCAGCATTTTTGA-GAAGCGCCGCTAATGCTCAAGGCTTTAGCGGTGTTTT
*
29963995 TAAGAATGCGCCGCAAAGAAACCTAAGCCCAACGACGCTATTTTCTGAG
65 TAGGAA-GCGCCGCAAAGAAACCTAAGCCCAACGACGCT-TTTTCTGAG
* * * * * *
29964044 CATTCGGTGACTTAGCAGCATTTTTGAGGTAGCGCCGCCAATGTTC-AGTGCTTTAGCGGTGTTT
1 TATTCGGGGATTTAGCAGCATTTTTGA-GAAGCGCCGCTAATGCTCAAG-GCTTTAGCGGTGTTT
* * *
29964108 CTGAGGAAGCGCCGCAAAGAAACCTAAGCCCAACGACGTCGTTCTCTGAG
64 -TTAGGAAGCGCCGCAAAGAAACCTAAGCCCAACGACG-CTTTTTCTGAG
* * * * *
29964158 TATTCGGGGATTTAGCAGCATTTATGGAGAAGCGCTGCTAATGCTCAGGGCTTTAGCAGCGTTTT
1 TATTCGGGGATTTAGCAGCATTT-TTGAGAAGCGCCGCTAATGCTCAAGGCTTTAGCGGTGTTTT
* * *
29964223 TGGGAAAGCGCCGCAAA-AAACCTAAGCCCAACGATGTCGTTTTACTGAG
65 TAGG-AAGCGCCGCAAAGAAACCTAAGCCCAACGACG-C-TTTTTCTGAG
* ** * *
29964272 TATTGGGGGATTTAGTGGCGTTTTTGAACAAGCGCCGC
1 TATTCGGGGATTTAGCAGCATTTTTG-AGAAGCGCCGC
29964310 AAAATAATTA
Statistics
Matches: 219, Mismatches: 39, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
113 27 0.12
114 182 0.83
115 10 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (111 bp):
TATTCGGGGATTTAGCAGCATTTTTGAGAAGCGCCGCTAATGCTCAAGGCTTTAGCGGTGTTTTT
AGGAAGCGCCGCAAAGAAACCTAAGCCCAACGACGCTTTTTCTGAG
Found at i:29964308 original size:228 final size:228
Alignment explanation
Indices: 29963899--29964309 Score: 504
Period size: 228 Copynumber: 1.8 Consensus size: 228
29963889 AGCACTGCAA
* * * * **
29963899 AAACCTCAGCCCAACAACGTCGTTTTCCGCCTATTCGGGGATTTAGCGGCATTTTTTATGAAGCG
1 AAACCTAAGCCCAACAACGTCGTTCTCCGACTATTCGGGGATTTAGCAGCATTTTGGATGAAGCG
* * *
29963964 CCGCTAAAGCTCAAGGATTTAGCGGTGTTTTTAAGAATGCGCCGCAAAGAAACCTAAGCCCAACG
66 CCGCTAAAGCTCAAGGATTTAGCAGCGTTTTTAAGAAAGCGCCGCAAAGAAACCTAAGCCCAACG
* * ***
29964029 ACGCTATTTTCTGAGCATTCGGTGACTTAGCAGCATTTTTGAGGTAGCGCCGCCAATGTTCAGTG
131 ACGCTATTTACTGAGCATTCGGGGACTTAGCAGCATTTTTGAACAAGCGCCGCCAATGTTCAGTG
29964094 CTTTAGCGGTGTTTCTGAGGAAGCGCCGCAAAG
196 CTTTAGCGGTGTTTCTGAGGAAGCGCCGCAAAG
* * *
29964127 AAACCTAAGCCCAACGACGTCGTTCTCTGAGTATTCGGGGATTTAGCAGCATTTATGGA-GAAGC
1 AAACCTAAGCCCAACAACGTCGTTCTCCGACTATTCGGGGATTTAGCAGCATTT-TGGATGAAGC
* * * * **
29964191 GCTGCTAATGCTCAGGGCTTTAGCAGCGTTTTTGGGAAAGCGCCGCAAA-AAACCTAAGCCCAAC
65 GCCGCTAAAGCTCAAGGATTTAGCAGCGTTTTTAAGAAAGCGCCGCAAAGAAACCTAAGCCCAAC
* * * * ** *
29964255 GATGTCGT-TTTACTGAGTATTGGGGGATTTAGTGGCGTTTTTGAACAAGCGCCGC
130 GACG-C-TATTTACTGAGCATTCGGGGACTTAGCAGCATTTTTGAACAAGCGCCGC
29964310 AAAATAATTA
Statistics
Matches: 150, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
227 18 0.12
228 129 0.86
229 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (228 bp):
AAACCTAAGCCCAACAACGTCGTTCTCCGACTATTCGGGGATTTAGCAGCATTTTGGATGAAGCG
CCGCTAAAGCTCAAGGATTTAGCAGCGTTTTTAAGAAAGCGCCGCAAAGAAACCTAAGCCCAACG
ACGCTATTTACTGAGCATTCGGGGACTTAGCAGCATTTTTGAACAAGCGCCGCCAATGTTCAGTG
CTTTAGCGGTGTTTCTGAGGAAGCGCCGCAAAG
Found at i:29965885 original size:147 final size:146
Alignment explanation
Indices: 29965672--29966019 Score: 353
Period size: 146 Copynumber: 2.4 Consensus size: 146
29965662 AACTGTTGGG
* * * * * *
29965672 GAAACGACTTCG-TTTGATCTTATATTTAGTGGCGCTTTACTTAAAAGGCCGTAAAATTGTTCTA
1 GAAACGACTACGTTTTGAT-TTATAGTTAGTGGCACTTTACTTAAAACGCCGCAAAAATGTTCTA
* ** * * ** *
29965736 ACATTTATAGAAACGCTGCCATTTT-TTAAATGTTATTAGTGGCGATTT-TTTGAAAACGCCACG
65 ACATTTACAGAAACGAGGCCATTTTGCT--ATATTATTAGTGGCG-TTTATTCAAAAACGCCACA
* *
29965799 GGTTTGAGGTAAGTGTTGAT
127 GGTGTGAGCTAAGTGTTGAT
* * * *
29965819 GAAGCGACTGCGTTTTGATTTATAGTTAGTGGCACTTTGCTTAAAACGCCGCAAAAATGTTTTAA
1 GAAACGACTACGTTTTGATTTATAGTTAGTGGCACTTTACTTAAAACGCCGCAAAAATGTTCTAA
* * * *
29965884 CATTTACCGATACGAGGCCGTTTTGCTGTATTATTAGTGGCGTTTATTCAAAAACGCCACAGGTG
66 CATTTACAGAAACGAGGCCATTTTGCTATATTATTAGTGGCGTTTATTCAAAAACGCCACAGGTG
**
29965949 TGAGCTATTTGTTGAT
131 TGAGCTAAGTGTTGAT
* * * *
29965965 GAAACGACTACGTTTTGACTTATAGTTAGTGGCGC-TTATTTATAAATGCCGCAAA
1 GAAACGACTACGTTTTGATTTATAGTTAGTGGCACTTTACTTA-AAACGCCGCAAA
29966020 TGGTTAATTT
Statistics
Matches: 165, Mismatches: 32, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
145 8 0.05
146 83 0.50
147 67 0.41
148 7 0.04
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.36
Consensus pattern (146 bp):
GAAACGACTACGTTTTGATTTATAGTTAGTGGCACTTTACTTAAAACGCCGCAAAAATGTTCTAA
CATTTACAGAAACGAGGCCATTTTGCTATATTATTAGTGGCGTTTATTCAAAAACGCCACAGGTG
TGAGCTAAGTGTTGAT
Found at i:29966125 original size:23 final size:23
Alignment explanation
Indices: 29966095--29966140 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
29966085 AGAGATATTT
*
29966095 CTCCATCAGTTATCCCCCAAAAC
1 CTCCATCAATTATCCCCCAAAAC
29966118 CTCCATCAATTATCCCCCAAAAC
1 CTCCATCAATTATCCCCCAAAAC
29966141 TCATTCTCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.43, G:0.02, T:0.22
Consensus pattern (23 bp):
CTCCATCAATTATCCCCCAAAAC
Found at i:29968150 original size:43 final size:43
Alignment explanation
Indices: 29968102--29968276 Score: 178
Period size: 43 Copynumber: 4.1 Consensus size: 43
29968092 ATTCCAAAAA
* *
29968102 TAGTGGCGT-TTTTTATAAAAGCGCCGCTAAAGATCAT-TTCTTT
1 TAGTGGCGTCTTTTT-TAAAAGCGCCGCTAAAGAACATGATC-TT
* **
29968145 TAGTGGCGT-TTGTGAATAAAGCGCCGCTAAAGAACATGATCTT
1 TAGTGGCGTCTTTTTTA-AAAGCGCCGCTAAAGAACATGATCTT
*
29968188 TAGTGGCGTCTTTTTT-GAAGCGCCGCTAAAGAACATGATCTT
1 TAGTGGCGTCTTTTTTAAAAGCGCCGCTAAAGAACATGATCTT
* ** * * *
29968230 CAACGGCGTCTTTTTTCACAAGCGCCGCTAAAGATCATGTTCTT
1 TAGTGGCGTCTTTTTT-AAAAGCGCCGCTAAAGAACATGATCTT
29968274 TAG
1 TAG
29968277 CGGTGCTACA
Statistics
Matches: 110, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
42 39 0.35
43 42 0.38
44 29 0.26
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (43 bp):
TAGTGGCGTCTTTTTTAAAAGCGCCGCTAAAGAACATGATCTT
Found at i:29968220 original size:42 final size:42
Alignment explanation
Indices: 29968102--29968414 Score: 177
Period size: 42 Copynumber: 7.4 Consensus size: 42
29968092 ATTCCAAAAA
* *
29968102 TAGTGGCGTTTTTTATAAAAGCGCCGCTAAAGATCAT-TTCTTT
1 TAGTGGCGTTTTTT-TAAAAGCGCCGCTAAAGAACATGATC-TT
* **
29968145 TAGTGGCGTTTGTGAATAAAGCGCCGCTAAAGAACATGATCTT
1 TAGTGGCGTTTTTTTA-AAAGCGCCGCTAAAGAACATGATCTT
*
29968188 TAGTGGCGTCTTTTTT-GAAGCGCCGCTAAAGAACATGATCTT
1 TAGTGGCGT-TTTTTTAAAAGCGCCGCTAAAGAACATGATCTT
* ** * * *
29968230 CAACGGCGTCTTTTTTCACAAGCGCCGCTAAAGATCATGTTCTT
1 TAGTGGCGT-TTTTTT-AAAAGCGCCGCTAAAGAACATGATCTT
* * * **** * *
29968274 TAGCGGTG-CTACAAAAAAACGCCGCTAAAGATCAT-ATTCTT
1 TAGTGGCGTTTTTTTAAAAGCGCCGCTAAAGAACATGA-TCTT
* * **** * ** *
29968315 TAGCGGCGCTTGGAAAAAAACGCCGCTAAAGTTCATGTTCTT
1 TAGTGGCGTTTTTTTAAAAGCGCCGCTAAAGAACATGATCTT
* * * * *
29968357 TAGCGGCATTTTTTCT-GAAGCGTCGCTAAAGAACATGATTTT
1 TAGTGGCGTTTTTT-TAAAAGCGCCGCTAAAGAACATGATCTT
*
29968399 TAGCGGCGTTTATTTT
1 TAGTGGCGTTT-TTTT
29968415 TGTAAACGCT
Statistics
Matches: 214, Mismatches: 46, Indels: 21
0.76 0.16 0.07
Matches are distributed among these distances:
41 30 0.14
42 106 0.50
43 45 0.21
44 33 0.15
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (42 bp):
TAGTGGCGTTTTTTTAAAAGCGCCGCTAAAGAACATGATCTT
Found at i:29968825 original size:8 final size:8
Alignment explanation
Indices: 29968812--29968840 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
29968802 AATAAAAAAT
29968812 AAAATTAA
1 AAAATTAA
29968820 AAAATTAA
1 AAAATTAA
29968828 AAAATTAA
1 AAAATTAA
29968836 AAAAT
1 AAAAT
29968841 ACTAATAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAATTAA
Found at i:29975290 original size:7 final size:8
Alignment explanation
Indices: 29975276--29975311 Score: 51
Period size: 7 Copynumber: 4.9 Consensus size: 8
29975266 ATAATTCATA
29975276 AATATATT
1 AATATATT
29975284 AAT-TATT
1 AATATATT
29975291 AATATATT
1 AATATATT
29975299 -ATA-ATT
1 AATATATT
29975305 AATATAT
1 AATATAT
29975312 CATTTTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
6 3 0.12
7 13 0.52
8 9 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
AATATATT
Found at i:29975515 original size:25 final size:24
Alignment explanation
Indices: 29975472--29975524 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
29975462 TCCAAATTCA
* * *
29975472 TTATAAGTATATTTTTTTAATTCTT
1 TTATAAGTATATATATTT-ATTATT
29975497 TTATAAGTATATATATTTATTATT
1 TTATAAGTATATATATTTATTATT
29975521 TTAT
1 TTAT
29975525 TATTAAAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (24 bp):
TTATAAGTATATATATTTATTATT
Found at i:29980913 original size:60 final size:60
Alignment explanation
Indices: 29980817--29980929 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
29980807 ATACTGCGAG
29980817 CTCCCTTAACTGTCCTCTCGCTGTAAGTCTCATGTGTATCCATCTAGTGGGGTCTGACAA
1 CTCCCTTAACTGTCCTCTCGCTGTAAGTCTCATGTGTATCCATCTAGTGGGGTCTGACAA
* * * *
29980877 CTCCCTTAATTGTCCTCTCGTTGTACA-TCTTC-TGTGTATCCATTTGGTGGGGT
1 CTCCCTTAACTGTCCTCTCGCTGTA-AGTC-TCATGTGTATCCATCTAGTGGGGT
29980930 TTGGTCGGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
60 44 0.94
61 3 0.06
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.38
Consensus pattern (60 bp):
CTCCCTTAACTGTCCTCTCGCTGTAAGTCTCATGTGTATCCATCTAGTGGGGTCTGACAA
Found at i:29997756 original size:66 final size:66
Alignment explanation
Indices: 29997674--29997858 Score: 221
Period size: 66 Copynumber: 2.8 Consensus size: 66
29997664 GTCAGTAGCC
* * * *
29997674 TCACATAGCCTAGCACATGGGCGTGTGACTTAGTCGTATGACATAAGTCAGTATACCC-TCTAGT
1 TCACATAGCCTAGCACACGGGCGTGTGACTTGGTCGTGTGACACAAGTCAGTATACCCATC-AGT
29997738 TT
65 TT
* * * * * * *
29997740 TCACACAGCCTAGCACACAGGCGTGTGGCTTGGCCGTGTGTCACAAGTCAGTATGCCCATCATTT
1 TCACATAGCCTAGCACACGGGCGTGTGACTTGGTCGTGTGACACAAGTCAGTATACCCATCAGTT
29997805 T
66 T
* *
29997806 TCACATGGCCTAGCACACGGGCGTGT-AGCTTGGTCGTGTGACCCAAGTCAGTA
1 TCACATAGCCTAGCACACGGGCGTGTGA-CTTGGTCGTGTGACACAAGTCAGTA
29997859 AGCTCACAAG
Statistics
Matches: 99, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
66 97 0.98
67 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (66 bp):
TCACATAGCCTAGCACACGGGCGTGTGACTTGGTCGTGTGACACAAGTCAGTATACCCATCAGTT
T
Found at i:29997878 original size:66 final size:66
Alignment explanation
Indices: 29997675--29997883 Score: 174
Period size: 66 Copynumber: 3.2 Consensus size: 66
29997665 TCAGTAGCCT
* ** * * * *
29997675 CACATAGCCTAGCACATGGGCGTGT-GACTTAGTCGTATGACATAAGTCAGTATA-CCC-TCTAG
1 CACATGGCCTAGCACACAGGCGTGTAG-CTTGGCCGTGTGACACAAGTCAGTA-AGCCCATC-AG
*
29997737 TTTT
63 TTTG
** * * * *
29997741 CACACAGCCTAGCACACAGGCGTGTGGCTTGGCCGTGTGTCACAAGTCAGTATGCCCATCATTTT
1 CACATGGCCTAGCACACAGGCGTGTAGCTTGGCCGTGTGACACAAGTCAGTAAGCCCATCAGTTT
*
29997806 T
66 G
* * * *
29997807 CACATGGCCTAGCACACGGGCGTGTAGCTTGGTCGTGTGACCCAAGTCAGTAAGCTCA-CAAGTT
1 CACATGGCCTAGCACACAGGCGTGTAGCTTGGCCGTGTGACACAAGTCAGTAAGCCCATC-AGTT
29997871 TG
65 TG
*
29997873 GACATGGCCTA
1 CACATGGCCTA
29997884 AGACATGGGC
Statistics
Matches: 117, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
65 1 0.01
66 113 0.97
67 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (66 bp):
CACATGGCCTAGCACACAGGCGTGTAGCTTGGCCGTGTGACACAAGTCAGTAAGCCCATCAGTTT
G
Found at i:30000555 original size:88 final size:87
Alignment explanation
Indices: 30000406--30000860 Score: 324
Period size: 88 Copynumber: 5.0 Consensus size: 87
30000396 TGAATATAGA
* * * ** *
30000406 AAATCTTATCTCCCTAAAGATGCAGTGGAGCGAAATGAAGCTACAAATCCAATATCCCTAAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGC-AATTGAAGCTACAAATCTTATCTCCCTAAAGTT
* *
30000471 GTAGTGGATCAGATTAAAGCTAC
65 GCAGTGGAGCAGATTAAAGCTAC
* * *
30000494 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAACAACAAATTTTATCTCCCTAAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-ATTGAAGCTACAAATCTTATCTCCCTAAAGTT
* *
30000559 GCAGTGAAGCAGATTAAAGTTAC
65 GCAGTGGAGCAGATTAAAGCTAC
* ** * *
30000582 AAATCTTATCTCCCTGAAGTTGTAGCAGAGCAGATTGAAGCTACAAATCTTATCTCGCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-ATTGAAGCTACAAATCTTATCTCCCTAAAGTT
* * * *
30000647 ACAGTGGAGCAAATTGAAGCAAC
65 GCAGTGGAGCAGATTAAAGCTAC
* ** * * *
30000670 AAATCATATACAT--CTGAAGTTGCAGTGG-GTCGGGTTAAATCTACCACAGCGAGTCTTATTTC
1 AAATCTTAT-C-TCCCTGAAGTTGCAGTGGAG-C-AATTGAAGCTA-CA-A---A-TCTTATCTC
* * *
30000732 CCTGAAGTTGCAGTGAAACAGATTAAAGCTACAAACTAC
56 CCTAAAGTTGCAGTGGAGCAGATTAAAG-------CTAC
* * * * * * *
30000771 AAATCTTATCTCCCTAAAGTTACAATGGAACAGATTGAAGCTACGAATCTCATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-ATTGAAGCTACAAATCTTATCTCCCTAAAGTT
* *
30000836 GCAGCGGAGTAGATTGAAA-CTAC
65 GCAGTGGAGCAGATT-AAAGCTAC
30000859 AA
1 AA
30000861 TTCCTATACC
Statistics
Matches: 284, Mismatches: 60, Indels: 46
0.73 0.15 0.12
Matches are distributed among these distances:
87 2 0.01
88 180 0.63
89 3 0.01
90 2 0.01
93 1 0.00
94 30 0.11
95 27 0.10
96 4 0.01
99 2 0.01
100 2 0.01
101 31 0.11
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (87 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAATTGAAGCTACAAATCTTATCTCCCTAAAGTTG
CAGTGGAGCAGATTAAAGCTAC
Found at i:30000616 original size:132 final size:132
Alignment explanation
Indices: 30000406--30000674 Score: 360
Period size: 132 Copynumber: 2.0 Consensus size: 132
30000396 TGAATATAGA
* *
30000406 AAATCTTATCTCCCTAAAGATGCAGTGGAGCGAAATGAAGCTACAAATCCAATATCCCTAAAGTT
1 AAATCTTATCTCCCTAAAGATGCAGTGAAGCGAAATAAAGCTACAAATCCAATATCCCTAAAGTT
** * * *
30000471 GTAGTGGATCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAACA
66 GTAGCAGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTGAAACA
30000536 AC
131 AC
* * * * ** * *
30000538 AAATTTTATCTCCCTAAAGTTGCAGTGAAGC-AGATTAAAGTTACAAATCTTATCTCCCTGAAGT
1 AAATCTTATCTCCCTAAAGATGCAGTGAAGCGA-AATAAAGCTACAAATCCAATATCCCTAAAGT
* * *
30000602 TGTAGCAGAGCAGATTGAAGCTACAAATCTTATCTCGCTGAAGTTACAGTGGAGCAAATTGAAGC
65 TGTAGCAGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTGAAAC
30000667 AAC
130 AAC
30000670 AAATC
1 AAATC
30000675 ATATACATCT
Statistics
Matches: 117, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
131 1 0.01
132 116 0.99
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (132 bp):
AAATCTTATCTCCCTAAAGATGCAGTGAAGCGAAATAAAGCTACAAATCCAATATCCCTAAAGTT
GTAGCAGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTGAAACA
AC
Found at i:30000687 original size:44 final size:43
Alignment explanation
Indices: 30000428--30000697 Score: 168
Period size: 44 Copynumber: 6.1 Consensus size: 43
30000418 CCTAAAGATG
* * *
30000428 CAGTGGAGCGAAA-TGAAGCTACAAATCCAATATC-CCTAAAGTTG
1 CAGTGGAGC-AAATTGAAGCAACAAAT-C-ATATCTCCTGAAGTTA
* * * * * * *
30000472 TAGTGGATCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTG
1 CAGTGGAGCAAATTGAAGCAACAAATCATATCT-CCTGAAGTTA
* * ** * *
30000516 CAGTGGAGCATATTGAAACAACAAATTTTATCTCCCTAAAGTTG
1 CAGTGGAGCAAATTGAAGCAACAAATCATATCT-CCTGAAGTTA
* * * ** * *
30000560 CAGTGAAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGTTG
1 CAGTGGAGCAAATTGAAGCAACAAATCATATCT-CCTGAAGTTA
* ** * * *
30000604 TAGCAGAGCAGATTGAAGCTACAAATCTTATCTCGCTGAAGTTA
1 CAGTGGAGCAAATTGAAGCAACAAATCATATCTC-CTGAAGTTA
*
30000648 CAGTGGAGCAAATTGAAGCAACAAATCATATACAT-CTGAAGTTG
1 CAGTGGAGCAAATTGAAGCAACAAATCATAT-C-TCCTGAAGTTA
30000692 CAGTGG
1 CAGTGG
30000698 GTCGGGTTAA
Statistics
Matches: 184, Mismatches: 36, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
42 4 0.02
43 4 0.02
44 174 0.95
45 1 0.01
46 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (43 bp):
CAGTGGAGCAAATTGAAGCAACAAATCATATCTCCTGAAGTTA
Found at i:30002599 original size:17 final size:17
Alignment explanation
Indices: 30002577--30002610 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30002567 TTTCAAATTT
*
30002577 TTTGAACTATTAAAAAA
1 TTTGAACTATGAAAAAA
30002594 TTTGAACTATGAAAAAA
1 TTTGAACTATGAAAAAA
30002611 AAGAATATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (17 bp):
TTTGAACTATGAAAAAA
Found at i:30005382 original size:141 final size:140
Alignment explanation
Indices: 30005109--30005384 Score: 317
Period size: 141 Copynumber: 2.0 Consensus size: 140
30005099 GATATAATAA
* * *
30005109 TTGCTCGTTCGAGCTAAACATATAATCGTGTCATGTTACCCGTCCAAGCTAAACCTTTATTGACA
1 TTGCTCGTTCGAGCTAAACATATAATAGTGTCAGGTTACCCGTCCAAGCTAAACCTTTATCGACA
* * * * * *
30005174 CGTCAAATAGCTTGGGCAAAGTTGTAATGTACTGGTCAGGTTATCTGTCTGGGTTGAACCTTTAA
66 CATCAAATAGCTTGGGCAAAGTTGTAA-GTACTGGTAAGGTTATCTGTCCGGGCTAAACCTTGAA
30005239 ACGACCTCAGG
130 ACGACCTCAGG
* * **
30005250 TTGCTCG-TCAGAGCTGAACATATATTAGTGTCAGGTTACCCGTCCGGGCTAAACCTTTATCGAC
1 TTGCTCGTTC-GAGCTAAACATATAATAGTGTCAGGTTACCCGTCCAAGCTAAACCTTTATCGAC
* * * *
30005314 ACATCAAATAGCTTGGTCAAATTTGTACA-TACAT-GTAAGGTT-GCTCGTCCGTGCTAAACCTA
65 ACATCAAATAGCTTGGGCAAAGTTGTA-AGTAC-TGGTAAGGTTATCT-GTCCGGGCTAAACCT-
30005376 TGAAACGAC
126 TGAAACGAC
30005385 ACCAAGTTAC
Statistics
Matches: 113, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
139 2 0.02
140 23 0.20
141 87 0.77
142 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (140 bp):
TTGCTCGTTCGAGCTAAACATATAATAGTGTCAGGTTACCCGTCCAAGCTAAACCTTTATCGACA
CATCAAATAGCTTGGGCAAAGTTGTAAGTACTGGTAAGGTTATCTGTCCGGGCTAAACCTTGAAA
CGACCTCAGG
Found at i:30020037 original size:54 final size:54
Alignment explanation
Indices: 30019954--30020059 Score: 185
Period size: 54 Copynumber: 2.0 Consensus size: 54
30019944 ACAAATCTCA
*
30019954 ACTTTAAAATTAACCTGAACGACAACGTTTCGTAACTTTGACTAATTGACTTCC
1 ACTTTAAAATTAACCTAAACGACAACGTTTCGTAACTTTGACTAATTGACTTCC
**
30020008 ACTTTAAAATTAACCTAAACGACGGCGTTTCGTAACTTTGACTAATTGACTT
1 ACTTTAAAATTAACCTAAACGACAACGTTTCGTAACTTTGACTAATTGACTT
30020060 GGAATAGTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (54 bp):
ACTTTAAAATTAACCTAAACGACAACGTTTCGTAACTTTGACTAATTGACTTCC
Found at i:30020361 original size:16 final size:17
Alignment explanation
Indices: 30020330--30020363 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
30020320 TCTCCACCCG
*
30020330 CCTCAACTCTCCTCCTC
1 CCTCAAATCTCCTCCTC
30020347 CCTCAAATC-CCTCCTC
1 CCTCAAATCTCCTCCTC
30020363 C
1 C
30020364 TTTCCCTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.15, C:0.59, G:0.00, T:0.26
Consensus pattern (17 bp):
CCTCAAATCTCCTCCTC
Found at i:30025006 original size:25 final size:25
Alignment explanation
Indices: 30024972--30025023 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
30024962 ACTCTCGATT
30024972 GACATTGACATTGTCGCCAGTGCAG
1 GACATTGACATTGTCGCCAGTGCAG
30024997 GACATTGACATTGTCGCCAGTGCAG
1 GACATTGACATTGTCGCCAGTGCAG
30025022 GA
1 GA
30025024 GGATGTGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (25 bp):
GACATTGACATTGTCGCCAGTGCAG
Found at i:30029507 original size:42 final size:41
Alignment explanation
Indices: 30029427--30029577 Score: 144
Period size: 42 Copynumber: 3.6 Consensus size: 41
30029417 GGATCCCGGT
* * * *
30029427 GGAATCAACACTTAACAACCACC-TTATAATCAATGATACGG
1 GGAATCAGCACTTAGCAACC-CCTTTACAATCAACGATACGG
* *
30029468 GAAATCAGCA-TATAGCAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAGCACT-TAGCAACCCCTTT-ACAATCAACGATACGG
* * *
30029510 TGGAATCAACACTTAGCAACCACCTTTATAATCAACGATTCGG
1 -GGAATCAGCACTTAGCAACC-CCTTTACAATCAACGATACGG
**
30029553 GGAATTTGCACTTAGCAACCCCTTT
1 GGAATCAGCACTTAGCAACCCCTTT
30029578 TTGATTAATG
Statistics
Matches: 91, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
40 3 0.03
41 22 0.24
42 31 0.34
43 29 0.32
44 6 0.07
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.24
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCCCTTTACAATCAACGATACGG
Found at i:30029569 original size:85 final size:84
Alignment explanation
Indices: 30029423--30029577 Score: 231
Period size: 85 Copynumber: 1.8 Consensus size: 84
30029413 CAAAGGATCC
*
30029423 CGGTGGAATCAACACTTAACAACCACCTTATAATCAATGATACGGGAAATCAGCATATAGCAACC
1 CGGTGGAATCAACACTTAACAACCACCTTATAATCAACGATACGGGAAATCAGCATATAGCAACC
30029488 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
* * * **
30029507 CGGTGGAATCAACACTTAGCAACCACCTTTATAATCAACGATTCGGGGAATTTGCACT-TAGCAA
1 CGGTGGAATCAACACTTAACAACCACC-TTATAATCAACGATACGGGAAATCAGCA-TATAGCAA
30029571 CCCCTTT
64 CCCCTTT
30029578 TTGATTAATG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
84 26 0.41
85 36 0.57
86 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (84 bp):
CGGTGGAATCAACACTTAACAACCACCTTATAATCAACGATACGGGAAATCAGCATATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:30029604 original size:41 final size:41
Alignment explanation
Indices: 30029435--30029617 Score: 145
Period size: 41 Copynumber: 4.4 Consensus size: 41
30029425 GTGGAATCAA
* * * *
30029435 CACTTAACAACCACC-TTATAATCAATGATACGGGAAATCAG
1 CACTTAGCAACC-CCTTTATAATCAACGATTCGGGAAATCTG
* * * * **
30029476 CA-TATAGCAACCCCTTTCACAATCAAGGATACGGTGGAATCAA
1 CACT-TAGCAACCCCTTT-ATAATCAACGATTCGG-GAAATCTG
* *
30029519 CACTTAGCAACCACCTTTATAATCAACGATTCGGGGAATTTG
1 CACTTAGCAACC-CCTTTATAATCAACGATTCGGGAAATCTG
* * * * *
30029561 CACTTAGCAACCCCTTTTTGATTAATGATTTGGGAAATCTG
1 CACTTAGCAACCCCTTTATAATCAACGATTCGGGAAATCTG
*
30029602 CACTTAGTAACCCCTT
1 CACTTAGCAACCCCTT
30029618 ACATTCAAAG
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
40 3 0.03
41 48 0.41
42 31 0.26
43 29 0.25
44 6 0.05
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (41 bp):
CACTTAGCAACCCCTTTATAATCAACGATTCGGGAAATCTG
Found at i:30038373 original size:31 final size:31
Alignment explanation
Indices: 30038338--30038404 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
30038328 GAATTGGCCG
30038338 CTATTATTTTTGCTTTGAAAATATGGCGCCA
1 CTATTATTTTTGCTTTGAAAATATGGCGCCA
30038369 CTATTATTTTTGCTTTGAAAATATGGCGCCA
1 CTATTATTTTTGCTTTGAAAATATGGCGCCA
30038400 CTATT
1 CTATT
30038405 TATTCGGTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.43
Consensus pattern (31 bp):
CTATTATTTTTGCTTTGAAAATATGGCGCCA
Found at i:30038415 original size:28 final size:31
Alignment explanation
Indices: 30038338--30038417 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 31
30038328 GAATTGGCCG
* **
30038338 CTATTATTTTTGCTTTGAAAATATGGCGCCA
1 CTATTATTATTGCGGTGAAAATATGGCGCCA
* **
30038369 CTATTATTTTTGCTTTGAAAATATGGCGCCA
1 CTATTATTATTGCGGTGAAAATATGGCGCCA
30038400 CTA-T-TTATT-CGGTGAAAA
1 CTATTATTATTGCGGTGAAAA
30038418 ATGTCATGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 7 0.15
29 4 0.09
30 1 0.02
31 34 0.74
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (31 bp):
CTATTATTATTGCGGTGAAAATATGGCGCCA
Found at i:30069526 original size:15 final size:15
Alignment explanation
Indices: 30069502--30069531 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30069492 AATGATACGA
*
30069502 TTTTCTTGTTGACTT
1 TTTTCCTGTTGACTT
30069517 TTTTCCTGTTGACTT
1 TTTTCCTGTTGACTT
30069532 AAGGAGTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.17, G:0.13, T:0.63
Consensus pattern (15 bp):
TTTTCCTGTTGACTT
Found at i:30071569 original size:27 final size:27
Alignment explanation
Indices: 30071531--30071584 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
30071521 TCGAATTTAT
30071531 ATGAAAAAATTCGATTGATTACTCCAA
1 ATGAAAAAATTCGATTGATTACTCCAA
30071558 ATGAAAAAATTCGATTGATTACTCCAA
1 ATGAAAAAATTCGATTGATTACTCCAA
30071585 CACTTTATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (27 bp):
ATGAAAAAATTCGATTGATTACTCCAA
Found at i:30080568 original size:22 final size:22
Alignment explanation
Indices: 30080537--30080586 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
30080527 ATAAAAAAAA
30080537 ATATAATTTTAT-ATTAATATTT
1 ATATAATTTTATAATTAA-ATTT
*
30080559 ATATATTTTTATAATTAAATTT
1 ATATAATTTTATAATTAAATTT
*
30080581 AAATAA
1 ATATAA
30080587 ATCGTACTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATAATTTTATAATTAAATTT
Found at i:30084533 original size:23 final size:23
Alignment explanation
Indices: 30084493--30084536 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
30084483 TATATTAATT
30084493 ATTTATAAAGTATTTAAAATTTA
1 ATTTATAAAGTATTTAAAATTTA
*
30084516 ATTTATATA-TATTATAAAATT
1 ATTTATAAAGTATT-TAAAATT
30084537 AACAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATTTATAAAGTATTTAAAATTTA
Found at i:30084538 original size:22 final size:22
Alignment explanation
Indices: 30084461--30084538 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 22
30084451 GCATATATTC
*
30084461 AAATTAAATTTAATAAATTATTTA
1 AAATT-AATTT-ATAAAGTATTTA
30084485 TATTAATT-ATTTATAAAGTATTTA
1 -A--AATTAATTTATAAAGTATTTA
*
30084509 AAATTTAATTTATATA-TATTATA
1 AAA-TTAATTTATAAAGTATT-TA
30084532 AAATTAA
1 AAATTAA
30084539 CAAATTAACT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
21 2 0.04
22 10 0.22
23 14 0.30
24 11 0.24
25 5 0.11
27 4 0.09
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (22 bp):
AAATTAATTTATAAAGTATTTA
Found at i:30088651 original size:29 final size:26
Alignment explanation
Indices: 30088600--30088673 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 26
30088590 ATTTCTATTA
*
30088600 AAGGAATACCTTTGTGGAAAATCTCTGAT
1 AAGGAATACCTTTGTGGGAAA--TCTG-T
*
30088629 AAGGAATACCTTTGTGGGTAATCTGT
1 AAGGAATACCTTTGTGGGAAATCTGT
*
30088655 AAGGAGATGCCTTTGTGGG
1 AAGGA-ATACCTTTGTGGG
30088674 GCAATCTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
26 6 0.15
27 16 0.39
29 19 0.46
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.31
Consensus pattern (26 bp):
AAGGAATACCTTTGTGGGAAATCTGT
Found at i:30094211 original size:23 final size:23
Alignment explanation
Indices: 30094184--30094227 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
30094174 AATAACAACT
*
30094184 AAAA-TTTGAAAAGTAAAAATACC
1 AAAATTTTCAAAA-TAAAAATACC
30094207 AAAATTTTCAAAATAAAAATA
1 AAAATTTTCAAAATAAAAATA
30094228 TAGATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (23 bp):
AAAATTTTCAAAATAAAAATACC
Found at i:30096554 original size:30 final size:29
Alignment explanation
Indices: 30096483--30096554 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 29
30096473 GTTATAAAAA
* *
30096483 ATTATAAAA-AATTAAAATTTATAAATTT
1 ATTAAAAAATAATTAAAATATATAAATTT
* *
30096511 ATTAGAAATTAATTAAAATCATATAAAATTT
1 ATTAAAAAATAATTAAAAT-ATAT-AAATTT
30096542 A-TAAAAAATAATT
1 ATTAAAAAATAATT
30096555 TATTATTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 7 0.19
29 9 0.25
30 13 0.36
31 7 0.19
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (29 bp):
ATTAAAAAATAATTAAAATATATAAATTT
Found at i:30096824 original size:23 final size:21
Alignment explanation
Indices: 30096781--30096833 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
30096771 CATTTTTTTC
***
30096781 TAAATTTTTTTATGGTTTTTAA
1 TAAATTTTTTTATGAACTTT-A
30096803 TAAATTATTTTTATGAACTTTA
1 TAAATT-TTTTTATGAACTTTA
*
30096825 TAAAATTTT
1 TAAATTTTT
30096834 ATGGTTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.12
22 12 0.46
23 11 0.42
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (21 bp):
TAAATTTTTTTATGAACTTTA
Found at i:30107160 original size:59 final size:59
Alignment explanation
Indices: 30107095--30107282 Score: 150
Period size: 59 Copynumber: 3.2 Consensus size: 59
30107085 ATTTTATTAA
30107095 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
* * ** * * * ** * * * *
30107154 ATCATATATTATGATTTTAGTA-AATTCATA-TAAGAATATTGATTATTAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCA-AATTA-TATTTTA-TAGT
* * * *
30107214 ATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAATTTATATTTTACAGT
1 ATCATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTTTATAGT
30107273 ATCATATATT
1 ATCATATATT
30107283 ATGATTTGAG
Statistics
Matches: 91, Mismatches: 30, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
57 5 0.05
58 10 0.11
59 36 0.40
60 25 0.27
61 10 0.11
62 4 0.04
63 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (59 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
Found at i:30107209 original size:119 final size:120
Alignment explanation
Indices: 30107084--30107372 Score: 483
Period size: 119 Copynumber: 2.4 Consensus size: 120
30107074 AATTATTTTA
*
30107084 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
* * *
30107149 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
30107203 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTT
30107267 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
30107323 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
30107373 GTTTAAATAT
Statistics
Matches: 159, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
119 109 0.69
120 50 0.31
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:30107230 original size:18 final size:18
Alignment explanation
Indices: 30107204--30107259 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 18
30107194 GATTATTAGA
30107204 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
30107221 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
30107237 A-TTTAA-T-AATTAT-T
1 ATTTTAATTAAATTATAT
30107251 ATTTTAATT
1 ATTTTAATT
30107260 TATATTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 12 0.35
16 6 0.18
17 5 0.15
18 6 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:30107340 original size:59 final size:58
Alignment explanation
Indices: 30107158--30107340 Score: 146
Period size: 56 Copynumber: 3.1 Consensus size: 58
30107148 TATAGTATCA
*
30107158 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
* * * * * *
30107216 TATA-TAT--TTTAATTAAAATAT-ATTTAATAATTATTATT-TTAATTTATATTTTA-CAGTAT
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAA-TATTATTATTAA--GA-ATTTTATTA-AAT
*
30107275 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
30107336 TATAT
1 TATAT
30107341 ATTTTAATTA
Statistics
Matches: 94, Mismatches: 14, Indels: 33
0.67 0.10 0.23
Matches are distributed among these distances:
55 7 0.07
56 15 0.16
57 8 0.09
58 6 0.06
59 13 0.14
61 12 0.13
62 10 0.11
63 14 0.15
64 9 0.10
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (58 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTATTATTAAGAATTTTATTAAAT
Found at i:30107358 original size:16 final size:16
Alignment explanation
Indices: 30107337--30107378 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
30107327 TTATTAAATT
*
30107337 ATATATTTTAATTATA
1 ATATATTTTAATAATA
30107353 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
30107368 AT-TATGTTTAA
1 ATATAT-TTTAA
30107379 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:30107363 original size:15 final size:15
Alignment explanation
Indices: 30107328--30107369 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
30107318 TTAAGAATTT
*
30107328 TATTAAATTAT-ATA
1 TATTTAATTATAATA
30107342 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
30107356 TATTTAATAATAAT
1 TATTTAATTATAAT
30107370 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:30107613 original size:16 final size:16
Alignment explanation
Indices: 30107592--30107640 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
30107582 TTGATTTGCT
30107592 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
30107608 ATTACGCCTCTAATCC
1 ATTACGCCTCTATTCC
*
30107624 ATTACGCCTATATTCC
1 ATTACGCCTCTATTCC
30107640 A
1 A
30107641 ATACAGTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.35
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:30121671 original size:6 final size:6
Alignment explanation
Indices: 30121660--30121698 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
30121650 GCAATTTGAA
30121660 TATGAT TATGAT TATGAT TATGAT TATGAT TATGAT TAT
1 TATGAT TATGAT TATGAT TATGAT TATGAT TATGAT TAT
30121699 TGAGTGTGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.51
Consensus pattern (6 bp):
TATGAT
Found at i:30125111 original size:3 final size:3
Alignment explanation
Indices: 30125103--30125423 Score: 642
Period size: 3 Copynumber: 107.0 Consensus size: 3
30125093 AACTCAAACC
30125103 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30125151 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30125199 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30125247 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30125295 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30125343 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30125391 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30125424 TGGATGTAAT
Statistics
Matches: 318, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 318 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:30129687 original size:3 final size:3
Alignment explanation
Indices: 30129679--30129704 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30129669 ATCACATGTT
30129679 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
30129705 TGGATGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:30132261 original size:16 final size:15
Alignment explanation
Indices: 30132240--30132271 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
30132230 ATAAACATAA
30132240 AATTATATATTAATAT
1 AATTATATA-TAATAT
30132256 AATTATATATAATAT
1 AATTATATATAATAT
30132271 A
1 A
30132272 TAATTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTATATATAATAT
Found at i:30132466 original size:15 final size:15
Alignment explanation
Indices: 30132446--30132475 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30132436 TGATAAATTA
*
30132446 AAAAAATTAATTATT
1 AAAAAATTAAGTATT
30132461 AAAAAATTAAGTATT
1 AAAAAATTAAGTATT
30132476 GAATTTTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (15 bp):
AAAAAATTAAGTATT
Found at i:30132683 original size:3 final size:3
Alignment explanation
Indices: 30132669--30132704 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
30132659 TTTCTCTCTC
30132669 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
30132705 CTCTTTGAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:30133286 original size:7 final size:7
Alignment explanation
Indices: 30133274--30133315 Score: 66
Period size: 7 Copynumber: 5.7 Consensus size: 7
30133264 AATTATTTAA
30133274 AAAATAT
1 AAAATAT
30133281 AAAATAT
1 AAAATAT
30133288 AAAATAT
1 AAAATAT
30133295 AAAATAAT
1 AAAAT-AT
30133303 AAAATAGT
1 AAAATA-T
30133311 AAAAT
1 AAAAT
30133316 TATATTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 20 0.61
8 13 0.39
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (7 bp):
AAAATAT
Done.