Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 194 of 208
Found at i:60463788 original size:3 final size:3
Alignment explanation
Indices: 60463742--60463779 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
60463732 TATTATCATC
* *
60463742 TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA GTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
60463780 GGTATTATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:60464379 original size:30 final size:30
Alignment explanation
Indices: 60464343--60464545 Score: 338
Period size: 30 Copynumber: 6.8 Consensus size: 30
60464333 ACTTTTCTCA
60464343 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
60464373 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
60464403 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
60464433 ACTAG-CACT-CTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
60464461 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
60464491 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
* *
60464521 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCCTTTTCCACCACCA
60464546 CTTGTACCTA
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
28 23 0.14
29 7 0.04
30 131 0.81
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.23
Consensus pattern (30 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCC
Found at i:60464487 original size:88 final size:89
Alignment explanation
Indices: 60464343--60464545 Score: 363
Period size: 88 Copynumber: 2.3 Consensus size: 89
60464333 ACTTTTCTCA
60464343 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
1 ACTAGCCACT-CTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
60464408 CCACTCTTTTTCCACCACCAACTCC
65 CCACTCTTTTTCCACCACCAACTCC
60464433 ACTAG-CACTCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAGC
1 ACTAGCCACTCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAGC
60464497 CACTCTTTTTCCACCACCAACTCC
66 CACTCTTTTTCCACCACCAACTCC
* *
60464521 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCAC-TCTTTTCCACCACCA
60464546 CTTGTACCTA
Statistics
Matches: 109, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
88 84 0.77
89 7 0.06
90 18 0.17
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.23
Consensus pattern (89 bp):
ACTAGCCACTCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAGC
CACTCTTTTTCCACCACCAACTCC
Found at i:60465153 original size:27 final size:27
Alignment explanation
Indices: 60465114--60465252 Score: 92
Period size: 25 Copynumber: 5.3 Consensus size: 27
60465104 TTTTAAATTT
**
60465114 TATATTACGTATATATATATTTTATAC
1 TATATTATTTATATATATATTTTATAC
* * * *
60465141 TATTTTA-TT-TATATATCTTTAATAT
1 TATATTATTTATATATATATTTTATAC
*
60465166 TATATTATTTATATATATATTTTTCTAC
1 TATATTATTTATATATATA-TTTTATAC
* * *
60465194 -ATGTTATCTTATGTATATATCTTA-AC
1 TATATTAT-TTATATATATATTTTATAC
* * * *
60465220 TATATTATGTATGTAT-T-TTTAACAC
1 TATATTATTTATATATATATTTTATAC
60465245 TATATTAT
1 TATATTAT
60465253 GTACATATTT
Statistics
Matches: 88, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
24 3 0.03
25 30 0.34
26 12 0.14
27 28 0.32
28 15 0.17
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (27 bp):
TATATTATTTATATATATATTTTATAC
Found at i:60465230 original size:22 final size:24
Alignment explanation
Indices: 60465202--60465260 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
60465192 ACATGTTATC
60465202 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
60465224 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
60465249 TTATGTACATAT
1 TTATGTATATAT
60465261 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:60465250 original size:25 final size:25
Alignment explanation
Indices: 60465218--60465266 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
60465208 ATATATCTTA
**
60465218 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
60465243 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
60465267 TATTATCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:60465450 original size:7 final size:8
Alignment explanation
Indices: 60465415--60465466 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
60465405 TAATTATTAT
*
60465415 TATTCTAA
1 TATTTTAA
*
60465423 TATTTTGA
1 TATTTTAA
60465431 TATTTTAA
1 TATTTTAA
60465439 TATTTT-A
1 TATTTTAA
60465446 TATTTTATA
1 TATTTTA-A
*
60465455 TATTTTAT
1 TATTTTAA
60465463 TATT
1 TATT
60465467 CACATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:60465457 original size:16 final size:15
Alignment explanation
Indices: 60465415--60465462 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
60465405 TAATTATTAT
*
60465415 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
60465431 TATTTTAATATTTTA
1 TATTTTAATATTTTA
60465446 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
60465462 T
1 T
60465463 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:60475443 original size:70 final size:70
Alignment explanation
Indices: 60475322--60475496 Score: 194
Period size: 70 Copynumber: 2.5 Consensus size: 70
60475312 CTTTCCAAGG
* ***
60475322 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTCTAATTT-T
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACACCGAGGTATTTCTAATTTAT
60475386 -TTTT
66 GTTTT
** * * *
60475390 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACCGAGGTATTTTTAGTTT
1 --AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACACCGAGGTATTTCTAATTT
60475455 ATGTTTT
64 ATGTTTT
** * *
60475462 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
60475497 TTTAATTTTT
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
69 31 0.34
70 54 0.60
71 1 0.01
72 4 0.04
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACACCGAGGTATTTCTAATTTAT
GTTTT
Found at i:60475634 original size:67 final size:69
Alignment explanation
Indices: 60475496--60475683 Score: 204
Period size: 69 Copynumber: 2.7 Consensus size: 69
60475486 GAGTTAAGCC
* * **
60475496 TTTTAATTTTTGTTTTTCAAATCAACTCATATTGCGAGAA-TGAGTTGAGCCTCAAGACACGTTG
1 TTTTAATTTATG--TTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCG
60475560 AGGTA-
64 AGGTAT
** *
60475565 TTTTAATTT-T-TTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGA
1 TTTTAATTTATGTTT-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGA
60475628 GGTAT
65 GGTAT
* * ** * *
60475633 TTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTAATTTATGTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
60475684 TTTAATTTTT
Statistics
Matches: 102, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
65 3 0.03
66 22 0.22
67 24 0.24
68 9 0.09
69 41 0.40
70 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (69 bp):
TTTTAATTTATGTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAG
GTAT
Found at i:60475790 original size:122 final size:122
Alignment explanation
Indices: 60475573--60475805 Score: 308
Period size: 122 Copynumber: 1.9 Consensus size: 122
60475563 TATTTTAATT
* ** *
60475573 TTTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
1 TTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTA
* ** ** *
60475638 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTG
66 ATTTATGTTAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTTTG
* **
60475695 TTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTA
1 TTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTT-
*
60475760 AATTT-T-TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
65 AATTTATGTT-AAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCT
60475806 CGGGGCACGC
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
121 2 0.02
122 89 0.94
123 4 0.04
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (122 bp):
TTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTA
ATTTATGTTAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTTTG
Found at i:60475840 original size:191 final size:191
Alignment explanation
Indices: 60475322--60476195 Score: 1504
Period size: 191 Copynumber: 4.6 Consensus size: 191
60475312 CTTTCCAAGG
* *
60475322 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTCTAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAA-ATTT
*
60475387 TTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACCGAGGTATTTTTAG
65 TTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
60475452 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
60475514 -AAATCAACTCATATTGCGAG-AATGAGTTGAGCCTCAAGACACGTTGAGGTA-TTTT-AATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
60475575 TTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
66 TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
60475640 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
60475701 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
60475766 TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
66 TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
60475831 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
60475892 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTGGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
** *
60475957 AAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 -TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
60476022 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
** * * * * *
60476084 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATT-
*
60476149 TGTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
64 T-TT-T--AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
60476196 AAGACACATT
Statistics
Matches: 650, Mismatches: 21, Indels: 17
0.94 0.03 0.02
Matches are distributed among these distances:
187 128 0.20
188 21 0.03
189 34 0.05
190 35 0.05
191 215 0.33
192 123 0.19
193 55 0.08
194 1 0.00
195 1 0.00
197 37 0.06
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (191 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:60476190 original size:74 final size:74
Alignment explanation
Indices: 60476084--60476501 Score: 505
Period size: 74 Copynumber: 5.5 Consensus size: 74
60476074 TTTGTTTTTC
*
60476084 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
60476149 TGTTGTCAA
66 TGTTGTCAA
* **
60476158 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
60476223 TGCTTTTCAA
66 TG-TTGTCAA
* * *
60476233 GAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA----
* ***
60476298 TGTTCAATTTATGTTTTTC
62 T-TTC--TGT-TG--TCAA
* *
60476317 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* ***
60476382 TGTTTTTTC
66 TGTTGTCAA
* * * *
60476391 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
60476456 TACTT-TCAA
66 T-GTTGTCAA
*
60476465 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
60476502 TGGCTCACGT
Statistics
Matches: 302, Mismatches: 30, Indels: 24
0.85 0.08 0.07
Matches are distributed among these distances:
74 164 0.54
75 67 0.22
76 1 0.00
77 2 0.01
79 4 0.01
80 4 0.01
81 1 0.00
82 2 0.01
84 57 0.19
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTGTCAA
Found at i:60476558 original size:233 final size:230
Alignment explanation
Indices: 60476079--60478274 Score: 2078
Period size: 233 Copynumber: 9.7 Consensus size: 230
60476069 TAATTTTTGT
60476079 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
* ** **
60476144 ATTTCTG-TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGA
65 ATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
*
60476208 GGTATTTTCAATTTCTGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
128 GGTATTTTCAATTTCTG-TTTTC-A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G
* * *
60476273 G---ACACGTTGAGGT-ATTTTCAATTCCTGTTCAATTTATGT-T-
189 GCTCACATGCTGAGGTCATTTTCAATTTCTGTT---TTTAT-TCTG
* *
60476313 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAA
1 TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
* *
60476378 TTTCTGTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGG
66 TTTCTG-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
* ** * *
60476443 TATTTTCAAATTCTACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGCTC
130 TATTTTCAATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTC
* * *
60476508 ACGTGTTGA-GTCACTTTCAATTTCTGTTTTTATGTCTG
193 ACATGCTGAGGTCATTTTCAATTTCTGTTTTTAT-TCTG
** * * *
60476546 TTTTCTAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGTTATTTTCCA
1 TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA------A
** * *
60476611 TTTCTGTTTTCGTTATTATGTTTTTGAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTC
60 TTTC-AATTTC-------TGTTTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
** * *
60476676 AGATTACACACTGTGG-----T--A--T-T-TTTTC---AAT----TCATATTGCGAGAGGTGAG
116 -G-GGACACGCTGAGGTATTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
* * *
60476723 TTGAGCCTCAGG---ACACGATGAGGT-AATTTCAATTTCTG------TT-TG
179 TTGAGCCTC-GGCTCACATGCTGAGGTCATTTTCAATTTCTGTTTTTATTCTG
* * *
60476765 --TCAAGAATCAACTCATATTGCGAGAGGT--G--G-G--T--TGA-AC-C-----T--TTT-AA
1 TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
* * * *
60476809 TTTCTACTTTTTC-AAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGG
66 TTTCT-GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
* * ** *
60476873 TATTTTCAATTTTTGTGTTT-TAATTTCAAGTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---
130 TATTTTCAATTTCTGT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTC
* * *
60476934 ACAAGCTGAGGT-ATTTTCAATTTTCGTTTTTTTAATTTATG
193 ACATGCTGAGGTCATTTTCAA-TTTC-TGTTTTT-A-TTCTG
* * *
60476975 TTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA--AGACGCTGAGGTAATTT
1 TTT---TAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
* *
60477038 CAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
63 CAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
* * * * * * * *
60477103 GGTGGTTTT-AATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGC
128 GGT-ATTTTCAATTTCTGTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC
**
60477167 TCACACACTGAGGT-ATTTTCAATTTCTGGTTTTTAATTTCTG
191 TCACATGCTGAGGTCATTTTCAATTTCT-GTTTTT-A-TTCTG
* *
60477209 TTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCTGAGGTAATTTCAA
1 TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
* * **
60477274 TTTCTGTTTGTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT
66 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGT
*
60477339 AATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCAC
131 ATTTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCAC
*
60477404 ATGCTGTGGTC-TTTTCAATTTCTGTTTTTCAATTTCTG
195 ATGCTGAGGTCATTTTCAATTTCTGTTTTT--A-TTCTG
* * * *
60477442 TTCGTAAAAAAAAATCAACTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
1 TT--T---TAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-A
* **
60477507 TTTAAATTTCTGTTTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
60 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
* * * *
60477572 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTTATATTGCGAGAGGTGAGTTAAGCCTCG
125 TGAGGTATTTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
60477637 GCTCACATGCTGAGGTC-TTTTCAATTTC------TATTC-G
189 GCTCACATGCTGAGGTCATTTTCAATTTCTGTTTTTATTCTG
*** *
60477671 TAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTT
1 T--TTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTT
* *
60477736 AAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
63 CAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
* * *
60477801 GGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGCT
128 GGTATTTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCT
60477866 CACATGCTGAGGTC-TTTTCAATTTCTG------TTC-G
192 CACATGCTGAGGTCATTTTCAATTTCTGTTTTTATTCTG
*** * *
60477897 TAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTA
1 T-TTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTTC
* *
60477962 AATTTCTGATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAG
64 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
* *
60478027 GTAATTTCAATTTCTGTTTGTC-AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTC
129 GTATTTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTC
60478091 ACATGCTGAGGTC-TTTTCAATTTCTG--TTT-TTC--
193 ACATGCTGAGGTCATTTTCAATTTCTGTTTTTATTCTG
** * *
60478123 --AAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAA
1 TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
* * * * *
60478186 TTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAG
66 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAG
* *
60478251 GTCTTTTTAATTTCTGCTTTTCAA
129 GTATTTTCAATTTCTG-TTTTCAA
60478275 TTTCTGTTTT
Statistics
Matches: 1695, Mismatches: 153, Indels: 237
0.81 0.07 0.11
Matches are distributed among these distances:
181 8 0.00
182 1 0.00
183 32 0.02
184 3 0.00
185 5 0.00
186 1 0.00
188 1 0.00
190 1 0.00
191 5 0.00
192 1 0.00
193 6 0.00
195 1 0.00
199 48 0.03
200 4 0.00
201 2 0.00
206 1 0.00
207 1 0.00
208 2 0.00
209 2 0.00
210 3 0.00
212 2 0.00
213 1 0.00
215 25 0.01
217 24 0.01
219 3 0.00
220 2 0.00
221 1 0.00
222 55 0.03
223 56 0.03
224 93 0.05
225 152 0.09
226 214 0.13
227 22 0.01
228 2 0.00
229 29 0.02
230 5 0.00
231 55 0.03
232 115 0.07
233 379 0.22
234 43 0.03
235 23 0.01
238 54 0.03
239 153 0.09
240 5 0.00
242 1 0.00
244 1 0.00
246 8 0.00
247 36 0.02
248 1 0.00
249 7 0.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (230 bp):
TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGT
ATTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACA
TGCTGAGGTCATTTTCAATTTCTGTTTTTATTCTG
Found at i:60476633 original size:85 final size:84
Alignment explanation
Indices: 60476466--60476677 Score: 218
Period size: 85 Copynumber: 2.5 Consensus size: 84
60476456 TACTTTCAAA
* * *
60476466 AAAATCAACTCATATTGCGAA-AGGTGAGTTGAGCCT-TGGCTCACGTGTTGAGTCACTTTCAAT
1 AAAATCAACTCATATTGC-AAGAGGTGAGTTGAGCCTCAGG--CACATGCTGAGTCACTTTCAAT
*
60476529 TTCTGTTTTTATGTCTGTTTTCT
63 TTCTGTTTTTATGTATGTTTT-T
* * *
60476552 -AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG-ACATGCTGAGTTATTTTCCATTTC
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCACATGCTGAGTCACTTTCAATTTC
60476615 TGTTTTCGTTAT-TATGTTTTT
66 TG-TTT--TTATGTATGTTTTT
* *
60476636 GAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 --AA-AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAG
60476678 ATTACACACT
Statistics
Matches: 108, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
83 21 0.19
84 6 0.06
85 39 0.36
86 6 0.06
87 1 0.01
88 35 0.32
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (84 bp):
AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCACATGCTGAGTCACTTTCAATTTC
TGTTTTTATGTATGTTTTT
Found at i:60476948 original size:72 final size:73
Alignment explanation
Indices: 60476831--60476971 Score: 221
Period size: 72 Copynumber: 1.9 Consensus size: 73
60476821 CAAAATCAGC
* * * *
60476831 TCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTG-TGTTTTA
1 TCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAAGCTGAGGTATTTTCAATTTTCGTTGTTTTA
60476895 ATTTCAAG
66 ATTTCAAG
* *
60476903 TCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAAGCTGAGGTATTTTCAATTTTCGTTTTTTTA
1 TCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAAGCTGAGGTATTTTCAATTTTCGTTGTTTTA
60476968 ATTT
66 ATTT
60476972 ATGTTTCAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 52 0.84
73 10 0.16
ACGTcount: A:0.23, C:0.13, G:0.25, T:0.39
Consensus pattern (73 bp):
TCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAAGCTGAGGTATTTTCAATTTTCGTTGTTTTA
ATTTCAAG
Found at i:60477142 original size:73 final size:73
Alignment explanation
Indices: 60476981--60478237 Score: 1130
Period size: 73 Copynumber: 16.6 Consensus size: 73
60476971 TATGTTTCAA
* *
60476981 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC--AAGACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGGTAATTTCAATTT
*
60477044 TTGTTTGT
66 CTGTTTGT
* * ** *
60477052 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTGGTTTTAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGGTAATTTCAATTT
* **
60477117 ATGTTCAT
66 CTGTTTGT
* * * * * * *
60477125 AAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACACTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--AACACGCTGAGGTAATTTCAAT
*
60477190 TTCTGGTTTTT
64 TTCT-GTTTGT
*
60477201 AATTTCTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCTGAGGT
1 AA-----------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGGT
60477266 AATTTCAATTTCTGTTTGT
55 AATTTCAATTTCTGTTTGT
* * *
60477285 CAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTC-AAGACACGCTGAGGTAATTTCAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGA-ACACGCTGAGGTAATTTCAATT
60477349 TCTGTTTGT
65 TCTGTTTGT
* * * * **
60477358 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGTGGTCTTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--AACACGCTGAGGTAATTTCAAT
*
60477423 TTCTGTTTTT
64 TTCTGTTTGT
** * ** ** ** *
60477433 CAATTTCTGTTCGTAAAAAAAAATCA-ACTT-ATATTGCGAAAGGTGAGTTGAGCCTCAGG-ACA
1 -AA-----------AAAATCAACTCATA-TTGCGAGAG-GTGAGTTGAG-----CCTC-GGAACA
* * *
60477495 CGCTGAGGTATTTTTAAATTTCTGTTTTT
46 CGCTGAGGTA-ATTTCAATTTCTGTTTGT
* ** *
60477524 CAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGGTAATTTCAATTT
60477589 CTGTTTGT
66 CTGTTTGT
* * * * * * **
60477597 CAAAAATTAACTTATATTGCGAGAGGTGAGTTAAGCCTCGGCTCACATGCTGAGGTCTTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--AACACGCTGAGGTAATTTCAAT
* *
60477662 TTCTATTCGT
64 TTCTGTTTGT
*
60477672 AAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTTTT
1 ----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAACACGCTGAGGTA-ATTT
* * *
60477736 AAATTTCTATTTTT
60 CAATTTCTGTTTGT
* *
60477750 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGGTAATTTCAATTT
60477815 CTGTTTGT
66 CTGTTTGT
* * * * * **
60477823 CAAAAATTAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGCTCACATGCTGAGGTCTTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--AACACGCTGAGGTAATTTCAAT
*
60477888 TTCTGTTCGT
64 TTCTGTTTGT
* *
60477898 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTTTTA
1 ---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAACACGCTGAGGTA-ATTTC
60477962 AATTTCTGATTT-T
61 AATTTCTG-TTTGT
* * *
60477975 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGGTAATTTCAATTT
60478040 CTGTTTGT
66 CTGTTTGT
* * * * **
60478048 -CAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--AACACGCTGAGGTAATTTCAAT
*
60478112 TTCTGTTTTT
64 TTCTGTTTGT
* *
60478122 CAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAAT
1 --AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGGTAATTTCAAT
60478187 TTCTGTTTGT
64 TTCTGTTTGT
* * *
60478197 CAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGG
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
60478238 CTCACATGCT
Statistics
Matches: 986, Mismatches: 132, Indels: 134
0.79 0.11 0.11
Matches are distributed among these distances:
71 37 0.04
72 42 0.04
73 326 0.33
74 146 0.15
75 126 0.13
76 18 0.02
77 61 0.06
78 53 0.05
79 54 0.05
80 5 0.01
84 6 0.01
85 23 0.02
86 3 0.00
87 52 0.05
90 11 0.01
91 17 0.02
92 4 0.00
93 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGGTAATTTCAATTT
CTGTTTGT
Found at i:60477213 original size:13 final size:14
Alignment explanation
Indices: 60477182--60477215 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
60477172 CACTGAGGTA
*
60477182 TTTTCAATTTCTGG
1 TTTTTAATTTCTGG
60477196 TTTTTAATTTCT-G
1 TTTTTAATTTCTGG
60477209 TTTTTAA
1 TTTTTAA
60477216 AATCAACTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.65
Consensus pattern (14 bp):
TTTTTAATTTCTGG
Found at i:60477434 original size:14 final size:14
Alignment explanation
Indices: 60477415--60477443 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
60477405 TGCTGTGGTC
60477415 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
60477429 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
60477443 T
1 T
60477444 CGTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:60477552 original size:74 final size:72
Alignment explanation
Indices: 60477451--60478274 Score: 966
Period size: 74 Copynumber: 11.0 Consensus size: 72
60477441 GTTCGTAAAA
* * *
60477451 AAAAATCAACTTATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTA-TTTTCAATTT
60477516 CTGTTTTTC
64 CTGTTTTTC
** *
60477525 AAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTCAATTTC
*
60477590 TGTTTGTC
65 TGTTTTTC
* * * * *
60477598 AAAAATTAACTTATATTGCGAGAGGTGAGTTAAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTCAATT
* ***
60477663 TCTATTCGTAAAAA
63 TCTGTT--T--TTC
*
60477677 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTA-TTTTCAATTT
*
60477742 CTATTTTTC
64 CTGTTTTTC
*
60477751 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTCAATTTC
*
60477816 TGTTTGTC
65 TGTTTTTC
* * * *
60477824 AAAAATTAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTCAATT
***
60477889 TCTGTTCGTAAAA
63 TCTGTT--T-TTC
*
60477902 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTA-TTTTCAATTT
*
60477967 CTGATTTTC
64 CTGTTTTTC
* *
60477976 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTCAATTTC
*
60478041 TGTTTGTC
65 TGTTTTTC
* * *
60478049 -AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTCAATT
60478113 TCTGTTTTTC
63 TCTGTTTTTC
* *
60478123 AAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTCAATT
*
60478188 TCTGTTTGTC
63 TCTGTTTTTC
* * * * *
60478198 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTCAATT
*
60478263 TCTGCTTTTC
63 TCTGTTTTTC
60478273 AA
1 AA
60478275 TTTCTGTTTT
Statistics
Matches: 649, Mismatches: 74, Indels: 53
0.84 0.10 0.07
Matches are distributed among these distances:
71 2 0.00
72 42 0.06
73 152 0.23
74 183 0.28
75 106 0.16
76 12 0.02
77 61 0.09
78 52 0.08
79 37 0.06
80 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTCAATTTCT
GTTTTTC
Found at i:60477854 original size:465 final size:461
Alignment explanation
Indices: 60476807--60478237 Score: 1901
Period size: 465 Copynumber: 3.1 Consensus size: 461
60476797 TGAACCTTTT
* * * *
60476807 AATTTCTACTTTTTC-AAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
1 AATTTCTA-TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
* * * * *
60476871 GGTATTTTCAATTTTTGTGTT-T--TAATTTCAAGTCATATTGCGAGAGGTGAGTTGAGCCTCAG
65 GGTAATTTCAATTTCTGT-TTGTCAAAAATT-AACTCATATTGCGAGAGGTGAGTTGAGCCTC-G
* * * *
60476933 G---ACAAGCTGAGGTATTTTCAATTT-TCGTTTTTTTAATTTATGTT--TCAAAAAAAATCAAC
127 GCTCACATGCTGAGGT-TTTTCAATTTCT-G-TTTTTCAATTTCTGTTCGTAAAAAAAAATCAAC
* * * * *
60476992 TCATATTGCGAGAA-GTGAGTTGAGCCTCA--AGACGCTGAGGTA-ATTTCAATTTTTGTTTGTC
189 TCATATTGCGA-AAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTC
** * *
60477053 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTGGTTTTAATTTA
253 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
** * * * * ** *
60477118 TGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACACTGAGGTAT
318 TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCT
****
60477183 TTTCAATTTCTGGTTTTTAATTTCTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
383 TTTCAATTTCT-G--TTTAA-------AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
60477248 CTCAGAACACGCTGAGGTAATTTC
438 CTCAGGACACGCTGAGGTAATTTC
* * **
60477272 AATTTCTGTTTGTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
1 AATTTCTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
*
60477337 GTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTC
66 GTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTC
* *
60477402 ACATGCTGTGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAAAAATCAACTTATAT
131 ACATGCTGAGGT-TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATAT
*
60477467 TGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATT
195 TGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATC
*
60477532 GACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGT
260 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGT
* *
60477597 CAAAAATTAACTTATATTGCGAGAGGTGAGTTAAGCCTCGGCTCACATGCTGAGGTCTTTTCAAT
325 CAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAAT
*
60477662 TTCTATTCGTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
390 TTCTGTT--TAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
* *
60477727 GGTATTTTTA
453 GGTA-ATTTC
*
60477737 AATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
1 AATTTCTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
*
60477802 GTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGCTC
66 GTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTC
60477867 ACATGCTGAGG----------TC---TTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATT
131 ACATGCTGAGGTTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATT
* *
60477919 GCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGATTTTCAAAAATCA
196 GCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCA
*
60477984 ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTAATTTCAATTTCTGTTTGTC
261 ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
60478049 -AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
326 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
*** * *
60478113 TCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGT
391 TCTGTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
60478178 AATTTC
456 AATTTC
* * *
60478184 AATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGG
1 AATTTCTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
60478238 CTCACATGCT
Statistics
Matches: 870, Mismatches: 79, Indels: 52
0.87 0.08 0.05
Matches are distributed among these distances:
447 53 0.06
448 55 0.06
450 67 0.08
451 163 0.19
454 2 0.00
464 59 0.07
465 205 0.24
466 30 0.03
467 17 0.02
468 23 0.03
469 42 0.05
471 15 0.02
472 139 0.16
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (461 bp):
AATTTCTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
GTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTC
ACATGCTGAGGTTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATT
GCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCA
ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
TCTGTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
AATTTC
Found at i:60478046 original size:225 final size:225
Alignment explanation
Indices: 60477429--60478237 Score: 1394
Period size: 226 Copynumber: 3.6 Consensus size: 225
60477419 CAATTTCTGT
*
60477429 TTTTCAATTTCTGTTCGTAAAAAAAAATCAACTTATATTGCGAAAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGAC
* **
60477494 ACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTTGAG
66 ACGCTGAGGTATTTTTAAATTTCTGATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
60477559 CCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTTATATTGCGAGAGGT
131 CCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGT
60477624 GAGTTAAGCCTCGGCTCACATGCTGAGGTC
196 GAGTTAAGCCTCGGCTCACATGCTGAGGTC
* *
60477654 TTTTCAATTTCTATTCGTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1 TTTTCAATTTCTGTTCGT-AAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGA
60477719 CACGCTGAGGTATTTTTAAATTTCT-ATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
65 CACGCTGAGGTATTTTTAAATTTCTGA-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
60477783 AGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAG
129 AGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAG
60477848 GTGAGTTAAGCCTCGGCTCACATGCTGAGGTC
194 GTGAGTTAAGCCTCGGCTCACATGCTGAGGTC
*
60477880 TTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGAC
60477945 ACGCTGAGGTATTTTTAAATTTCTGATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
66 ACGCTGAGGTATTTTTAAATTTCTGATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
60478010 CCTCGGGACATGCTGAGGTAATTTCAATTTCTGTTTGTC-AAAATTAACTCATATTGCGAGAGGT
131 CCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGT
*
60478074 GAGTTGAGCCTCGGCTCACATGCTGAGGTC
196 GAGTTAAGCCTCGGCTCACATGCTGAGGTC
* ** *
60478104 TTTTCAATTTCTGTT-TTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGAC
1 TTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGAC
* * *
60478168 ACGCTGAGGTA-ATTTCAATTTCTG-TTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGA
66 ACGCTGAGGTATTTTTAAATTTCTGATTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
60478231 GTCTCGG
130 GCCTCGG
60478238 CTCACATGCT
Statistics
Matches: 561, Mismatches: 19, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
221 3 0.01
222 51 0.09
223 55 0.10
224 69 0.12
225 165 0.29
226 218 0.39
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (225 bp):
TTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGAC
ACGCTGAGGTATTTTTAAATTTCTGATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGT
GAGTTAAGCCTCGGCTCACATGCTGAGGTC
Found at i:60478276 original size:14 final size:15
Alignment explanation
Indices: 60478251--60478292 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
60478241 ACATGCTGAG
*
60478251 GTCTTTTTAATTTCT
1 GTCTTTTCAATTTCT
60478266 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
60478280 GTTTTTTCAATTT
1 GTCTTTTCAATTT
60478293 ATATTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:60478288 original size:15 final size:14
Alignment explanation
Indices: 60478254--60478303 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
60478244 TGCTGAGGTC
60478254 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
60478267 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
60478281 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTG
60478296 TTTTTCAA
1 TTTTTCAA
60478304 AAATCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:60479085 original size:30 final size:30
Alignment explanation
Indices: 60479049--60479222 Score: 278
Period size: 30 Copynumber: 5.8 Consensus size: 30
60479039 ACTTTTCTCA
*
60479049 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
60479079 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
60479109 ACTAG-CACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
60479138 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* * *
60479168 ACTAGCCACTCTTTTTCCACCACTAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
60479198 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
60479223 CTTGTACCTA
Statistics
Matches: 131, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
29 27 0.21
30 104 0.79
ACGTcount: A:0.25, C:0.48, G:0.03, T:0.23
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:60479124 original size:59 final size:60
Alignment explanation
Indices: 60479049--60479222 Score: 314
Period size: 59 Copynumber: 2.9 Consensus size: 60
60479039 ACTTTTCTCA
*
60479049 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
60479109 ACTAG-CACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
* *
60479168 ACTAGCCACTCTTTTTCCACCACTAACTCCACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCA
60479223 CTTGTACCTA
Statistics
Matches: 110, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
59 58 0.53
60 52 0.47
ACGTcount: A:0.25, C:0.48, G:0.03, T:0.23
Consensus pattern (60 bp):
ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:60479200 original size:89 final size:90
Alignment explanation
Indices: 60479049--60479222 Score: 278
Period size: 89 Copynumber: 1.9 Consensus size: 90
60479039 ACTTTTCTCA
*
60479049 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
1 ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
* * *
60479114 -CACTCTTTTTCCACCACCAACTCC
66 CCACACCTTCTCCACCACCAACTCC
* * *
60479138 ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACTCTTTTTCCACCACTAACTCCACTAG
1 ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
60479203 CCACACCTTCTCCACCACCA
66 CCACACCTTCTCCACCACCA
60479223 CTTGTACCTA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 61 0.79
90 16 0.21
ACGTcount: A:0.25, C:0.48, G:0.03, T:0.23
Consensus pattern (90 bp):
ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
CCACACCTTCTCCACCACCAACTCC
Found at i:60479345 original size:29 final size:29
Alignment explanation
Indices: 60479303--60479359 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
60479293 TTTTGTATAT
60479303 GGGGAGGGGGATTTTTTTGGAGAGTTTTA
1 GGGGAGGGGGATTTTTTTGGAGAGTTTTA
60479332 GGGG-GGGAGGATTTTTTTGGAGAGTTTT
1 GGGGAGGG-GGATTTTTTTGGAGAGTTTT
60479360 TGGGAGAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 3 0.11
29 24 0.89
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.39
Consensus pattern (29 bp):
GGGGAGGGGGATTTTTTTGGAGAGTTTTA
Found at i:60479836 original size:14 final size:13
Alignment explanation
Indices: 60479817--60479873 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 13
60479807 ATATATATAT
60479817 TTTATACTATTTTA
1 TTTATA-TATTTTA
60479831 TTTATATATCTTTAA
1 TTTATATAT-TTT-A
60479846 TATTATATTATTTATA
1 T-TTATA-TATTT-TA
*
60479862 TATATATATTTT
1 TTTATATATTTT
60479874 TCTACATGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
13 4 0.11
14 14 0.38
15 6 0.16
16 9 0.24
17 4 0.11
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTATATATTTTA
Found at i:60479836 original size:25 final size:25
Alignment explanation
Indices: 60479808--60479866 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
60479798 ATATTACGTA
* *
60479808 TATATATATTTTATACTATTTTATT
1 TATATATATTTAATACTATATTATT
* *
60479833 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATT
60479858 TATATATAT
1 TATATATAT
60479867 ATATTTTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATT
Found at i:60479836 original size:27 final size:26
Alignment explanation
Indices: 60479797--60479868 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 26
60479787 TTTTAAATTT
* *
60479797 TATATTACGTATATATATATTTTATAC
1 TATATTA-TTATATATATATTTAATAC
* * *
60479824 TATTTTATT-TATATATCTTTAATAT
1 TATATTATTATATATATATTTAATAC
60479849 TATATTATTTATATATATAT
1 TATATTA-TTATATATATAT
60479869 ATTTTTCTAC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
25 19 0.53
26 3 0.08
27 14 0.39
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (26 bp):
TATATTATTATATATATATTTAATAC
Found at i:60479915 original size:22 final size:24
Alignment explanation
Indices: 60479887--60479945 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
60479877 ACATGTTATC
60479887 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
60479909 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
60479934 TTATGTACATAT
1 TTATGTATATAT
60479946 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:60479935 original size:25 final size:25
Alignment explanation
Indices: 60479903--60479951 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
60479893 ATATATCTTA
**
60479903 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
60479928 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
60479952 TATTATCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:60480124 original size:16 final size:15
Alignment explanation
Indices: 60480100--60480147 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
60480090 TAATTATTAT
*
60480100 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
60480116 TATTTTAATATTTTA
1 TATTTTAATATTTTA
60480131 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
60480147 T
1 T
60480148 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:60480135 original size:7 final size:8
Alignment explanation
Indices: 60480100--60480151 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
60480090 TAATTATTAT
*
60480100 TATTCTAA
1 TATTTTAA
*
60480108 TATTTTGA
1 TATTTTAA
60480116 TATTTTAA
1 TATTTTAA
60480124 TATTTT-A
1 TATTTTAA
60480131 TATTTTATA
1 TATTTTA-A
*
60480140 TATTTTAT
1 TATTTTAA
60480148 TATT
1 TATT
60480152 CACATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:60480793 original size:18 final size:18
Alignment explanation
Indices: 60480772--60480806 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
60480762 TACATCTATA
*
60480772 TATATATGTACATATTTT
1 TATATATATACATATTTT
60480790 TATATATATACATATTT
1 TATATATATACATATTT
60480807 ATTTTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (18 bp):
TATATATATACATATTTT
Found at i:60491432 original size:9 final size:9
Alignment explanation
Indices: 60491418--60491475 Score: 71
Period size: 9 Copynumber: 6.4 Consensus size: 9
60491408 GTAGTGATTC
60491418 AATTCGGTT
1 AATTCGGTT
**
60491427 AATTCGAAT
1 AATTCGGTT
*
60491436 AATTCGGGT
1 AATTCGGTT
*
60491445 AATTCGGAT
1 AATTCGGTT
*
60491454 AATTCAGTT
1 AATTCGGTT
60491463 AATTCGGTT
1 AATTCGGTT
60491472 AATT
1 AATT
60491476 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:60491469 original size:18 final size:18
Alignment explanation
Indices: 60491418--60491475 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
60491408 GTAGTGATTC
*
60491418 AATTCGGTTAATTCGAAT
1 AATTCGGTTAATTCGGAT
*
60491436 AATTCGGGTAATTCGGAT
1 AATTCGGTTAATTCGGAT
* *
60491454 AATTCAGTTAATTCGGTT
1 AATTCGGTTAATTCGGAT
60491472 AATT
1 AATT
60491476 TTTAACCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (18 bp):
AATTCGGTTAATTCGGAT
Found at i:60502996 original size:71 final size:72
Alignment explanation
Indices: 60502908--60503046 Score: 210
Period size: 71 Copynumber: 1.9 Consensus size: 72
60502898 CAAAATCAGC
* * *
60502908 TCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA-TTTCAATTTTTG-TGTTTTA
1 TCATATTGCAAGAGGTGAGTTGAGCCTCAGGACA-GCTGAGGTATTTTCAATTTTCGTTGTTTTA
60502971 ATTTCAAG
65 ATTTCAAG
* *
60502979 TCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAGCTGAGGTATTTTCAATTTTCGTTTTTTTAA
1 TCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAGCTGAGGTATTTTCAATTTTCGTTGTTTTAA
60503044 TTT
66 TTT
60503047 ATGTTTCAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
70 9 0.15
71 42 0.69
72 10 0.16
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (72 bp):
TCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAGCTGAGGTATTTTCAATTTTCGTTGTTTTAA
TTTCAAG
Found at i:60503188 original size:72 final size:69
Alignment explanation
Indices: 60503057--60503259 Score: 200
Period size: 71 Copynumber: 2.9 Consensus size: 69
60503047 ATGTTTCAAA
*
60503057 AAAAAATCAACTCATATTGCGAGA-GTGAG-TGAGCCTCAGACGCTGAGGTAATTTCAATTTTTG
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACACGCTGAGGTAATTTCAA-TTTTG
**
60503120 TTTGT
65 TTCAT
* ** *
60503125 CAAAAATCAACTCATA-TGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTGGTTTTAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC---ACACGCTGAGGTAATTTCAATTT
60503189 TGTTCAT
63 TGTTCAT
* * * *
60503196 AAAAAATTAGCTCATATTGCAAGAGG-GAGTTGAGCCTGGCTCACACACTGAGGT-ATTTCAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-C---CTCACACGCTGAGGTAATTTCAATT
60503259 T
62 T
60503260 CTGGTTTTTA
Statistics
Matches: 111, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
67 7 0.06
68 20 0.18
69 8 0.07
71 37 0.33
72 36 0.32
75 3 0.03
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (69 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACACGCTGAGGTAATTTCAATTTTGT
TCAT
Found at i:60503592 original size:73 final size:73
Alignment explanation
Indices: 60503424--60504223 Score: 908
Period size: 72 Copynumber: 10.8 Consensus size: 73
60503414 AAAAATCAAC
* * *
60503424 TATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTT-TC-AAA
1 TATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-TTTTCAATTTCTGTTTGTCAAAA
**
60503487 ATTGACTCA
65 ATCAACTCA
*
60503496 TATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAA
1 TATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTGTTTGTCAAAAA
* *
60503561 TTAACTTA
66 TCAACTCA
* * * * * *
60503569 TATTGCGAGAGGTGAGTTAAGCCTCGGCTCACATGCTGAGGTCTTTTC-ATTTCTATTCGTAAAA
1 TATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATTTCTGTTTGT----
*
60503633 AAAAAATCAACTCA
60 CAAAAATCAACTCA
* * * *
60503647 TATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTATTTTTCAAAA
1 TATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-TTTTCAATTTCTGTTTGTCAAAA
60503712 ATCAACTCA
65 ATCAACTCA
*
60503721 TATTGCGAGAGGTGAGTTGAG-CTCGGGACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAAA
1 TATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTGTTTGTCAAAAA
*
60503784 TTAACTCA
66 TCAACTCA
* * * * * *
60503792 TATTGCGAGAGGTGAGTTAAGCCTCGGCTCACATGCTGA-GT-CTTTCAATTTCTGTTCGTAAAA
1 TATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATTTCTGTTTGT---C
60503855 AAAAATCAACTCA
61 AAAAATCAACTCA
* *
60503868 TATTGCGAGAGGTGAGTTGAGCCTC-AGACACGCTGAGGTATTTTTAAATTT-TGATTT-TCAAA
1 TATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-TTTTCAATTTCTG-TTTGTCAAA
60503930 AATCAACTCA
64 AATCAACTCA
* *
60503940 TATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAA
1 TATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTGTTTGTCAAAAA
*
60504005 TTAACTCA
66 TCAACTCA
* * * *
60504013 TATTGCGAGA-GTGAGTTGAG-CTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTTTTCAAA
1 TATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATTTCTGTTTGTC--A
60504076 AAAATCAACTCA
62 AAAATCAACTCA
* *
60504088 TATTGCGAAAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAA
1 TATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTGTTTGTCAAAAA
*
60504152 TTAACTCA
66 TCAACTCA
* * * * *
60504160 TATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGCTTT-TCAA
1 TATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATTTCTG-TTTGTCAA
60504224 TTTCTGTTTT
Statistics
Matches: 624, Mismatches: 70, Indels: 65
0.82 0.09 0.09
Matches are distributed among these distances:
71 55 0.09
72 162 0.26
73 136 0.22
74 82 0.13
75 65 0.10
76 71 0.11
77 7 0.01
78 46 0.07
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (73 bp):
TATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTGTTTGTCAAAAA
TCAACTCA
Found at i:60503994 original size:220 final size:224
Alignment explanation
Indices: 60503392--60504186 Score: 1282
Period size: 220 Copynumber: 3.6 Consensus size: 224
60503382 CAATTTCTGT
60503392 TTTTCAATTTCTGGTTCGT-AAAAAAAATCAA--C-TATTGCGAAAGGTGAGTTGAGCCTCAGGA
1 TTTTCAATTTCT-GTTCGTAAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGA
**
60503453 CACGCTGAGGTATTTTTAAATTTCTGTTTTC-AAAATTGACTCATATTGCGAGAGGTGAGTTGAG
65 CACGCTGAGGTATTTTTAAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
60503517 CCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTTATATTGCGAGAGGT
130 CCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGT
60503582 GAGTTAAGCCTCGGCTCACATGCTGAGGTC
195 GAGTTAAGCCTCGGCTCACATGCTGAGGTC
* *
60503612 TTTTC-ATTTCTATTCGTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1 TTTTCAATTTCTGTTCGT-AAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGA
*
60503676 CACGCTGAGGTATTTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
65 CACGCTGAGGTATTTTTAAATTTCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
60503741 G-CTCGGGACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAAATTAACTCATATTGCGAGAGG
129 GCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGG
60503804 TGAGTTAAGCCTCGGCTCACATGCTGA-GTC
194 TGAGTTAAGCCTCGGCTCACATGCTGAGGTC
*
60503834 -TTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GAC
1 TTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGAC
60503897 ACGCTGAGGTATTTTTAAATTT-TGATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
66 ACGCTGAGGTATTTTTAAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
60503961 CCTCGGGACATGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGA-GT
130 CCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGT
*
60504025 GAGTTGAG-CTCGGCTCACATGCTGAGGTC
195 GAGTTAAGCCTCGGCTCACATGCTGAGGTC
* **
60504054 TTTTCAATTTCTGTT-TTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTC-GGAC
1 TTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGAC
* * *
60504117 ACGCTGAGGTA-ATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
66 ACGCTGAGGTATTTTTAAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
60504181 TCTCGG
130 CCTCGG
60504187 CTCACATGCT
Statistics
Matches: 541, Mismatches: 18, Indels: 32
0.92 0.03 0.05
Matches are distributed among these distances:
218 5 0.01
219 74 0.14
220 181 0.33
221 89 0.16
222 15 0.03
223 109 0.20
224 37 0.07
225 31 0.06
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (224 bp):
TTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGAC
ACGCTGAGGTATTTTTAAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
CTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTG
AGTTAAGCCTCGGCTCACATGCTGAGGTC
Found at i:60504225 original size:14 final size:15
Alignment explanation
Indices: 60504200--60504241 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
60504190 ACATGCTGAG
*
60504200 GTCTTTTTAATTTCT
1 GTCTTTTCAATTTCT
60504215 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
60504229 GTTTTTTCAATTT
1 GTCTTTTCAATTT
60504242 ATATTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:60504237 original size:15 final size:14
Alignment explanation
Indices: 60504203--60504252 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
60504193 TGCTGAGGTC
60504203 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
60504216 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
60504230 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTG
60504245 TTTTTCAA
1 TTTTTCAA
60504253 AAATCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:60505031 original size:30 final size:30
Alignment explanation
Indices: 60504995--60505167 Score: 269
Period size: 30 Copynumber: 5.8 Consensus size: 30
60504985 ACTTTTCTCA
*
60504995 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
60505025 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
60505055 ACTAG-CACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
60505084 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* * *
60505114 ACTAGCCACTCTTTTTCCACCACTAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
60505144 ACTAGCCACACCTTCTCCA-CACCA
1 ACTAGCCACACCTTTTCCACCACCA
60505168 CTTGTACCTA
Statistics
Matches: 130, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
29 31 0.24
30 99 0.76
ACGTcount: A:0.25, C:0.48, G:0.03, T:0.23
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:60505070 original size:59 final size:60
Alignment explanation
Indices: 60504995--60505167 Score: 305
Period size: 59 Copynumber: 2.9 Consensus size: 60
60504985 ACTTTTCTCA
*
60504995 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
60505055 ACTAG-CACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
* *
60505114 ACTAGCCACTCTTTTTCCACCACTAACTCCACTAGCCACACCTTCTCCA-CACCA
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCA
60505168 CTTGTACCTA
Statistics
Matches: 109, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
59 63 0.58
60 46 0.42
ACGTcount: A:0.25, C:0.48, G:0.03, T:0.23
Consensus pattern (60 bp):
ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:60505167 original size:89 final size:89
Alignment explanation
Indices: 60504995--60505167 Score: 267
Period size: 89 Copynumber: 1.9 Consensus size: 89
60504985 ACTTTTCTCA
*
60504995 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
1 ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
* * *
60505060 CACTCTTTTTCCACCACCAACTCC
66 CACACCTTCTCCACCACCAACTCC
* * *
60505084 ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACTCTTTTTCCACCACTAACTCCACTAG
1 ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
60505149 CCACACCTTCTCCA-CACCA
66 -CACACCTTCTCCACCACCA
60505168 CTTGTACCTA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
89 66 0.87
90 10 0.13
ACGTcount: A:0.25, C:0.48, G:0.03, T:0.23
Consensus pattern (89 bp):
ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
CACACCTTCTCCACCACCAACTCC
Found at i:60505778 original size:14 final size:13
Alignment explanation
Indices: 60505759--60505817 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 13
60505749 CGTATATATA
60505759 TATTTATACTATTT
1 TATTTATA-TATTT
60505773 TATTTATATATCTT
1 TATTTATATAT-TT
60505787 TAATATTATATTATTT
1 T-AT-TTATA-TATTT
*
60505803 ATATATATATATTT
1 -TATTTATATATTT
60505817 T
1 T
60505818 TCTACATGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
13 4 0.10
14 16 0.41
15 6 0.15
16 9 0.23
17 4 0.10
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTTATATATTT
Found at i:60505859 original size:22 final size:24
Alignment explanation
Indices: 60505831--60505889 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
60505821 ACATGTTATC
60505831 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
60505853 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
60505878 TTATGTACATAT
1 TTATGTATATAT
60505890 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:60505879 original size:25 final size:25
Alignment explanation
Indices: 60505847--60505895 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
60505837 ATATATCTTA
**
60505847 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
60505872 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
60505896 TATTATCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:60506067 original size:16 final size:15
Alignment explanation
Indices: 60506043--60506089 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
60506033 TAATTATTAT
*
60506043 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
60506059 TATTTTAATA-TTTA
1 TATTTTAATATTTTA
60506073 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
60506089 T
1 T
60506090 TATTCACATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 8 0.29
15 6 0.21
16 14 0.50
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:60506077 original size:14 final size:14
Alignment explanation
Indices: 60506043--60506090 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
60506033 TAATTATTAT
*
60506043 TATTCTAATATTTTGA
1 TATTTTAATA-TTT-A
60506059 TATTTTAATATTTA
1 TATTTTAATATTTA
60506073 TATTTTATATATTT-
1 TATTTTA-ATATTTA
60506087 TATT
1 TATT
60506091 ATTCACATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 12 0.40
15 9 0.30
16 9 0.30
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (14 bp):
TATTTTAATATTTA
Found at i:60506087 original size:23 final size:22
Alignment explanation
Indices: 60506050--60506093 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
60506040 TATTATTCTA
60506050 ATATTTTGATATTTTAATATTT
1 ATATTTTGATATTTTAATATTT
* *
60506072 ATATTTTATATATTTTATTATT
1 ATATTTT-GATATTTTAATATT
60506094 CACATCATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
ATATTTTGATATTTTAATATTT
Found at i:60506736 original size:18 final size:18
Alignment explanation
Indices: 60506715--60506749 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
60506705 TACATCTATA
*
60506715 TATATATGTACATATTTT
1 TATATATATACATATTTT
60506733 TATATATATACATATTT
1 TATATATATACATATTT
60506750 ATTTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (18 bp):
TATATATATACATATTTT
Found at i:60517704 original size:9 final size:9
Alignment explanation
Indices: 60517690--60517747 Score: 71
Period size: 9 Copynumber: 6.4 Consensus size: 9
60517680 GTAGTGATTC
60517690 AATTCGGTT
1 AATTCGGTT
**
60517699 AATTCGAAT
1 AATTCGGTT
*
60517708 AATTCGGGT
1 AATTCGGTT
*
60517717 AATTCGGAT
1 AATTCGGTT
*
60517726 AATTCAGTT
1 AATTCGGTT
60517735 AATTCGGTT
1 AATTCGGTT
60517744 AATT
1 AATT
60517748 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:60517741 original size:18 final size:18
Alignment explanation
Indices: 60517690--60517747 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
60517680 GTAGTGATTC
*
60517690 AATTCGGTTAATTCGAAT
1 AATTCGGTTAATTCGGAT
*
60517708 AATTCGGGTAATTCGGAT
1 AATTCGGTTAATTCGGAT
* *
60517726 AATTCAGTTAATTCGGTT
1 AATTCGGTTAATTCGGAT
60517744 AATT
1 AATT
60517748 TTTAACCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (18 bp):
AATTCGGTTAATTCGGAT
Found at i:60522609 original size:17 final size:17
Alignment explanation
Indices: 60522589--60522622 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
60522579 AATAATTATT
60522589 AAATA-TTAAATAAAATA
1 AAATATTTAAA-AAAATA
60522606 AAATATTTAAAAAAATA
1 AAATATTTAAAAAAATA
60522623 TGGGTTGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATATTTAAAAAAATA
Found at i:60531399 original size:14 final size:14
Alignment explanation
Indices: 60531380--60531411 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
60531370 GGCATCACTG
60531380 TTTCGTACAATATT
1 TTTCGTACAATATT
*
60531394 TTTCGTACAATCTT
1 TTTCGTACAATATT
60531408 TTTC
1 TTTC
60531412 CTCGCGTCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (14 bp):
TTTCGTACAATATT
Found at i:60531812 original size:54 final size:54
Alignment explanation
Indices: 60531730--60531887 Score: 253
Period size: 54 Copynumber: 2.9 Consensus size: 54
60531720 TGTTATCTTG
*
60531730 GCCTGTGATCACAAGATGAATGGAAAGAGTTTTTGAGTTGAAGGACTTGCCTGT
1 GCCTGTGATCACAAGATGAATGGAAAGAGTTTTTGAGTTGAAGGACTTGCCTGC
* ** * *
60531784 GCCTGTGATCACAAGGTGAATGGAAAGAGCCTCTGAGTTGAAGGAGTTGCCTGC
1 GCCTGTGATCACAAGATGAATGGAAAGAGTTTTTGAGTTGAAGGACTTGCCTGC
*
60531838 GCCTGTGATCACAAGATGAATGGAAAGAGTTCTTGAGTTGAAGGACTTGC
1 GCCTGTGATCACAAGATGAATGGAAAGAGTTTTTGAGTTGAAGGACTTGC
60531888 TTGTATAAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 92 1.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (54 bp):
GCCTGTGATCACAAGATGAATGGAAAGAGTTTTTGAGTTGAAGGACTTGCCTGC
Found at i:60538550 original size:24 final size:23
Alignment explanation
Indices: 60538497--60538564 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
60538487 CCATGACTGA
*
60538497 ATTTGGTTTAGATTTATTTTGATG
1 ATTT-GTTTAAATTTATTTTGATG
* *
60538521 AATTGTTTAAATATTATTTTGATT
1 ATTTGTTTAAAT-TTATTTTGATG
60538545 ATTTG-TTAATATTTACTTTT
1 ATTTGTTTAA-ATTTA-TTTT
60538565 AAAAATTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
23 14 0.38
24 23 0.62
ACGTcount: A:0.26, C:0.01, G:0.12, T:0.60
Consensus pattern (23 bp):
ATTTGTTTAAATTTATTTTGATG
Found at i:60542013 original size:17 final size:18
Alignment explanation
Indices: 60541988--60542021 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
60541978 TTACTACTAT
60541988 TATTAATTTT-TTTGATA
1 TATTAATTTTGTTTGATA
*
60542005 TATTTATTTTGTTTGAT
1 TATTAATTTTGTTTGAT
60542022 TTTCCTCAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (18 bp):
TATTAATTTTGTTTGATA
Found at i:60548851 original size:12 final size:12
Alignment explanation
Indices: 60548834--60548860 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
60548824 TTTTTTTGAA
60548834 AAAGATAAAAAT
1 AAAGATAAAAAT
60548846 AAAGATAAAAAT
1 AAAGATAAAAAT
60548858 AAA
1 AAA
60548861 AAAGAGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (12 bp):
AAAGATAAAAAT
Found at i:60549707 original size:30 final size:31
Alignment explanation
Indices: 60549643--60549711 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 31
60549633 GACAAAAAAA
* *
60549643 AGTTTAGGTATCAATTTGGGAAAGACATTAT
1 AGTTTAGGTATCAATTTGGGAAAGAAAGTAT
* * *
60549674 AGTTTAGGTATCACTTT-GGACATAAAGTAT
1 AGTTTAGGTATCAATTTGGGAAAGAAAGTAT
60549704 AGTTTAGG
1 AGTTTAGG
60549712 AATAGTTGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 17 0.52
31 16 0.48
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (31 bp):
AGTTTAGGTATCAATTTGGGAAAGAAAGTAT
Found at i:60552037 original size:38 final size:38
Alignment explanation
Indices: 60551984--60552062 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
60551974 ATAGCCCTTT
60551984 AACAAATGAGATTTCCTTTTCCTAATCCAATACTTCTA
1 AACAAATGAGATTTCCTTTTCCTAATCCAATACTTCTA
*
60552022 AACAAATGAGGTTTCCTTTTCCTAATCCAATACTTCTA
1 AACAAATGAGATTTCCTTTTCCTAATCCAATACTTCTA
60552060 AAC
1 AAC
60552063 CGCCTTTGTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.35
Consensus pattern (38 bp):
AACAAATGAGATTTCCTTTTCCTAATCCAATACTTCTA
Found at i:60552154 original size:24 final size:24
Alignment explanation
Indices: 60552126--60552175 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
60552116 ATCTGATTTC
60552126 TTAAAGCTTTCCTT-CTTCTCAAGT
1 TTAAAGCTTT-CTTGCTTCTCAAGT
*
60552150 TTAAAGCTTTCTTGTTTCTCAAGT
1 TTAAAGCTTTCTTGCTTCTCAAGT
60552174 TT
1 TT
60552176 TTCTTAATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.50
Consensus pattern (24 bp):
TTAAAGCTTTCTTGCTTCTCAAGT
Found at i:60554245 original size:23 final size:24
Alignment explanation
Indices: 60554206--60554252 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
60554196 TTTGATATGA
*
60554206 ATTTATAAATTATA-TTTTTAATC
1 ATTTATAAATTACATTTTTTAATC
60554229 ATTT-TAAATTTACATTTTTTAATC
1 ATTTATAAA-TTACATTTTTTAATC
60554253 GTTATGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 8 0.38
24 9 0.43
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTATAAATTACATTTTTTAATC
Found at i:60555917 original size:24 final size:24
Alignment explanation
Indices: 60555871--60555917 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
60555861 ATATACATGT
*
60555871 ACTTAACACATTTCCCTCATCAAC
1 ACTTAACACATTTCCATCATCAAC
*
60555895 ACTTAACTCATTTTCCATC-TCAA
1 ACTTAACACA-TTTCCATCATCAA
60555918 AACTCATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (24 bp):
ACTTAACACATTTCCATCATCAAC
Found at i:60557274 original size:29 final size:30
Alignment explanation
Indices: 60557241--60557308 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 30
60557231 AAGTCATATA
*
60557241 CATGAACAACATCATTTGAAATCATCAA-T
1 CATGAACAACACCATTTGAAATCATCAATT
60557270 CATGAACAACACCATTTGAAATCATCAATTT
1 CATGAACAACACCATTTGAAATCATCAA-TT
60557301 CATGAACA
1 CATGAACA
60557309 TAAACATACT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 27 0.75
31 9 0.25
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.26
Consensus pattern (30 bp):
CATGAACAACACCATTTGAAATCATCAATT
Found at i:60557491 original size:35 final size:35
Alignment explanation
Indices: 60557446--60557531 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 35
60557436 ACATCAAATG
* * * *
60557446 CTCACAAGAGCTATTCCAAAC-GTAACACGTCAATA
1 CTCATAAGAGCTAGT-CAAACTGAAACACGCCAATA
* *
60557481 CTCATAAGAGCTAGTCTAACTGAAACACGCCAATG
1 CTCATAAGAGCTAGTCAAACTGAAACACGCCAATA
*
60557516 CTCATAAGAGCAAGTC
1 CTCATAAGAGCTAGTC
60557532 CAATCGAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 4 0.09
35 39 0.91
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.20
Consensus pattern (35 bp):
CTCATAAGAGCTAGTCAAACTGAAACACGCCAATA
Found at i:60558469 original size:3 final size:3
Alignment explanation
Indices: 60558463--60558509 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
60558453 GAAAACCTTC
60558463 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
60558510 TTAACCTTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:60559144 original size:5 final size:5
Alignment explanation
Indices: 60559134--60559176 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
60559124 TTTTTATGCT
* *
60559134 TTATA TTATA TTATG TTATA TTATA TTATA TTGTA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA
60559177 AAAAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:60560027 original size:18 final size:18
Alignment explanation
Indices: 60559985--60560038 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
60559975 TTGAATAAAA
*
60559985 ATTTT-ATTATTATTGTT
1 ATTTTAATTATTATTATT
* *
60560002 AATATAATTATTATTATT
1 ATTTTAATTATTATTATT
* *
60560020 ATTTTAATGATTATAATT
1 ATTTTAATTATTATTATT
60560038 A
1 A
60560039 AAAGTGAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 3 0.10
18 26 0.90
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (18 bp):
ATTTTAATTATTATTATT
Found at i:60560033 original size:21 final size:24
Alignment explanation
Indices: 60559984--60560027 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
60559974 ATTGAATAAA
60559984 AATT-TTATTATTATTGTTAATAT
1 AATTATTATTATTATTGTTAATAT
60560007 AATTATTATTATTATT-TTAAT
1 AATTATTATTATTATTGTTAAT
60560028 GATTATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AATTATTATTATTATTGTTAATAT
Found at i:60566442 original size:5 final size:5
Alignment explanation
Indices: 60566432--60566474 Score: 77
Period size: 5 Copynumber: 8.6 Consensus size: 5
60566422 TTTTTATGCT
*
60566432 TTATA TTATA TTATA TTATA TTATA TTATA TTGTA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA
60566475 AAAAAAAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:60567323 original size:18 final size:18
Alignment explanation
Indices: 60567281--60567334 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
60567271 TTGAATAAAA
*
60567281 ATTTT-ATTATTATTGTT
1 ATTTTAATTATTATTATT
* *
60567298 AATATAATTATTATTATT
1 ATTTTAATTATTATTATT
* *
60567316 ATTTTAATGATTATAATT
1 ATTTTAATTATTATTATT
60567334 A
1 A
60567335 AAAGTGAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 3 0.10
18 26 0.90
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (18 bp):
ATTTTAATTATTATTATT
Found at i:60567329 original size:21 final size:24
Alignment explanation
Indices: 60567280--60567323 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
60567270 ATTGAATAAA
60567280 AATT-TTATTATTATTGTTAATAT
1 AATTATTATTATTATTGTTAATAT
60567303 AATTATTATTATTATT-TTAAT
1 AATTATTATTATTATTGTTAAT
60567324 GATTATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AATTATTATTATTATTGTTAATAT
Found at i:60573880 original size:5 final size:5
Alignment explanation
Indices: 60573870--60573912 Score: 77
Period size: 5 Copynumber: 8.6 Consensus size: 5
60573860 TTTTTATGCT
*
60573870 TTATA TTATA TTATA TTATA TTATA TTATA TTGTA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA
60573913 AAAAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:60574762 original size:18 final size:18
Alignment explanation
Indices: 60574720--60574773 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
60574710 TTGAATAAAA
*
60574720 ATTTT-ATTATTATTGTT
1 ATTTTAATTATTATTATT
* *
60574737 AATATAATTATTATTATT
1 ATTTTAATTATTATTATT
* *
60574755 ATTTTAATGATTATAATT
1 ATTTTAATTATTATTATT
60574773 A
1 A
60574774 AAAGTGAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 3 0.10
18 26 0.90
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (18 bp):
ATTTTAATTATTATTATT
Found at i:60574768 original size:21 final size:24
Alignment explanation
Indices: 60574719--60574762 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
60574709 ATTGAATAAA
60574719 AATT-TTATTATTATTGTTAATAT
1 AATTATTATTATTATTGTTAATAT
60574742 AATTATTATTATTATT-TTAAT
1 AATTATTATTATTATTGTTAAT
60574763 GATTATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AATTATTATTATTATTGTTAATAT
Found at i:60582398 original size:44 final size:42
Alignment explanation
Indices: 60582332--60582417 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 42
60582322 CGATAACTAG
* *
60582332 AAACTTATCTGATTTCTTAAAGCTTTCTT-TCTTCTCAAGTTT
1 AAACTTATCTGATTGCTTAAAGCTCTCTTGT-TTCTCAAGTTT
* *
60582374 AAACTTAGTCTGGTTGCTTTAAAGCTCTCTTGTTTCTGAAGTTT
1 AAACTTA-TCTGATTGC-TTAAAGCTCTCTTGTTTCTCAAGTTT
60582418 TTCTTAATGG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 7 0.19
43 7 0.19
44 22 0.59
45 1 0.03
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (42 bp):
AAACTTATCTGATTGCTTAAAGCTCTCTTGTTTCTCAAGTTT
Found at i:60588672 original size:23 final size:23
Alignment explanation
Indices: 60588645--60588690 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
60588635 AAATATAAAG
*
60588645 ATATATGTGT-ACTTATAAGAAAA
1 ATATATGTGTGAATTATAA-AAAA
*
60588668 ATATATTTGTGAATTATAAAAAA
1 ATATATGTGTGAATTATAAAAAA
60588691 TAAAATAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (23 bp):
ATATATGTGTGAATTATAAAAAA
Found at i:60588678 original size:25 final size:23
Alignment explanation
Indices: 60588645--60588690 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
60588635 AAATATAAAG
*
60588645 ATATATGTGTACTTATAAGAAAAAT
1 ATATATGTG-AATTATAA-AAAAAT
*
60588670 ATATTTGTGAATTATAAAAAA
1 ATATATGTGAATTATAAAAAA
60588691 TAAAATAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 7 0.37
25 8 0.42
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (23 bp):
ATATATGTGAATTATAAAAAAAT
Found at i:60588994 original size:3 final size:3
Alignment explanation
Indices: 60588988--60589061 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
60588978 ATAATATTAA
60588988 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
60589036 TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TA
60589062 ATAATAATAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:60589677 original size:24 final size:22
Alignment explanation
Indices: 60589634--60589676 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
60589624 CACCTTGGAG
60589634 TGAATCTGTTTGTTTGTTTTTT
1 TGAATCTGTTTGTTTGTTTTTT
60589656 TGAATCTG-TT-TTTGTTTTTT
1 TGAATCTGTTTGTTTGTTTTTT
60589676 T
1 T
60589677 TAAGTGTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.52
21 2 0.10
22 8 0.38
ACGTcount: A:0.09, C:0.05, G:0.16, T:0.70
Consensus pattern (22 bp):
TGAATCTGTTTGTTTGTTTTTT
Found at i:60590378 original size:44 final size:45
Alignment explanation
Indices: 60590330--60590427 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 45
60590320 CTATAATGTC
60590330 AGGGAGATAAGA-CT-CATATCTTCAACCTGCTCCACTGCAACTTT
1 AGGGAGATAAGATCTGC-TATCTTCAACCTGCTCCACTGCAACTTT
* ** * *
60590374 AGGGAGATAAGATTTGCTATCTTCAGTCTGTTCCACTGTAACTTT
1 AGGGAGATAAGATCTGCTATCTTCAACCTGCTCCACTGCAACTTT
60590419 AGGGAGATA
1 AGGGAGATA
60590428 GAGTTTGTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
44 12 0.26
45 34 0.72
46 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (45 bp):
AGGGAGATAAGATCTGCTATCTTCAACCTGCTCCACTGCAACTTT
Found at i:60590570 original size:45 final size:45
Alignment explanation
Indices: 60590440--60590891 Score: 609
Period size: 45 Copynumber: 10.1 Consensus size: 45
60590430 GTTTGTTACT
* * * *
60590440 TTCGATTTACTTCACTGCCAGTACAGGAAGACAAGATCTACAATC
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
* * ***** *
60590485 TTCAATCTACTCCACTG-TTGCCCAGGGAGACAAGATCTGCTATC
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
* *
60590529 TTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
* **
60590574 TTAGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
*
60590619 TTCGATCTACTTTACTGCCAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
* * *
60590664 TTCGATCTACTTCGCTGCCAATACAGTAAGACAAGATATGCTATC
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
*
60590709 TTCGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
* *
60590754 TTCGATCTACTTCACTGCCAATACAGGAAGACTAGATCTACTATC
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
** * * *
60590799 TTCGATCTACTTCGTTGCAAATACAGGAAGACAAGATCTACTATA
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
* * *
60590844 TTCGATCTACTTCGCTGCCAATACAGGAAGCCAAGATCTGTTATC
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
60590889 TTC
1 TTC
60590892 ACTGATTTGT
Statistics
Matches: 361, Mismatches: 45, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
44 35 0.10
45 326 0.90
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (45 bp):
TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
Found at i:60596201 original size:4 final size:4
Alignment explanation
Indices: 60596192--60596225 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
60596182 AAGTTTTATT
60596192 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
60596226 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:60596233 original size:22 final size:22
Alignment explanation
Indices: 60596175--60596234 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
60596165 AAGTGGCCCA
*
60596175 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
60596199 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
60596220 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
60596235 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:60598592 original size:18 final size:18
Alignment explanation
Indices: 60598571--60598609 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
60598561 GATTGAGAGT
* *
60598571 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
60598589 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
60598607 GAA
1 GAA
60598610 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:60600018 original size:4 final size:4
Alignment explanation
Indices: 60600009--60600042 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
60599999 AAGTTTTATT
60600009 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
60600043 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:60600050 original size:22 final size:22
Alignment explanation
Indices: 60599992--60600051 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
60599982 AAGTGGCCCA
*
60599992 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
60600016 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
60600037 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
60600052 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:60607288 original size:8 final size:8
Alignment explanation
Indices: 60607277--60607305 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
60607267 TAAATTGACA
60607277 AAATTAAC
1 AAATTAAC
60607285 AAATTAAC
1 AAATTAAC
60607293 AAATTAAC
1 AAATTAAC
60607301 AAATT
1 AAATT
60607306 TATAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (8 bp):
AAATTAAC
Found at i:60607665 original size:25 final size:23
Alignment explanation
Indices: 60607635--60607680 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
60607625 AAATATAAAG
60607635 ATATATGTGTAAGTATAAGAAAAAT
1 ATATATGTG-AAGTATAA-AAAAAT
*
60607660 ATATATGTGAATTATAAAAAA
1 ATATATGTGAAGTATAAAAAA
60607681 TAAAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 7 0.35
25 9 0.45
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (23 bp):
ATATATGTGAAGTATAAAAAAAT
Found at i:60607973 original size:3 final size:3
Alignment explanation
Indices: 60607967--60608046 Score: 142
Period size: 3 Copynumber: 26.7 Consensus size: 3
60607957 ATAATATTAA
* *
60607967 TAC TAC TAC TAC TAC TAC TAC TAA TAC TAC TAC TAC TAA TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
60608015 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
60608047 ATAATAATAA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.36, C:0.30, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:60620157 original size:21 final size:21
Alignment explanation
Indices: 60620117--60620181 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
60620107 CGAAATTAAC
*
60620117 AATTAAGCTTAATT--AAATA
1 AATTAAGATTAATTAAAAATA
60620136 AATTAAGATTAATTAAAAATA
1 AATTAAGATTAATTAAAAATA
* *
60620157 AAATATGATTAATTAAAATATA
1 AATTAAGATTAATTAAAA-ATA
60620179 AAT
1 AAT
60620182 AAGCTTTATG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
19 13 0.33
21 21 0.54
22 5 0.13
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (21 bp):
AATTAAGATTAATTAAAAATA
Found at i:60623091 original size:16 final size:18
Alignment explanation
Indices: 60623065--60623097 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
60623055 CAATTTTACA
60623065 TTTACTAATTT-AAAATC
1 TTTACTAATTTCAAAATC
60623082 TTTA-TAATTTCAAAAT
1 TTTACTAATTTCAAAAT
60623098 TTGCAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTACTAATTTCAAAATC
Found at i:60623566 original size:20 final size:21
Alignment explanation
Indices: 60623528--60623573 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
60623518 AATAAATTAT
60623528 AAAAATATAAAATTAATAA-A
1 AAAAATATAAAATTAATAATA
*
60623548 AAAAAT-TAAAATTTTATAATA
1 AAAAATATAAAA-TTAATAATA
60623569 AAAAA
1 AAAAA
60623574 AAGAACTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 5 0.22
20 12 0.52
21 6 0.26
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAATATAAAATTAATAATA
Found at i:60625559 original size:125 final size:125
Alignment explanation
Indices: 60625337--60625580 Score: 488
Period size: 125 Copynumber: 2.0 Consensus size: 125
60625327 ATTCTAGAAG
60625337 CCTTCTACGAACCTGCAAATAAAAACTTCTCAGAATTTAAGCAATTCTTGTCTCACCATCTAAAT
1 CCTTCTACGAACCTGCAAATAAAAACTTCTCAGAATTTAAGCAATTCTTGTCTCACCATCTAAAT
60625402 CGCCGTACCGTAACAAGGACATCGACAAGCAAAATACTCAAATTCATACAAAGATAGACA
66 CGCCGTACCGTAACAAGGACATCGACAAGCAAAATACTCAAATTCATACAAAGATAGACA
60625462 CCTTCTACGAACCTGCAAATAAAAACTTCTCAGAATTTAAGCAATTCTTGTCTCACCATCTAAAT
1 CCTTCTACGAACCTGCAAATAAAAACTTCTCAGAATTTAAGCAATTCTTGTCTCACCATCTAAAT
60625527 CGCCGTACCGTAACAAGGACATCGACAAGCAAAATACTCAAATTCATACAAAGA
66 CGCCGTACCGTAACAAGGACATCGACAAGCAAAATACTCAAATTCATACAAAGA
60625581 CACCTTAACT
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 119 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (125 bp):
CCTTCTACGAACCTGCAAATAAAAACTTCTCAGAATTTAAGCAATTCTTGTCTCACCATCTAAAT
CGCCGTACCGTAACAAGGACATCGACAAGCAAAATACTCAAATTCATACAAAGATAGACA
Found at i:60634535 original size:18 final size:18
Alignment explanation
Indices: 60634512--60634550 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
60634502 AATGTGGAAG
60634512 ATTAATTATTGAGAAATA
1 ATTAATTATTGAGAAATA
60634530 ATTAATTATTGAGAAATA
1 ATTAATTATTGAGAAATA
60634548 ATT
1 ATT
60634551 TCAGAGCTTA
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:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (18 bp):
ATTAATTATTGAGAAATA
Found at i:60635706 original size:21 final size:21
Alignment explanation
Indices: 60635682--60635724 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
60635672 CAATTCAAAG
60635682 ACTGATTTTGAAATTTTTGGA
1 ACTGATTTTGAAATTTTTGGA
60635703 ACTGATTTTGAAATTTTTGGA
1 ACTGATTTTGAAATTTTTGGA
60635724 A
1 A
60635725 GGCTTTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.47
Consensus pattern (21 bp):
ACTGATTTTGAAATTTTTGGA
Found at i:60650863 original size:18 final size:19
Alignment explanation
Indices: 60650840--60650876 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
60650830 GGTTAGGAGG
*
60650840 ATTC-TTTTTATTTTAATA
1 ATTCTTTTTTATTTAAATA
60650858 ATTCTTTTTTATTTAAATA
1 ATTCTTTTTTATTTAAATA
60650877 TTATTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTCTTTTTTATTTAAATA
Found at i:60652267 original size:27 final size:27
Alignment explanation
Indices: 60652212--60652267 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
60652202 ACGTGCCATC
* *
60652212 AAGGCATTCCATTTAGAGTTTCCCGCA
1 AAGGCATTCCATTTAGAGTTGCCCACA
* *
60652239 AAGGCATTCCTTTTAGAGTTGGCCACA
1 AAGGCATTCCATTTAGAGTTGCCCACA
60652266 AA
1 AA
60652268 AGGCTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (27 bp):
AAGGCATTCCATTTAGAGTTGCCCACA
Found at i:60655672 original size:21 final size:19
Alignment explanation
Indices: 60655626--60655692 Score: 53
Period size: 21 Copynumber: 3.4 Consensus size: 19
60655616 TATATATAGA
*
60655626 AAAAATATTAAATAATAAT
1 AAAAATATTAAATAAAAAT
* *
60655645 TACAATATTAAAAATAAAAAT
1 AAAAATATT--AAATAAAAAT
* * *
60655666 AAAAATATGTATATATATAT
1 AAAAATAT-TAAATAAAAAT
60655686 AAAAATA
1 AAAAATA
60655693 GTCGTTAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
19 7 0.19
20 14 0.38
21 15 0.41
22 1 0.03
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (19 bp):
AAAAATATTAAATAAAAAT
Found at i:60656913 original size:26 final size:26
Alignment explanation
Indices: 60656869--60656922 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
60656859 GCCTCTACTT
* *
60656869 TGTTTCAGTTTGGGCCCTTATAGGCC
1 TGTTTCAATTTGGGCCCTTATAGACC
*
60656895 TGTTTCTAATTTGGG-CCTTTTAGACC
1 TGTTTC-AATTTGGGCCCTTATAGACC
60656921 TG
1 TG
60656923 GGCGAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.13, C:0.20, G:0.24, T:0.43
Consensus pattern (26 bp):
TGTTTCAATTTGGGCCCTTATAGACC
Found at i:60660487 original size:41 final size:41
Alignment explanation
Indices: 60660442--60660631 Score: 254
Period size: 41 Copynumber: 4.5 Consensus size: 41
60660432 TTTCTGAATC
* * *
60660442 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGTATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGATAACA
* *
60660483 AATGAAAAGGTTGAAAAGGATGTTATCTGAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGATAACA
60660524 AATGAAAAGGAAAGGTTGAAAAGGATGTTATCCGAAAAGGATAACA
1 AATG---A--AAAGGTTGAAAAGGATGTTATCCGAAAAGGATAACA
* *
60660570 AATGGAAAGGTTGAAAAGGATGTTATCTGAAAAGGATAACA
1 AATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGATAACA
* *
60660611 AATGAAAAGGTCGGAAAGGAT
1 AATGAAAAGGTTGAAAAGGAT
60660632 ATCAATGAAA
Statistics
Matches: 134, Mismatches: 10, Indels: 10
0.87 0.06 0.06
Matches are distributed among these distances:
41 95 0.71
44 1 0.01
46 38 0.28
ACGTcount: A:0.48, C:0.06, G:0.25, T:0.21
Consensus pattern (41 bp):
AATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGATAACA
Found at i:60660548 original size:87 final size:87
Alignment explanation
Indices: 60660447--60660620 Score: 303
Period size: 87 Copynumber: 2.0 Consensus size: 87
60660437 GAATCAATGA
* *
60660447 AAAGGTTGAAAAGGATGTTATCCAAAAAGTATATCAAATGAAAAGGTTGAAAAGGATGTTATCTG
1 AAAGGTTGAAAAGGATGTTATCCAAAAAGGATAACAAATGAAAAGGTTGAAAAGGATGTTATCTG
*
60660512 AAAAGGATATCAAATGAAAAGG
66 AAAAGGATAACAAATGAAAAGG
* *
60660534 AAAGGTTGAAAAGGATGTTATCCGAAAAGGATAACAAATGGAAAGGTTGAAAAGGATGTTATCTG
1 AAAGGTTGAAAAGGATGTTATCCAAAAAGGATAACAAATGAAAAGGTTGAAAAGGATGTTATCTG
60660599 AAAAGGATAACAAATGAAAAGG
66 AAAAGGATAACAAATGAAAAGG
60660621 TCGGAAAGGA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 82 1.00
ACGTcount: A:0.48, C:0.06, G:0.25, T:0.21
Consensus pattern (87 bp):
AAAGGTTGAAAAGGATGTTATCCAAAAAGGATAACAAATGAAAAGGTTGAAAAGGATGTTATCTG
AAAAGGATAACAAATGAAAAGG
Found at i:60660655 original size:24 final size:25
Alignment explanation
Indices: 60660598--60660655 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
60660588 GATGTTATCT
*
60660598 GAAAAGGATAACAAATGAAAAGGTC
1 GAAAAGGATAACAAATGAAAAGGTA
* *
60660623 GGAAAGGATATC-AATG-AAAGGTA
1 GAAAAGGATAACAAATGAAAAGGTA
60660646 GAAAATGGAT
1 GAAAA-GGAT
60660656 TGCTATGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 10 0.36
24 8 0.29
25 10 0.36
ACGTcount: A:0.52, C:0.05, G:0.28, T:0.16
Consensus pattern (25 bp):
GAAAAGGATAACAAATGAAAAGGTA
Found at i:60663669 original size:29 final size:29
Alignment explanation
Indices: 60663669--60663874 Score: 216
Period size: 29 Copynumber: 7.1 Consensus size: 29
60663659 ATAGTTTTGA
*
60663669 CGACTATGAAAAGGGATGGTGACAACCAT
1 CGACTATGAAAAGGGATGGTGACGACCAT
* *
60663698 CAACTATGAAAAGGGATGGTGACGACCGT
1 CGACTATGAAAAGGGATGGTGACGACCAT
* * ** * *
60663727 AGTA-TATGAAAAGGGATAGTTTCAACTAT
1 CG-ACTATGAAAAGGGATGGTGACGACCAT
*
60663756 TGACTATGAAAAGGGATGGTGACGACCAT
1 CGACTATGAAAAGGGATGGTGACGACCAT
* * **
60663785 CAACTATGAAAAGGGATGGAGGTGACCAT
1 CGACTATGAAAAGGGATGGTGACGACCAT
* *
60663814 CAACTATGAAAAGGGATGGTGACGACTAT
1 CGACTATGAAAAGGGATGGTGACGACCAT
* * *
60663843 CGATTAATGAAAAGGGATGATTACGACCAT
1 CGACT-ATGAAAAGGGATGGTGACGACCAT
60663873 CG
1 CG
60663875 TTAGCACACT
Statistics
Matches: 143, Mismatches: 31, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
28 1 0.01
29 118 0.83
30 24 0.17
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (29 bp):
CGACTATGAAAAGGGATGGTGACGACCAT
Found at i:60663682 original size:25 final size:27
Alignment explanation
Indices: 60663620--60663685 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 27
60663610 TTATCGATCA
* *
60663620 ATGAAAAGGGATGGTTTTGACCATCGATT
1 ATGAAAAGGGATAGTTTTG--CATCGACT
60663649 ATGAAAAGGGATAGTTTTG-A-CGACT
1 ATGAAAAGGGATAGTTTTGCATCGACT
60663674 ATGAAAAGGGAT
1 ATGAAAAGGGAT
60663686 GGTGACAACC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 16 0.46
26 1 0.03
29 18 0.51
ACGTcount: A:0.36, C:0.08, G:0.29, T:0.27
Consensus pattern (27 bp):
ATGAAAAGGGATAGTTTTGCATCGACT
Found at i:60663822 original size:87 final size:85
Alignment explanation
Indices: 60663620--60663873 Score: 273
Period size: 87 Copynumber: 3.0 Consensus size: 85
60663610 TTATCGATCA
** * *
60663620 ATGAAAAGGGATGGTTTTGACCATCGATTATGAAAAGGGATAGTTTTGAC---GACTATGAAAAG
1 ATGAAAAGGGATGGTGATGACCATC-AATATGAAAAGGGATAGTTTCGACTATGACTATGAAAAG
*
60663682 GGATGGTGACAACCATCAACT
65 GGATGGTGACGACCATCAACT
* * *
60663703 ATGAAAAGGGATGGTGACGACCGT-AGTATATGAAAAGGGATAGTTTCAACTATTGACTATGAAA
1 ATGAAAAGGGATGGTGATGACCATCA--ATATGAAAAGGGATAGTTTCGACTA-TGACTATGAAA
60663767 AGGGATGGTGACGACCATCAACT
63 AGGGATGGTGACGACCATCAACT
* * * ** *
60663790 ATGAAAAGGGATGGAGGTGACCATCAACTATGAAAAGGGATGGTGACGACTATCGATTAATGAAA
1 ATGAAAAGGGATGGTGATGACCATCAA-TATGAAAAGGGATAGTTTCGACTAT-GACT-ATGAAA
* *
60663855 AGGGATGATTACGACCATC
63 AGGGATGGTGACGACCATC
60663874 GTTAGCACAC
Statistics
Matches: 142, Mismatches: 19, Indels: 15
0.81 0.11 0.09
Matches are distributed among these distances:
81 1 0.01
83 40 0.28
86 2 0.01
87 75 0.53
88 24 0.17
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.23
Consensus pattern (85 bp):
ATGAAAAGGGATGGTGATGACCATCAATATGAAAAGGGATAGTTTCGACTATGACTATGAAAAGG
GATGGTGACGACCATCAACT
Found at i:60673107 original size:28 final size:28
Alignment explanation
Indices: 60673076--60673130 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
60673066 TTACGTGAAA
*
60673076 AAATGGTTTTTATTAATT-TTTATATTTT
1 AAATAGTTTTTATT-ATTATTTATATTTT
* *
60673104 AAATATTTTTTATTTTTATTTATATTT
1 AAATAGTTTTTATTATTATTTATATTT
60673131 ACCATGTGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (28 bp):
AAATAGTTTTTATTATTATTTATATTTT
Found at i:60677570 original size:18 final size:18
Alignment explanation
Indices: 60677547--60677601 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
60677537 GAGTTTAGGG
60677547 GTTTTTTTATATTTTTAA
1 GTTTTTTTATATTTTTAA
60677565 GTTTTTTTATATATCCTTTAA
1 GTTTTTTTATAT-T--TTTAA
60677586 -TTTTTTTATAATTTTT
1 GTTTTTTTAT-ATTTTT
60677602 TTAGATGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 15 0.45
19 1 0.03
20 10 0.30
21 7 0.21
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.71
Consensus pattern (18 bp):
GTTTTTTTATATTTTTAA
Found at i:60677577 original size:20 final size:19
Alignment explanation
Indices: 60677548--60677601 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
60677538 AGTTTAGGGG
60677548 TTTTTT-TATATTTTTAAGT
1 TTTTTTATATATTTTTAA-T
*
60677567 TTTTTTATATATCCTTTAAT
1 TTTTTTATATAT-TTTTAAT
60677587 TTTTTTATA-ATTTTT
1 TTTTTTATATATTTTT
60677602 TTAGATGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 3 0.10
19 8 0.26
20 15 0.48
21 5 0.16
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTTTATATATTTTTAAT
Found at i:60680331 original size:15 final size:14
Alignment explanation
Indices: 60680304--60680330 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60680294 GGGTATAATA
60680304 AAATATTAAAAAAT
1 AAATATTAAAAAAT
60680318 AAATATTAAAAAA
1 AAATATTAAAAAA
60680331 AACACATGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATATTAAAAAAT
Found at i:60681562 original size:10 final size:10
Alignment explanation
Indices: 60681536--60681641 Score: 55
Period size: 10 Copynumber: 10.9 Consensus size: 10
60681526 TATTAAAATC
* *
60681536 TTATATAAAC
1 TTATAAAAAA
60681546 TTA-AAAAAA
1 TTATAAAAAA
60681555 TTAT--AAAA
1 TTATAAAAAA
*
60681563 TTCATTAAAAA
1 TT-ATAAAAAA
*
60681574 TTCT-AAAAA
1 TTATAAAAAA
* *
60681583 -TATCTAAATA
1 TTAT-AAAAAA
*
60681593 TTATAAAAAC
1 TTATAAAAAA
60681603 TTAT-AAAAA
1 TTATAAAAAA
*
60681612 TTCA-AATAAA
1 TT-ATAAAAAA
60681622 TTATAAAAAAA
1 TTAT-AAAAAA
60681633 TTATAAAAA
1 TTATAAAAA
60681642 TAGAATTAGG
Statistics
Matches: 74, Mismatches: 11, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
8 8 0.11
9 21 0.28
10 27 0.36
11 18 0.24
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:60681572 original size:19 final size:19
Alignment explanation
Indices: 60681550--60681643 Score: 68
Period size: 19 Copynumber: 4.8 Consensus size: 19
60681540 ATAAACTTAA
*
60681550 AAAAATTATAAAATTCAT-T
1 AAAAATTATAAAAAT-ATCT
*
60681569 AAAAATTCTAAAAATATCT
1 AAAAATTATAAAAATATCT
* *
60681588 AAATATTATAAAAACT-TAT
1 AAAAATTATAAAAA-TATCT
**
60681607 AAAAATTCA-AATAAATTATAA
1 AAAAATT-ATAA-AAA-TATCT
60681628 AAAAATTATAAAAATA
1 AAAAATTATAAAAATA
60681644 GAATTAGGTG
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
18 2 0.03
19 38 0.62
20 10 0.16
21 11 0.18
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATTATAAAAATATCT
Found at i:60681601 original size:29 final size:30
Alignment explanation
Indices: 60681569--60681643 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 30
60681559 AAAATTCATT
*
60681569 AAAAATTCTAAAAATATCTAAAT-ATTAT-A
1 AAAAATTATAAAAATATC-AAATAATTATAA
*
60681598 AAAACTTATAAAAAT-TCAAATAAATTATAA
1 AAAAATTATAAAAATATCAAAT-AATTATAA
60681628 AAAAATTATAAAAATA
1 AAAAATTATAAAAATA
60681644 GAATTAGGTG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
27 4 0.10
28 2 0.05
29 18 0.46
30 15 0.38
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (30 bp):
AAAAATTATAAAAATATCAAATAATTATAA
Found at i:60682265 original size:86 final size:86
Alignment explanation
Indices: 60682120--60682281 Score: 270
Period size: 86 Copynumber: 1.9 Consensus size: 86
60682110 ATGTGATGTA
* * * *
60682120 TTTATCTTTCTTTTTGTCATATGCTATAGTATTTAATTTCACCACCGTCGTTGTTTTTACACTAA
1 TTTATCTTTATTTTTGTCATATGCTATAGTATCTAATTTCACCACCATCGTTATTTTTACACTAA
60682185 CCATAGGTAAACGCATCGTTG
66 CCATAGGTAAACGCATCGTTG
* *
60682206 TTTATCTTTATTTTTGTCATATGCTATAGTATCTAATTTCACCGCTATCGTTATTTTTACACTAA
1 TTTATCTTTATTTTTGTCATATGCTATAGTATCTAATTTCACCACCATCGTTATTTTTACACTAA
60682271 CCATAGGTAAA
66 CCATAGGTAAA
60682282 TGCACCGTCC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 70 1.00
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.45
Consensus pattern (86 bp):
TTTATCTTTATTTTTGTCATATGCTATAGTATCTAATTTCACCACCATCGTTATTTTTACACTAA
CCATAGGTAAACGCATCGTTG
Found at i:60682571 original size:17 final size:18
Alignment explanation
Indices: 60682546--60682580 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
60682536 AGGTTAAAAA
*
60682546 AAATTTAAG-TACCAAAT
1 AAATATAAGTTACCAAAT
60682563 AAATATAAGTTACCAAAT
1 AAATATAAGTTACCAAAT
60682581 TCAGATATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (18 bp):
AAATATAAGTTACCAAAT
Found at i:60703659 original size:36 final size:36
Alignment explanation
Indices: 60703618--60703689 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
60703608 TCCCGTCTAC
60703618 AATAGATATTTTATCTTTTCAAAAAATACCTTTTAA
1 AATAGATATTTTATCTTTTCAAAAAATACCTTTTAA
60703654 AATAGATATTTTATCTTTTCAAAAAATACCTTTTAA
1 AATAGATATTTTATCTTTTCAAAAAATACCTTTTAA
60703690 TAGTAATGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (36 bp):
AATAGATATTTTATCTTTTCAAAAAATACCTTTTAA
Done.