Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold365
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: 1826335
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 6 of 11
Found at i:829321 original size:62 final size:61
Alignment explanation
Indices: 829221--829405 Score: 228
Period size: 62 Copynumber: 3.0 Consensus size: 61
829211 CCTTTCACCC
* * *
829221 TTCTAGTCCTCAAATAGTAGGATGCCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCACTT
1 TTCTAGTCCTCAAAGAGCAGGATG-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT
* * * *
829283 TTGTAGTCCTCAAAGAGCAGGACGCATTTTCTTTTTAAAGCCCACACAAGTTGGTGGCAC-A
1 TTCTAGTCCTCAAAGAGCAGGATGC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT
* * ** *
829344 TTCCAGTCCTCAAAGAGCATGATGCTTTTGCCTTGCAAAGCCTACACAAGTTGGTGGCACTT
1 TTCTAGTCCTCAAAGAGCAGGATGCTTTT-CCTTTTAAAGCCCACACAAGTTGGTGGCACTT
829406 CCAATCCTCA
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
60 4 0.04
61 48 0.46
62 52 0.50
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (61 bp):
TTCTAGTCCTCAAAGAGCAGGATGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT
Found at i:829362 original size:61 final size:59
Alignment explanation
Indices: 829220--829427 Score: 220
Period size: 62 Copynumber: 3.4 Consensus size: 59
829210 TCCTTTCACC
* * * * *
829220 CTTCTAGTCCTCAAATAGTAGGATGCCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCA
1 CTTCCAGTCCTCAAAGAGCAGGACG-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** *
829280 CTTTTGTAGTCCTCAAAGAGCAGGACGCATTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 C--TTCCAGTCCTCAAAGAGCAGGACGC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * ** *
829342 CATTCCAGTCCTCAAAGAGCATGATGCTTTTGCCTTGCAAAGCCTACACAAGTTGGTGGCA
1 C-TTCCAGTCCTCAAAGAGCAGGACGCTTTT-CCTTTTAAAGCCCACACAAGTTGGTGGCA
*
829403 CTTCCAATCCTCAAAGA-CTAGGACG
1 CTTCCAGTCCTCAAAGAGC-AGGACG
829428 TTCTCCTCCT
Statistics
Matches: 125, Mismatches: 18, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
59 1 0.01
60 24 0.19
61 48 0.38
62 52 0.42
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (59 bp):
CTTCCAGTCCTCAAAGAGCAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:829487 original size:160 final size:161
Alignment explanation
Indices: 829286--829580 Score: 450
Period size: 160 Copynumber: 1.8 Consensus size: 161
829276 GGCACTTTTG
*
829286 TAGTCCTCAAAGAGCAGGACGCATTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACATTCCAGT
1 TAGTCCTCAAAGAGCAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACATTCCAGT
* * * *
829351 CCTCAAAGAGCATGATG-CTTTTGCCTTGCAAAGCCTACACAAGTTGGTGGCA-CTTCCAATCCT
66 CCTCAAAGAGCAGGATGCCTTTT-CATTGCAAAGCCCACACAAGTTGGTGGAACCTTCCAATCCT
829414 CAAAGACTAGGACGTTCTCCTCCTTCACCCTT
130 CAAAGACTAGGACGTTCTCCTCCTTCACCCTT
* * **
829446 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGT
1 TAGTCCTCAAAGAGCAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACATTCCAGT
* ** *
829511 CCTCAAAGAGTAGGATGCCTTTTCATTTTAAAGCCCACACAAGTTGGTGGAACCTTCCAGTCCTC
66 CCTCAAAGAGCAGGATGCCTTTTCATTGCAAAGCCCACACAAGTTGGTGGAACCTTCCAATCCTC
829576 AAAGA
131 AAAGA
829581 GCAAGATGCT
Statistics
Matches: 120, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
160 99 0.82
161 21 0.17
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (161 bp):
TAGTCCTCAAAGAGCAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACATTCCAGT
CCTCAAAGAGCAGGATGCCTTTTCATTGCAAAGCCCACACAAGTTGGTGGAACCTTCCAATCCTC
AAAGACTAGGACGTTCTCCTCCTTCACCCTT
Found at i:829540 original size:61 final size:61
Alignment explanation
Indices: 829442--829638 Score: 254
Period size: 61 Copynumber: 3.2 Consensus size: 61
829432 CCTCCTTCAC
*
829442 CCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
829502 CTTTTTAGTCCTCAAAGAGTAGGATGCCTTTTCATTTTAAAGCCCACACAAGTTGGTGGAA
1 CCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * ** * *
829563 CCTTCCAGTCCTCAAAGAGCAAGATG-CTTTCTCCTTGCAAAGCCCATACTAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGATGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
829624 CCTACTAGTCCTCAA
1 CCTTCTAGTCCTCAA
829639 GAAACAGGAC
Statistics
Matches: 117, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
60 7 0.06
61 110 0.94
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (61 bp):
CCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:829576 original size:221 final size:221
Alignment explanation
Indices: 828918--829624 Score: 907
Period size: 221 Copynumber: 3.3 Consensus size: 221
828908 TTCACTTTTT
* * ** *
828918 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCTACACAAGTTGGTGGCACTTCCCAATC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCACTT-CCAATC
* *
828983 CTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAATGAGCAGGACACC-TTT-C--
65 CTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTT
829044 --AAAGCCCATACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGTAGGATGCC-TTTC----AA
130 TTAAAGCCCATACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGGATGCCTTTTCTTTTAA
* *
829101 AGCCCACATAA---GCTGGCACCTT-C
195 AGCCCACACAAGTTGGTGGCACCTTCC
* ** * * *
829124 AGTCCTTAAAGAGCAGGATGCCTTTTCCTTTTAAAACCCACACAAGTTGGTGGCACTTCTTAGTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCACTTC-CAATC
* * *
829189 CTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTCTAGTCCTCAAATAGTAGGATGCCTTTTCCT
65 CTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCT
* * * *
829254 TTTAAAGCCCATACAAGTTGGTGGCACTTTTGTAGTCCTCAAAGAGCAGGACGCATTTTCTTTTT
129 TTTAAAGCCCATACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGGATGCCTTTTC-TTTT
*
829319 AAAGCCCACACAAGTTGGTGGCACATTCC
193 AAAGCCCACACAAGTTGGTGGCACCTTCC
* *
829348 AGTCCTCAAAGAGCATGATG-CTTTTGCCTTGCAAAGCCTACACAAGTTGGTGGCACTTCCAATC
1 AGTCCTCAAAGAGCAGGATGCCTTTT-CCTTGCAAAGCCCACACAAGTTGGTGGCACTTCCAATC
*
829412 CTCAAAGA-CTAGGACGTTCTCCTCC-TTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCC
65 CTCAAAGAGC-AGGACGCTCT-CTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCC
*
829475 TTTTAAAGCCCACACAAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGTAGGATGCCTTTTCATTT
128 TTTTAAAGCCCATACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGGATGCCTTTTC-TTT
*
829539 TAAAGCCCACACAAGTTGGTGGAACCTTCC
192 TAAAGCCCACACAAGTTGGTGGCACCTTCC
* * *
829569 AGTCCTCAAAGAGCAAGATG-CTTTCTCCTTGCAAAGCCCATACTAGTTGGTGGCAC
1 AGTCCTCAAAGAGCAGGATGCCTTT-TCCTTGCAAAGCCCACACAAGTTGGTGGCAC
829625 CTACTAGTCC
Statistics
Matches: 436, Mismatches: 42, Indels: 31
0.86 0.08 0.06
Matches are distributed among these distances:
205 1 0.00
206 90 0.21
207 18 0.04
208 3 0.01
209 1 0.00
213 23 0.05
214 24 0.06
215 4 0.01
220 12 0.03
221 106 0.24
222 59 0.14
223 43 0.10
224 52 0.12
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (221 bp):
AGTCCTCAAAGAGCAGGATGCCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCACTTCCAATCC
TCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT
TAAAGCCCATACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGGATGCCTTTTCTTTTAAA
GCCCACACAAGTTGGTGGCACCTTCC
Found at i:830266 original size:20 final size:20
Alignment explanation
Indices: 830241--830287 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
830231 TTTTCACAAT
*
830241 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTATTCA
830261 TTGTATCGATACATTATTCA
1 TTGTATCGATACATTATTCA
830281 TTGTATC
1 TTGTATC
830288 ACCAATGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.47
Consensus pattern (20 bp):
TTGTATCGATACATTATTCA
Found at i:840716 original size:79 final size:79
Alignment explanation
Indices: 840583--840880 Score: 244
Period size: 79 Copynumber: 3.8 Consensus size: 79
840573 TTCATCTCGG
* * * * *
840583 GGATACTCCAACCCTGGTTTTATTTCCAAAACATCAATTTTTCATAATTAGGGATACTCTAATCC
1 GGATACTCCAACCCAGATTTTATTCCCAAAACATCAATTTTTCACAATTAGGGATACTCCAA-CC
*
840648 C-GTTATTTTCGAGC
65 CTGTCATTTTCGAGC
* * *
840662 GGATACTCCAATCCAGATTTTATTCCCAAAACA-CAAATTTTTTACAATTGGGGATACTCCAACC
1 GGATACTCCAACCCAGATTTTATTCCCAAAACATC-AATTTTTCACAATTAGGGATACTCCAACC
* *
840726 CTGTCATTTTTGAGG
65 CTGTCATTTTCGAGC
* ** *** * * *
840741 GGATACTCCAACCCCGATTTTATTTTCAAAATGCCGA-TTTTCTATAATCAGGGATACTCCAACC
1 GGATACTCCAACCCAGATTTTATTCCCAAAACATCAATTTTTC-ACAATTAGGGATACTCCAACC
* * *
840805 TTGTTATTTTTGAG-
65 CTGTCATTTTCGAGC
* * * * * * * **
840819 GGAATACTCTAACCCCGATTTTATTTCCATAACATCGATTTTCCATAATCGGGGATACTCCA
1 GG-ATACTCCAACCCAGATTTTATTCCCAAAACATCAATTTTTCACAATTAGGGATACTCCA
840881 GCCCCGTTGT
Statistics
Matches: 181, Mismatches: 32, Indels: 12
0.80 0.14 0.05
Matches are distributed among these distances:
78 10 0.06
79 166 0.92
80 5 0.03
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (79 bp):
GGATACTCCAACCCAGATTTTATTCCCAAAACATCAATTTTTCACAATTAGGGATACTCCAACCC
TGTCATTTTCGAGC
Found at i:840873 original size:158 final size:158
Alignment explanation
Indices: 840581--840880 Score: 347
Period size: 158 Copynumber: 1.9 Consensus size: 158
840571 TTTTCATCTC
* * * * *
840581 GGGGATACTCCAACCCTGGTTTTATTTCCAAAACATCAATTTTTCATAATTAGGGATACTCTAAT
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATCAGGGATACTCCAAT
* ** *
840646 CCCGTTATTTTCGAGCGGATACTCCAATCCAGATTTTATTCCCAAAACACAAATTTTTTACAATT
66 CCCGTTATTTTCGAGCGGATACTCCAACCCAGATTTTATTCCCAAAACACAAATTTTCCACAATC
840711 GGGGATACTCCAACCCTGTCATTTTTGA
131 GGGGATACTCCAACCCTGTCATTTTTGA
* ** *
840739 GGGGATACTCCAACCCCGATTTTATTTTCAAAATGCCGA-TTTTCTATAATCAGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTC-ATAATCAGGGATACTCCAA
* * * * * * * *
840803 -CCTTGTTATTTTTGAG-GGAATACTCTAACCCCGATTTTATTTCCATAACATC-GATTTTCCAT
65 TCC-CGTTATTTTCGAGCGG-ATACTCCAACCCAGATTTTATTCCCAAAACA-CAAATTTTCCAC
840865 AATCGGGGATACTCCA
127 AATCGGGGATACTCCA
840881 GCCCCGTTGT
Statistics
Matches: 117, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
157 9 0.08
158 107 0.91
159 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (158 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATCAGGGATACTCCAAT
CCCGTTATTTTCGAGCGGATACTCCAACCCAGATTTTATTCCCAAAACACAAATTTTCCACAATC
GGGGATACTCCAACCCTGTCATTTTTGA
Found at i:842527 original size:137 final size:137
Alignment explanation
Indices: 842278--842553 Score: 376
Period size: 137 Copynumber: 2.0 Consensus size: 137
842268 AACCCTCCGT
* * * *
842278 ATTTGCATAGGGAAATACATCCACCGGATCGAACCCATTTCGCTAAACCCACGATTGGCCCAGAT
1 ATTTGCATAGGGAAATACATCCACCGGATCGAACCCAATCCGCCAAACCCACGATGGGCCCAGAT
* * *
842343 TTGGGGTACCTCGGCTGCCCTTATCGGGCGGAGGAACGATTCAGATACCGATTTAGGCGTCTACC
66 TTAGGGTACCTCGGCTGCCCTTACCGGACGGAGGAACGATTCAGATACCGATTTAGGCGTCTACC
*
842408 CAAATTC
131 CAAACTC
* * * *
842415 ATTTGCATAGGGAAATACATCCACCAGG-TCGAACCTAATCCGCCAAACCCTCGATGGGTCTAGG
1 ATTTGCATAGGGAAATACATCCACC-GGATCGAACCCAATCCGCCAAACCCACGATGGGCCCA-G
* * *
842479 A-TTAGGGTGCCTCGGCTGTCCTTACCGGACGGAGGAACGATTCGGATACCGATTTAGGCGTCTA
64 ATTTAGGGTACCTCGGCTGCCCTTACCGGACGGAGGAACGATTCAGATACCGATTTAGGCGTCTA
*
842543 TCCAAACTC
129 CCCAAACTC
842552 AT
1 AT
842554 ATAGTGAACT
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
137 117 0.97
138 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (137 bp):
ATTTGCATAGGGAAATACATCCACCGGATCGAACCCAATCCGCCAAACCCACGATGGGCCCAGAT
TTAGGGTACCTCGGCTGCCCTTACCGGACGGAGGAACGATTCAGATACCGATTTAGGCGTCTACC
CAAACTC
Found at i:849601 original size:51 final size:51
Alignment explanation
Indices: 849517--849632 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
849507 TTATTTTCAA
849517 GGGGATACTCCAACCCCAATTTTATTCCCAAAACACCAATTTT-TCACAATC
1 GGGGATACTCCAACCCCAATTTTATTCCCAAAACACCAATTTTCT-ACAATC
* *** * * *
849568 GGGGATACTCCAACCCCGATTTTATTTTTAAAACGCCGATTTTCTATAATC
1 GGGGATACTCCAACCCCAATTTTATTCCCAAAACACCAATTTTCTACAATC
*
849619 AGGGATACTCCAAC
1 GGGGATACTCCAAC
849633 TCTGTTATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 55 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAATTTTATTCCCAAAACACCAATTTTCTACAATC
Found at i:849717 original size:79 final size:79
Alignment explanation
Indices: 849568--849717 Score: 203
Period size: 79 Copynumber: 1.9 Consensus size: 79
849558 TTTCACAATC
* * *
849568 GGGGATACTCCAACCCCGATTTTATTTTTAAAACGCCGATTTTCTATAATCAGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCGATTTTCCATAATCAGGGATACTCCAAC
*
849633 TCTGTTATTTCCGA
66 CCTGTTATTTCCGA
* ** * *
849647 GGGGATACTCCAACCTCGATTTTATTTTCGGAACACTGATTTTCCATAATC-GAGGATACTCCAG
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCGATTTTCCATAATCAG-GGATACTCCAA
849711 CCCTGTT
65 CCCTGTT
849718 GTTATCCCCA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
78 1 0.02
79 60 0.98
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCGATTTTCCATAATCAGGGATACTCCAAC
CCTGTTATTTCCGA
Found at i:852040 original size:10 final size:11
Alignment explanation
Indices: 852025--852053 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
852015 CCACTTGATG
852025 ATTTTTCAAA-
1 ATTTTTCAAAC
852035 ATTTTTCAAAC
1 ATTTTTCAAAC
852046 ATTTTTCA
1 ATTTTTCA
852054 TATCATGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTTTTCAAAC
Found at i:853777 original size:189 final size:189
Alignment explanation
Indices: 853457--853837 Score: 744
Period size: 189 Copynumber: 2.0 Consensus size: 189
853447 TAGATGGGTG
* *
853457 ATTCATCTACCGATCTTCCCCTTTTCAACACATATCTCTTACCATGCCATAGGATTCTCCAATCA
1 ATTCATCTACCGATCTTCCCCTTTTCAACACATATCTCTTACCATGCCATAGAAATCTCCAATCA
853522 CGAGAGATATTAAGTCGGGCGCACCTCATTTGTCCCTATCGCCAGGGTCGAGCGCACATCGTGAT
66 CGAGAGATATTAAGTCGGGCGCACCTCATTTGTCCCTATCGCCAGGGTCGAGCGCACATCGTGAT
853587 AGTTTGGCGACTCCACTGGGGACATAATGAGTGAGAGTTAGGCCTACAGCTAGAAATGT
131 AGTTTGGCGACTCCACTGGGGACATAATGAGTGAGAGTTAGGCCTACAGCTAGAAATGT
853646 ATTCATCTACCGATCTTCCCCTTTTCAACACATATCTCTTACCATGCCATAGAAATCTCCAATCA
1 ATTCATCTACCGATCTTCCCCTTTTCAACACATATCTCTTACCATGCCATAGAAATCTCCAATCA
853711 CGAGAGATATTAAGTCGGGCGCACCTCATTTGTCCCTATCGCCAGGGTCGAGCGCACATCGTGAT
66 CGAGAGATATTAAGTCGGGCGCACCTCATTTGTCCCTATCGCCAGGGTCGAGCGCACATCGTGAT
853776 AGTTTGGCGACTCCACTGGGGACATAATGAGTGAGAGTTAGGCCTACAGCTAGAAATGT
131 AGTTTGGCGACTCCACTGGGGACATAATGAGTGAGAGTTAGGCCTACAGCTAGAAATGT
853835 ATT
1 ATT
853838 GACCAGTCAT
Statistics
Matches: 190, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
189 190 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (189 bp):
ATTCATCTACCGATCTTCCCCTTTTCAACACATATCTCTTACCATGCCATAGAAATCTCCAATCA
CGAGAGATATTAAGTCGGGCGCACCTCATTTGTCCCTATCGCCAGGGTCGAGCGCACATCGTGAT
AGTTTGGCGACTCCACTGGGGACATAATGAGTGAGAGTTAGGCCTACAGCTAGAAATGT
Found at i:861800 original size:51 final size:51
Alignment explanation
Indices: 861727--861846 Score: 170
Period size: 51 Copynumber: 2.4 Consensus size: 51
861717 GTGAAAATAA
*
861727 TGGGATTGGAGTATCCCCAATTATGAGAAATCAATATTTTAG-AAATAAAGC
1 TGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTT-GCAAATAAAGC
* **
861778 TGGGGTTGAAGTATCCTTAATTATGAGAAATCAATATTTTGCAAATAAAGC
1 TGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGCAAATAAAGC
**
861829 CAGGGTTGGAGTATCCCC
1 TGGGGTTGGAGTATCCCC
861847 TCAGAAATAA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 1 0.02
51 58 0.98
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (51 bp):
TGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGCAAATAAAGC
Found at i:861801 original size:130 final size:131
Alignment explanation
Indices: 861569--861872 Score: 307
Period size: 130 Copynumber: 2.3 Consensus size: 131
861559 GAGATAATAA
* * * * *
861569 CGGGGTTGGAGTATCCCCTTGAAAATAACAGGGTTGGAATATCCTCGATTGTGAAAAATCGAAGA
1 CGGGATTGGAGTATCCCCGTGAAAATAACAGGGTTGGAATATCCCCAATTATGAAAAATCGAAGA
* * *
861634 TTTAGAAATAAGGCAAGGGTTGAAGTGTCCTCGATTAT-AGAAAATAGATGTTTCAAAAATAAAA
66 TTTAGAAATAAAGCAAGGGTTGAAGTATCCTCAATTATGAGAAAATAGATGTTTCAAAAATAAAA
861698 T
131 T
* * * *
861699 CGGGATTGGAGTATCCCCGTGAAAATAA-TGGGATTGGAGTATCCCCAATTATGAGAAATC-AAT
1 CGGGATTGGAGTATCCCCGTGAAAATAACAGGG-TTGGAATATCCCCAATTATGAAAAATCGAAG
** * * ***
861762 ATTTTAGAAATAAAGCTGGGGTTGAAGTATCCTTAATTATGAG-AAATCA-ATATTTTGCAAATA
65 A-TTTAGAAATAAAGCAAGGGTTGAAGTATCCTCAATTATGAGAAAAT-AGATGTTTCAAAAATA
**
861825 AAGC
128 AAAT
* *
861829 CAGGG-TTGGAGTATCCCC-TCAGAAATAACAAGGTTGGAATATCC
1 C-GGGATTGGAGTATCCCCGTGA-AAATAACAGGGTTGGAATATCC
861873 TCGATGAAAT
Statistics
Matches: 142, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
129 8 0.06
130 126 0.89
131 8 0.06
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (131 bp):
CGGGATTGGAGTATCCCCGTGAAAATAACAGGGTTGGAATATCCCCAATTATGAAAAATCGAAGA
TTTAGAAATAAAGCAAGGGTTGAAGTATCCTCAATTATGAGAAAATAGATGTTTCAAAAATAAAA
T
Found at i:861905 original size:28 final size:28
Alignment explanation
Indices: 861829--861905 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
861819 CAAATAAAGC
*
861829 CAGGGTTGGAGTATCCCCTCA-GAAATAA
1 CAGGGTTGGAGTATCCCC-GATGAAATAA
* * *
861857 CAAGGTTGGAATATCCTCGATGAAATAA
1 CAGGGTTGGAGTATCCCCGATGAAATAA
*
861885 CGGGGTTGGAGTATCCCCGAT
1 CAGGGTTGGAGTATCCCCGAT
861906 TGTGAAAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 1 0.03
28 39 0.98
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (28 bp):
CAGGGTTGGAGTATCCCCGATGAAATAA
Found at i:862072 original size:79 final size:79
Alignment explanation
Indices: 861940--862230 Score: 374
Period size: 79 Copynumber: 3.7 Consensus size: 79
861930 GGAGTAGAAA
* * * * *
861940 TATCCTCGATTATGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTGAAGTATCCCCTCGAAAA
1 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAA
* **
862005 TAACGGGGTTTCAG
66 TAATGGGGTTAGAG
* * *
862019 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCTCTCGGAAA
1 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAA
*
862084 TGATGGGGTTAGAG
66 TAATGGGGTTAGAG
* * * * *
862098 TATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGCCAGGGTTGGAGTATCCCCTCGAAAA
1 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAA
* *
862163 AAATGGGGTTGGAG
66 TAATGGGGTTAGAG
*
862177 TATCCCC-A--ATGAAAAATTGAT-ATTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
862231 GATTAAGAAA
Statistics
Matches: 184, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
75 30 0.16
76 11 0.06
78 1 0.01
79 142 0.77
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (79 bp):
TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAA
TAATGGGGTTAGAG
Found at i:862273 original size:50 final size:47
Alignment explanation
Indices: 862167--862278 Score: 120
Period size: 50 Copynumber: 2.3 Consensus size: 47
862157 CGAAAAAAAT
* *
862167 GGGGTTGGAGTATCCCCAATGAAAAATTGATATTTAGAAATAAAACC
1 GGGGATGGAGTATCCCCAAAGAAAAATTGATATTTAGAAATAAAACC
* * *
862214 GGGGTTGGAGTATCCCCGATTAAGAAAAATTGACGT-TTTGGAAATAGAACC
1 GGGGATGGAGTATCCCC-A--AAGAAAAATTGA--TATTTAGAAATAAAACC
862265 -GGGATGGAGTATCC
1 GGGGATGGAGTATCC
862279 TTGAGATGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
47 17 0.30
48 1 0.02
50 24 0.43
51 13 0.23
52 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (47 bp):
GGGGATGGAGTATCCCCAAAGAAAAATTGATATTTAGAAATAAAACC
Found at i:864384 original size:20 final size:19
Alignment explanation
Indices: 864359--864485 Score: 124
Period size: 20 Copynumber: 6.8 Consensus size: 19
864349 AAAATGCCTG
*
864359 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
864379 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
*
864399 AATGTATC--T---AT-AT
1 AATGTATCGATACAATGAA
*
864412 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
864432 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
864452 AATGTATCGATACAATGAA
1 AATGTATCGATACAATGAA
864471 CAATGT-TCGATACAA
1 -AATGTATCGATACAA
864486 AATGTGAAAA
Statistics
Matches: 92, Mismatches: 5, Indels: 21
0.78 0.04 0.18
Matches are distributed among these distances:
13 8 0.09
14 1 0.01
15 3 0.03
18 3 0.03
19 13 0.14
20 63 0.68
21 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:864421 original size:33 final size:33
Alignment explanation
Indices: 864379--864448 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
864369 TACATTGTAA
* *
864379 AATGTATCGATACAATGAGCAATGTATCTATAT
1 AATGTATCGATACAATGAGCAATGTATCGATAC
864412 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
864445 AATG
1 AATG
864449 CAAAATGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:864456 original size:53 final size:53
Alignment explanation
Indices: 864359--864468 Score: 143
Period size: 53 Copynumber: 2.1 Consensus size: 53
864349 AAAATGCCTG
* * * *
864359 AATGTATCGATACATTGTAAAATGTATCGATACAATGAGCAATGTATCTATAT
1 AATGTATCGATACAATGTAAAATGTATCGATACAATGAGAAATGTATCGATAC
*
864412 AATGTATCGATACAATG-AGCAATGTATCGATACAATGCA-AAATGTATCGATAC
1 AATGTATCGATACAATGTA-AAATGTATCGATACAATG-AGAAATGTATCGATAC
864465 AATG
1 AATG
864469 AACAATGTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
52 1 0.02
53 48 0.96
54 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (53 bp):
AATGTATCGATACAATGTAAAATGTATCGATACAATGAGAAATGTATCGATAC
Found at i:865212 original size:43 final size:42
Alignment explanation
Indices: 865148--865257 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
865138 TGAAAAAGAG
* *
865148 TGCGTCCTGCT-TTTCGTGGACAAAGAAAAAAAGGCAAACAAAA
1 TGCGTCCTGCTCTTT-GAGGACAAA-AAAAAAAGGAAAACAAAA
* * * *
865191 TGCGTCCTGCTCTTTAAGGACAAAAGAAAAAGGAAAATAAAG
1 TGCGTCCTGCTCTTTGAGGACAAAAAAAAAAGGAAAACAAAA
*
865233 TGTG-CCATGCTCTTTGAGGACAAAA
1 TGCGTCC-TGCTCTTTGAGGACAAAA
865258 GGGAAAAGAA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
41 2 0.04
42 34 0.60
43 18 0.32
44 3 0.05
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (42 bp):
TGCGTCCTGCTCTTTGAGGACAAAAAAAAAAGGAAAACAAAA
Found at i:865294 original size:45 final size:45
Alignment explanation
Indices: 865191--865485 Score: 200
Period size: 47 Copynumber: 6.6 Consensus size: 45
865181 GCAAACAAAA
* **
865191 TGCGTCCTGCTCTTTAAGGACAAAA--G-AAA-AAGGAAAATAAAG
1 TGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGG-AAAGGAAG
*
865233 TGTG-CCATGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAAGGAAG
1 TGCGTCC-TGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAAGGAAG
* * *
865278 TACGTCTTGCTCTTTGAGGACCAAAAGAGGAAAATTAA-GAAATGGAACG
1 TGCGTCCTGCTCTTTGAGGA-CAAAAG-GGAAAA-GAAGGAAA-GGAA-G
* * **
865327 T--GTCCTACTCTTTGAGGAC-AAA-GGAGAAG-AGGAAAATAAAG
1 TGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGG-AAAGGAAG
* * *
865368 TGCGTCCTGCTCTTTGAGGATAAAAGGGAAAAGAAGGAAATGAAA
1 TGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAAGGAAG
* * * *
865413 TGTGTCCTACTCTTTGAGGATAAAAAGGGGAAAATAAGGAAATGGAA-
1 TGCGTCCTGCTCTTTGAGGA-CAAAA-GGGAAAAGAAGGAAA-GGAAG
** * *
865460 TGTATCCTGCTATTCGAGGACTAAAA
1 TGCGTCCTGCTCTTTGAGGAC-AAAA
865486 AGTGCCATCA
Statistics
Matches: 202, Mismatches: 29, Indels: 39
0.75 0.11 0.14
Matches are distributed among these distances:
41 5 0.02
42 23 0.11
43 24 0.12
44 4 0.02
45 57 0.28
46 19 0.09
47 59 0.29
48 9 0.04
49 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (45 bp):
TGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAAGGAAG
Found at i:865383 original size:43 final size:43
Alignment explanation
Indices: 865146--865432 Score: 180
Period size: 45 Copynumber: 6.5 Consensus size: 43
865136 AGTGAAAAAG
* * * *
865146 AGTGCGTCCTGCT-TTTCGTGGACAAAGAAAAAAAGGCAAACAA
1 AGTGCGTCCTGCTCTTT-GAGGACAAAGGAAAAAAGGAAAATAA
* * *
865189 AATGCGTCCTGCTCTTTAAGGACAAAAG-AAAAAGGAAAATAA
1 AGTGCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATAA
* **
865231 AGTGTG-CCATGCTCTTTGAGGACAAAAGGGAAAAGAAGG-AAAGGA
1 AGTGCGTCC-TGCTCTTTGAGGAC-AAA-GGAAAA-AAGGAAAATAA
* *
865276 AGTACGTCTTGCTCTTTGAGGACCAAAAGAGGAAAATTAA-G-AAATGGAA
1 AGTGCGTCCTGCTCTTTGAGGA-C--AA-AGGAAAA--AAGGAAAAT--AA
* * * *
865325 CGT--GTCCTACTCTTTGAGGACAAAGGAGAAGAGGAAAATAA
1 AGTGCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATAA
*
865366 AGTGCGTCCTGCTCTTTGAGGATAAAAGGGAAAAGAAGG-AAATGAA
1 AGTGCGTCCTGCTCTTTGAGGA-CAAA-GGAAAA-AAGGAAAAT-AA
* *
865412 A-TGTGTCCTACTCTTTGAGGA
1 AGTGCGTCCTGCTCTTTGAGGA
865433 TAAAAAGGGG
Statistics
Matches: 192, Mismatches: 31, Indels: 40
0.73 0.12 0.15
Matches are distributed among these distances:
41 7 0.04
42 30 0.16
43 48 0.25
44 9 0.05
45 51 0.27
46 13 0.07
47 28 0.15
48 3 0.02
49 3 0.02
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (43 bp):
AGTGCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATAA
Found at i:865418 original size:88 final size:88
Alignment explanation
Indices: 865172--865454 Score: 258
Period size: 88 Copynumber: 3.1 Consensus size: 88
865162 CGTGGACAAA
* * * *
865172 GAAAAAAAGGCAAACAAAATGCGTCCTGCTCTTTAAGGACAAAA--G-AAAAAGGAAAAT-AAAG
1 GAAAAGAAGG-AAAGAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAAAGG-AAATGAAAG
*
865233 TGTGCCATGCTCTTTGAGGACAAAAGG
64 TGT-CC-TACTCTTTGAGGACAAAAGG
* * *
865260 GAAAAGAAGGAAAGGAAGTACGTCTTGCTCTTTGAGGACCAAAAGAGGAAAATTAA-GAAATGGA
1 GAAAAGAAGGAAAGAAAGTGCGTCCTGCTCTTTGAGGA-CAAAAG-GGAAAA--AAGGAAAT-GA
*
865324 ACGTGTCCTACTCTTTGAGGAC-AAA-G
61 AAGTGTCCTACTCTTTGAGGACAAAAGG
* * *
865350 GAGAAG-AGGAAAATAAAGTGCGTCCTGCTCTTTGAGGATAAAAGGGAAAAGAAGGAAATGAAAT
1 GAAAAGAAGG-AAAGAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGAAAA-AAGGAAATGAAA-
*
865414 GTGTCCTACTCTTTGAGGATAAAAAGGG
63 GTGTCCTACTCTTTGAGGA-CAAAA-GG
*
865442 GAAAATAAGGAAA
1 GAAAAGAAGGAAA
865455 TGGAATGTAT
Statistics
Matches: 158, Mismatches: 20, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
87 27 0.17
88 44 0.28
89 8 0.05
90 33 0.21
91 4 0.03
92 28 0.18
93 6 0.04
94 8 0.05
ACGTcount: A:0.43, C:0.12, G:0.26, T:0.19
Consensus pattern (88 bp):
GAAAAGAAGGAAAGAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAAAGGAAATGAAAGTG
TCCTACTCTTTGAGGACAAAAGG
Found at i:865426 original size:135 final size:134
Alignment explanation
Indices: 865194--865459 Score: 356
Period size: 135 Copynumber: 2.0 Consensus size: 134
865184 AACAAAATGC
* *
865194 GTCCTGCTCTTTAAGGACAAAAGAAAAAGGAAAATAAAGTGTGCCATGCTCTTTGAGGACAAAAG
1 GTCCTACTCTTTAAGGACAAAAGAAAAAGGAAAATAAAGTGCGCCATGCTCTTTGAGGACAAAAG
* * * *
865259 GGAAAAGAAGGAAAGGAAGTACGTCTTGCTCTTTGAGGACCAAAAGAGGAAAATTAA-GAAATGG
66 GGAAAAGAAGGAAAGGAAATACGTCCTACTCTTTGAGGACAAAAAGAGGAAAA-TAAGGAAATGG
865323 AACGT
130 AACGT
* * * *
865328 GTCCTACTCTTTGAGGACAAAGGAGAAGAGGAAAATAAAGTGCGTCC-TGCTCTTTGAGGATAAA
1 GTCCTACTCTTTAAGGACAAAAGA-AAAAGGAAAATAAAGTGCG-CCATGCTCTTTGAGGACAAA
* ** * *
865392 AGGGAAAAGAAGGAAATGAAATGTGTCCTACTCTTTGAGGATAAAAAGGGGAAAATAAGGAAATG
64 AGGGAAAAGAAGGAAAGGAAATACGTCCTACTCTTTGAGGACAAAAAGAGGAAAATAAGGAAATG
865457 GAA
129 GAA
865460 TGTATCCTGC
Statistics
Matches: 114, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
134 24 0.21
135 88 0.77
136 2 0.02
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.20
Consensus pattern (134 bp):
GTCCTACTCTTTAAGGACAAAAGAAAAAGGAAAATAAAGTGCGCCATGCTCTTTGAGGACAAAAG
GGAAAAGAAGGAAAGGAAATACGTCCTACTCTTTGAGGACAAAAAGAGGAAAATAAGGAAATGGA
ACGT
Found at i:865462 original size:47 final size:46
Alignment explanation
Indices: 865240--865487 Score: 201
Period size: 47 Copynumber: 5.4 Consensus size: 46
865230 AAGTGTGCCA
* *
865240 TGCTCTTTGAGGA-CAAAAGGGAAAAGAAGGAAA-GGAA-GTACGTCT
1 TGCTCTTTGAGGATAAAAAGGGAAAAGAAGGAAATGGAATGT--GTCC
** * *
865285 TGCTCTTTGAGGACCAAAAGAGGAAAATTAA-GAAATGGAACGTGTCC
1 TGCTCTTTGAGGATAAAAAG-GGAAAA-GAAGGAAATGGAATGTGTCC
* * * * *
865332 TACTCTTTGAGG--ACAAA-GGAGAAG-AGGAAAAT-AAAGTGCGTCC
1 TGCTCTTTGAGGATAAAAAGGGAAAAGAAGG-AAATGGAA-TGTGTCC
*
865375 TGCTCTTTGAGGAT-AAAAGGGAAAAGAAGGAAATGAAATGTGTCC
1 TGCTCTTTGAGGATAAAAAGGGAAAAGAAGGAAATGGAATGTGTCC
* * *
865420 TACTCTTTGAGGATAAAAAGGGGAAAATAAGGAAATGGAATGTATCC
1 TGCTCTTTGAGGATAAAAA-GGGAAAAGAAGGAAATGGAATGTGTCC
* *
865467 TGCTATTCGAGGACTAAAAAG
1 TGCTCTTTGAGGA-TAAAAAG
865488 TGCCATCAAC
Statistics
Matches: 166, Mismatches: 21, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
41 1 0.01
42 3 0.02
43 25 0.15
44 3 0.02
45 45 0.27
46 16 0.10
47 59 0.36
48 12 0.07
49 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.21
Consensus pattern (46 bp):
TGCTCTTTGAGGATAAAAAGGGAAAAGAAGGAAATGGAATGTGTCC
Found at i:865666 original size:62 final size:62
Alignment explanation
Indices: 865475--866185 Score: 636
Period size: 61 Copynumber: 11.6 Consensus size: 62
865465 CCTGCTATTC
* * * * *
865475 GAGGACTAAAAAGTGCCATCAACTCGTGTGGGCTTTGAAAAGAAAAA-GCGTCCTATTGTTT
1 GAGGACTAAGAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTT
* * * * * *
865536 GAGGACTAAAAAGTGTCACCAACTCGCGTGGGCTTTGAGAAG-AAAAGGCGTCCTGCTCTTT
1 GAGGACTAAGAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTT
* * * *
865597 GAGGACTAAGAGGTGCCCCCAACTCGTGTGGACTTTGAAAAGAAAAAGGTGTCCTACTTTTT
1 GAGGACTAAGAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTT
* * * *
865659 GAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGCGTCCTGA-TTTTT
1 GAGGACTAAGAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCT-ACTCTTT
* * * * * *
865721 TAGGACTAA-AGGTGCCACCAACTTGTATGGGCTTTAAAAAGAAAAAAGGCATCCTGCTCTTT
1 GAGGACTAAGAGGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAAAAGGCGTCCTACTCTTT
* * * ** *
865783 GAAGACT-GGAGGGTGCCACCGACTCGTGTGGGCTTTG-AAAGGGAAAGGCATCCTACTCTTT
1 GAGGACTAAGA-GGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTT
* * * * *
865844 GAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTT
1 GAGGACTAAGAGGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAAAAGGCGTCCTACTCTTT
* * * * * *
865907 GAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTCG-AAAGGAAAAGGCTTCTTGCTCTTT
1 GAGGACTAAG-AGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTT
* * * * *
865968 GAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGGAAAAAAGGCGTCCTGCTTTT
1 GAGGACTA-AGAGGTGCCACCAACTCGTGTGGGCTTTGAAAA--G-AAAAAGGCGTCCTACTCTT
866032 T
62 T
* * *
866033 GAGGACT-AGAGGCTGCCACCAACTCGTGTGGGCTTTG--AAGGAGAAGGTGTCCTGA-TCTTT
1 GAGGACTAAGAGG-TGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCT-ACTCTTT
* ** * * *
866093 GAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTT-----G--AAAGGCGTCTTGCTCTTT
1 GAGGACT--AAGAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTT
*
866150 GAGGACTGAAG-GGTGCCACCAACTTGTGTGGGCTTT
1 GAGGACT-AAGAGGTGCCACCAACTCGTGTGGGCTTT
866186 AAAGGCGTCC
Statistics
Matches: 542, Mismatches: 84, Indels: 54
0.80 0.12 0.08
Matches are distributed among these distances:
55 23 0.04
56 2 0.00
57 20 0.04
59 1 0.00
60 25 0.05
61 185 0.34
62 162 0.30
63 78 0.14
64 23 0.04
65 23 0.04
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (62 bp):
GAGGACTAAGAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTT
Found at i:865799 original size:124 final size:124
Alignment explanation
Indices: 865475--866188 Score: 760
Period size: 124 Copynumber: 5.8 Consensus size: 124
865465 CCTGCTATTC
* * * * ** *
865475 GAGGACTAAAAAGTGCCATCAACTCGTGTGGGCTTTGAAAAG-AAAAA-GCGTCCTATTGTTTGA
1 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTTGA
* ** * * * *
865538 GGACTAAAAAGTGTCACCAACTCGCGTGGGCTTTGAGAA-GAAAAGGCGTCCTGCTCTTT
66 GGACTAGAGGGTGCCACCAACTCGTGTGGGCTTT-AAAAGGAAAAGGCGTCCTGATCTTT
* * * * * * * *
865597 GAGGACTAAGAGGTGCCCCCAACTCGTGTGGACTTTGAAAAG-AAAAAGGTGTCCTACTTTTTGA
1 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTTGA
* *
865661 GGACTA-AGAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGCGTCCTGATTTTT
66 GGACTAGAG-GGTGCCACCAACTCGTGTGGGCTTT-AAAAGGAAAAGGCGTCCTGATCTTT
* * *
865721 TAGGACT-AAAGGTGCCACCAACTTGTATGGGCTTTAAAAAGAAAAAAGGCATCCTGCTCTTTGA
1 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTTGA
* * * * * *
865785 AGACTGGAGGGTGCCACCGACTCGTGTGGGCTTTGAAAGGGAAAGGCATCCT-ACTCTTT
66 GGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGA-TCTTT
*
865844 GAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTTGA
1 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTTGA
* * ** * * *
865909 GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTCGAAAGGAAAAGGCTTCTTGCTCTTT
66 GGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGATCTTT
* * *
865968 GAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAAAAGGCGTCCTGCTTTTT
1 GAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AGAAAAAAGGCGTCCTGCTCTTT
* * * *
866033 GAGGACTAGAGGCTGCCACCAACTCGTGTGGGCTTT-GAAGGAGAAGGTGTCCTGATCTTT
64 GAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGATCTTT
** *
866093 GAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTT-----G---AAAGGCGTCTTGCTCTTT
1 GAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTT
*
866150 GAGGACT-GAAGGGTGCCACCAACTTGTGTGGGCTTTAAA
64 GAGGACTAG-AGGGTGCCACCAACTCGTGTGGGCTTTAAA
866189 GGCGTCCTGC
Statistics
Matches: 508, Mismatches: 70, Indels: 32
0.83 0.11 0.05
Matches are distributed among these distances:
116 1 0.00
117 48 0.09
118 1 0.00
120 1 0.00
122 44 0.09
123 96 0.19
124 179 0.35
125 57 0.11
126 80 0.16
127 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (124 bp):
GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTTGA
GGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGATCTTT
Found at i:866209 original size:54 final size:55
Alignment explanation
Indices: 866015--866216 Score: 235
Period size: 54 Copynumber: 3.6 Consensus size: 55
866005 AAAAGGGAAA
* * * *
866015 AAAGGCGTCCTGCTTTTTGAGGACTAGAGGCTGCCACCAACTCGTGTGGGCTTTGAAGG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT----G
* * ***
866074 AGAAGGTGTCCTGATCTTTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTG
1 A-AAGGCGTCCTGCTCTTTGAGGACT--AAAGGGTGCCACCAACTTGTGTGGGCTTTG
* *
866132 AAAGGCGTCTTGCTCTTTGAGGACTGAAGGGTGCCACCAACTTGTGTGGGCTTT-
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTG
866186 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGG
866217 CGAAAGGAGA
Statistics
Matches: 123, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
54 29 0.24
55 25 0.20
57 21 0.17
58 2 0.02
59 1 0.01
60 21 0.17
62 24 0.20
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (55 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTG
Found at i:866369 original size:55 final size:55
Alignment explanation
Indices: 866235--866447 Score: 254
Period size: 55 Copynumber: 3.8 Consensus size: 55
866225 GAAAATGTCT
* *
866235 TGCTCTTTGAGGACT--AAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATCC
1 TGCTCTTTGAGGACTGGAA-AA-TGCCACCAACTTGTGTGGGC-TT-GAA-GAG---GCGTCC
*
866296 TACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTCGAA-AGGCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTT-GAAGAGGCGTCC
* *
866351 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTGT-C
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTGAAGAGGCGTCC
* *
866405 TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGAGCTT
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTT
866448 TAAAAGGAAA
Statistics
Matches: 140, Mismatches: 9, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
54 44 0.31
55 52 0.37
58 2 0.01
60 4 0.03
61 34 0.24
62 2 0.01
63 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (55 bp):
TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTGAAGAGGCGTCC
Found at i:866391 original size:209 final size:209
Alignment explanation
Indices: 866025--866420 Score: 577
Period size: 209 Copynumber: 1.9 Consensus size: 209
866015 AAAGGCGTCC
* * * * **
866025 TGCTTTTTGAGGACTAGAGGCTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGTGTCCTGATC
1 TGCTCTTTGAGGACTAGAAGCTGCCACCAACTCGTGTGGGCTTTAAAGGAGAAAGCATCCTGATC
* *
866090 TTTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCTTGCTCTTTGAGGA
66 TTTGAGGACT-AAAAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGCGTCCTGCTCTTTGAGGA
**
866155 CTGAAGGGTGCCACCAACTTGTGTGGGCTTTAA-AGGCGTCCTGCTCTTTGAGGACTAAAGGGCG
130 CTGAAGAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGT-CTGCTCTTTGAGGACTAAAGGGCG
866219 AAAGGAGAAAATGTCT
194 AAAGGAGAAAATGTCT
*
866235 TGCTCTTTGAGGACTAAGAAG-TGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATCCT-A
1 TGCTCTTTGAGGACT-AGAAGCTGCCACCAACTCGTGTGGGCTTT-AAAGGAGAAAGCATCCTGA
**
866298 CTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGCGTCCTGCTCTTTGAG
64 -TCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGCGTCCTGCTCTTTGAG
*
866362 GACTGGAA-AATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCTGCTCTTTGAGGACTA
128 GACT-GAAGAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCTGCTCTTTGAGGACTA
866421 GAAAATGCCA
Statistics
Matches: 167, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
209 93 0.56
210 45 0.27
211 29 0.17
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (209 bp):
TGCTCTTTGAGGACTAGAAGCTGCCACCAACTCGTGTGGGCTTTAAAGGAGAAAGCATCCTGATC
TTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGCGTCCTGCTCTTTGAGGAC
TGAAGAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCTGCTCTTTGAGGACTAAAGGGCGAA
AGGAGAAAATGTCT
Found at i:873152 original size:52 final size:52
Alignment explanation
Indices: 873004--873132 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
872994 CGAAATATGA
*
873004 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
** *
873056 AAATTTACCTATATGTTTCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
873108 AAATTTACCTGCATGTATCGATACA
1 AAATTTACCTGCATGTATCGATACA
873133 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTACCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:873159 original size:13 final size:13
Alignment explanation
Indices: 873141--873165 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
873131 CAAAGATCAG
873141 TGTATCGATACAA
1 TGTATCGATACAA
873154 TGTATCGATACA
1 TGTATCGATACA
873166 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:881483 original size:51 final size:50
Alignment explanation
Indices: 881389--881484 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
881379 GAAAATAAAG
* * * *
881389 GGGTTGGAGTATCCCCGATTGTGAAAATCGATGATTTAGAAATAAGGCAA
1 GGGTTGAAGTATCCCCGATTATGAAAATAGATGATTTAAAAATAAGGCAA
* *
881439 GGGTTGAAGTGTCCTCGATTATAGAAAATAGATG-TTTCAAAAATAA
1 GGGTTGAAGTATCCCCGATTAT-GAAAATAGATGATTT-AAAAATAA
881485 AATTGAGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
50 21 0.55
51 17 0.45
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.28
Consensus pattern (50 bp):
GGGTTGAAGTATCCCCGATTATGAAAATAGATGATTTAAAAATAAGGCAA
Found at i:881572 original size:51 final size:51
Alignment explanation
Indices: 881517--881635 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
881507 TGAAAATAAT
* *
881517 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAGGTC
1 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCC
* ** * *
881568 GGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCC
1 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCC
881619 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
881636 TCGGAAATAA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCC
Found at i:881630 original size:130 final size:128
Alignment explanation
Indices: 881359--881663 Score: 323
Period size: 130 Copynumber: 2.4 Consensus size: 128
881349 TAGATAATAA
* * *
881359 CGAGGTTGGAGTATCCCCTTGAAAATAAAGGGGTTGGAGTATCCCCGATTGTGAAAATCGATGAT
1 CGAGGTTGGAGTATCCCC-TGAAAATAAAGGGGTTGGAGTATCCCCAATTATGAAAATCAATGAT
* * *
881424 TTAGAAATAAGGCAAGGGTTGAAGTGTCCTCGATTATAGAAAATAGATGTTTCAAAAATAAAAT
65 TTAGAAATAAGGCAAGGGTTGAAGTATCCTCGATTATAGAAAATAGATATTTCAAAAATAAAAC
* * * *
881488 TGAGATTAGAGTATCCCCATGAAAATAATGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-A
1 CGAGGTTGGAGTATCCCC-TGAAAATAAAGGGGTTGGAGTATCCCCAATTATGA-AAATCAATGA
* * ***
881552 TTTTAGAAATAAGGTC-GGGGTTGAAGTATCC-CTGATTGT-GAGAAATCA-ATATTTTGGAAAT
64 -TTTAGAAATAAGG-CAAGGGTTGAAGTATCCTC-GATTATAGA-AAAT-AGATATTTCAAAAAT
*
881613 AAAGC
124 AAAAC
* * *
881618 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCC
1 CGAGGTTGGAGTATCCCCT-GAAAATAAAGGGGTTGGAGTATCCCC
881664 GATGAAATAA
Statistics
Matches: 146, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
129 52 0.36
130 92 0.63
131 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (128 bp):
CGAGGTTGGAGTATCCCCTGAAAATAAAGGGGTTGGAGTATCCCCAATTATGAAAATCAATGATT
TAGAAATAAGGCAAGGGTTGAAGTATCCTCGATTATAGAAAATAGATATTTCAAAAATAAAAC
Found at i:881694 original size:28 final size:28
Alignment explanation
Indices: 881618--881694 Score: 118
Period size: 28 Copynumber: 2.8 Consensus size: 28
881608 GAAATAAAGC
***
881618 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
881646 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
881674 CGGGGTTGGAGTATCTCCGAT
1 CGGGGTTGGAGTATCCCCGAT
881695 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:881784 original size:158 final size:159
Alignment explanation
Indices: 881496--881824 Score: 423
Period size: 158 Copynumber: 2.1 Consensus size: 159
881486 ATTGAGATTA
* *
881496 GAGTATCCCC-ATGAAAATAATGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAA
1 GAGTATCCCCGATGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGAA
** * * * *
881560 ATAAGGTCGGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTT
66 ATAAAATCGAGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTAGAAATAAAACCGAGGTT
*
881625 GGAGTATCCCCTCGGAAATAACGGGGTTG
131 GGAGTATCCCCTCGAAAATAACGGGGTTG
* * * * * * *
881654 GAGTATCCCCGATG-AAATAACGGGGTTGGAGTATCTCCGATTGTGAAAAATTAGTGTTTTGGAA
1 GAGTATCCCCGATGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGAA
* * ***
881718 ATAAAATCAGAGTTTGAA-TATCCTTGATTGTG-GAGAATTGGTATTTTAGAAATAAAACCGAGG
66 ATAAAATC-GAGGTTGAAGTATCCCTGATTGTGAGA-AATCAATATTTTAGAAATAAAACCGAGG
881781 TTGGAGTATCCCCTCGAAAATAACGGGGTTG
129 TTGGAGTATCCCCTCGAAAATAACGGGGTTG
881812 GAGTATCCCCGAT
1 GAGTATCCCCGAT
881825 TATGAAAAAT
Statistics
Matches: 147, Mismatches: 21, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
157 2 0.01
158 135 0.92
159 10 0.07
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (159 bp):
GAGTATCCCCGATGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGAA
ATAAAATCGAGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTAGAAATAAAACCGAGGTT
GGAGTATCCCCTCGAAAATAACGGGGTTG
Found at i:881791 original size:51 final size:51
Alignment explanation
Indices: 881677--881791 Score: 117
Period size: 51 Copynumber: 2.3 Consensus size: 51
881667 GAAATAACGG
* * *
881677 GGTTGGAGTAT-CTCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCA
1 GGTTGGAGTATCCTCCGATTGTGAAAAATTAGTATTTTAGAAATAAAACCA
* * * * * *
881727 GAGTTTGAATATCCT-TGATTGTGGAGAATTGGTATTTTAGAAATAAAACCGA
1 G-GTTGGAGTATCCTCCGATTGTGAAAAATTAGTATTTTAGAAATAAAACC-A
881779 GGTTGGAGTATCC
1 GGTTGGAGTATCC
881792 CCTCGAAAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
50 1 0.02
51 46 0.90
52 4 0.08
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (51 bp):
GGTTGGAGTATCCTCCGATTGTGAAAAATTAGTATTTTAGAAATAAAACCA
Found at i:881868 original size:79 final size:79
Alignment explanation
Indices: 881761--882027 Score: 389
Period size: 79 Copynumber: 3.4 Consensus size: 79
881751 AGAATTGGTA
881761 TTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
1 TTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
881826 ATGAAAAATTGATG
66 ATGAAAAATTGATG
* * * *
881840 TTTTAGAAATAAAACCGAGGTTGCAGTATCCCCGCGAAAATGACGGGGTTAGAGTATCCCCGATT
1 TTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
* * *
881905 ATGAGAAATTAATA
66 ATGAAAAATTGATG
* * *
881919 TTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTAT--CC--TT
1 TTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
881980 GATGAAAAATTGATG
66 -ATGAAAAATTGATG
* *
881995 TTTTAGAAATAAAAACGGGGTTGGAGTATCCCC
1 TTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
882028 GATTAAGAAA
Statistics
Matches: 168, Mismatches: 19, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
75 2 0.01
76 42 0.25
77 2 0.01
79 122 0.73
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (79 bp):
TTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
ATGAAAAATTGATG
Found at i:882043 original size:51 final size:48
Alignment explanation
Indices: 881960--882077 Score: 137
Period size: 51 Copynumber: 2.4 Consensus size: 48
881950 CCTCAAAAAT
** *
881960 AACGGGGTTGGAGTATCCTTGATGAAAAATTGATGTTTTAGAAATAAA
1 AACGGGGTTGGAGTATCCCCGATGAAAAATTGACGTTTTAGAAATAAA
* **
882008 AACGGGGTTGGAGTATCCCCGATTAAGAAAAATTGACGTTTTGGAAATTGA
1 AACGGGGTTGGAGTATCCCCGA-T--GAAAAATTGACGTTTTAGAAATAAA
* *
882059 ACCGGGATTGGAGTATCCC
1 AACGGGGTTGGAGTATCCC
882078 TGAGATGAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
48 20 0.34
49 1 0.02
51 38 0.64
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (48 bp):
AACGGGGTTGGAGTATCCCCGATGAAAAATTGACGTTTTAGAAATAAA
Found at i:887015 original size:19 final size:16
Alignment explanation
Indices: 886991--887030 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 16
886981 TTTGTACCTT
886991 AAAAAAACAATAAATACCA
1 AAAAAAACAA-AAA-A-CA
887010 AAAAAAACAAAAAACA
1 AAAAAAACAAAAAACA
887026 AAAAA
1 AAAAA
887031 CAAATAGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 1 0.05
18 3 0.14
19 10 0.48
ACGTcount: A:0.82, C:0.12, G:0.00, T:0.05
Consensus pattern (16 bp):
AAAAAAACAAAAAACA
Found at i:888345 original size:28 final size:28
Alignment explanation
Indices: 888299--888944 Score: 710
Period size: 28 Copynumber: 22.9 Consensus size: 28
888289 AACTTTACTC
*
888299 TTCAAAGCCCACAGGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
888327 TTTAAAGCCCACAATTCAGTGGCATCTCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
*
888356 TT-AAAACACCACAAGTCAGTGGCATCCT
1 TTCAAAGC-CCACAAGTCAGTGGCATCCT
888384 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
888412 TTCAAAGACCACAAGTCAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
***
888439 CTTCAAAAGATAACAAGTCAGTGGCATCCT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
* * *
888469 TTCAAAGCCCATAAGTCAATGGGATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
888497 TTCAAAGCCCACAAGTCAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
888524 CTTCAAAGCTCACAAGTTAGTGGCATCCT
1 -TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
888553 TTCAAAGCACACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
888581 TTCAAAGCCCACAAGT-AATGGTATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
888608 TTCAAAGCCCACAAGTTAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
888636 TTTAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
888664 TTGAAAGCCCACAAGTTAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
888691 CTTCAAAAGACCACAAGTCAGTGGAATCCT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
* * * * *
888721 TTGAAAGGCCACAAGTCAATTGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
888749 TTCAAAGCCCATAAATTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
888777 TCCAAAGCCTACAAGTTAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
*
888806 TTGAAAGCCCACAAGTCAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
888833 CTTCAAAAGACCACAAGTCAGTGGCATCAT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
* *
888863 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
888891 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
888919 TTAAAAGCCCACGAAAGTCGGTGGCA
1 TTCAAAGCCCAC--AAGTCAGTGGCA
888945 ACCCTTTTCA
Statistics
Matches: 529, Mismatches: 71, Indels: 34
0.83 0.11 0.05
Matches are distributed among these distances:
27 31 0.06
28 367 0.69
29 116 0.22
30 15 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:888455 original size:85 final size:84
Alignment explanation
Indices: 888299--888944 Score: 760
Period size: 85 Copynumber: 7.6 Consensus size: 84
888289 AACTTTACTC
* * * * *
888299 TTCAAAGCCCACAGGTCAGTGGCATCCTTTTAAAGCCCACAATTCAGTGGCATCTCTTTAAAACA
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAGC-
*
888364 CCACAAGTCAGTGGCATCCT
65 CCACAAGTTAGTGGCATCCT
* *
888384 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGACCACAAGTCAGTGGCATCTCTTCAAAAGA
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTC-AAAGC
** *
888449 TAACAAGTCAGTGGCATCCT
65 CCACAAGTTAGTGGCATCCT
* * * *
888469 TTCAAAGCCCATAAGTCAATGGGATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAGCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAGCC
888534 CACAAGTTAGTGGCATCCT
66 CACAAGTTAGTGGCATCCT
* * * * * *
888553 TTCAAAGCACACAAGTCAATGGCACCCTTTCAAAGCCCACAAGT-AATGGTATCTTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAGCC
*
888617 CACAAGTTAGTGGCATCTT
66 CACAAGTTAGTGGCATCCT
* * * *
888636 TTTAAAGCCCACAAGTCAGTGGCATCCTTTGAAAGCCCACAAGTTAGTGGCATCTCTTCAAAAGA
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTC-AAAGC
* *
888701 CCACAAGTCAGTGGAATCCT
65 CCACAAGTTAGTGGCATCCT
* * * * * * * * *
888721 TTGAAAGGCCACAAGTCAATTGCACCCTTTCAAAGCCCATAAATTAGTGGCA-CCCTTCCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTT-CAAAGC
* *
888785 CTACAAGTTAGTGGCACCCTT
65 CCACAAGTTAGTGGCATCC-T
* *
888806 TTGAAAGCCCACAAGTCAGTGGCAT-CTCTTCAAAAGACCACAAGTCAGTGGCATCAT-TTCAAA
1 TTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCATC-TCTTCAAA
*
888869 GCCCACAAGTTAGTGGCACCCT
63 GCCCACAAGTTAGTGGCATCCT
* * * *
888891 TTCAAAGCCCACAAGTTAGTGGCACCCTTTAAAAGCCCACGAAAGTCGGTGGCA
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCAC--AAGTCAGTGGCA
888945 ACCCTTTTCA
Statistics
Matches: 482, Mismatches: 67, Indels: 23
0.84 0.12 0.04
Matches are distributed among these distances:
83 73 0.15
84 106 0.22
85 243 0.50
86 57 0.12
87 3 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (84 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAGCC
CACAAGTTAGTGGCATCCT
Found at i:889831 original size:20 final size:20
Alignment explanation
Indices: 889806--889951 Score: 112
Period size: 20 Copynumber: 6.8 Consensus size: 20
889796 TTTTACCCAG
889806 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
889826 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
889846 ATGTATCGATACATTTTCTCTTTTTACTCA
1 ATGTATCGATACA--------TTTT--TCA
889876 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* * * *
889897 ATGTATAGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
889917 TTGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
889937 ATGTATCGATACATT
1 ATGTATCGATACATT
889952 CTGTCTTTTT
Statistics
Matches: 98, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
20 74 0.76
21 3 0.03
23 4 0.04
28 2 0.02
30 2 0.02
31 13 0.13
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:889861 original size:40 final size:40
Alignment explanation
Indices: 889806--889950 Score: 166
Period size: 40 Copynumber: 3.9 Consensus size: 40
889796 TTTTACCCAG
889806 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
* *
889846 ATGTATCGATACATTTTCTC--T-T-T--TTAC-T-CA-G-
1 ATGTATCGATACATTTT-TCAATGTATCGATACATGTATGA
*
889877 ATGTATCGATACATTTTTCAATGTATAGATACATGTATGA
1 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
* *
889917 TTGTATCGATACATTCTTCAATGTATCGATACAT
1 ATGTATCGATACATTTTTCAATGTATCGATACAT
889951 TCTGTCTTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 22
0.75 0.06 0.19
Matches are distributed among these distances:
30 2 0.02
31 17 0.20
32 2 0.02
33 2 0.02
34 2 0.02
35 3 0.03
36 3 0.03
37 2 0.02
38 2 0.02
39 2 0.02
40 48 0.55
41 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (40 bp):
ATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
Found at i:889911 original size:71 final size:71
Alignment explanation
Indices: 889795--889931 Score: 247
Period size: 71 Copynumber: 1.9 Consensus size: 71
889785 AAAAGTCACA
*
889795 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATAGATACATGTATGAATGTATCGATACAT
889860 TTTCTC
66 TTTCTC
* *
889866 TTTTTACTCAGATGTATCGATACATTTTTCAATGTATAGATACATGTATGATTGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATAGATACATGTATGAATGTATCGATACAT
889931 T
66 T
889932 CTTCAATGTA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (71 bp):
TTTTTACCCAGATGTATCGATACATTTTTCAATGTATAGATACATGTATGAATGTATCGATACAT
TTTCTC
Found at i:889961 original size:91 final size:91
Alignment explanation
Indices: 889827--889998 Score: 249
Period size: 91 Copynumber: 1.9 Consensus size: 91
889817 CATTTTTCAA
* * *
889827 TGTATCGATACATGTATGAATGTATCGATACATTTTCTCTTTTTACT-CAGATGTATCGATACAT
1 TGTATCGATACATGTATCAATGTATCGATACATTCTCTCTTTTT-CTCCAAATGTATCGATACAT
889891 TTTTCAATGTATAGATACATGTATGAT
65 TTTTCAATGTATAGATACATGTATGAT
* * *
889918 TGTATCGATACAT-TCTTCAATGTATCGATACATTCTGTCTTTTTTTCCAAATGTATCGATACAT
1 TGTATCGATACATGT-ATCAATGTATCGATACATTCTCTCTTTTTCTCCAAATGTATCGATACAT
*
889982 TTTTCAATGTATCGATA
65 TTTTCAATGTATAGATA
889999 GATCTAGTTA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
90 2 0.03
91 70 0.97
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (91 bp):
TGTATCGATACATGTATCAATGTATCGATACATTCTCTCTTTTTCTCCAAATGTATCGATACATT
TTTCAATGTATAGATACATGTATGAT
Found at i:893025 original size:13 final size:13
Alignment explanation
Indices: 893004--893034 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
892994 CGATACATGG
*
893004 TACAATGTATCGA
1 TACATTGTATCGA
893017 TACATTGTATCGA
1 TACATTGTATCGA
893030 TACAT
1 TACAT
893035 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:893033 original size:33 final size:32
Alignment explanation
Indices: 892991--893054 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 32
892981 TCACTATTTA
892991 TATCGATACATG-GTACAATGTATCGATACATTG
1 TATCGATACATGAG-A-AATGTATCGATACATTG
893024 TATCGATACATGAAGAAATGTATCGATACAT
1 TATCGATACATG-AGAAATGTATCGATACAT
893055 AGCTTGTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (32 bp):
TATCGATACATGAGAAATGTATCGATACATTG
Found at i:899224 original size:13 final size:13
Alignment explanation
Indices: 899206--899234 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
899196 TACAACATCC
899206 TTGTATCGATACA
1 TTGTATCGATACA
899219 TTGTATCGATACA
1 TTGTATCGATACA
899232 TTG
1 TTG
899235 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:901134 original size:22 final size:23
Alignment explanation
Indices: 901074--901118 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
901064 AATAAATTTT
901074 TACAAAAAGGGGAGAAGATAATC
1 TACAAAAAGGGGAGAAGATAATC
901097 TACAAAAAGGGGAGAAGATAAT
1 TACAAAAAGGGGAGAAGATAAT
901119 TGTTAAAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.53, C:0.07, G:0.27, T:0.13
Consensus pattern (23 bp):
TACAAAAAGGGGAGAAGATAATC
Found at i:901739 original size:13 final size:13
Alignment explanation
Indices: 901721--901746 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
901711 ACATGCTGCT
901721 TTGTATCGATACA
1 TTGTATCGATACA
901734 TTGTATCGATACA
1 TTGTATCGATACA
901747 ATGAATGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:904099 original size:18 final size:18
Alignment explanation
Indices: 904076--904115 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
904066 CATGCAAATG
904076 TAAAATATTCACAAACTA
1 TAAAATATTCACAAACTA
*
904094 TAAAATATTCACAAACTG
1 TAAAATATTCACAAACTA
904112 TAAA
1 TAAA
904116 GCCTACAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.28
Consensus pattern (18 bp):
TAAAATATTCACAAACTA
Found at i:904881 original size:38 final size:38
Alignment explanation
Indices: 904828--904930 Score: 106
Period size: 38 Copynumber: 2.7 Consensus size: 38
904818 GTTTCAAACA
* *
904828 GTGCCACCAGTTAAGAATAGTAGTTTTTGTATTGAA-T
1 GTGCCACTAGATAAGAATAGTAGTTTTTGTATTGAACT
*
904865 CGTGCCACTAGATAAGAATA-AAGGTTTTTGTATTGAACT
1 -GTGCCACTAGATAAGAATAGTA-GTTTTTGTATTGAACT
*
904904 GTGCTACT-GA-AAGAAAATAGTAGTTTT
1 GTGCCACTAGATAAG--AATAGTAGTTTT
904931 CGTTTCGATC
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
36 3 0.05
37 3 0.05
38 47 0.85
39 2 0.04
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (38 bp):
GTGCCACTAGATAAGAATAGTAGTTTTTGTATTGAACT
Found at i:908402 original size:166 final size:161
Alignment explanation
Indices: 908191--908800 Score: 615
Period size: 166 Copynumber: 3.7 Consensus size: 161
908181 ATTCTCCTTT
* * *
908191 GTAATTTTTTGGGAGGCTTTTTCTTGGATTTTAATTTTCAAAATTTATCCAATATCATTATTTAT
1 GTAATTTTTTGGGAGGATTTTTCTTGG-TTTTAATTTTTAAAATTTATCAAATATCATTATTTA-
* * *
908256 TTCATATTAAATTAATTCTCAAAAATTCATTTACTTTCATGAGTTTTTGAATTTTTTCTTGAAAT
64 TTCATATTAAATTAGTT-TCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTTCTTGAAAT
908321 TCCCTTTTTTTCTAAAATACATTGTTTTCTACGT-C
128 TCCCTTTTTTTCTAAAATACA-TGTTTTCTAC-TCC
* * * *
908356 ATAATTTTTTGGGAGGGATTTTTCCTGGCTTTTAATTTTTAAAATTTATCAAATATTATCATTTA
1 GTAATTTTTTGGGA-GGATTTTTCTTGG-TTTTAATTTTTAAAATTTATCAAATATCATTATTTA
* * *
908421 GTTCATATTAAATTGGTTTGCAAAAATTCATTCATTTTCATAATTTTTTGAATTTTTTCCTTGAA
64 -TTCATATTAAATTAGTTT-CAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTT-CTTGAA
* * *
908486 ATTCTCC--TTCTTC-AAAATATGATGTTTTTTACTCC
126 ATTC-CCTTTTTTTCTAAAATA-CATGTTTTCTACTCC
* * **
908521 GTAATTTTTTTAAAGGA-GATTTTTCTTAGTTTTCAATTTTTAAAATTTATCAAATATCACCAAT
1 GTAA-TTTTTT--GGGAGGATTTTTCTTGGTTTT-AATTTTTAAAATTTATCAAATATCA-TTAT
* * * * * * *
908585 TGATTCATATTAAATCAGTTTTAAAAAATAATTCATCTTCATGAATTTTTGAATTTTTTTCTTGA
61 TTATTCATATTAAATTAGTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAA-TTTTTTCTTGA
* * *
908650 AACT-CCTTTTTTT-TTAAATACGAAGTTTTCTACTCC
125 AATTCCCTTTTTTTCTAAAATAC-ATGTTTTCTACTCC
* * *
908686 GTAAATTTTTTTAGGGA-GATTTTTCTTGGTTTTTATTTTTTAAAATTTATCAAGTATTATTATT
1 GT-AA-TTTTTT-GGGAGGATTTTTCTTGG-TTTTAATTTTTAAAATTTATCAAATATCATTATT
* * *
908750 TAAATCATATTAAATTAGTTTTTAAAAATTTATTCATTTTCATGAGTTTTT
62 T-ATTCATATTAAATTAG-TTTCAAAAATTCATTCATTTTCATGAGTTTTT
908801 TCTTCGAAAT
Statistics
Matches: 371, Mismatches: 54, Indels: 39
0.80 0.12 0.08
Matches are distributed among these distances:
163 2 0.01
164 4 0.01
165 145 0.39
166 201 0.54
167 14 0.04
168 5 0.01
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (161 bp):
GTAATTTTTTGGGAGGATTTTTCTTGGTTTTAATTTTTAAAATTTATCAAATATCATTATTTATT
CATATTAAATTAGTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTTCTTGAAATTCC
CTTTTTTTCTAAAATACATGTTTTCTACTCC
Found at i:910409 original size:161 final size:161
Alignment explanation
Indices: 910122--910735 Score: 540
Period size: 161 Copynumber: 3.8 Consensus size: 161
910112 ATATTTCCAT
* * * * * *
910122 ATTAATTATTCTTTAATCTTTTATATTCGTATGAGGATCCGTAAGGG-TATAAACGATTTCAAAG
1 ATTAATTTTTTTTTAATCTTTTATATTCCTATGGGGATCCGT-AGGGATATAAAGGATTTCAAAA
* * * *
910186 CTTTTTGTAACTTTTCGGGTTTCCATTAAAGTACGAAATGGTATTTTTTGAAAATAAATAAATTA
65 CTTTTTGTATCTTTTCGGGTTTCTATTAAGGTACGAAATGGTA-TTTTTCAAAATAAATAAATTA
* ** ** *
910251 AATTAAATTAACCCTCCCATTA-TTAAATAAAA
129 AATTAAATTAACCCTCACACAACCGAAAGAAAA
* *
910283 ATTAATTTTTTTTTTATCTTTTATATTCCTATGGGGATCCATAGGGATATAAAGGATTTCAAAAA
1 ATTAATTTTTTTTTAATCTTTTATATTCCTATGGGGATCCGTAGGGATATAAAGGATTTC-AAAA
** * * * * *
910348 CTTTTCATATCTTTTCGGGTTTCTATTAAGGTATGAAAAGGCATTTTTCAAAATGAATAAATAAA
65 CTTTTTGTATCTTTTCGGGTTTCTATTAAGGTACGAAATGGTATTTTTCAAAATAAATAAATTAA
* ** *
910413 ATAAAATTAATGCTCACACAACCGAAAGAAAT
130 ATTAAATTAACCCTCACACAACCGAAAGAAAA
* * *
910445 ATT-A-TTTTTTTTAATCTTTTATATTCCTATAGGGATCCGTATGGATATAAAGTATTTCAAAAC
1 ATTAATTTTTTTTTAATCTTTTATATTCCTATGGGGATCCGTAGGGATATAAAGGATTTCAAAAC
* * *
910508 TTTTTTGTATCTTTTCGAGTTTCTATTAAGGTACGAAATGGTGTTTTTCGAAAACAAATAAATTA
66 -TTTTTGTATCTTTTCGGGTTTCTATTAAGGTACGAAATGGTATTTTTC-AAAATAAATAAATTA
* * ** ** * *
910573 AATTAAATTAACACTTTA-AGGATTGAAATAAAT
129 AATTAAATTAAC-CCTCACACAACCGAAAGAAAA
* * * * * * * *
910606 ATAAATCATTTTTTTTAATTTTTTATATTCCTCTGGGGGTTCTTAGGCG-TGTAAA-AAGTTTCA
1 ATTAAT--TTTTTTTTAATCTTTTATATTCCTATGGGGATCCGTAGG-GATATAAAGGA-TTTC-
* ** * * * *
910669 AAAACTTTTCGTATCTTTTTAGATTTCCATTAAGGTACGAAATGATATTTTTAAGAAATTAAATA
61 AAAACTTTTTGTATCTTTTCGGGTTTCTATTAAGGTACGAAATGGTATTTTTCA-AAA-TAAATA
910734 AA
124 AA
910736 AAAATAATAA
Statistics
Matches: 364, Mismatches: 74, Indels: 25
0.79 0.16 0.05
Matches are distributed among these distances:
159 5 0.01
160 94 0.26
161 117 0.32
162 50 0.14
164 2 0.01
165 83 0.23
166 13 0.04
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.41
Consensus pattern (161 bp):
ATTAATTTTTTTTTAATCTTTTATATTCCTATGGGGATCCGTAGGGATATAAAGGATTTCAAAAC
TTTTTGTATCTTTTCGGGTTTCTATTAAGGTACGAAATGGTATTTTTCAAAATAAATAAATTAAA
TTAAATTAACCCTCACACAACCGAAAGAAAA
Found at i:924944 original size:54 final size:54
Alignment explanation
Indices: 924833--924954 Score: 158
Period size: 55 Copynumber: 2.2 Consensus size: 54
924823 ACTATGCATG
*
924833 AAAAAAAAAATGACAATCCTTGGATGAAAACCCGAAAGGGTCTCTAAGTCCCAAA
1 AAAAAAAAAATGACAATCCTTGGATGAAAACCCGAAAGGGTCTCCAAGT-CCAAA
* * *
924888 AAAAAAAAAGTGACAATGCTTGGATGAAAACTCGAAAGGG-CATCCAAGT-CAAA
1 AAAAAAAAAATGACAATCCTTGGATGAAAACCCGAAAGGGTC-TCCAAGTCCAAA
*
924941 AAAATGAAAAATGA
1 AAAA-AAAAAATGA
924955 AAATGAAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
53 8 0.14
54 8 0.14
55 43 0.73
ACGTcount: A:0.51, C:0.16, G:0.18, T:0.16
Consensus pattern (54 bp):
AAAAAAAAAATGACAATCCTTGGATGAAAACCCGAAAGGGTCTCCAAGTCCAAA
Found at i:926400 original size:42 final size:41
Alignment explanation
Indices: 926353--926813 Score: 288
Period size: 42 Copynumber: 11.1 Consensus size: 41
926343 GAAACTTATA
*
926353 ATCTTTTGTCTGCCCATCGGCTTAGACTCTGGAGATTTCTTT
1 ATCTTTTGTCTGCCCATCGGCTTAGAC-CTGGAGACTTCTTT
* * * *
926395 ATCTTTCGTCTGCCCGTCGGCTTAAACCTAGGAGACTTCTTG
1 ATCTTTTGTCTGCCCATCGGCTTAGACCT-GGAGACTTCTTT
* * * * *
926437 ATCTTTCGTCTACCAATTGGCTTAGACCCGAGAGACTTCTTT
1 ATCTTTTGTCTGCCCATCGGCTTAGACCTG-GAGACTTCTTT
** * * ** * *
926479 ATCTTTTGTCTAACCGTCAGCTTAGACCCAAGAAACTTCCTT
1 ATCTTTTGTCTGCCCATCGGCTTAGA-CCTGGAGACTTCTTT
* *
926521 -TCTTTT-TCTGCCCATCGGTTTAGACATGGGAGACTTC-TT
1 ATCTTTTGTCTGCCCATCGGCTTAGACCT-GGAGACTTCTTT
* * ** *
926560 ATCTTTTGTCTACACATTAGCTTAGACCTGGGAGACTTCCTT
1 ATCTTTTGTCTGCCCATCGGCTTAGACCT-GGAGACTTCTTT
* * * ** * *
926602 -T-TTTTGTTTGCCCGTCAGCTTAGACCCAAGAGATTTCATT
1 ATCTTTTGTCTGCCCATCGGCTTAGA-CCTGGAGACTTCTTT
* * *** * *
926642 -TC-TTTATCTACTTGTCGGCTTAGACTTGAGAGACTTCTTA
1 ATCTTTTGTCTGCCCATCGGCTTAGACCTG-GAGACTTCTTT
* * *
926682 ATCTTTTGTCTGCCCATCGGTTTAGACCCGAAAGACTTCTTT
1 ATCTTTTGTCTGCCCATCGGCTTAGACCTG-GAGACTTCTTT
* * * * * * *
926724 ATCTTTCGCCAGCCCATCAGCTTAAACCCGGGAGACTTCTTA
1 ATCTTTTGTCTGCCCATCGGCTTAGA-CCTGGAGACTTCTTT
* ** * *
926766 ATCTTTTGTTTGTGCATCGGCTTAGACCCAGGAAACTTCTTT
1 ATCTTTTGTCTGCCCATCGGCTTAGA-CCTGGAGACTTCTTT
926808 ATCTTT
1 ATCTTT
926814 CATCTACATG
Statistics
Matches: 318, Mismatches: 88, Indels: 26
0.74 0.20 0.06
Matches are distributed among these distances:
39 4 0.01
40 78 0.25
41 39 0.12
42 192 0.60
43 5 0.02
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (41 bp):
ATCTTTTGTCTGCCCATCGGCTTAGACCTGGAGACTTCTTT
Found at i:926477 original size:84 final size:82
Alignment explanation
Indices: 926353--926813 Score: 330
Period size: 84 Copynumber: 5.6 Consensus size: 82
926343 GAAACTTATA
* * *
926353 ATCTTTTGTCTGCCCATCGGCTTAGACTCTG-GAGATTTCTTTATCTTTCGTCTGCCCGTCGGCT
1 ATCTTTTGTCTGCCCATCGGCTTAGAC-CCGAGAGACTTCTTTATCTTT-GTCTACCCGTCGGCT
* *
926417 TAAACCTAGGAGACTTCTT
64 TAGACCCAGGAGACTTCTT
* * * * * *
926436 GATCTTTCGTCTACCAATTGGCTTAGACCCGAGAGACTTCTTTATCTTTTGTCTAACCGTCAGCT
1 -ATCTTTTGTCTGCCCATCGGCTTAGACCCGAGAGACTTCTTTATC-TTTGTCTACCCGTCGGCT
* *
926501 TAGACCCAAGAAACTTCCTT
64 TAGACCCAGGAGACTT-CTT
* ** * * * **
926521 -TCTTTT-TCTGCCCATCGGTTTAGACATGGGAGACTTC-TTATCTTTTGTCTACACATTAGCTT
1 ATCTTTTGTCTGCCCATCGGCTTAGACCCGAGAGACTTCTTTATC-TTTGTCTACCCGTCGGCTT
**
926583 AGACCTGGGAGACTTCCTT
65 AGACCCAGGAGACTT-CTT
* * * * * * * **
926602 -T-TTTTGTTTGCCCGTCAGCTTAGACCCAAGAGATTTCATT-TCTTTATCTACTTGTCGGCTTA
1 ATCTTTTGTCTGCCCATCGGCTTAGACCCGAGAGACTTCTTTATCTTTGTCTACCCGTCGGCTTA
**
926664 GA-CTTGAGAGACTTCTT
66 GACCCAG-GAGACTTCTT
* * * * *
926681 AATCTTTTGTCTGCCCATCGGTTTAGACCCGAAAGACTTCTTTATCTTTCG-CCAGCCCATCAGC
1 -ATCTTTTGTCTGCCCATCGGCTTAGACCCGAGAGACTTCTTTATCTTT-GTCTA-CCCGTCGGC
* *
926745 TTAAACCCGGGAGACTTCTT
63 TTAGACCCAGGAGACTTCTT
* ** *
926765 AATCTTTTGTTTGTGCATCGGCTTAGACCC-AGGAAACTTCTTTATCTTT
1 -ATCTTTTGTCTGCCCATCGGCTTAGACCCGA-GAGACTTCTTTATCTTT
926814 CATCTACATG
Statistics
Matches: 295, Mismatches: 68, Indels: 28
0.75 0.17 0.07
Matches are distributed among these distances:
79 6 0.02
80 27 0.09
81 62 0.21
82 57 0.19
83 15 0.05
84 120 0.41
85 8 0.03
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (82 bp):
ATCTTTTGTCTGCCCATCGGCTTAGACCCGAGAGACTTCTTTATCTTTGTCTACCCGTCGGCTTA
GACCCAGGAGACTTCTT
Found at i:926557 original size:40 final size:41
Alignment explanation
Indices: 926468--926626 Score: 110
Period size: 40 Copynumber: 3.9 Consensus size: 41
926458 TTAGACCCGA
* * ****
926468 GAGACTTCTTTATCTTTTGTCTA-ACCGTCAGCTTAGACCCAA
1 GAGACTTCCTT-TCTTTTGTCTACA-CATCAGCTTAGACATGG
* * * * *
926510 GAAACTTCCTTTCTTTT-TCTGCCCATCGGTTTAGACATGG
1 GAGACTTCCTTTCTTTTGTCTACACATCAGCTTAGACATGG
* *
926550 GAGACTT-CTTATCTTTTGTCTACACATTAGCTTAGACCTGG
1 GAGACTTCCTT-TCTTTTGTCTACACATCAGCTTAGACATGG
* * * *
926591 GAGACTTCCTTT-TTTTGTTTGCCCGTCAGCTTAGAC
1 GAGACTTCCTTTCTTTTGTCTACACATCAGCTTAGAC
926627 CCAAGAGATT
Statistics
Matches: 90, Mismatches: 23, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
39 3 0.03
40 44 0.49
41 31 0.34
42 12 0.13
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (41 bp):
GAGACTTCCTTTCTTTTGTCTACACATCAGCTTAGACATGG
Found at i:926625 original size:81 final size:82
Alignment explanation
Indices: 926468--926626 Score: 189
Period size: 81 Copynumber: 2.0 Consensus size: 82
926458 TTAGACCCGA
*
926468 GAGACTTCTTTATCTTTTGTCTAACCGTCAGCTTAGACCCAAGAAACTTCCTTTCTTTTTCTGCC
1 GAGACTTCTTTATCTTTTGTCTAACCATCAGCTTAGACCCAAGAAACTTCCTTTCTTTTTCTGCC
* *
926533 CATCGGTTTAGACATGG
66 CATCAGCTTAGACATGG
* *** * *
926550 GAGACTTC-TTATCTTTTGTCT-ACACATTAGCTTAGACCTGGGAGACTTCCTTT-TTTTGTTTG
1 GAGACTTCTTTATCTTTTGTCTAAC-CATCAGCTTAGACCCAAGAAACTTCCTTTCTTTT-TCTG
*
926612 CCCGTCAGCTTAGAC
64 CCCATCAGCTTAGAC
926627 CCAAGAGATT
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
80 6 0.09
81 51 0.78
82 8 0.12
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (82 bp):
GAGACTTCTTTATCTTTTGTCTAACCATCAGCTTAGACCCAAGAAACTTCCTTTCTTTTTCTGCC
CATCAGCTTAGACATGG
Found at i:926627 original size:40 final size:42
Alignment explanation
Indices: 926223--926845 Score: 251
Period size: 42 Copynumber: 15.1 Consensus size: 42
926213 CTCACTCGAA
* * * * * * * * *
926223 ACTTCTTTATCTTTTGTTTGCCCGTTAGTTTAAACCCGAAAA
1 ACTTCCTTATCTTTTGTCTACCCATCAGCTTAGACCCGAGAG
** * *
926265 ACTTCCTT-TC-TTTGTCTGTCCATCAACTTAGACCCGAAAG
1 ACTTCCTTATCTTTTGTCTACCCATCAGCTTAGACCCGAGAG
* * *** * * * *
926305 ACTT-CTTATCTTTTTTCTGCTTGTCAACTTAAACTCGAGAA
1 ACTTCCTTATCTTTTGTCTACCCATCAGCTTAGACCCGAGAG
* * * * *
926346 ACTT-ATAATCTTTTGTCTGCCCATCGGCTTAGACTCTG-GAG
1 ACTTCCTTATCTTTTGTCTACCCATCAGCTTAGAC-CCGAGAG
* * * * * * * *
926387 ATTTCTTTATCTTTCGTCTGCCCGTCGGCTTA-AACCTAGGAG
1 ACTTCCTTATCTTTTGTCTACCCATCAGCTTAGACCCGA-GAG
* * **
926429 ACTT-CTTGATCTTTCGTCTACCAATTGGCTTAGACCCGAGAG
1 ACTTCCTT-ATCTTTTGTCTACCCATCAGCTTAGACCCGAGAG
* * * * *
926471 ACTTCTTTATCTTTTGTCTAACCGTCAGCTTAGACCCAAGAA
1 ACTTCCTTATCTTTTGTCTACCCATCAGCTTAGACCCGAGAG
* * * ** *
926513 ACTTCCTT-TCTTTT-TCTGCCCATCGGTTTAGACATGGGAG
1 ACTTCCTTATCTTTTGTCTACCCATCAGCTTAGACCCGAGAG
* * * *
926553 ACTT-CTTATCTTTTGTCTACACATTAGCTTAGACCTGGGAG
1 ACTTCCTTATCTTTTGTCTACCCATCAGCTTAGACCCGAGAG
* * * *
926594 ACTTCCTT-T-TTTTGTTTGCCCGTCAGCTTAGACCCAAGAG
1 ACTTCCTTATCTTTTGTCTACCCATCAGCTTAGACCCGAGAG
* * * *** * **
926634 ATTTCATT-TC-TTTATCTACTTGTCGGCTTAGACTTGAGAG
1 ACTTCCTTATCTTTTGTCTACCCATCAGCTTAGACCCGAGAG
* * * *
926674 ACTT-CTTAATCTTTTGTCTGCCCATCGGTTTAGACCCGAAAG
1 ACTTCCTT-ATCTTTTGTCTACCCATCAGCTTAGACCCGAGAG
* * * * *
926716 ACTTCTTTATCTTTCG-CCAGCCCATCAGCTTAAACCCGGGAG
1 ACTTCCTTATCTTTTGTCTA-CCCATCAGCTTAGACCCGAGAG
* *** * *
926758 ACTT-CTTAATCTTTTGTTTGTGCATCGGCTTAGACCC-AGGAA
1 ACTTCCTT-ATCTTTTGTCTACCCATCAGCTTAGACCCGA-GAG
* ** *
926800 ACTTCTTTATCTTTCATCTA--CATGCTGGCTTAGACCCGAGAG
1 ACTTCCTTATCTTTTGTCTACCCAT-C-AGCTTAGACCCGAGAG
926842 ACTT
1 ACTT
926846 TTTTATCATT
Statistics
Matches: 428, Mismatches: 128, Indels: 50
0.71 0.21 0.08
Matches are distributed among these distances:
39 8 0.02
40 112 0.26
41 93 0.22
42 204 0.48
43 11 0.03
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (42 bp):
ACTTCCTTATCTTTTGTCTACCCATCAGCTTAGACCCGAGAG
Found at i:926630 original size:121 final size:124
Alignment explanation
Indices: 926411--926729 Score: 331
Period size: 121 Copynumber: 2.6 Consensus size: 124
926401 CGTCTGCCCG
* * * * * *
926411 TCGGCTTAAACCTAGGAGACTTCTTGATCTTTCGTCTACCAATTGGCTTAGACCCGAGAGACTTC
1 TCGGCTTAGACATGGGAGACTTCTTAATCTTTTGTCTACCAATTAGCTTAGACCCGAGAGACTTC
* * * *
926476 TTTATCTTTTGTCTAACCGTCAGCTTAGACCCAAGAAACTTCCTTTCTTTTTCTGCCCA
66 CTTATCTTTTGTCTAACCGTCAGCTTAGACCCAAGAAACTTCATTTCTTTATCTACCCA
* * *
926535 TCGGTTTAGACATGGGAGACTTCTT-ATCTTTTGTCTA-CACATTAGCTTAGACCTGGGAGACTT
1 TCGGCTTAGACATGGGAGACTTCTTAATCTTTTGTCTACCA-ATTAGCTTAGACCCGAGAGACTT
* ** * * ***
926598 CCTT-T-TTTTGTTTGCCCGTCAGCTTAGACCCAAGAGATTTCATTTCTTTATCTACTTG
65 CCTTATCTTTTGTCTAACCGTCAGCTTAGACCCAAGAAACTTCATTTCTTTATCTACCCA
* * * * ** * *
926656 TCGGCTTAGACTTGAGAGACTTCTTAATCTTTTGTCTGCCCATCGGTTTAGACCCGAAAGACTTC
1 TCGGCTTAGACATGGGAGACTTCTTAATCTTTTGTCTACCAATTAGCTTAGACCCGAGAGACTTC
*
926721 TTTATCTTT
66 CTTATCTTT
926730 CGCCAGCCCA
Statistics
Matches: 158, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
121 64 0.41
122 34 0.22
123 36 0.23
124 24 0.15
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (124 bp):
TCGGCTTAGACATGGGAGACTTCTTAATCTTTTGTCTACCAATTAGCTTAGACCCGAGAGACTTC
CTTATCTTTTGTCTAACCGTCAGCTTAGACCCAAGAAACTTCATTTCTTTATCTACCCA
Found at i:926975 original size:42 final size:42
Alignment explanation
Indices: 926784--926979 Score: 157
Period size: 42 Copynumber: 4.7 Consensus size: 42
926774 TTTGTGCATC
* * * *
926784 GGCTTAGACCCAGGAAACTTCTTTATCTTTCATCTAC-ATGCT
1 GGCTTAGACCCGGGAGACTTCTTTATCATTCATCTACTA-GTT
* * *
926826 GGCTTAGACCCGAGAGACTTTTTTATCATTCATCTACTCGTT
1 GGCTTAGACCCGGGAGACTTCTTTATCATTCATCTACTAGTT
* * * * * * ** *
926868 GACTCAGGCCGGGGAGACTTCCTT-TCATT-ATCTGCCCGTC
1 GGCTTAGACCCGGGAGACTTCTTTATCATTCATCTACTAGTT
* * * * *
926908 GGCTTAAACCCAGGAGA-TTCTTTTATCTTTCCTTTACTAGTT
1 GGCTTAGACCCGGGAGACTTC-TTTATCATTCATCTACTAGTT
926950 GGCTTAGACCCGGGAGACTTCTTTATCATT
1 GGCTTAGACCCGGGAGACTTCTTTATCATT
926980 TGTCTGGTTG
Statistics
Matches: 115, Mismatches: 34, Indels: 10
0.72 0.21 0.06
Matches are distributed among these distances:
39 3 0.03
40 21 0.18
41 9 0.08
42 79 0.69
43 3 0.03
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (42 bp):
GGCTTAGACCCGGGAGACTTCTTTATCATTCATCTACTAGTT
Found at i:927027 original size:42 final size:42
Alignment explanation
Indices: 926947--927027 Score: 94
Period size: 42 Copynumber: 1.9 Consensus size: 42
926937 TCCTTTACTA
* * * *
926947 GTTGGCTTAGACCCGGGAGACTTCTTTATCATTTGTCTGGTT
1 GTTGACTTAGACCCGAGAGACTACTTTATCATTCGTCTGGTT
926989 GTTGACTTAGACCCGAGAGA-TAACTTTATTC-TTCGTCTG
1 GTTGACTTAGACCCGAGAGACT-ACTTTA-TCATTCGTCTG
927028 CCCGTCAGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.03
42 30 0.91
43 2 0.06
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (42 bp):
GTTGACTTAGACCCGAGAGACTACTTTATCATTCGTCTGGTT
Found at i:928339 original size:166 final size:167
Alignment explanation
Indices: 928167--928556 Score: 477
Period size: 166 Copynumber: 2.3 Consensus size: 167
928157 AAATTACTAG
* * *
928167 GTTTTCTTCTTTGTAAATTTTTTCAGGAGGATTTTTCTTGGATTTTAATTTTAAAAATTCATCAA
1 GTTTTCTACTTTGTAAATTTTTTCAGGAGGATTTTTCTTAGATTTTAATTTTTAAAATTCATCAA
* * * *
928232 ATATCATTATTTATTTCATATTAAATCAATTCT-CAAAAATTAGTTCATTTTCATGAGA-TTTTG
66 ATATCATAATTTAATTCATATTAAATCAATT-TGCAAAAATTAATTCATTTTCAT-AAATTTTTG
** *
928295 AATTTTTTCCTT-AAAATTCTTTTTTTCCAAAATATGTT
129 AATTTTTTCCTTGAAAATTCCCTTTTTCCAAAATATGGT
** ** * *
928333 GTTTTCTACTTCAT-AATTTTTTTGGGAGGGCTTTTTCTTAGTTTTTAATTTTTAAAATTCATCA
1 GTTTTCTACTTTGTAAATTTTTTCAGGA-GGATTTTTCTTAGATTTTAATTTTTAAAATTCATCA
* *
928397 AATATTATAATTTAATTCATATTAAATCAGTTTGCAAAAATTAATTCATTTTCATAAATTTTTGA
65 AATATCATAATTTAATTCATATTAAATCAATTTGCAAAAATTAATTCATTTTCATAAATTTTTGA
* * *
928462 ATTTTTTCTTTGACATTTCCCTTTTTCCAAAATATGGT
130 ATTTTTTCCTTGAAAATTCCCTTTTTCCAAAATATGGT
* * * *
928500 GTTTTCTACTCTGTAATTTTTTTGAGG-GGATTTTTC-TCGATTTTCAATTTTTAAAAT
1 GTTTTCTACTTTGTAAATTTTTTCAGGAGGATTTTTCTTAGATTTT-AATTTTTAAAAT
928557 CCTCATTTGA
Statistics
Matches: 188, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
165 20 0.11
166 127 0.68
167 32 0.17
168 9 0.05
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.52
Consensus pattern (167 bp):
GTTTTCTACTTTGTAAATTTTTTCAGGAGGATTTTTCTTAGATTTTAATTTTTAAAATTCATCAA
ATATCATAATTTAATTCATATTAAATCAATTTGCAAAAATTAATTCATTTTCATAAATTTTTGAA
TTTTTTCCTTGAAAATTCCCTTTTTCCAAAATATGGT
Found at i:929410 original size:12 final size:12
Alignment explanation
Indices: 929393--929441 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
929383 GTCAGTTGAA
929393 AAAAAGAGAGAG
1 AAAAAGAGAGAG
*
929405 AAAAAGAGAAAG
1 AAAAAGAGAGAG
*
929417 -AAAACA-AGAG
1 AAAAAGAGAGAG
*
929427 AAAAATAGA-AG
1 AAAAAGAGAGAG
929438 AAAA
1 AAAA
929442 TATGTAGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 3 0.10
11 16 0.52
12 12 0.39
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.02
Consensus pattern (12 bp):
AAAAAGAGAGAG
Found at i:929415 original size:22 final size:21
Alignment explanation
Indices: 929390--929441 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
929380 ATGGTCAGTT
*
929390 GAAAAAAAGAGAGAGAAAAAGA
1 GAAAAAAACA-AGAGAAAAAGA
*
929412 GAAAGAAAACAAGAGAAAAATA
1 GAAA-AAAACAAGAGAAAAAGA
*
929434 GAAGAAAA
1 GAAAAAAA
929442 TATGTAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 4 0.15
22 17 0.65
23 5 0.19
ACGTcount: A:0.73, C:0.02, G:0.23, T:0.02
Consensus pattern (21 bp):
GAAAAAAACAAGAGAAAAAGA
Found at i:929450 original size:22 final size:21
Alignment explanation
Indices: 929401--929459 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
929391 AAAAAAAGAG
*
929401 AGAGAAAAAGAGAAAGAAAACA
1 AGAGAAAAATAG-AAGAAAACA
*
929423 AGAGAAAAATAGAAGAAAATA
1 AGAGAAAAATAGAAGAAAACA
*
929444 TGTAGAAAAATTAGAA
1 AG-AGAAAAA-TAGAA
929460 AAACTAAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.28
22 18 0.56
23 5 0.16
ACGTcount: A:0.68, C:0.02, G:0.20, T:0.10
Consensus pattern (21 bp):
AGAGAAAAATAGAAGAAAACA
Found at i:929892 original size:85 final size:85
Alignment explanation
Indices: 929782--929952 Score: 333
Period size: 85 Copynumber: 2.0 Consensus size: 85
929772 TATAATATGC
929782 TTTTGTTTCAAGGGTTTAAATGCAAAGCTTGTGCTCTTGGTGTTTTATCTTTCCTAGCTTTTTAT
1 TTTTGTTTCAAGGGTTTAAATGCAAAGCTTGTGCTCTTGGTGTTTTATCTTTCCTAGCTTTTTAT
*
929847 TTGTTGGTCGAAACATTACG
66 TTGTTGGTCAAAACATTACG
929867 TTTTGTTTCAAGGGTTTAAATGCAAAGCTTGTGCTCTTGGTGTTTTATCTTTCCTAGCTTTTTAT
1 TTTTGTTTCAAGGGTTTAAATGCAAAGCTTGTGCTCTTGGTGTTTTATCTTTCCTAGCTTTTTAT
929932 TTGTTGGTCAAAACATTACG
66 TTGTTGGTCAAAACATTACG
929952 T
1 T
929953 ATCATTTTAT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.47
Consensus pattern (85 bp):
TTTTGTTTCAAGGGTTTAAATGCAAAGCTTGTGCTCTTGGTGTTTTATCTTTCCTAGCTTTTTAT
TTGTTGGTCAAAACATTACG
Found at i:935376 original size:38 final size:38
Alignment explanation
Indices: 935242--935460 Score: 164
Period size: 38 Copynumber: 5.8 Consensus size: 38
935232 AGTTTCAAAT
* *
935242 CGTGCCACCGGTTAAGAATAGTGATATTTGTATTGAAC
1 CGTGCCACCGATTAAGAATAGTGATTTTTGTATTGAAC
* * * * *
935280 CATGTCACTGAATAAGAATAAT-AGTTTTTGTATTGAAC
1 CGTGCCACCGATTAAGAATAGTGA-TTTTTGTATTGAAC
* *
935318 CGTGCCACTGGA-TAAAAATAGTGATTTTTGTATTGAAC
1 CGTGCCAC-CGATTAAGAATAGTGATTTTTGTATTGAAC
* *
935356 CGTGTCACC-AGTTTAGAATAGTGATTTTTGT-TTCGAAC
1 CGTGCCACCGA-TTAAGAATAGTGATTTTTGTATT-GAAC
* * * *
935394 TGTACCACCGATTTAGAATAGT-AGTTTTTGT-TTCAAAC
1 CGTGCCACCGATTAAGAATAGTGA-TTTTTGTATT-GAAC
* * *
935432 CGTGTCATCGATTTAA-AATCGTGATTTTT
1 CGTGCCACCGA-TTAAGAATAGTGATTTTT
935461 TTTCATAATT
Statistics
Matches: 145, Mismatches: 26, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
36 1 0.01
37 4 0.03
38 132 0.91
39 8 0.06
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.37
Consensus pattern (38 bp):
CGTGCCACCGATTAAGAATAGTGATTTTTGTATTGAAC
Found at i:936561 original size:17 final size:15
Alignment explanation
Indices: 936512--936568 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
936502 ATATTAAAAT
*
936512 AAATAAATAAAATT-
1 AAATAAAAAAAATTA
* * *
936526 AAATCATATAAATTA
1 AAATAAAAAAAATTA
936541 AAATGAAAAAAAATGTA
1 AAAT-AAAAAAAAT-TA
936558 AAATAAAAAAA
1 AAATAAAAAAA
936569 CTTGGTAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
14 10 0.30
15 4 0.12
16 13 0.39
17 6 0.18
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.23
Consensus pattern (15 bp):
AAATAAAAAAAATTA
Found at i:937322 original size:19 final size:18
Alignment explanation
Indices: 937298--937333 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
937288 TGTATAAATA
*
937298 ATTTTTTAGATAAGTTAAT
1 ATTTTTT-GAAAAGTTAAT
937317 ATTTTTTGAAAAGTTAA
1 ATTTTTTGAAAAGTTAA
937334 GAAAACATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (18 bp):
ATTTTTTGAAAAGTTAAT
Found at i:940091 original size:17 final size:17
Alignment explanation
Indices: 940071--940106 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
940061 AAAAACAAAA
940071 ATTATTTATTATTTATT
1 ATTATTTATTATTTATT
940088 ATTATTTATTATTTATT
1 ATTATTTATTATTTATT
940105 AT
1 AT
940107 CATTGAAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTATTTATTATTTATT
Found at i:940106 original size:10 final size:10
Alignment explanation
Indices: 940076--940100 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
940066 CAAAAATTAT
940076 TTATTATTTA
1 TTATTATTTA
940086 TTATTATTTA
1 TTATTATTTA
940096 TTATT
1 TTATT
940101 TATTATCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTATTATTTA
Found at i:941983 original size:28 final size:28
Alignment explanation
Indices: 941902--941983 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
941892 TTTTGGAGAT
*
941902 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
941930 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
941958 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
941984 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:942125 original size:51 final size:51
Alignment explanation
Indices: 941966--942135 Score: 180
Period size: 51 Copynumber: 3.3 Consensus size: 51
941956 GAAATAACGA
* *
941966 GGTTGGAGTAT-CCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCT-GATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * * *
942018 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCTGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
942071 GGTTGGAGTATCCCTGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCTGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
942122 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
942136 CTCAGAAATA
Statistics
Matches: 94, Mismatches: 21, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
51 38 0.40
52 13 0.14
53 33 0.35
54 10 0.11
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCTGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:942182 original size:27 final size:28
Alignment explanation
Indices: 942119--942194 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
942109 AAAATAAAGT
*
942119 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
942147 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
942174 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
942195 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:944676 original size:13 final size:13
Alignment explanation
Indices: 944658--944683 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
944648 ACAAAGATCC
944658 ATGTATCGATACA
1 ATGTATCGATACA
944671 ATGTATCGATACA
1 ATGTATCGATACA
944684 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:944679 original size:33 final size:33
Alignment explanation
Indices: 944637--944703 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
944627 AAAATTTCCA
***
944637 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
944670 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
944703 A
1 A
944704 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:944747 original size:19 final size:18
Alignment explanation
Indices: 944723--944790 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
944713 CAGTAGCTAA
944723 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
944742 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
944757 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
944774 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
944791 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:944763 original size:13 final size:13
Alignment explanation
Indices: 944745--944769 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
944735 ACAATACTTA
944745 TGTATCGATACAT
1 TGTATCGATACAT
944758 TGTATCGATACA
1 TGTATCGATACA
944770 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:944767 original size:32 final size:32
Alignment explanation
Indices: 944726--944788 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
944716 TAGCTAATTA
*
944726 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
944758 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
944789 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:945121 original size:18 final size:20
Alignment explanation
Indices: 945098--945148 Score: 79
Period size: 18 Copynumber: 2.6 Consensus size: 20
945088 ACAATTGTCC
*
945098 ATGTATCGATACAATG-A-A
1 ATGTATCGATACAAAGCATA
945116 ATGTATCGATACAAAGCATA
1 ATGTATCGATACAAAGCATA
945136 ATGTATCGATACA
1 ATGTATCGATACA
945149 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 15 0.50
19 1 0.03
20 14 0.47
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (20 bp):
ATGTATCGATACAAAGCATA
Found at i:945717 original size:20 final size:20
Alignment explanation
Indices: 945684--945729 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
945674 AAGGCTCTCG
* *
945684 TAAAAGATTTT-CCCTTTGA
1 TAAAAAATTTTCCCCCTTGA
945703 TAAAAAATTTCTCCCCCTTGA
1 TAAAAAATTT-TCCCCCTTGA
945724 TAAAAA
1 TAAAAA
945730 TTTATTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 9 0.39
20 1 0.04
21 13 0.57
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.35
Consensus pattern (20 bp):
TAAAAAATTTTCCCCCTTGA
Found at i:951564 original size:45 final size:45
Alignment explanation
Indices: 951500--951590 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
951490 GAAAATGAAT
951500 CATGCAAGTTCTTGTTTCTCTTAGCTAATTCATTATTTTCATCAA
1 CATGCAAGTTCTTGTTTCTCTTAGCTAATTCATTATTTTCATCAA
951545 CATGCAAGTTCTTGTTTCTCTTAGCTAATTCATTATTTTCATCAA
1 CATGCAAGTTCTTGTTTCTCTTAGCTAATTCATTATTTTCATCAA
951590 C
1 C
951591 CATCTTTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.24, C:0.21, G:0.09, T:0.46
Consensus pattern (45 bp):
CATGCAAGTTCTTGTTTCTCTTAGCTAATTCATTATTTTCATCAA
Found at i:953846 original size:13 final size:13
Alignment explanation
Indices: 953830--953860 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
953820 ACAATTCATC
953830 ATGTATCGATACA
1 ATGTATCGATACA
*
953843 ATGTATCGATATA
1 ATGTATCGATACA
953856 ATGTA
1 ATGTA
953861 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:953933 original size:20 final size:20
Alignment explanation
Indices: 953905--953962 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
953895 CTGTCAGTTT
* *
953905 CATGCATCGATACAATTGTC
1 CATGTATCGATACAATTGTA
*
953925 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGTA
953944 CATGTATCGATAC-ATTGTA
1 CATGTATCGATACAATTGTA
953963 TCGATACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 1 0.03
19 18 0.55
20 14 0.42
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:953964 original size:13 final size:13
Alignment explanation
Indices: 953946--953970 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
953936 ACAATGAACA
953946 TGTATCGATACAT
1 TGTATCGATACAT
953959 TGTATCGATACA
1 TGTATCGATACA
953971 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:953968 original size:32 final size:33
Alignment explanation
Indices: 953927--953988 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
953917 CAATTGTCCA
*
953927 TGTATCGATACAATG-A-ACATGTATCGATACAT
1 TGTATCGATACAAAGCATA-ATGTATCGATACAT
953959 TGTATCGATACAAAGCATAATGTATCGATA
1 TGTATCGATACAAAGCATAATGTATCGATA
953989 GTATTGATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 14 0.52
33 12 0.44
34 1 0.04
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (33 bp):
TGTATCGATACAAAGCATAATGTATCGATACAT
Found at i:955571 original size:13 final size:13
Alignment explanation
Indices: 955553--955578 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
955543 ATATTTTTTG
955553 TGTATCGATACAT
1 TGTATCGATACAT
955566 TGTATCGATACAT
1 TGTATCGATACAT
955579 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:955589 original size:32 final size:33
Alignment explanation
Indices: 955532--955596 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
955522 TACAAGCCAA
955532 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
955566 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
955597 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:955590 original size:19 final size:19
Alignment explanation
Indices: 955532--955596 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
955522 TACAAGCCAA
955532 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
955553 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
955566 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
955585 TGTATCGATACA
1 TGTATCGATACA
955597 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:956278 original size:21 final size:21
Alignment explanation
Indices: 956237--956280 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
956227 TCCCCTTTTA
* *
956237 TCTCCCCTTTTTATTAATAAT
1 TCTCCCCTTTTAATCAATAAT
956258 TCTCCCC-TTTAATCAAGTAAT
1 TCTCCCCTTTTAATCAA-TAAT
956279 TC
1 TC
956281 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.27, G:0.02, T:0.45
Consensus pattern (21 bp):
TCTCCCCTTTTAATCAATAAT
Found at i:957633 original size:21 final size:20
Alignment explanation
Indices: 957604--957646 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
957594 GGCTAGTATG
957604 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTTGCGACCT
*
957625 GGGAGTGCCGGTTGCGACCT
1 GGGACTGCCGGTTGCGACCT
957645 GG
1 GG
957647 TGGTGCTGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTTGCGACCT
Found at i:958096 original size:13 final size:13
Alignment explanation
Indices: 958078--958115 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
958068 ATAATCCCCC
958078 TGTATCGATACAG
1 TGTATCGATACAG
*
958091 TGTATCGATACAT
1 TGTATCGATACAG
958104 TGTATCGATACA
1 TGTATCGATACA
958116 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:960161 original size:15 final size:15
Alignment explanation
Indices: 960141--960171 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
960131 ATTTTGTTTG
*
960141 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
960156 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
960171 G
1 G
960172 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:964245 original size:19 final size:20
Alignment explanation
Indices: 964209--964258 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
964199 CAAGCCAATG
964209 TATCGATACATATTTTTTGTA
1 TATCGATACATA-TTTTTGTA
*
964230 TATCGATACATA-TTTTGTG
1 TATCGATACATATTTTTGTA
964249 TATCGATACA
1 TATCGATACA
964259 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 16 0.57
21 12 0.43
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (20 bp):
TATCGATACATATTTTTGTA
Found at i:964667 original size:19 final size:20
Alignment explanation
Indices: 964643--964692 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
964633 ACATTATGAT
* **
964643 TTGTATCGATACATGTTC-A
1 TTGTATCGATAAATGGACAA
964662 TTGTATCGATAAATGGACAA
1 TTGTATCGATAAATGGACAA
964682 TTGTATCGATA
1 TTGTATCGATA
964693 TATGAAACTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (20 bp):
TTGTATCGATAAATGGACAA
Found at i:964762 original size:13 final size:13
Alignment explanation
Indices: 964741--964770 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
964731 CAATACATGG
*
964741 TACATTGTATCGA
1 TACAATGTATCGA
964754 TACAATGTATCGA
1 TACAATGTATCGA
964767 TACA
1 TACA
964771 TGATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:964770 original size:33 final size:33
Alignment explanation
Indices: 964726--964790 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
964716 TACCACTGTT
*
964726 TGTATCAATACATGGT-ACATTGTATCGATACAA
1 TGTATCAATACATGATGA-ATTGTATCGATACAA
*
964759 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCAATACATGATGAATTGTATCGATACA
964791 TTACTTCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (33 bp):
TGTATCAATACATGATGAATTGTATCGATACAA
Found at i:970941 original size:13 final size:13
Alignment explanation
Indices: 970923--970962 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
970913 ACAATATTCT
970923 TTGTATCGATACA
1 TTGTATCGATACA
*
970936 TTGTATTGATACA
1 TTGTATCGATACA
* *
970949 TTATATCAATACA
1 TTGTATCGATACA
970962 T
1 T
970963 CGGTTACTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:973485 original size:13 final size:13
Alignment explanation
Indices: 973467--973493 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
973457 ACATTATGCT
973467 TTGTATCGATACA
1 TTGTATCGATACA
973480 TTGTATCGATACA
1 TTGTATCGATACA
973493 T
1 T
973494 GTTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:973579 original size:13 final size:13
Alignment explanation
Indices: 973558--973587 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
973548 TGATACATGG
*
973558 TACATTGTATCGA
1 TACAATGTATCGA
973571 TACAATGTATCGA
1 TACAATGTATCGA
973584 TACA
1 TACA
973588 TGATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:973586 original size:33 final size:33
Alignment explanation
Indices: 973543--973607 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
973533 TGCCACTGTT
* *
973543 TGTATTGATACATGGT-ACATTGTATCGATACAA
1 TGTATCGATACATGATGA-ATTGTATCGATACAA
973576 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGATGAATTGTATCGATACA
973608 TTATTTCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATGATGAATTGTATCGATACAA
Found at i:977420 original size:52 final size:51
Alignment explanation
Indices: 977294--977448 Score: 183
Period size: 52 Copynumber: 3.0 Consensus size: 51
977284 GTAAAATTTC
* * **
977294 TTAAAAAAA-ATTAAAAATTAAAAATATATTTTATATTAAATTTTGAATTA
1 TTAAAAAAATAATAAAAATTAAAAATATATTTTATATTAAATCTCAAATTA
977344 TTAAAAAAATAATAAAAATTTAAAAATATATTTTATATTAAA-CTCAAAGTACTA
1 TTAAAAAAATAATAAAAA-TTAAAAATATATTTTATATTAAATCTCAAA-T--TA
** *
977398 TTTGAAAACTAATAAAAA-TAAAAA-ATATTTTATATTAAATCTCAAATTA
1 TTAAAAAAATAATAAAAATTAAAAATATATTTTATATTAAATCTCAAATTA
977447 TT
1 TT
977449 TCTTAGTTAA
Statistics
Matches: 92, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
49 4 0.04
50 9 0.10
51 26 0.28
52 36 0.39
54 17 0.18
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (51 bp):
TTAAAAAAATAATAAAAATTAAAAATATATTTTATATTAAATCTCAAATTA
Found at i:977573 original size:55 final size:52
Alignment explanation
Indices: 977467--977611 Score: 175
Period size: 55 Copynumber: 2.8 Consensus size: 52
977457 AAAAAATAAC
* *
977467 TTATATTAAATCTCAAATTATTTTTAAAAATAATAAAAAATTAAAACATATT
1 TTATAATAAATCTCAAATTATATTTAAAAATAATAAAAAATTAAAACATATT
** *
977519 TTATAATAAATCTTGAATTACTATTTAAAAATTAATAAAAAATTTAAAATATATT
1 TTATAATAAATCTCAAATTA-TATTTAAAAA-TAATAAAAAA-TTAAAACATATT
* * * *
977574 TTATAGTAAATTTCAAATTATTTTTTAAAA-AATAAAAA
1 TTATAATAAATCTCAAATTATATTTAAAAATAATAAAAA
977612 TATTTTATAT
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
52 25 0.32
53 9 0.11
54 18 0.23
55 27 0.34
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (52 bp):
TTATAATAAATCTCAAATTATATTTAAAAATAATAAAAAATTAAAACATATT
Found at i:977644 original size:147 final size:142
Alignment explanation
Indices: 977304--977659 Score: 376
Period size: 147 Copynumber: 2.4 Consensus size: 142
977294 TTAAAAAAAA
* * *
977304 TTAAAAATTAAAAATATATTTTATATTAAATTTTGAATTATTAAAAAAATAATAAAAATTTAAAA
1 TTAAAAAAT-AAAA-ATATTTTATATTAAA--TTGAATTATTTAAAAAATAATAAAAAATT-AAA
* * * *
977369 ATATATTTTATATTAAACTCAAAGTACTATTTGAAAACTAATAAAAATAAAAAATATTTTATATT
61 ACATATTTTATAATAAACTCAAAGTACTATTTAAAAACTAATAAAAATAAAAAATATTTTATAGT
977434 AAATCTCAAATTATTTC
126 AAATCTCAAATTATTTC
*** ** * *
977451 TT-AGTTA-AAAAATAACTTATATTAAATCTCAAATTATTTTTAAAAATAATAAAAAATTAAAAC
1 TTAAAAAATAAAAATATTTTATATTAAAT-T-GAATTA-TTTAAAAAATAATAAAAAATTAAAAC
** * * *
977514 ATATTTTATAATAAATCTTGAATTACTATTTAAAAATTAATAAAAAATTTAAAATATATTTTATA
63 ATATTTTATAATAAA-CTCAAAGTACTATTTAAAAACTAAT-AAAAA--TAAAAAATATTTTATA
* *
977579 GTAAATTTCAAATTATTTT
124 GTAAATCTCAAATTATTTC
977598 TTAAAAAATAAAAATATTTTATATT-AATTGAATTACTATTAAAAAATAATAAAAAATTAAAA
1 TTAAAAAATAAAAATATTTTATATTAAATTGAATTA-T-TTAAAAAATAATAAAAAATTAAAA
977660 AAATATATAT
Statistics
Matches: 170, Mismatches: 29, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
141 1 0.01
142 1 0.01
143 36 0.21
144 42 0.25
145 5 0.03
146 7 0.04
147 59 0.35
148 5 0.03
149 14 0.08
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (142 bp):
TTAAAAAATAAAAATATTTTATATTAAATTGAATTATTTAAAAAATAATAAAAAATTAAAACATA
TTTTATAATAAACTCAAAGTACTATTTAAAAACTAATAAAAATAAAAAATATTTTATAGTAAATC
TCAAATTATTTC
Found at i:977964 original size:22 final size:22
Alignment explanation
Indices: 977938--977991 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
977928 ATCATTTTTT
*
977938 AGTTATATATACATTTAGTTAA
1 AGTTATATATACATTTAGCTAA
* * *
977960 AGTTATATGTATATTTAGCTAT
1 AGTTATATATACATTTAGCTAA
*
977982 AGTCATATAT
1 AGTTATATAT
977992 GTACTCATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (22 bp):
AGTTATATATACATTTAGCTAA
Found at i:978034 original size:220 final size:221
Alignment explanation
Indices: 977790--978188 Score: 473
Period size: 220 Copynumber: 1.8 Consensus size: 221
977780 TTTTATATAC
* * * *
977790 ATATATATATGTACAGTCAATTTTATTTAAAGGAACCGACACTCCAAAAAAAAAAACTGACTTCT
1 ATATATATATATACAGTCAATTTTATTCAAAGGAACCAACACTCCAAAAAAAAAAACAG-CTTCT
* * *
977855 TAAGAAAAAAAAACACAAATTAAGAAAAA-AGATT-ACCCCTCCATGAAAGGAATCGACTTC-TT
65 TAACAAAAAAAAACACAAATTAAGAAAAAGA-ATTGACCCCTCCATGAAAAGAATAGA-TTCTTT
* *
977917 AAGACAAAAATATCA-TTTTTTAGTTATATATACATTTAGTTAAAGTTATATGTATATTTAGCTA
128 AAGACAAAAACATCATTTTTTTAGTTATATATACATTTACTTAAAGTTATATGTATATTTAGCTA
977981 TAGTCATATATGTACTCATTAATATTCAT
193 TAGTCATATATGTACTCATTAATATTCAT
* * * * * * * * *
978010 ATATATATATATATATTTAATTTTATTCGAAGGAGCCAACCCTCCACAAAAAGAATCAGCTTCTT
1 ATATATATATATACAGTCAATTTTATTCAAAGGAACCAACACTCCAAAAAAAAAAACAGCTTCTT
* * * * * * * *
978075 GACAAAAAAATACACAAATTGAGAAAGAGAATTGACCTCTCTATGAAAAGAATATATTCTTTAGG
66 AACAAAAAAAAACACAAATTAAGAAAAAGAATTGACCCCTCCATGAAAAGAATAGATTCTTTAAG
* * * *
978140 CCAAAAACATCATTTTTTTAGTTATGTGTATATTTACTTAAAGTTATAT
131 ACAAAAACATCATTTTTTTAGTTATATATACATTTACTTAAAGTTATAT
978189 ATACATTGAA
Statistics
Matches: 145, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
219 35 0.24
220 78 0.54
221 32 0.22
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (221 bp):
ATATATATATATACAGTCAATTTTATTCAAAGGAACCAACACTCCAAAAAAAAAAACAGCTTCTT
AACAAAAAAAAACACAAATTAAGAAAAAGAATTGACCCCTCCATGAAAAGAATAGATTCTTTAAG
ACAAAAACATCATTTTTTTAGTTATATATACATTTACTTAAAGTTATATGTATATTTAGCTATAG
TCATATATGTACTCATTAATATTCAT
Found at i:979184 original size:19 final size:20
Alignment explanation
Indices: 979147--979191 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
979137 TCATGTATTG
*
979147 ATACAATTGAGTATATATCA
1 ATACAATTGAGCATATATCA
* *
979167 ATACAA-TGAGCATGTATCG
1 ATACAATTGAGCATATATCA
979186 ATACAA
1 ATACAA
979192 ACCATAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.29
Consensus pattern (20 bp):
ATACAATTGAGCATATATCA
Found at i:979946 original size:27 final size:27
Alignment explanation
Indices: 979916--979970 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
979906 AAATAATTTC
979916 TCCCCCTTGTCAAATGCCAAAATTTAT
1 TCCCCCTTGTCAAATGCCAAAATTTAT
979943 TCCCCCTTGTCAAATGCCAAAATTTAT
1 TCCCCCTTGTCAAATGCCAAAATTTAT
979970 T
1 T
979971 TTCAAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.35
Consensus pattern (27 bp):
TCCCCCTTGTCAAATGCCAAAATTTAT
Found at i:980676 original size:50 final size:50
Alignment explanation
Indices: 980619--980751 Score: 187
Period size: 50 Copynumber: 2.7 Consensus size: 50
980609 TCACAATTTG
*
980619 TATCGATACATTCTTCATTGTATCAATACATTCTGGGTTTTACCCAGATA
1 TATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTACCCAGATA
* * * *
980669 TATCGATATATTTTTCATTGTATCGATACATTCTGGGTTTTACCCATATG
1 TATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTACCCAGATA
* *
980719 TATCGATGCATTAC-TCAATGTATCGATACATTC
1 TATCGATACATT-CTTCATTGTATCGATACATTC
980752 AGGCATTTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
50 73 1.00
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (50 bp):
TATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTACCCAGATA
Found at i:983219 original size:79 final size:80
Alignment explanation
Indices: 983091--983243 Score: 209
Period size: 79 Copynumber: 1.9 Consensus size: 80
983081 CATGTTTTTA
* * * * * *
983091 TTTCTGAGGGGATACTCCAACCTCGGTTTTATTTCCAAAACATTGATTTTTCACAATCGGAGATA
1 TTTCTGAGGGAATACTCCAACCCCGATTTTATTTCCAAAACATTGATTTTCCACAATCAGAAATA
*
983156 CTCCAACCCCGTTAT
66 CTCAAACCCCGTTAT
* * *
983171 TTTC-GAGGGAATACTCCAACCCCGATTTTATTTTCAAAACGTTGATTTTCCATAATCAGAAATA
1 TTTCTGAGGGAATACTCCAACCCCGATTTTATTTCCAAAACATTGATTTTCCACAATCAGAAATA
983235 CTCAAACCC
66 CTCAAACCC
983244 TGATTTTATT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
79 59 0.94
80 4 0.06
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (80 bp):
TTTCTGAGGGAATACTCCAACCCCGATTTTATTTCCAAAACATTGATTTTCCACAATCAGAAATA
CTCAAACCCCGTTAT
Found at i:983366 original size:130 final size:130
Alignment explanation
Indices: 983099--983375 Score: 349
Period size: 130 Copynumber: 2.1 Consensus size: 130
983089 TATTTCTGAG
* * * * *
983099 GGGATACTCCAA-CCTCGGTTTTATTTCCAAAACATTGATTTTTCACAATCGGAGATACTCCAAC
1 GGGATACTCCAACCCT-GATTTTATTTCCAAAACAGTGATCTTCCACAACCGGAGATACTCCAAC
* * * *
983163 CCCGTTATTTTCGAGGGAATACTCCAACCCCGATTTTATTTTCAAAACGTTGATTTTCCATAATC
65 CCCGTTATTTTCGAGGGAATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTCCACAATC
983228 A
130 A
** * * * *
983229 GAAATACTCAAACCCTGATTTTATTTCCAAAATAGTGATCTTCCACAACCGGGGATACTCCGACC
1 GGGATACTCCAACCCTGATTTTATTTCCAAAACAGTGATCTTCCACAACCGGAGATACTCCAACC
* * * * * *
983294 CCGTTATTTTCGAGGGAATATTCCAACCTCGGTTTTATTTCCAAAACATCGATTTTTCACCATTA
66 CCGTTATTTTCGAGGGAATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTCCACAATCA
983359 GGGATACTCCAACCCTG
1 GGGATACTCCAACCCTG
983376 TTATTTCTGA
Statistics
Matches: 122, Mismatches: 24, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
130 119 0.98
131 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (130 bp):
GGGATACTCCAACCCTGATTTTATTTCCAAAACAGTGATCTTCCACAACCGGAGATACTCCAACC
CCGTTATTTTCGAGGGAATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTCCACAATCA
Found at i:983657 original size:18 final size:18
Alignment explanation
Indices: 983634--983672 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
983624 TGATCATTTG
983634 TTTGTTATTTTGTGTAAA
1 TTTGTTATTTTGTGTAAA
983652 TTTGTTATTTTGTGTAAA
1 TTTGTTATTTTGTGTAAA
983670 TTT
1 TTT
983673 ATTTTGTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.64
Consensus pattern (18 bp):
TTTGTTATTTTGTGTAAA
Found at i:983676 original size:15 final size:17
Alignment explanation
Indices: 983635--983680 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 17
983625 GATCATTTGT
983635 TTGTTATTTTGTGTAAA
1 TTGTTATTTTGTGTAAA
983652 TTTGTTATTTTGTGTAAA
1 -TTGTTATTTTGTGTAAA
983670 -T-TTATTTTGTG
1 TTGTTATTTTGTG
983681 CATTTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.36
16 1 0.04
18 17 0.61
ACGTcount: A:0.20, C:0.00, G:0.17, T:0.63
Consensus pattern (17 bp):
TTGTTATTTTGTGTAAA
Found at i:983676 original size:22 final size:21
Alignment explanation
Indices: 983629--983676 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 21
983619 CACTTTGATC
*
983629 ATTTGTTTGTTATTTTGTGTA
1 ATTTATTTGTTATTTTGTGTA
983650 A---ATTTGTTATTTTGTGTAA
1 ATTTATTTGTTATTTTGTGT-A
983669 ATTTATTT
1 ATTTATTT
983677 TGTGCATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 7
0.73 0.03 0.23
Matches are distributed among these distances:
18 15 0.68
19 2 0.09
21 1 0.05
22 4 0.18
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.65
Consensus pattern (21 bp):
ATTTATTTGTTATTTTGTGTA
Done.