Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 138 of 222
Found at i:44844578 original size:21 final size:19
Alignment explanation
Indices: 44844526--44844580 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 19
44844516 CTTGTATAGT
*
44844526 TTTTCCTCTTTTCTTCTCA
1 TTTTCCTCTTTTCTTTTCA
*
44844545 TTTT--TCTTGTCTTTTACA
1 TTTTCCTCTTTTCTTTT-CA
44844563 TTTTCACTCTTTTCTTTT
1 TTTTC-CTCTTTTCTTTT
44844581 TCTCTCGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 9 0.31
18 6 0.21
19 4 0.14
21 10 0.34
ACGTcount: A:0.07, C:0.24, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTCCTCTTTTCTTTTCA
Found at i:44862553 original size:16 final size:16
Alignment explanation
Indices: 44862532--44862601 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
44862522 TTTGGTTCGC
* *
44862532 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
44862548 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
44862564 TCTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
44862580 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
44862596 TGTAAT
1 TGTAAT
44862602 AGCAAATCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.31, C:0.01, G:0.34, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:44862634 original size:45 final size:44
Alignment explanation
Indices: 44862580--44862674 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
44862570 GGAATAGAGG
*
44862580 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
44862625 TGTAATGGAATAGAGGCGTAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
44862669 TGTAAT
1 TGTAAT
44862675 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 22 0.49
45 23 0.51
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:44862855 original size:18 final size:17
Alignment explanation
Indices: 44862834--44862868 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44862824 TTATTATTAA
*
44862834 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
44862852 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44862869 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:44862933 original size:147 final size:147
Alignment explanation
Indices: 44862755--44863027 Score: 512
Period size: 147 Copynumber: 1.9 Consensus size: 147
44862745 ATGATTATTG
*
44862755 TTGTTGTTATTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTTAAC
1 TTGTTGTTATTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAAC
*
44862820 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
66 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
44862885 AAATTTGTTTTGGTAAA
131 AAATTTGTTTTGGTAAA
44862902 TTGTT-TTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAA
1 TTGTTGTTA-TTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAA
44862966 CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
65 CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
44863028 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
146 3 0.02
147 120 0.98
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (147 bp):
TTGTTGTTATTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:44862998 original size:16 final size:16
Alignment explanation
Indices: 44862961--44863002 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
44862951 TTAATCATAT
*
44862961 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
44862977 TT-AAATATATTATAA
1 TTAAAATATATTATAA
44862992 TTAAAATATAT
1 TTAAAATATAT
44863003 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:44863009 original size:14 final size:15
Alignment explanation
Indices: 44862970--44863011 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
44862960 TTTAAACATA
*
44862970 ATTATTATTAAATAT
1 ATTATAATTAAATAT
44862985 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
44862999 A-TATAATTTAATA
1 ATTATAATTAAATA
44863012 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:44863129 original size:14 final size:15
Alignment explanation
Indices: 44863080--44863131 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
44863070 GTAAAATATA
44863080 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
44863095 TATTAAATATATTAT
1 AATTAAATATATTAT
44863110 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
44863123 AATTTAATA
1 AATTAAATA
44863132 AAATTTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:44863194 original size:119 final size:120
Alignment explanation
Indices: 44862959--44863266 Score: 505
Period size: 119 Copynumber: 2.6 Consensus size: 120
44862949 ATTTAATCAT
*
44862959 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT-TTAATA
*
44863024 ATTAATATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAA
65 ATTAATATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATA-AA
44863081 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTAATAA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTAATAA
*
44863144 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATAAA
66 TTAATATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATAAA
* * * *
44863199 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTAAAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTT-TAATA
44863263 ATTA
65 ATTA
44863267 TAACTAATAA
Statistics
Matches: 177, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
118 3 0.02
119 108 0.61
120 63 0.36
121 2 0.01
122 1 0.01
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTAATAA
TTAATATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATAAA
Found at i:44863268 original size:28 final size:27
Alignment explanation
Indices: 44863192--44863268 Score: 70
Period size: 28 Copynumber: 2.9 Consensus size: 27
44863182 TGATACTATA
*
44863192 AAATAAAATTTGAAATAATTA-ATATT
1 AAATAAAATTTAAAATAATTATATATT
* *
44863218 AAATATATTTTAATTAA-AA-TATATGATT
1 AAATAAAATTTAA--AATAATTATAT-ATT
*
44863246 TAATAAAATTTAAAATAATTATA
1 AAATAAAATTTAAAATAATTATA
44863269 ACTAATAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
26 14 0.36
27 6 0.15
28 19 0.49
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (27 bp):
AAATAAAATTTAAAATAATTATATATT
Found at i:44863366 original size:91 final size:91
Alignment explanation
Indices: 44863271--44863478 Score: 265
Period size: 91 Copynumber: 2.3 Consensus size: 91
44863261 TAATTATAAC
* * * * *
44863271 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATTTAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAA
* *
44863335 TAATATATAATTTTATAAAATTCTTGA
65 TAATATATAATTTCATAAAATTCTTAA
* * *
44863362 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* *
44863427 GATATTTAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
**
44863453 TAATAAAATGGTATTATATGAATTTA
1 TAAT-AAATTATATTATATGAATTTA
44863479 CTAAAATCAA
Statistics
Matches: 100, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
91 79 0.79
92 21 0.21
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:44867124 original size:15 final size:15
Alignment explanation
Indices: 44867104--44867134 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44867094 ATATTATGTA
*
44867104 TAATTGACGTAAAAT
1 TAATTGACCTAAAAT
44867119 TAATTGACCTAAAAT
1 TAATTGACCTAAAAT
44867134 T
1 T
44867135 TGAAGGTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (15 bp):
TAATTGACCTAAAAT
Found at i:44877632 original size:34 final size:34
Alignment explanation
Indices: 44877583--44877647 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
44877573 ACCTCACTTC
* *
44877583 TATCTTTTTCGTTTTTTCTTTTCACCATCTGTTT
1 TATCTTCTTCGTTTTTTCCTTTCACCATCTGTTT
*
44877617 TATCTTCTTCTTTTTTTCCTTTCACCATCTG
1 TATCTTCTTCGTTTTTTCCTTTCACCATCTG
44877648 ATTTGTTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.09, C:0.25, G:0.05, T:0.62
Consensus pattern (34 bp):
TATCTTCTTCGTTTTTTCCTTTCACCATCTGTTT
Found at i:44877770 original size:17 final size:17
Alignment explanation
Indices: 44877748--44877804 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
44877738 TCTTGAAAAC
44877748 AAAAAACCCAACACATT
1 AAAAAACCCAACACATT
* * **
44877765 AAAAAAACAAACA-AAC
1 AAAAAACCCAACACATT
*
44877781 AAAGAACCCAACACATT
1 AAAAAACCCAACACATT
44877798 CAAAAAA
1 -AAAAAA
44877805 TAAATAACAA
Statistics
Matches: 28, Mismatches: 10, Indels: 3
0.68 0.24 0.07
Matches are distributed among these distances:
16 11 0.39
17 12 0.43
18 5 0.18
ACGTcount: A:0.67, C:0.25, G:0.02, T:0.07
Consensus pattern (17 bp):
AAAAAACCCAACACATT
Found at i:44877781 original size:33 final size:35
Alignment explanation
Indices: 44877744--44877863 Score: 145
Period size: 33 Copynumber: 3.3 Consensus size: 35
44877734 AGAATCTTGA
*
44877744 AAACAAAAAACCCAACACATT-AAAAAAACA-AAC
1 AAACAAAAAACCCAACACATTCAAAAAAAAATAAC
*
44877777 AAACAAAGAACCCAACACATTCAAAAAATAAATAAC
1 AAACAAAAAACCCAACACATTCAAAAAA-AAATAAC
44877813 AAACAATAAAAAACCCAACACATTCAAAAAAATAAATAAC
1 AAAC---AAAAAACCCAACACATTC-AAAAAA-AAATAAC
*
44877853 AAACAATAAAC
1 AAACAAAAAAC
44877864 AACCCAGAAT
Statistics
Matches: 76, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
33 20 0.26
34 6 0.08
35 2 0.03
36 7 0.09
37 6 0.08
39 17 0.22
40 18 0.24
ACGTcount: A:0.68, C:0.22, G:0.01, T:0.10
Consensus pattern (35 bp):
AAACAAAAAACCCAACACATTCAAAAAAAAATAAC
Found at i:44877814 original size:32 final size:33
Alignment explanation
Indices: 44877744--44877844 Score: 121
Period size: 39 Copynumber: 2.8 Consensus size: 33
44877734 AGAATCTTGA
44877744 AAACAAAAAACCCAACACATTAAAAAAACAAAC
1 AAACAAAAAACCCAACACATTAAAAAAACAAAC
* *
44877777 AAACAAAGAACCCAACACATTCAAAAAATAAATAAC
1 AAACAAAAAACCCAACACATT-AAAAAA-ACA-AAC
44877813 AAACAATAAAAAACCCAACACATTCAAAAAAA
1 AAAC---AAAAAACCCAACACATT-AAAAAAA
44877845 TAAATAACAA
Statistics
Matches: 59, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
33 20 0.34
34 6 0.10
35 2 0.03
36 7 0.12
38 1 0.02
39 23 0.39
ACGTcount: A:0.67, C:0.23, G:0.01, T:0.09
Consensus pattern (33 bp):
AAACAAAAAACCCAACACATTAAAAAAACAAAC
Found at i:44877843 original size:40 final size:39
Alignment explanation
Indices: 44877770--44877887 Score: 159
Period size: 40 Copynumber: 3.0 Consensus size: 39
44877760 ACATTAAAAA
44877770 AACAAACAA-ACAAAGAACCCAACACATTCAAAAAATAAAT
1 AACAAACAATA-AAA-AACCCAACACATTCAAAAAATAAAT
44877810 AACAAACAATAAAAAACCCAACACATTCAAAAAAATAAAT
1 AACAAACAATAAAAAACCCAACACATTC-AAAAAATAAAT
* * *
44877850 AACAAACAATAAACAACCCAGA-ATATTTAAAAAATAAA
1 AACAAACAATAAAAAACCCA-ACACATTCAAAAAATAAA
44877888 AAAAGAACCC
Statistics
Matches: 72, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
39 24 0.33
40 46 0.64
41 2 0.03
ACGTcount: A:0.66, C:0.19, G:0.02, T:0.13
Consensus pattern (39 bp):
AACAAACAATAAAAAACCCAACACATTCAAAAAATAAAT
Found at i:44882839 original size:12 final size:12
Alignment explanation
Indices: 44882824--44882853 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
44882814 TCTTAGTCTC
*
44882824 CCTCTCCCTTTT
1 CCTCTCCCTCTT
44882836 CCTCTCCCTCTT
1 CCTCTCCCTCTT
44882848 CCTCTC
1 CCTCTC
44882854 TTCGTTCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (12 bp):
CCTCTCCCTCTT
Found at i:44888395 original size:21 final size:21
Alignment explanation
Indices: 44888339--44888403 Score: 71
Period size: 22 Copynumber: 3.1 Consensus size: 21
44888329 TATAAAACCT
*
44888339 AAATCCTAACCCTAAAAAACAA
1 AAATCCTAACCCTAAAAAA-TA
**
44888361 AAAT-CT-ACTTTAAAAAATA
1 AAATCCTAACCCTAAAAAATA
44888380 AAATCCTAACCCTAAAAAAATA
1 AAATCCTAACCCT-AAAAAATA
44888402 AA
1 AA
44888404 GGGAAAAACG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 5 0.14
20 11 0.31
21 5 0.14
22 14 0.40
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (21 bp):
AAATCCTAACCCTAAAAAATA
Found at i:44888930 original size:27 final size:28
Alignment explanation
Indices: 44888899--44888955 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
44888889 CACTTTTGTT
* *
44888899 TATTTAAGA-TTACATTTTAGTCATTTA
1 TATTTAAAAGTTACATTTTAGTCACTTA
*
44888926 TATTTAAAATGTTACGTTTTAGTCACTTA
1 TATTTAAAA-GTTACATTTTAGTCACTTA
44888955 T
1 T
44888956 GTTATCGCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.32
29 17 0.68
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.51
Consensus pattern (28 bp):
TATTTAAAAGTTACATTTTAGTCACTTA
Found at i:44889411 original size:11 final size:11
Alignment explanation
Indices: 44889397--44889421 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44889387 AAGAAAAAAG
44889397 AAAGAAAGTTA
1 AAAGAAAGTTA
44889408 AAAGAAAGTTA
1 AAAGAAAGTTA
44889419 AAA
1 AAA
44889422 TAATATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (11 bp):
AAAGAAAGTTA
Found at i:44890263 original size:11 final size:11
Alignment explanation
Indices: 44890247--44890304 Score: 77
Period size: 11 Copynumber: 5.5 Consensus size: 11
44890237 AACTTTTGAT
44890247 TAAAAAAATTA
1 TAAAAAAATTA
44890258 T-AAAAAA-T-
1 TAAAAAAATTA
*
44890266 TAAAAAGATTA
1 TAAAAAAATTA
44890277 TAAAAAAATTA
1 TAAAAAAATTA
*
44890288 TCAAAAAATTA
1 TAAAAAAATTA
44890299 TAAAAA
1 TAAAAA
44890305 TTATTAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
8 1 0.03
9 6 0.15
10 7 0.17
11 26 0.65
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (11 bp):
TAAAAAAATTA
Found at i:44890264 original size:10 final size:10
Alignment explanation
Indices: 44890245--44890459 Score: 100
Period size: 9 Copynumber: 21.9 Consensus size: 10
44890235 ACAACTTTTG
44890245 ATTA-AAAAA
1 ATTATAAAAA
44890254 ATTATAAAAA
1 ATTATAAAAA
*
44890264 ATTA-AAAAG
1 ATTATAAAAA
44890273 ATTATAAAAAA
1 ATTAT-AAAAA
44890284 ATTATCAAAAA
1 ATTAT-AAAAA
44890295 ATTAT-AAAA
1 ATTATAAAAA
* *
44890304 ATTATTAAAT
1 ATTATAAAAA
44890314 ATT-T-AAAA
1 ATTATAAAAA
*
44890322 A-TAT-GAAA
1 ATTATAAAAA
* *
44890330 CTTGATATAAA
1 ATT-ATAAAAA
*
44890341 CTTAT-AAAA
1 ATTATAAAAA
44890350 ATTATAAAAA
1 ATTATAAAAA
* *
44890360 GA-CATCAAAA
1 -ATTATAAAAA
44890370 A-TATAAAAA
1 ATTATAAAAA
*
44890379 A-AAGTCAAATAA
1 ATTA-T-AAA-AA
* *
44890391 AATATAATAA
1 ATTATAAAAA
*
44890401 ATCATAAAAA
1 ATTATAAAAA
44890411 TATTATAAAAGTA
1 -ATTATAAAA--A
44890424 ATT-TAAAAA
1 ATTATAAAAA
44890433 ATT-T-AAAA
1 ATTATAAAAA
44890441 ATT-TAAAAA
1 ATTATAAAAA
*
44890450 TTTATTAAAA
1 ATTA-TAAAA
44890460 CATATTAAAA
Statistics
Matches: 164, Mismatches: 22, Indels: 38
0.73 0.10 0.17
Matches are distributed among these distances:
7 1 0.01
8 16 0.10
9 50 0.30
10 39 0.24
11 49 0.30
12 7 0.04
13 2 0.01
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (10 bp):
ATTATAAAAA
Found at i:44890269 original size:19 final size:19
Alignment explanation
Indices: 44890245--44890304 Score: 84
Period size: 19 Copynumber: 3.0 Consensus size: 19
44890235 ACAACTTTTG
44890245 ATTAAAAAAATTATAAAAA
1 ATTAAAAAAATTATAAAAA
*
44890264 ATTAAAAAGATTATAAAAAA
1 ATTAAAAAAATTAT-AAAAA
44890284 ATTATCAAAAAATTATAAAAA
1 ATTA--AAAAAATTATAAAAA
44890305 TTATTAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.36
20 9 0.25
21 5 0.14
22 9 0.25
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (19 bp):
ATTAAAAAAATTATAAAAA
Found at i:44890294 original size:31 final size:30
Alignment explanation
Indices: 44890247--44890308 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 30
44890237 AACTTTTGAT
44890247 TAAAAAAATTATAAAAAATTA-AAAAGATTA
1 TAAAAAAATTATAAAAAATTATAAAA-ATTA
44890277 TAAAAAAATTATCAAAAAATTATAAAAATTA
1 TAAAAAAATTAT-AAAAAATTATAAAAATTA
44890308 T
1 T
44890309 TAAATATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 12 0.40
31 14 0.47
32 4 0.13
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (30 bp):
TAAAAAAATTATAAAAAATTATAAAAATTA
Found at i:44890386 original size:19 final size:20
Alignment explanation
Indices: 44890346--44890387 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
44890336 ATAAACTTAT
*
44890346 AAAAATTATAAAAAGACATC
1 AAAAATTATAAAAAGAAATC
44890366 AAAAA-TATAAAAA-AAAGTC
1 AAAAATTATAAAAAGAAA-TC
44890385 AAA
1 AAA
44890388 TAAAATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 13 0.65
20 5 0.25
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.17
Consensus pattern (20 bp):
AAAAATTATAAAAAGAAATC
Found at i:44890449 original size:9 final size:8
Alignment explanation
Indices: 44890423--44890453 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
44890413 TTATAAAAGT
44890423 AATTTAAAA
1 AATTT-AAA
44890432 AATTTAAA
1 AATTTAAA
44890440 AATTTAAA
1 AATTTAAA
44890448 AATTTA
1 AATTTA
44890454 TTAAAACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.77
9 5 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
AATTTAAA
Found at i:44891048 original size:29 final size:28
Alignment explanation
Indices: 44891016--44891107 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 28
44891006 TAATTTCAAG
44891016 TATTTTAAATAATTTTTATATTTTTATAA
1 TATTTT-AATAATTTTTATATTTTTATAA
44891045 TA-TTT-ATAAGTTTTTATATTTTATTATAA
1 TATTTTAATAA-TTTTTATA-TTT-TTATAA
* * *
44891074 T-TTTTAATAATTTTAATAATTTTCTAA
1 TATTTTAATAATTTTTATATTTTTATAA
*
44891101 TTTTTTA
1 TATTTTA
44891108 TGATTTTCTT
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
26 4 0.07
27 14 0.26
28 13 0.24
29 19 0.35
30 4 0.07
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (28 bp):
TATTTTAATAATTTTTATATTTTTATAA
Found at i:44891059 original size:20 final size:17
Alignment explanation
Indices: 44891024--44891105 Score: 74
Period size: 19 Copynumber: 4.5 Consensus size: 17
44891014 AGTATTTTAA
*
44891024 ATAATTTTTATATTTTT
1 ATAATTTTTATAATTTT
*
44891041 ATAATATTTATAAGTTTTT
1 ATAATTTTTATAA--TTTT
*
44891060 ATATTTTATTATAATTTTT
1 ATAATTT-TTATAA-TTTT
*
44891079 AATAATTTTAATAATTTT
1 -ATAATTTTTATAATTTT
*
44891097 CTAATTTTT
1 ATAATTTTT
44891106 TATGATTTTC
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
17 18 0.34
18 4 0.08
19 19 0.36
20 12 0.23
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (17 bp):
ATAATTTTTATAATTTT
Found at i:44891102 original size:27 final size:27
Alignment explanation
Indices: 44891017--44891114 Score: 99
Period size: 27 Copynumber: 3.6 Consensus size: 27
44891007 AATTTCAAGT
*
44891017 ATTTTAAATAATTTTTATATTTTTATA
1 ATTTTTAATAATTTTTATATTTTTATA
*
44891044 ATATTT-ATAAGTTTTTATATTTTATTATA
1 ATTTTTAATAA-TTTTTATA-TTT-TTATA
* * *
44891073 ATTTTTAATAATTTTAATAATTTTCTA
1 ATTTTTAATAATTTTTATATTTTTATA
* *
44891100 ATTTTTTATGATTTT
1 ATTTTTAATAATTTT
44891115 CTTGATGAGA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
26 4 0.07
27 29 0.49
28 5 0.08
29 17 0.29
30 4 0.07
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (27 bp):
ATTTTTAATAATTTTTATATTTTTATA
Found at i:44891114 original size:9 final size:9
Alignment explanation
Indices: 44891024--44891105 Score: 87
Period size: 9 Copynumber: 9.0 Consensus size: 9
44891014 AGTATTTTAA
44891024 ATAATTTTT
1 ATAATTTTT
44891033 AT-ATTTTT
1 ATAATTTTT
*
44891041 ATAATATTT
1 ATAATTTTT
44891050 ATAAGTTTTT
1 ATAA-TTTTT
*
44891060 ATATTTTATT
1 ATAATTT-TT
44891070 ATAATTTTT
1 ATAATTTTT
*
44891079 AATAATTTTA
1 -ATAATTTTT
44891089 ATAA-TTTT
1 ATAATTTTT
*
44891097 CTAATTTTT
1 ATAATTTTT
44891106 TATGATTTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
8 14 0.23
9 24 0.39
10 23 0.38
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (9 bp):
ATAATTTTT
Found at i:44892452 original size:40 final size:40
Alignment explanation
Indices: 44892408--44892490 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
44892398 TGGGATGGAA
44892408 GATAGTCCAATGGAAGTGGTTTACAGGAAAGAAAGACCAC
1 GATAGTCCAATGGAAGTGGTTTACAGGAAAGAAAGACCAC
44892448 GATAGTCCAATGGAAGTGGTTTACAGGAAAGAAAGACCAC
1 GATAGTCCAATGGAAGTGGTTTACAGGAAAGAAAGACCAC
44892488 GAT
1 GAT
44892491 TGGTAACTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.40, C:0.14, G:0.28, T:0.18
Consensus pattern (40 bp):
GATAGTCCAATGGAAGTGGTTTACAGGAAAGAAAGACCAC
Found at i:44894993 original size:29 final size:29
Alignment explanation
Indices: 44894944--44895008 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
44894934 ACTTCAATTT
* *
44894944 TTTTTCTTAGATCGCCGCAAAGGCTTTCA
1 TTTTTCTTAGATCGCCACAAAGGCTTCCA
* *
44894973 TTTTTCTTAGATTGCCACAAAGTCTTCCA
1 TTTTTCTTAGATCGCCACAAAGGCTTCCA
44895002 TTTTTCT
1 TTTTTCT
44895009 AGTGTGTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.45
Consensus pattern (29 bp):
TTTTTCTTAGATCGCCACAAAGGCTTCCA
Found at i:44900289 original size:24 final size:24
Alignment explanation
Indices: 44900262--44900325 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
44900252 CATTTTCTGA
* **
44900262 TGCTACTGAAGAGCCCACTCACCC
1 TGCTGCTGAAGAGCCCACTCAAAC
* *
44900286 TGCTGCCGAGGAGCCCACTCAAAC
1 TGCTGCTGAAGAGCCCACTCAAAC
*
44900310 TGCTGCTGAATAGCCC
1 TGCTGCTGAAGAGCCC
44900326 GAAAATATGC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.23, C:0.38, G:0.22, T:0.17
Consensus pattern (24 bp):
TGCTGCTGAAGAGCCCACTCAAAC
Found at i:44900802 original size:14 final size:14
Alignment explanation
Indices: 44900785--44900813 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44900775 ATGTATGATC
44900785 ATTTTAGTATAGTT
1 ATTTTAGTATAGTT
44900799 ATTTTAGTATAGTT
1 ATTTTAGTATAGTT
44900813 A
1 A
44900814 AATCTGTTTT
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:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (14 bp):
ATTTTAGTATAGTT
Found at i:44907250 original size:20 final size:20
Alignment explanation
Indices: 44907205--44907252 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
44907195 TAATATTTAA
44907205 TTATATTTAAATAAAATTAT
1 TTATATTTAAATAAAATTAT
* **
44907225 TAATATTTATTTATAAATT-T
1 TTATATTTAAATA-AAATTAT
44907245 TTATATTT
1 TTATATTT
44907253 TTATTCAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTATATTTAAATAAAATTAT
Found at i:44910080 original size:29 final size:29
Alignment explanation
Indices: 44909994--44910084 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 29
44909984 ATTTTTATAT
44909994 ATTTAATCAATAGTTCATGAGATCTATTG
1 ATTTAATCAATAGTTCATGAGATCTATTG
* ** *
44910023 ATTTAAACCTTA-TT-TTGAGATCTATTG
1 ATTTAATCAATAGTTCATGAGATCTATTG
*
44910050 ATTTAATCAATGGTTCATGAGATCTATTG
1 ATTTAATCAATAGTTCATGAGATCTATTG
44910079 ATTTAA
1 ATTTAA
44910085 AAACAATTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
27 20 0.39
28 4 0.08
29 27 0.53
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (29 bp):
ATTTAATCAATAGTTCATGAGATCTATTG
Found at i:44910825 original size:17 final size:17
Alignment explanation
Indices: 44910805--44910903 Score: 58
Period size: 17 Copynumber: 5.8 Consensus size: 17
44910795 TCTATGCTAA
44910805 ATGCAAACTATGCTGTT
1 ATGCAAACTATGCTGTT
* * *
44910822 ATGCGAACCTATTCT-AT
1 ATGC-AAACTATGCTGTT
* * *
44910839 GTGCGAACTATGTTGTT
1 ATGCAAACTATGCTGTT
* *
44910856 ATGCAAACCTACG-TTTT
1 ATGCAAA-CTATGCTGTT
** * *
44910873 ATGTGAACTGTGTTGTT
1 ATGCAAACTATGCTGTT
44910890 ATGCAAACTATGCT
1 ATGCAAACTATGCT
44910904 AGGTATGATG
Statistics
Matches: 56, Mismatches: 22, Indels: 8
0.65 0.26 0.09
Matches are distributed among these distances:
16 9 0.16
17 35 0.62
18 12 0.21
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.37
Consensus pattern (17 bp):
ATGCAAACTATGCTGTT
Found at i:44910848 original size:34 final size:34
Alignment explanation
Indices: 44910786--44910866 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
44910776 AACTATATTT
*
44910786 TTATGCGAATCTATGCTAAATGCAAACTATGCTG
1 TTATGCGAACCTATGCTAAATGCAAACTATGCTG
* ** * *
44910820 TTATGCGAACCTATTCTATGTGCGAACTATGTTG
1 TTATGCGAACCTATGCTAAATGCAAACTATGCTG
*
44910854 TTATGCAAACCTA
1 TTATGCGAACCTA
44910867 CGTTTTATGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (34 bp):
TTATGCGAACCTATGCTAAATGCAAACTATGCTG
Found at i:44910881 original size:34 final size:33
Alignment explanation
Indices: 44910810--44910897 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 33
44910800 GCTAAATGCA
* *
44910810 AACTATGCTGTTATGCGAACCTATTCTATGTGCG
1 AACTATGTTGTTATGCAAACCTATTCTATGT-CG
*
44910844 AACTATGTTGTTATGCAAACCTACGTTTTATGT-G
1 AACTATGTTGTTATGCAAACCTA--TTCTATGTCG
*
44910878 AACTGTGTTGTTATGCAAAC
1 AACTATGTTGTTATGCAAAC
44910898 TATGCTAGGT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
34 41 0.85
36 7 0.15
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (33 bp):
AACTATGTTGTTATGCAAACCTATTCTATGTCG
Found at i:44917117 original size:27 final size:29
Alignment explanation
Indices: 44917072--44917133 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
44917062 TTTTCTAACA
*
44917072 TATT-AAAAATAAATTAAATAATAT-TTG
1 TATTAAAAAATAAATAAAATAATATATTG
* *
44917099 TATTAAAAAATAAA-AAAATATTTTATTG
1 TATTAAAAAATAAATAAAATAATATATTG
44917127 TATTAAA
1 TATTAAA
44917134 TATGAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 11 0.37
28 19 0.63
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.40
Consensus pattern (29 bp):
TATTAAAAAATAAATAAAATAATATATTG
Found at i:44917247 original size:6 final size:6
Alignment explanation
Indices: 44917236--44917271 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
44917226 TTAGTGGTTT
44917236 AATATA AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA
44917272 TATAATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:44917305 original size:29 final size:30
Alignment explanation
Indices: 44917260--44917324 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
44917250 TATAAATATA
44917260 AATATAAATATATATAATTATTATT-TAACAT
1 AATATAAATATATATAATT-TT-TTATAACAT
*
44917291 -ATATAATTA-ATATAATTTTTTATAACAT
1 AATATAAATATATATAATTTTTTATAACAT
44917319 AATATA
1 AATATA
44917325 TTTAGGTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
27 2 0.06
28 8 0.26
29 13 0.42
30 8 0.26
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (30 bp):
AATATAAATATATATAATTTTTTATAACAT
Found at i:44925614 original size:51 final size:49
Alignment explanation
Indices: 44925559--44925847 Score: 276
Period size: 51 Copynumber: 5.7 Consensus size: 49
44925549 GTTACTTTTA
* *
44925559 CACGTAGTAGCCTCCACATAGTACTACACACGTGATCAAGTTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGA-CAA-TTTTTACGATT
* *
44925610 CACGTAGTAGCCTTCACATAGTACTACACACGTGAACAAAACTTTT-CGATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG-AC--AATTTTTACGATT
* * * * *
44925661 CACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACAAT-TTTTA-CGATT
* * * *
44925712 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGA-C-AA-TTTTTACGATT
* * * * * *
44925763 CACATTGTAGCCTTCACTTAGTACTAGACATGTGACAATTATTTATCGATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACAATT-TTTA-CGATT
*
44925814 CACGTAATAGCCTTCACATAGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
44925848 TTCATCGATA
Statistics
Matches: 190, Mismatches: 36, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
48 2 0.01
49 7 0.04
50 3 0.02
51 167 0.88
52 6 0.03
53 5 0.03
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (49 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGACAATTTTTACGATT
Found at i:44925714 original size:102 final size:101
Alignment explanation
Indices: 44925557--44925847 Score: 377
Period size: 102 Copynumber: 2.9 Consensus size: 101
44925547 ATGTTACTTT
* * * * * * *
44925557 TACACGTAGTAGCCTCCACATAGTACTACACACGTGATCA-AGTTTTTACGGTTCACGTAGTAGC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATA-TTTAT-CGATTCACGTAGTAGC
*
44925621 CTTCACATAGTACTACACACGTGAACAAAACTTTTCGA
64 CTTCACATAGTACTACACACGTGAACAAAACTTCTCGA
44925659 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCAT-ATTTATCGATTCACGTAGTAGCC
* * * *
44925724 TTCACACAGTACTACACACGTGACCAAAGCTTCTCGG
65 TTCACATAGTACTACACACGTGAACAAAACTTCTCGA
* * * * * *
44925761 TTCACATTGTAGCCTTCACTTAGTACTAGACATGTGACAATTATTTATCGATACACGTAATAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCA-TATTTATCGATTCACGTAGTAGCC
44925826 TTCACATAGTACTACACACGTG
65 TTCACATAGTACTACACACGTG
44925848 TTCATCGATA
Statistics
Matches: 167, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
102 161 0.96
103 5 0.03
104 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (101 bp):
TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATATTTATCGATTCACGTAGTAGCCT
TCACATAGTACTACACACGTGAACAAAACTTCTCGA
Found at i:44925812 original size:153 final size:153
Alignment explanation
Indices: 44925559--44925843 Score: 396
Period size: 153 Copynumber: 1.9 Consensus size: 153
44925549 GTTACTTTTA
* * * * *
44925559 CACGTAGTAGCCTCCACATAGTACTACACACGTGATCAAGTTTTTACGGTTCACGTAGTAGCCTT
1 CACGTAGTAGCCTCCACACAGTACTACACACGTGACCAAGCTTCTACGGTTCACATAGTAGCCTT
* *
44925624 CACATAGTACTACACACGTGAACAAAACTTTTCGATACACATAGTAGCCTTCACTTAGTACTACA
66 CACATAGTACTACACACGTGAACAAAACTTTTCGATACACATAATAGCCTTCACATAGTACTACA
44925689 CATGTGACCATCATTTATCGATT
131 CATGTGACCATCATTTATCGATT
* *
44925712 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTTCACATTGTAGCCT
1 CACGTAGTAGCCTCCACACAGTACTACACACGTGACC-AAGCTTCTACGGTTCACATAGTAGCCT
* * * * *
44925776 TCACTTAGTACTAGACATGTG-ACAATTA-TTTATCGATACACGTAATAGCCTTCACATAGTACT
65 TCACATAGTACTACACACGTGAACAA-AACTTT-TCGATACACATAATAGCCTTCACATAGTACT
44925839 ACACA
128 ACACA
44925844 CGTGTTCATC
Statistics
Matches: 115, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
152 7 0.06
153 102 0.89
154 6 0.05
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (153 bp):
CACGTAGTAGCCTCCACACAGTACTACACACGTGACCAAGCTTCTACGGTTCACATAGTAGCCTT
CACATAGTACTACACACGTGAACAAAACTTTTCGATACACATAATAGCCTTCACATAGTACTACA
CATGTGACCATCATTTATCGATT
Found at i:44929673 original size:49 final size:47
Alignment explanation
Indices: 44929571--44929693 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 47
44929561 GAAATCTCTG
* * * *
44929571 TGTAAGACCATATCTGGAATATGGCAACATTGTGATATGTGATTCCG
1 TGTAAGACCATAGCTGGAATATGGCAACATTGTGATATGTGAATACA
** * *
44929618 TGTAAGACCATAGCTGGGGTATGGCATCGGTATGTGATATGTGAATACA
1 TGTAAGACCATAGCTGGAATATGGCAAC-AT-TGTGATATGTGAATACA
* *
44929667 TGTAAGACCATAGTTGGACTATGGCAA
1 TGTAAGACCATAGCTGGAATATGGCAA
44929694 TGTGAAAACG
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
47 24 0.39
48 1 0.02
49 37 0.60
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (47 bp):
TGTAAGACCATAGCTGGAATATGGCAACATTGTGATATGTGAATACA
Found at i:44935841 original size:20 final size:20
Alignment explanation
Indices: 44935801--44935841 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
44935791 CAAAATATAG
*
44935801 TGTGAAAATTGAAAATTTAA
1 TGTGAAAATTGAAAATGTAA
44935821 TGTG-AAATTGAAATATGTAA
1 TGTGAAAATTGAAA-ATGTAA
44935841 T
1 T
44935842 ATTAATGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (20 bp):
TGTGAAAATTGAAAATGTAA
Found at i:44936112 original size:25 final size:25
Alignment explanation
Indices: 44936064--44936112 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
44936054 CATAATTGAA
* * *
44936064 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
44936089 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
44936113 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:44936567 original size:43 final size:43
Alignment explanation
Indices: 44936503--44936588 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
44936493 TATGTGATTG
44936503 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAA
* *
44936546 ATATTGAAATGGCAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAA
44936589 TGAAATATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.50, C:0.02, G:0.24, T:0.23
Consensus pattern (43 bp):
ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAA
Found at i:44936572 original size:16 final size:16
Alignment explanation
Indices: 44936508--44936572 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 16
44936498 GATTGATATT
*
44936508 GAAATGGCAAAGATGA
1 GAAATGGCAAATATGA
44936524 GAAAT-G--AATATGA
1 GAAATGGCAAATATGA
* *
44936537 G--ATGAGAAAATAT-T
1 GAAATG-GCAAATATGA
44936551 GAAATGGCAAATATGA
1 GAAATGGCAAATATGA
44936567 GAAATG
1 GAAATG
44936573 ATTATGAGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
11 2 0.05
13 8 0.21
14 1 0.03
15 13 0.34
16 14 0.37
ACGTcount: A:0.51, C:0.03, G:0.26, T:0.20
Consensus pattern (16 bp):
GAAATGGCAAATATGA
Found at i:44937969 original size:49 final size:49
Alignment explanation
Indices: 44937897--44937993 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
44937887 TCAAGAAGGG
* *
44937897 ATAAATAGTGATAAGAGTGTAGACAGTGAAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGTAGACAGTGAAAGACCAAGTTTAGAAATGT
*
44937946 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGAAATG
1 ATAAATAGTGATAAGAGTGTAGACAGTGAAAGACCAAGTTTAGAAATG
44937994 CATAGCATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.43, C:0.06, G:0.26, T:0.25
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAGACAGTGAAAGACCAAGTTTAGAAATGT
Found at i:44956379 original size:54 final size:54
Alignment explanation
Indices: 44956321--44956428 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
44956311 ACACAAAATG
44956321 TTCACTTAACTAGAACTAATTTAAAATGTTCAATATGATCATTTATAAAGAAAA
1 TTCACTTAACTAGAACTAATTTAAAATGTTCAATATGATCATTTATAAAGAAAA
* *
44956375 TTCACTTATCTAGAACTAATTTAACATGTTCAATATGATCATTTATAAAGAAAA
1 TTCACTTAACTAGAACTAATTTAAAATGTTCAATATGATCATTTATAAAGAAAA
44956429 ATATTATCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.36
Consensus pattern (54 bp):
TTCACTTAACTAGAACTAATTTAAAATGTTCAATATGATCATTTATAAAGAAAA
Found at i:44958405 original size:20 final size:20
Alignment explanation
Indices: 44958364--44958407 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
44958354 AATGAAGTGC
* *
44958364 AAATGATTTTAACCAAATTA
1 AAATGATTTTAAACAAAGTA
44958384 AAATGATTTTCAAAC-AAGTA
1 AAATGATTTT-AAACAAAGTA
44958404 AAAT
1 AAAT
44958408 TTTCTCTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATGATTTTAAACAAAGTA
Found at i:44958571 original size:21 final size:22
Alignment explanation
Indices: 44958547--44958588 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
44958537 TGTTTTTGGT
44958547 ATTGATAC-TT-TTTGAAAAATA
1 ATTGATACATTCTTT-AAAAATA
44958568 ATTGATACATTCTTTAAAAAT
1 ATTGATACATTCTTTAAAAAT
44958589 GATGCCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 8 0.42
23 3 0.16
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (22 bp):
ATTGATACATTCTTTAAAAATA
Found at i:44964980 original size:9 final size:9
Alignment explanation
Indices: 44964963--44964999 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
44964953 TGAGTTTTCG
44964963 AATTCGAAT
1 AATTCGAAT
*
44964972 AACTCGAAT
1 AATTCGAAT
*
44964981 AATTCAAAT
1 AATTCGAAT
44964990 AATTCGAAT
1 AATTCGAAT
44964999 A
1 A
44965000 TCAAACTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:44965332 original size:16 final size:17
Alignment explanation
Indices: 44965311--44965342 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44965301 ACTTTCCCTC
44965311 AAAC-TTTTATTCTCCA
1 AAACTTTTTATTCTCCA
44965327 AAACTTTTTATTCTCC
1 AAACTTTTTATTCTCC
44965343 CTAAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (17 bp):
AAACTTTTTATTCTCCA
Found at i:44973400 original size:15 final size:15
Alignment explanation
Indices: 44973351--44973404 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
44973341 TGTATAAAAT
*
44973351 ATAATAATATATATTA
1 ATAA-AATATATACTA
* * *
44973367 TATAAAATATTTTCAA
1 -ATAAAATATATACTA
44973383 ATAAAATATATACTA
1 ATAAAATATATACTA
44973398 ATAAAAT
1 ATAAAAT
44973405 TTTACATTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
15 19 0.63
16 7 0.23
17 4 0.13
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAAAATATATACTA
Found at i:44974134 original size:33 final size:32
Alignment explanation
Indices: 44974078--44974143 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 32
44974068 AAAAATTATT
*
44974078 AATGATTTTTTAAAATTTGAAA-TTGAAACGTA
1 AATGATTTTTTAAAAATTGAAATTTGAAA-GTA
44974110 AATGATTATTTTAAAAAATT-AAATTTGAAAGTA
1 AATGATT-TTTT-AAAAATTGAAATTTGAAAGTA
44974143 A
1 A
44974144 TGGTAAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 7 0.23
33 11 0.37
34 12 0.40
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (32 bp):
AATGATTTTTTAAAAATTGAAATTTGAAAGTA
Found at i:44976618 original size:28 final size:28
Alignment explanation
Indices: 44976578--44976633 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
44976568 TAAAAATTTT
44976578 TGTTCAATCATAAGTAAACATGATATTA
1 TGTTCAATCATAAGTAAACATGATATTA
44976606 TGTTCAATCATAAGTAAACATGATATTA
1 TGTTCAATCATAAGTAAACATGATATTA
44976634 ACTTTTGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (28 bp):
TGTTCAATCATAAGTAAACATGATATTA
Found at i:44987037 original size:23 final size:23
Alignment explanation
Indices: 44986975--44987037 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
44986965 CATTGTTTGT
*
44986975 GAACATGTTCAATTATATGTTCAT
1 GAACATGTTCAATTA-ATGTTCAC
**
44986999 GAACATGTTCGTTTAATGTTCAC
1 GAACATGTTCAATTAATGTTCAC
*
44987022 GAACATATTCAATTAA
1 GAACATGTTCAATTAA
44987038 GTTAAATGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 20 0.61
24 13 0.39
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (23 bp):
GAACATGTTCAATTAATGTTCAC
Found at i:44990834 original size:18 final size:18
Alignment explanation
Indices: 44990797--44990834 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
44990787 TTGTGAGGGG
* *
44990797 GATATGGGAAGTGAGGAA
1 GATATGGGAAGTCAGAAA
44990815 GATATGGGAAGTCAGAAA
1 GATATGGGAAGTCAGAAA
44990833 GA
1 GA
44990835 ATCATGTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.39, T:0.16
Consensus pattern (18 bp):
GATATGGGAAGTCAGAAA
Found at i:44994570 original size:14 final size:14
Alignment explanation
Indices: 44994551--44994579 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44994541 GTCCAAGTTA
44994551 CAAAAATCGCCATT
1 CAAAAATCGCCATT
44994565 CAAAAATCGCCATT
1 CAAAAATCGCCATT
44994579 C
1 C
44994580 GGGCGAATTG
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:0.41, C:0.31, G:0.07, T:0.21
Consensus pattern (14 bp):
CAAAAATCGCCATT
Found at i:44998270 original size:24 final size:24
Alignment explanation
Indices: 44998243--44998288 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
44998233 CTAATTAAAT
* *
44998243 TTTATAAATAATTAATATTTATTG
1 TTTAAAAATAATTAAAATTTATTG
*
44998267 TTTAAAAATATTTAAAATTTAT
1 TTTAAAAATAATTAAAATTTAT
44998289 ATTTCAGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTAAAAATAATTAAAATTTATTG
Found at i:45002189 original size:43 final size:43
Alignment explanation
Indices: 45002128--45002216 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
45002118 TCCTTTGAAA
45002128 ACTCACTCTGCCAGAAAAATTTCTTCTTTATATGAAGCCGAGT
1 ACTCACTCTGCCAGAAAAATTTCTTCTTTATATGAAGCCGAGT
45002171 ACTCACTCTGCCAGAAAAATTTCTTCTTTATATGAAGCCGAGT
1 ACTCACTCTGCCAGAAAAATTTCTTCTTTATATGAAGCCGAGT
45002214 ACT
1 ACT
45002217 TTACTGAAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (43 bp):
ACTCACTCTGCCAGAAAAATTTCTTCTTTATATGAAGCCGAGT
Found at i:45008551 original size:12 final size:12
Alignment explanation
Indices: 45008536--45008569 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
45008526 GGAATAATTG
45008536 AACAAATAAACA
1 AACAAATAAACA
*
45008548 AACAAACAAACA
1 AACAAATAAACA
45008560 AACAAATAAA
1 AACAAATAAA
45008570 TCGACCACAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.76, C:0.18, G:0.00, T:0.06
Consensus pattern (12 bp):
AACAAATAAACA
Found at i:45008570 original size:4 final size:4
Alignment explanation
Indices: 45008536--45008565 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
45008526 GGAATAATTG
*
45008536 AACA AATA AACA AACA AACA AACA AACA AA
1 AACA AACA AACA AACA AACA AACA AACA AA
45008566 TAAATCGACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.77, C:0.20, G:0.00, T:0.03
Consensus pattern (4 bp):
AACA
Found at i:45010837 original size:44 final size:43
Alignment explanation
Indices: 45010784--45011154 Score: 183
Period size: 44 Copynumber: 8.7 Consensus size: 43
45010774 ATTTTAATCC
* *
45010784 GCTCTACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGCTTCTT-TGTCT
* *
45010828 GCTCCACTGCAACTTCAGGGAGATAAGATTGGATGC---GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGCTTCTTTG-TCT
* ** * * ** *
45010869 GTTATACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GCTTCTTTGTCT
* * * *
45010913 GCTCCACTGTAACTTTAGGGAGATAGGATTGGTTTCTTTTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGCTTC-TTTGTCT
* * * ** * * * **
45010957 TCTCTACTACTGCTT-AGGGATATCAGA----CTTGATGAGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGCTT-CTTTG-TCT
* * * ** *
45010997 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GCTTCTTTGTCT
* *
45011041 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGCTTC-TTTGTCT
* * * * *
45011085 GCTCCACTGCAACCTCAGAGAGATAAGACTGG---ATGTGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGCTTCTTTG-TCT
* *
45011126 GCTCTACTGCAACTTCAGAGAGATAAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT
45011155 CTGTAATGTA
Statistics
Matches: 244, Mismatches: 63, Indels: 43
0.70 0.18 0.12
Matches are distributed among these distances:
39 4 0.02
40 18 0.07
41 66 0.27
42 8 0.03
43 15 0.06
44 129 0.53
45 2 0.01
47 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGGCTTCTTTGTCT
Found at i:45010938 original size:129 final size:129
Alignment explanation
Indices: 45010741--45011158 Score: 597
Period size: 129 Copynumber: 3.2 Consensus size: 129
45010731 ATGCGATCCA
* ** ** *
45010741 CTCTACTGCAAATTCAGAGAGATAAGATCCATCATTTTAATCCGCTCTACTGCAACTTCAGGGAG
1 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAG
* * *
45010806 ATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGATGCGATCTG
66 ATAGGATTGGTTTCTTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGATGAGATCTG
* * * *
45010870 TTATACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTTAGGGAG
1 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAG
* * * ** * *
45010935 ATAGGATTGGTTTCTTTTGTCTTCTCTACTACTGCTT-AGGGATATCAGACTT-GATGAGATCTG
66 ATAGGATTGGTTTCTTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGATGAGATCTG
45010998 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAG
1 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAG
* * * *
45011063 ATAGGATTGGTTTCTTTTGTCTGCTCCACTGCAACCTCAGAGAGATAAGACTGGATGTGATCTG
66 ATAGGATTGGTTTCTTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGATGAGATCTG
45011127 CTCTACTGCAACTTCAGAGAGATAAGATCTGT
1 CTCTACTGCAACTTCAGAGAGATAAGATCTGT
45011159 AATGTATGGC
Statistics
Matches: 251, Mismatches: 35, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
128 113 0.45
129 138 0.55
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (129 bp):
CTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAG
ATAGGATTGGTTTCTTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGATGAGATCTG
Found at i:45011265 original size:50 final size:50
Alignment explanation
Indices: 45011165--45011327 Score: 218
Period size: 50 Copynumber: 3.2 Consensus size: 50
45011155 CTGTAATGTA
* * * * **
45011165 TGGCTTCAATCTTTTAAATTGCAATGTCGGGGGAAGCAAGATTCACCGTTG
1 TGGCTTTAATCTTTTTAACTGCAATGTC-GAGGAAGCAAGATTTGCCGTTG
* * *
45011216 TAGCTTTAATCTTTTTAACTGCATTGTCGAGGAAGCAAGATTTGTCGTTG
1 TGGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTTGCCGTTG
* *
45011266 TGGCTTTAATCTTTTTAGCTGCAATGTCGAGAAAGCAAGATTTGCCGTTG
1 TGGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTTGCCGTTG
45011316 TGGCTTTAATCT
1 TGGCTTTAATCT
45011328 GCTCCACTGC
Statistics
Matches: 98, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 75 0.77
51 23 0.23
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (50 bp):
TGGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTTGCCGTTG
Found at i:45011356 original size:100 final size:102
Alignment explanation
Indices: 45011122--45011358 Score: 219
Period size: 100 Copynumber: 2.3 Consensus size: 102
45011112 ACTGGATGTG
* * * *
45011122 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATGTATGGCTTCAATCTTTTAAATTGC
1 ATCTGCTCAACTGCAACCTCAGGGAGATAAGATCTGTAATGTATGGCTTCAATCTTTTAAACTGC
* *
45011187 AATGTCGGGGGAAGCAAGATTCACCGTTGTAGCTTTA
66 AATGTCGGAGAAAGCAAGATTCACCGTTGTAGCTTTA
** * *** * * * ** * * * *
45011224 ATCTTTTTAACTGCATTGTCGAGGAAG-CAAGATTTGTCGT-TGTGGCTTTAATCTTTTTAGCTG
1 ATCTGCTCAACTGCAACCTC-AGGGAGATAAGATCTGTAATGTATGGCTTCAATCTTTTAAACTG
** *
45011287 CAATGTC-GAGAAAGCAAGATTTGCCGTTGTGGCTTTA
65 CAATGTCGGAGAAAGCAAGATTCACCGTTGTAGCTTTA
*
45011324 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATCT
1 ATCTGCTCAACTGCAACCTCAGGGAGATAAGATCT
45011359 ACTTCTTCGG
Statistics
Matches: 100, Mismatches: 33, Indels: 6
0.72 0.24 0.04
Matches are distributed among these distances:
99 5 0.05
100 44 0.44
101 25 0.25
102 22 0.22
103 4 0.04
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (102 bp):
ATCTGCTCAACTGCAACCTCAGGGAGATAAGATCTGTAATGTATGGCTTCAATCTTTTAAACTGC
AATGTCGGAGAAAGCAAGATTCACCGTTGTAGCTTTA
Found at i:45011388 original size:44 final size:44
Alignment explanation
Indices: 45011324--45012229 Score: 392
Period size: 44 Copynumber: 20.8 Consensus size: 44
45011314 TGTGGCTTTA
*
45011324 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATCTACTTCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTACTTCTTCG
* * * ** *
45011368 GTCTGCTCCGCTGCAACCTCAGGGAGATAAGA-C--CTGATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTACTTCTTCG
** * * **
45011409 ATCCACTCTACTGCAACTTCAGAGAGATAAGATCTA-TTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTACTT-CTTCG
** * * * * *
45011453 ATCCACCCCACTACAATTTCAGGGAGATAGGAT-T--TTGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTACTT--CTTCG
* * * * *
45011496 ATCTGCTCCACTGCAACCTCAAGGAGATAAGATTTGCCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-ACTTCTTCG
* * *
45011541 ATCTGCCCCACTGCAACTTCAGGGGGATAAGATCTGCTTCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTACTTCTTCG
** * ** *
45011585 GCCTGCTCCGCTGCAACCTT-AGGGAGATAAGA-C--CTGATGCG
1 ATCTGCTCCACTGCAA-CTTCAGGGAGATAAGATCTACTTCTTCG
** * ** **
45011626 ATCCACTCTACTGCAACTTCAAAGAGATAAGATCTA-TTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTACTT-CTTCG
* * * * * * *
45011670 ATCCGCTCAACTACAATTTCAAGGAGATAGGAT-TA-TTAGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTACTT--CTTCG
* * * * *
45011714 ATCTGCTCCACTGCAACCTCAGGAAGATAAGATTTTCCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TCTACTTCTTCG
* * * *
45011759 ATCTGCCCCACTGCAACTTCAGGGGGATAAGATATGCTTCTTC-
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTACTTCTTCG
* * * ** *
45011802 AGTCTACTCCGCTGCAACCTCAGGGAGATAAGA-C--CTGATGCG
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTACTTCTTCG
** * * **
45011844 ATCCACTCTACTGCAACTTCAGAGAGATAAGATCTA-TTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTACTT-CTTCG
* * * * * * *
45011888 ATCCGCTCAACTACAATTTTAGGGAGATAGGAT-TA-TTGACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTACTT--CTTCG
* * * * * *
45011932 ATCTGCTCCACTACAACCTCAGGGAGATAAGATTTTCCATCTTTG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TCTACTTCTTCG
* * * *
45011977 ATCTGCCCCACTACAACTTTAGAGG-GATAAGATCTGCTTCTTCG
1 ATCTGCTCCACTGCAACTTCAG-GGAGATAAGATCTACTTCTTCG
* ** * * ** *
45012021 GTCTGCTCCGTTGCAACCTCAGGGAGATAA-AAC--CTGATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTACTTCTTCG
** ** * * *
45012062 ATCCACTATACTACAACTTCAGAGAGATAAGATCTA-TTACTT-T
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTACTT-CTTCG
* * * * * ** *
45012105 AGTCCGCTCTACTACAATTTCAGGGAGATAGGAT-TATCGGCTTCA
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTA-CTTCTTCG
* * * * *
45012150 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGCCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-ACTTCTTCG
* * *
45012195 ATCTGCCCCACTTCAACTTCAGGGGGATAAGATCT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT
45012230 GCTATTTCCA
Statistics
Matches: 637, Mismatches: 184, Indels: 81
0.71 0.20 0.09
Matches are distributed among these distances:
40 3 0.00
41 110 0.17
42 8 0.01
43 52 0.08
44 321 0.50
45 136 0.21
46 4 0.01
47 3 0.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTACTTCTTCG
Found at i:45011820 original size:218 final size:218
Alignment explanation
Indices: 45011324--45012232 Score: 1496
Period size: 218 Copynumber: 4.2 Consensus size: 218
45011314 TGTGGCTTTA
* * * *
45011324 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATCTACTTCTTCGGTCTGCTCCGCTGCAACCTCA
1 ATCTGCCCCACTGCAACTTCAGGGGGATAAGATCTGCTTCTTCGGTCTGCTCCGCTGCAACCTCA
45011389 GGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAA
66 GGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAA
* * * *
45011454 TCCACCCCACTACAATTTCAGGGAGATAGGATT-TTGGCTTCAATCTGCTCCACTGCAACCTCAA
131 TCCGCTCAACTACAATTTCAGGGAGATAGGATTATTGGCTTCAATCTGCTCCACTGCAACCTCAG
45011518 GGAGATAAGATTTGCCATCTTCG
196 GGAGATAAGATTTGCCATCTTCG
* *
45011541 ATCTGCCCCACTGCAACTTCAGGGGGATAAGATCTGCTTCTTCGGCCTGCTCCGCTGCAACCTTA
1 ATCTGCCCCACTGCAACTTCAGGGGGATAAGATCTGCTTCTTCGGTCTGCTCCGCTGCAACCTCA
*
45011606 GGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAAAGAGATAAGATCTATTACTTTAA
66 GGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAA
* *
45011671 TCCGCTCAACTACAATTTCAAGGAGATAGGATTATTAGCTTCAATCTGCTCCACTGCAACCTCAG
131 TCCGCTCAACTACAATTTCAGGGAGATAGGATTATTGGCTTCAATCTGCTCCACTGCAACCTCAG
* *
45011736 GAAGATAAGATTTTCCATCTTCG
196 GGAGATAAGATTTGCCATCTTCG
* * *
45011759 ATCTGCCCCACTGCAACTTCAGGGGGATAAGATATGCTTCTTCAGTCTACTCCGCTGCAACCTCA
1 ATCTGCCCCACTGCAACTTCAGGGGGATAAGATCTGCTTCTTCGGTCTGCTCCGCTGCAACCTCA
45011824 GGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAA
66 GGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAA
* * *
45011889 TCCGCTCAACTACAATTTTAGGGAGATAGGATTATTGACTTCAATCTGCTCCACTACAACCTCAG
131 TCCGCTCAACTACAATTTCAGGGAGATAGGATTATTGGCTTCAATCTGCTCCACTGCAACCTCAG
* *
45011954 GGAGATAAGATTTTCCATCTTTG
196 GGAGATAAGATTTGCCATCTTCG
* * * *
45011977 ATCTGCCCCACTACAACTTTAGAGGGATAAGATCTGCTTCTTCGGTCTGCTCCGTTGCAACCTCA
1 ATCTGCCCCACTGCAACTTCAGGGGGATAAGATCTGCTTCTTCGGTCTGCTCCGCTGCAACCTCA
* * * *
45012042 GGGAGATAAAACCTGATGCGATCCACTATACTACAACTTCAGAGAGATAAGATCTATTACTTTAG
66 GGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAA
* * *
45012107 TCCGCTCTACTACAATTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACCTCAG
131 TCCGCTCAACTACAATTTCAGGGAGATAGGATTATTGGCTTCAATCTGCTCCACTGCAACCTCAG
45012172 GGAGATAAGATTTGCCATCTTCG
196 GGAGATAAGATTTGCCATCTTCG
*
45012195 ATCTGCCCCACTTCAACTTCAGGGGGATAAGATCTGCT
1 ATCTGCCCCACTGCAACTTCAGGGGGATAAGATCTGCT
45012233 ATTTCCAACC
Statistics
Matches: 641, Mismatches: 50, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
217 152 0.24
218 489 0.76
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (218 bp):
ATCTGCCCCACTGCAACTTCAGGGGGATAAGATCTGCTTCTTCGGTCTGCTCCGCTGCAACCTCA
GGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAA
TCCGCTCAACTACAATTTCAGGGAGATAGGATTATTGGCTTCAATCTGCTCCACTGCAACCTCAG
GGAGATAAGATTTGCCATCTTCG
Found at i:45013704 original size:354 final size:354
Alignment explanation
Indices: 45013055--45013764 Score: 1420
Period size: 354 Copynumber: 2.0 Consensus size: 354
45013045 AAGAGAAAGT
45013055 CCAAATTTAGACTCTTCCTTCTCAAATTTCTAACCTTTAAATTTGGTGTGTTCTAAACAATAGTC
1 CCAAATTTAGACTCTTCCTTCTCAAATTTCTAACCTTTAAATTTGGTGTGTTCTAAACAATAGTC
45013120 CTGTTTCAGGTTCTTATATTATTTAGAAACTTTTCAGAGTAATATGCAAAACTTCTTTTGTGAAA
66 CTGTTTCAGGTTCTTATATTATTTAGAAACTTTTCAGAGTAATATGCAAAACTTCTTTTGTGAAA
45013185 GTTTTATTAGTCCCGTAATCATTATTCCAATGCAACATGCTTGCAAAAAAAGGTCATAACAATGG
131 GTTTTATTAGTCCCGTAATCATTATTCCAATGCAACATGCTTGCAAAAAAAGGTCATAACAATGG
45013250 ATAAGAATAAAGTTGGTTCTGGGCATAGCTCAAAATGAATAAATTATCACAAATAGTAAAGAAGG
196 ATAAGAATAAAGTTGGTTCTGGGCATAGCTCAAAATGAATAAATTATCACAAATAGTAAAGAAGG
45013315 ATAATAAAGAAATTGATTGGGAATGTATATCTTGGAAAAGAAAAAAATATTCCAAGAACAACAAA
261 ATAATAAAGAAATTGATTGGGAATGTATATCTTGGAAAAGAAAAAAATATTCCAAGAACAACAAA
45013380 TTCAATATAAATAATATGAGAATTGAGTG
326 TTCAATATAAATAATATGAGAATTGAGTG
45013409 CCAAATTTAGACTCTTCCTTCTCAAATTTCTAACCTTTAAATTTGGTGTGTTCTAAACAATAGTC
1 CCAAATTTAGACTCTTCCTTCTCAAATTTCTAACCTTTAAATTTGGTGTGTTCTAAACAATAGTC
45013474 CTGTTTCAGGTTCTTATATTATTTAGAAACTTTTCAGAGTAATATGCAAAACTTCTTTTGTGAAA
66 CTGTTTCAGGTTCTTATATTATTTAGAAACTTTTCAGAGTAATATGCAAAACTTCTTTTGTGAAA
45013539 GTTTTATTAGTCCCGTAATCATTATTCCAATGCAACATGCTTGCAAAAAAAGGTCATAACAATGG
131 GTTTTATTAGTCCCGTAATCATTATTCCAATGCAACATGCTTGCAAAAAAAGGTCATAACAATGG
45013604 ATAAGAATAAAGTTGGTTCTGGGCATAGCTCAAAATGAATAAATTATCACAAATAGTAAAGAAGG
196 ATAAGAATAAAGTTGGTTCTGGGCATAGCTCAAAATGAATAAATTATCACAAATAGTAAAGAAGG
45013669 ATAATAAAGAAATTGATTGGGAATGTATATCTTGGAAAAGAAAAAAATATTCCAAGAACAACAAA
261 ATAATAAAGAAATTGATTGGGAATGTATATCTTGGAAAAGAAAAAAATATTCCAAGAACAACAAA
45013734 TTCAATATAAATAATATGAGAATTGAGTG
326 TTCAATATAAATAATATGAGAATTGAGTG
45013763 CC
1 CC
45013765 CTAGATATCG
Statistics
Matches: 356, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
354 356 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (354 bp):
CCAAATTTAGACTCTTCCTTCTCAAATTTCTAACCTTTAAATTTGGTGTGTTCTAAACAATAGTC
CTGTTTCAGGTTCTTATATTATTTAGAAACTTTTCAGAGTAATATGCAAAACTTCTTTTGTGAAA
GTTTTATTAGTCCCGTAATCATTATTCCAATGCAACATGCTTGCAAAAAAAGGTCATAACAATGG
ATAAGAATAAAGTTGGTTCTGGGCATAGCTCAAAATGAATAAATTATCACAAATAGTAAAGAAGG
ATAATAAAGAAATTGATTGGGAATGTATATCTTGGAAAAGAAAAAAATATTCCAAGAACAACAAA
TTCAATATAAATAATATGAGAATTGAGTG
Found at i:45014066 original size:7 final size:7
Alignment explanation
Indices: 45014047--45014099 Score: 56
Period size: 7 Copynumber: 7.4 Consensus size: 7
45014037 TTAGCCTCTC
45014047 CATTTTT
1 CATTTTT
45014054 -ACTTTTT
1 CA-TTTTT
45014061 CATTTTTT
1 CA-TTTTT
*
45014069 AATTTTT
1 CATTTTT
45014076 CA-TTTT
1 CATTTTT
45014082 CATTTTTT
1 CA-TTTTT
45014090 CATTTTT
1 CATTTTT
45014097 CAT
1 CAT
45014100 ACTTTTTTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 7 0.18
7 19 0.49
8 13 0.33
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:45014066 original size:14 final size:14
Alignment explanation
Indices: 45014047--45014096 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
45014037 TTAGCCTCTC
*
45014047 CATTTTTACTTTTT
1 CATTTTTAATTTTT
45014061 CATTTTTTAATTTTT
1 CA-TTTTTAATTTTT
* *
45014076 CATTTTCATTTTTT
1 CATTTTTAATTTTT
45014090 CATTTTT
1 CATTTTT
45014097 CATACTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (14 bp):
CATTTTTAATTTTT
Found at i:45014067 original size:8 final size:8
Alignment explanation
Indices: 45014056--45014096 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
45014046 CCATTTTTAC
45014056 TTTTTCAT
1 TTTTTCAT
*
45014064 TTTTT-AA
1 TTTTTCAT
45014071 TTTTTCA-
1 TTTTTCAT
45014078 -TTTTCAT
1 TTTTTCAT
45014085 TTTTTCAT
1 TTTTTCAT
45014093 TTTT
1 TTTT
45014097 CATACTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
6 6 0.21
7 6 0.21
8 17 0.59
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTCAT
Found at i:45014069 original size:15 final size:15
Alignment explanation
Indices: 45014049--45014106 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
45014039 AGCCTCTCCA
45014049 TTTTTACTTTTTCAT
1 TTTTTACTTTTTCAT
*
45014064 TTTTTAATTTTTCA-
1 TTTTTACTTTTTCAT
* *
45014078 TTTTCATTTTTTCAT
1 TTTTTACTTTTTCAT
45014093 TTTTCATACTTTTT
1 TTTT--TACTTTTT
45014107 TGACTCAGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 12 0.34
15 17 0.49
17 6 0.17
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTACTTTTTCAT
Found at i:45014081 original size:21 final size:21
Alignment explanation
Indices: 45014048--45014099 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
45014038 TAGCCTCTCC
*
45014048 ATTTTTACTTTTTCATTTTTTA
1 ATTTTT-CATTTTCATTTTTTA
*
45014070 ATTTTTCATTTTCATTTTTTC
1 ATTTTTCATTTTCATTTTTTA
45014091 ATTTTTCAT
1 ATTTTTCAT
45014100 ACTTTTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTTTCATTTTCATTTTTTA
Found at i:45015013 original size:6 final size:6
Alignment explanation
Indices: 45014983--45015051 Score: 68
Period size: 6 Copynumber: 11.7 Consensus size: 6
45014973 CTTCTCTCTT
* * * * *
45014983 TTTTCA TTTTCA TTTTGA CTTTGA TTTTGA TTTT-T TTTTGC TTTTGA
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
* *
45015030 CTTTGA TTTTTA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTT
45015052 TTTCTTCCCC
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
5 4 0.08
6 48 0.92
ACGTcount: A:0.13, C:0.07, G:0.10, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:45015021 original size:35 final size:35
Alignment explanation
Indices: 45014981--45015054 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
45014971 TTCTTCTCTC
*
45014981 TTTTTT-CATTTTCATTTTGACTTTGATTTTGATTT
1 TTTTTTGC-TTTTCACTTTGACTTTGATTTTGATTT
* * *
45015016 TTTTTTGCTTTTGACTTTGATTTTTATTTTGATTT
1 TTTTTTGCTTTTCACTTTGACTTTGATTTTGATTT
45015051 TTTT
1 TTTT
45015055 CTTCCCCCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 33 0.97
36 1 0.03
ACGTcount: A:0.12, C:0.07, G:0.09, T:0.72
Consensus pattern (35 bp):
TTTTTTGCTTTTCACTTTGACTTTGATTTTGATTT
Found at i:45015028 original size:23 final size:24
Alignment explanation
Indices: 45014988--45015051 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 24
45014978 CTCTTTTTTC
* * *
45014988 ATTTTCATTTTGACTTTGATTTTG
1 ATTTTTATTTTGATTTTGACTTTG
*
45015012 ATTTTT-TTTTGCTTTTGACTTTG
1 ATTTTTATTTTGATTTTGACTTTG
45015035 ATTTTTATTTTGATTTT
1 ATTTTTATTTTGATTTT
45015052 TTTCTTCCCC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 20 0.59
24 14 0.41
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (24 bp):
ATTTTTATTTTGATTTTGACTTTG
Found at i:45019142 original size:4 final size:4
Alignment explanation
Indices: 45019133--45019162 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
45019123 GGAATAATTG
*
45019133 AACA AACA AACA AACA AACA AATA AACA AA
1 AACA AACA AACA AACA AACA AACA AACA AA
45019163 TAAATCGACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.77, C:0.20, G:0.00, T:0.03
Consensus pattern (4 bp):
AACA
Found at i:45019167 original size:12 final size:12
Alignment explanation
Indices: 45019103--45019167 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
45019093 ACCACATTTT
45019103 AATAAACAAATA
1 AATAAACAAATA
*
45019115 AATGAAACGGAATA
1 AAT-AAAC-AAATA
* * *
45019129 ATTGAACAAACA
1 AATAAACAAATA
* *
45019141 AACAAACAAACA
1 AATAAACAAATA
45019153 AATAAACAAATA
1 AATAAACAAATA
45019165 AAT
1 AAT
45019168 CGACCACACC
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
12 28 0.68
13 7 0.17
14 6 0.15
ACGTcount: A:0.68, C:0.12, G:0.06, T:0.14
Consensus pattern (12 bp):
AATAAACAAATA
Found at i:45019376 original size:13 final size:13
Alignment explanation
Indices: 45019358--45019388 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
45019348 TAACATAGTT
*
45019358 TAAAATGAATAAA
1 TAAAATAAATAAA
45019371 TAAAATAAATAAA
1 TAAAATAAATAAA
45019384 TAAAA
1 TAAAA
45019389 AAAACACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
TAAAATAAATAAA
Found at i:45026828 original size:35 final size:36
Alignment explanation
Indices: 45026772--45026878 Score: 112
Period size: 35 Copynumber: 3.1 Consensus size: 36
45026762 TACTCTCTGT
* * * * *
45026772 TTGGCGTG-TTTCAGTTTGACTAGCTCTTATGAGTA
1 TTGGCATGTTTTCGGTTGGACTAACTCTTATGAGCA
* *
45026807 TTGGCAT-TTTTCGGTTGGACTATCTCTTATGTGCA
1 TTGGCATGTTTTCGGTTGGACTAACTCTTATGAGCA
* *
45026842 TTGGCATGTTTT-GGTTGGACTAACTCTTGTGAACA
1 TTGGCATGTTTTCGGTTGGACTAACTCTTATGAGCA
45026877 TT
1 TT
45026879 TGGTGTGTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
35 56 0.93
36 4 0.07
ACGTcount: A:0.17, C:0.15, G:0.24, T:0.44
Consensus pattern (36 bp):
TTGGCATGTTTTCGGTTGGACTAACTCTTATGAGCA
Found at i:45033481 original size:96 final size:96
Alignment explanation
Indices: 45033307--45033486 Score: 225
Period size: 96 Copynumber: 1.9 Consensus size: 96
45033297 ATGCTGCTCC
* * * *
45033307 CACAAGCTATCGAGTATCCACAACTAATGTCGGACCTCAACCATCGATAGGACATTCAAGACCAG
1 CACAAGCTATCGAGTATCCACAACTAATGCCGAAACTCAACCACCGATAGGACATTCAAGACCAG
* *
45033372 CATCAGAACCATGGTAACCTGGGTCTGCTTA
66 CACCAGAAACATGGTAACCTGGGTCTGCTTA
* * * * * * *
45033403 CACAAGCTGTTGAGTATCCGCAACTAATGCCGAAACTTAGCCACCGGTAGGACATTCAAGACTAG
1 CACAAGCTATCGAGTATCCACAACTAATGCCGAAACTCAACCACCGATAGGACATTCAAGACCAG
* *
45033468 TACCCGAAACATGGTAACC
66 CACCAGAAACATGGTAACC
45033487 GTAATGACAT
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
96 69 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (96 bp):
CACAAGCTATCGAGTATCCACAACTAATGCCGAAACTCAACCACCGATAGGACATTCAAGACCAG
CACCAGAAACATGGTAACCTGGGTCTGCTTA
Found at i:45036971 original size:10 final size:9
Alignment explanation
Indices: 45036939--45037031 Score: 54
Period size: 9 Copynumber: 10.7 Consensus size: 9
45036929 AATAAATATA
*
45036939 AAAAATTAC
1 AAAAATTAT
*
45036948 AAACATTAT
1 AAAAATTAT
45036957 AAAAATTATT
1 AAAAATTA-T
45036967 AAAAA-TAT
1 AAAAATTAT
45036975 -AAAATTAT
1 AAAAATTAT
* *
45036983 --AAACTAC
1 AAAAATTAT
**
45036990 AAAAACAAT
1 AAAAATTAT
45036999 ATAAAA--AT
1 A-AAAATTAT
45037007 AAAAATTACT
1 AAAAATTA-T
*
45037017 AAAAATTTT
1 AAAAATTAT
45037026 AAAAAT
1 AAAAAT
45037032 CACATTTACT
Statistics
Matches: 68, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
7 13 0.19
8 7 0.10
9 30 0.44
10 18 0.26
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:45036975 original size:18 final size:19
Alignment explanation
Indices: 45036932--45036982 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 19
45036922 ATTTACAAAT
45036932 AAATATAAAAA--ATTACA
1 AAATATAAAAATTATTACA
45036949 AACATTATAAAAATTATTA-A
1 AA-A-TATAAAAATTATTACA
45036969 AAATAT-AAAATTAT
1 AAATATAAAAATTAT
45036983 AAACTACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 10 0.33
18 4 0.13
19 9 0.30
20 3 0.10
21 4 0.13
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATATAAAAATTATTACA
Found at i:45037019 original size:16 final size:15
Alignment explanation
Indices: 45036955--45037022 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 15
45036945 TACAAACATT
45036955 ATAAAAATTATTAAAA
1 ATAAAAATTA-TAAAA
45036971 ATATAAAATTATAAACTA
1 ATA-AAAATTATAAA--A
*
45036989 CA-AAAACAATATAAAA
1 -ATAAAA-ATTATAAAA
45037005 ATAAAAATTACTAAAA
1 ATAAAAATTA-TAAAA
45037021 AT
1 AT
45037023 TTTAAAAATC
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
15 4 0.09
16 19 0.44
17 10 0.23
18 9 0.21
19 1 0.02
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAAAAATTATAAAA
Found at i:45037020 original size:26 final size:25
Alignment explanation
Indices: 45036955--45037031 Score: 75
Period size: 26 Copynumber: 3.1 Consensus size: 25
45036945 TACAAACATT
*
45036955 ATAAAAATTA-TTAAAAATATAAAA
1 ATAAAAATTACTAAAAAATATAAAA
* * * *
45036979 TTATAAACTACAAAAACAATATAAAA
1 ATAAAAATTACTAAAA-AATATAAAA
* *
45037005 ATAAAAATTACTAAAAATTTTAAAA
1 ATAAAAATTACTAAAAAATATAAAA
45037030 AT
1 AT
45037032 CACATTTACT
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
24 7 0.17
25 12 0.30
26 21 0.52
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (25 bp):
ATAAAAATTACTAAAAAATATAAAA
Found at i:45037865 original size:28 final size:28
Alignment explanation
Indices: 45037825--45037885 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
45037815 TTTTACTATT
*
45037825 TTTTACAATATTTTATAATTTCTAATAA
1 TTTTACAACATTTTATAATTTCTAATAA
*
45037853 TTTTACAACATTTTATAATTTCTAATAT
1 TTTTACAACATTTTATAATTTCTAATAA
45037881 TTTTA
1 TTTTA
45037886 TAATTTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTTACAACATTTTATAATTTCTAATAA
Found at i:45042196 original size:26 final size:28
Alignment explanation
Indices: 45042167--45042244 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 28
45042157 ATACGGCTAT
45042167 TTATCTAAATGA-TAAAA-AAAAAACAA
1 TTATCTAAATGACTAAAATAAAAAACAA
** *
45042193 TTATAAAAATGACTAAAATTAAAAAATAA
1 TTATCTAAATGACTAAAA-TAAAAAACAA
* *
45042222 TCAACTAAATGACTTAAAATAAA
1 TTATCTAAATGAC-TAAAATAAA
45042245 TAGTAAAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
26 10 0.24
27 5 0.12
29 21 0.51
30 5 0.12
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.26
Consensus pattern (28 bp):
TTATCTAAATGACTAAAATAAAAAACAA
Found at i:45043190 original size:90 final size:90
Alignment explanation
Indices: 45043037--45043335 Score: 381
Period size: 90 Copynumber: 3.3 Consensus size: 90
45043027 ACTACTATTC
* * *
45043037 AAAATGTTCGTATTATTTTTGTATCTGTAAATCAATTTTAGTCCGTATTATTTGTTGGTCGAATT
1 AAAATGTTCGTATTATCTTTGTATATGTAAATAAATTTTAGTCCGTATTATTTGTTGGTCGAATT
45043102 TTATATTTTCGTATATCAGTTTTGT
66 TTATATTTTCGTATATCAGTTTTGT
* * * **
45043127 AAAATGTTTGTATTATCTTTGGATATGTAAA-AATATTTTAGACCGTATTATTTGCCGGTCGAAT
1 AAAATGTTCGTATTATCTTTGTATATGTAAATAA-ATTTTAGTCCGTATTATTTGTTGGTCGAAT
* *
45043191 TTTATATTTTCGTATATCAATTTTCT
65 TTTATATTTTCGTATATCAGTTTTGT
* * *
45043217 AAAATGTTCGTATTATTTTTGTATATGTAAATCAAA-TTTAGTCGGTATTATTTATTGGTCGAAT
1 AAAATGTTCGTATTATCTTTGTATATGTAAAT-AAATTTTAGTCCGTATTATTTGTTGGTCGAAT
* *
45043281 TATATATTTTCATATA-CTAGTTTTGT
65 TTTATATTTTCGTATATC-AGTTTTGT
* * *
45043307 AGAATGTTTGTATTTTC-TTGTATATGTAA
1 AAAATGTTCGTATTATCTTTGTATATGTAA
45043336 TTTTTTTTTG
Statistics
Matches: 179, Mismatches: 26, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
89 14 0.08
90 162 0.91
91 1 0.01
92 2 0.01
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.50
Consensus pattern (90 bp):
AAAATGTTCGTATTATCTTTGTATATGTAAATAAATTTTAGTCCGTATTATTTGTTGGTCGAATT
TTATATTTTCGTATATCAGTTTTGT
Found at i:45046706 original size:42 final size:42
Alignment explanation
Indices: 45046593--45046751 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 42
45046583 GGCTCGTACA
* * * *
45046593 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATAACG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCATAT-ACG
*
45046636 ATGCC-ACTGTCCTAGACATGGTCTTACACGTAATCATATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCATATACG
* * *
45046678 ACGCCAACGTCCCAGACATGGTCTTACACATAAATC-TCAAACCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AATCAT-ATA-CG
*
45046722 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
45046752 ATATCACATT
Statistics
Matches: 101, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
42 31 0.31
43 41 0.41
44 29 0.29
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCATATACG
Found at i:45046751 original size:86 final size:85
Alignment explanation
Indices: 45046595--45046751 Score: 201
Period size: 86 Copynumber: 1.8 Consensus size: 85
45046585 CTCGTACAAT
* * ** *
45046595 GCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATAACGATGCCACTGTCCTAGACATGGTCT
1 GCCAACGTCCCAGACATGGTCTTACACATAATCAAATAACGATGCCACTGTCCCAGACATGGTCT
45046660 TACACGTAATCATATACGAC
66 TACACGTAATCATATACGAC
* * *
45046680 GCCAACGTCCCAGACATGGTCTTACACATAAATCTCAA-ACCGATGCCAAC-GTCCCAGACGTGG
1 GCCAACGTCCCAGACATGGTCTTACACAT-AATC-AAATAACGATGCC-ACTGTCCCAGACATGG
45046743 TCTTACACG
63 TCTTACACG
45046752 ATATCACATT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
85 25 0.41
86 32 0.52
87 4 0.07
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (85 bp):
GCCAACGTCCCAGACATGGTCTTACACATAATCAAATAACGATGCCACTGTCCCAGACATGGTCT
TACACGTAATCATATACGAC
Found at i:45047311 original size:18 final size:20
Alignment explanation
Indices: 45047274--45047312 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
45047264 TTTCATTTTC
*
45047274 AATTCAACCCAAAATACTCA
1 AATTCAACCAAAAATACTCA
45047294 AATTC-ACCAAAAAT-CTCA
1 AATTCAACCAAAAATACTCA
45047312 A
1 A
45047313 TACAAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (20 bp):
AATTCAACCAAAAATACTCA
Found at i:45049036 original size:38 final size:38
Alignment explanation
Indices: 45048993--45049073 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 38
45048983 CTGGCACCTG
* * *
45048993 CTGAAGTCAGCCACTTA-TAGGCCATGGCCTGACACGAC
1 CTGAAGCCAGCCACTTAGT-GGCCAAGGCCTGACACAAC
*
45049031 CTGAAGCCAGCCACTTAGTGGCCAAGGCCTGACATAAC
1 CTGAAGCCAGCCACTTAGTGGCCAAGGCCTGACACAAC
45049069 CTGAA
1 CTGAA
45049074 ACCGATCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 37 0.97
39 1 0.03
ACGTcount: A:0.28, C:0.31, G:0.23, T:0.17
Consensus pattern (38 bp):
CTGAAGCCAGCCACTTAGTGGCCAAGGCCTGACACAAC
Found at i:45049219 original size:46 final size:48
Alignment explanation
Indices: 45049160--45049255 Score: 126
Period size: 47 Copynumber: 2.0 Consensus size: 48
45049150 ATTCACTTAA
*
45049160 TATATAATGTTAAATTTAATTA-TTATTTTTT-AATTACATGCTATTTT
1 TATATAATGTTAAATTT-ATTATTTATTTTTTCAATTAAATGCTATTTT
* * *
45049207 TATA-AATTTTAAATTTATTATTTGTTTTTTCAATTAAATGTTATTTT
1 TATATAATGTTAAATTTATTATTTATTTTTTCAATTAAATGCTATTTT
45049254 TA
1 TA
45049256 AATTAAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
45 4 0.09
46 19 0.44
47 20 0.47
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.59
Consensus pattern (48 bp):
TATATAATGTTAAATTTATTATTTATTTTTTCAATTAAATGCTATTTT
Found at i:45049253 original size:18 final size:17
Alignment explanation
Indices: 45049232--45049322 Score: 71
Period size: 18 Copynumber: 5.2 Consensus size: 17
45049222 TATTATTTGT
45049232 TTTTTCAATTAAATGTTA
1 TTTTTCAATTAAAT-TTA
*
45049250 TTTTTAAATTAAATTTA
1 TTTTTCAATTAAATTTA
* *
45049267 --TTGC-ATTAAATTGA
1 TTTTTCAATTAAATTTA
* *
45049281 TTTATCATTTAAATATTTA
1 TTTTTCAATT-AA-ATTTA
45049300 TTTTTTCAATTAAATTATA
1 -TTTTTCAATTAAATT-TA
45049319 TTTT
1 TTTT
45049323 AAATATTTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
14 9 0.16
15 2 0.04
16 2 0.04
17 5 0.09
18 22 0.39
19 8 0.14
20 8 0.14
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTTTCAATTAAATTTA
Found at i:45049309 original size:69 final size:64
Alignment explanation
Indices: 45049225--45049357 Score: 178
Period size: 69 Copynumber: 2.0 Consensus size: 64
45049215 TTAAATTTAT
* *
45049225 TATTTGTTTTTTCAATTAAATGT-TATTTTTAAATTAAATTTATTGCATTAAATTGATTTATCAT
1 TATTTATTTTTTCAATTAAAT-TATA-TTTTAAA-T--ATTTATTGCATTAAATTGA-TAATCAT
45049289 TTAAA
60 TTAAA
*
45049294 TATTTATTTTTTCAATTAAATTATATTTTAAATATTTATTGCTTTAAATTGATAATCATTTAAA
1 TATTTATTTTTTCAATTAAATTATATTTTAAATATTTATTGCATTAAATTGATAATCATTTAAA
45049358 AGTTATATCT
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
64 11 0.18
65 18 0.30
67 1 0.02
68 8 0.13
69 22 0.37
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (64 bp):
TATTTATTTTTTCAATTAAATTATATTTTAAATATTTATTGCATTAAATTGATAATCATTTAAA
Found at i:45049356 original size:32 final size:32
Alignment explanation
Indices: 45049262--45049357 Score: 106
Period size: 32 Copynumber: 3.0 Consensus size: 32
45049252 TTTAAATTAA
*
45049262 ATTTATTGCATTAAATTGATTTATCATTTAAAT
1 ATTTATTGCTTTAAATTGA-TTATCATTTAAAT
* * *
45049295 ATTTATT-TTTTCAATTAAATTAT-ATTTTAAAT
1 ATTTATTGCTTTAAATT-GATTATCA-TTTAAAT
*
45049327 ATTTATTGCTTTAAATTGATAATCATTTAAA
1 ATTTATTGCTTTAAATTGATTATCATTTAAA
45049358 AGTTATATCT
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
31 1 0.02
32 34 0.67
33 16 0.31
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (32 bp):
ATTTATTGCTTTAAATTGATTATCATTTAAAT
Found at i:45051638 original size:54 final size:53
Alignment explanation
Indices: 45051535--45051715 Score: 215
Period size: 54 Copynumber: 3.4 Consensus size: 53
45051525 GAGGTGCTAA
* * *
45051535 CCATCAGTGTCCCAGCACACAATTTTTTTTAAAATCTGGTACAAGGGTGCTGG
1 CCATCAATGTCCCAACACCCAATTTTTTTTAAAATCTGGTACAAGGGTGCTGG
* * *
45051588 CCATCAATGTCCCAACACCCATTTTTTTTTAAAAATATGGTACAAGGGTGCTAG
1 CCATCAATGTCCCAACACCCAATTTTTTTT-AAAATCTGGTACAAGGGTGCTGG
* * *
45051642 CCATCAATGTCCCAGCACCCAAAATTTTTTT--AATCTGGTACAAGGGTG-TCGA
1 CCATCAATGTCCCAACACCC-AATTTTTTTTAAAATCTGGTACAAGGGTGCT-GG
* *
45051694 CCATTAGTGTCCCAACACCCAA
1 CCATCAATGTCCCAACACCCAA
45051716 AAAAAATATT
Statistics
Matches: 110, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
51 3 0.03
52 33 0.30
53 26 0.24
54 40 0.36
55 8 0.07
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (53 bp):
CCATCAATGTCCCAACACCCAATTTTTTTTAAAATCTGGTACAAGGGTGCTGG
Found at i:45052663 original size:15 final size:15
Alignment explanation
Indices: 45052643--45052675 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
45052633 ATTTTCCTGT
45052643 CAACAGTAA-TTATTC
1 CAACAGTAACTT-TTC
45052658 CAACAGTAACTTTTC
1 CAACAGTAACTTTTC
45052673 CAA
1 CAA
45052676 TGACTGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (15 bp):
CAACAGTAACTTTTC
Found at i:45052809 original size:16 final size:14
Alignment explanation
Indices: 45052771--45052801 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
45052761 ATCCTAGATT
*
45052771 CTCAATTCTCAATC
1 CTCAATTTTCAATC
45052785 CTCAATTTTCAATC
1 CTCAATTTTCAATC
45052799 CTC
1 CTC
45052802 CAAATTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.39
Consensus pattern (14 bp):
CTCAATTTTCAATC
Found at i:45054556 original size:23 final size:22
Alignment explanation
Indices: 45054506--45054556 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
45054496 ATTTTGTTCA
45054506 ATTTTAATTTTTATTCAAAAAC
1 ATTTTAATTTTTATTCAAAAAC
*
45054528 ACTTTAATTTGTTATATC-AAAAC
1 ATTTTAATTT-TTAT-TCAAAAAC
45054551 ATTTTA
1 ATTTTA
45054557 TCAAATAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.36
23 14 0.56
24 2 0.08
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTTTAATTTTTATTCAAAAAC
Found at i:45055261 original size:18 final size:18
Alignment explanation
Indices: 45055238--45055272 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45055228 AAGCCAGAGG
*
45055238 AGGAACATGTTTGGGTGA
1 AGGAACATGCTTGGGTGA
45055256 AGGAACATGCTTGGGTG
1 AGGAACATGCTTGGGTG
45055273 TCAGAAAGTC
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:0.26, C:0.09, G:0.40, T:0.26
Consensus pattern (18 bp):
AGGAACATGCTTGGGTGA
Found at i:45079063 original size:17 final size:16
Alignment explanation
Indices: 45079030--45079066 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
45079020 TAGTCGTTTG
45079030 TTTATTTTTTTTCTTA
1 TTTATTTTTTTTCTTA
*
45079046 TTTATTTATTTTTGTTA
1 TTTATTT-TTTTTCTTA
45079063 TTTA
1 TTTA
45079067 AATTCTCTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTATTTTTTTTCTTA
Found at i:45086911 original size:19 final size:20
Alignment explanation
Indices: 45086887--45086932 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
45086877 TGTTATATTT
* *
45086887 TGATTAATTAAG-TAAAATA
1 TGATTAATTAAGAAAAAACA
45086906 TGATTAATTAAGAAAAAACA
1 TGATTAATTAAGAAAAAACA
45086926 TGATTAA
1 TGATTAA
45086933 ATAATTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.54, C:0.02, G:0.11, T:0.33
Consensus pattern (20 bp):
TGATTAATTAAGAAAAAACA
Found at i:45098416 original size:4 final size:4
Alignment explanation
Indices: 45098407--45098438 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
45098397 TTTGACTAAA
45098407 TGAT TGAT TGAT TGAT TGAT TGAT TGAT TGAT
1 TGAT TGAT TGAT TGAT TGAT TGAT TGAT TGAT
45098439 ATTGTCATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGAT
Found at i:45110191 original size:47 final size:46
Alignment explanation
Indices: 45110130--45110276 Score: 183
Period size: 47 Copynumber: 3.1 Consensus size: 46
45110120 GGAAGAAGTG
*
45110130 GTTTATCTACAAAAGTGGTAGCTTGTTCACAATTTTATAAAGTGGTA
1 GTTTATCTACAAAAGTGGT-GCTTGTTCACAATTTTATTAAGTGGTA
* *
45110177 GTTTATCTACAAAAGTGGTGGCTTGTCCACAAATTTATTAAGTGGTA
1 GTTTATCTACAAAAGTGGT-GCTTGTTCACAATTTTATTAAGTGGTA
*
45110224 GTTTATCTGA-AAAAGTGGTGATT-TGTC-CATATTATTATTAAGTGGTA
1 GTTTATCT-ACAAAAGTGGTGCTTGT-TCACA-ATT-TTATTAAGTGGTA
45110271 GTTTAT
1 GTTTAT
45110277 TTGCATTACT
Statistics
Matches: 89, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
45 3 0.03
46 6 0.07
47 79 0.89
48 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (46 bp):
GTTTATCTACAAAAGTGGTGCTTGTTCACAATTTTATTAAGTGGTA
Found at i:45114745 original size:47 final size:47
Alignment explanation
Indices: 45114676--45114929 Score: 316
Period size: 47 Copynumber: 5.4 Consensus size: 47
45114666 ATGGAGGAAG
* * *
45114676 AAGTGGCAGTTTATCTACAAAAGTGGTAGCTTGTCTAGAATATTATA
1 AAGTGGCAGTTTATCTGCAAAAGTGGTAGCTTGTCCACAATATTATA
* *
45114723 AAGTGACAGTTTATCTGCAAAAGTGGT-GACTTGTCCACAATTTTATTA
1 AAGTGGCAGTTTATCTGCAAAAGTGGTAG-CTTGTCCACAATATTA-TA
* * *
45114771 AA-TGGCAGTTTATTTGCAAAAGTGGGAGCTTGTCCACCATATTATA
1 AAGTGGCAGTTTATCTGCAAAAGTGGTAGCTTGTCCACAATATTATA
* * * * *
45114817 AAGTGGCAGTTTATTTGCAAAAGTGGTGGCTTGTCCACAATTTTTTT
1 AAGTGGCAGTTTATCTGCAAAAGTGGTAGCTTGTCCACAATATTATA
* * *
45114864 AAGTGGCAGTTTATTTGCAAAAGCT-GTGGCTTGTCCACAATATTATT
1 AAGTGGCAGTTTATCTGCAAAAG-TGGTAGCTTGTCCACAATATTATA
45114911 AAGTGGCAGTTTATCTGCA
1 AAGTGGCAGTTTATCTGCA
45114930 TTATTGTGAT
Statistics
Matches: 183, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
46 5 0.03
47 172 0.94
48 6 0.03
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (47 bp):
AAGTGGCAGTTTATCTGCAAAAGTGGTAGCTTGTCCACAATATTATA
Found at i:45114840 original size:94 final size:94
Alignment explanation
Indices: 45114679--45114929 Score: 369
Period size: 94 Copynumber: 2.7 Consensus size: 94
45114669 GAGGAAGAAG
* * * * * *
45114679 TGGCAGTTTATCTACAAAAGTGGTAGCTTGTCTAGAATATTATAAAGTGACAGTTTATCTGCAAA
1 TGGCAGTTTATTTGCAAAAGTGGGAGCTTGTCCACAATATTATAAAGTGGCAGTTTATCTGCAAA
45114744 AGTGGTGACTTGTCCACAATTTTATTAAA
66 AGTGGTGACTTGTCCACAATTTTATTAAA
* *
45114773 TGGCAGTTTATTTGCAAAAGTGGGAGCTTGTCCACCATATTATAAAGTGGCAGTTTATTTGCAAA
1 TGGCAGTTTATTTGCAAAAGTGGGAGCTTGTCCACAATATTATAAAGTGGCAGTTTATCTGCAAA
* * *
45114838 AGTGGTGGCTTGTCCACAATTTTTTTAAG
66 AGTGGTGACTTGTCCACAATTTTATTAAA
* *
45114867 TGGCAGTTTATTTGCAAAAGCTGTG-GCTTGTCCACAATATTATTAAGTGGCAGTTTATCTGCA
1 TGGCAGTTTATTTGCAAAAG-TGGGAGCTTGTCCACAATATTATAAAGTGGCAGTTTATCTGCA
45114930 TTATTGTGAT
Statistics
Matches: 141, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
94 138 0.98
95 3 0.02
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.36
Consensus pattern (94 bp):
TGGCAGTTTATTTGCAAAAGTGGGAGCTTGTCCACAATATTATAAAGTGGCAGTTTATCTGCAAA
AGTGGTGACTTGTCCACAATTTTATTAAA
Found at i:45118248 original size:7 final size:7
Alignment explanation
Indices: 45118236--45118265 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
45118226 AATACCATCA
45118236 ATATGTG
1 ATATGTG
45118243 ATATGTG
1 ATATGTG
*
45118250 ATTTGTG
1 ATATGTG
45118257 ATATGTG
1 ATATGTG
45118264 AT
1 AT
45118266 GATGAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (7 bp):
ATATGTG
Found at i:45120073 original size:69 final size:70
Alignment explanation
Indices: 45119941--45120073 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 70
45119931 TAGTTTATTA
* * * * *
45119941 CTAATTAATTTGCTACTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
45120006 CTTAG
66 CTTAG
*
45120011 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
45120074 GTTATGTGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
69 35 0.61
70 22 0.39
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:45121619 original size:47 final size:47
Alignment explanation
Indices: 45121560--45121886 Score: 447
Period size: 47 Copynumber: 7.0 Consensus size: 47
45121550 TTAGGATTTT
** *
45121560 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
45121607 ATGTAATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
45121654 ATGTGGTGAATATGAACATGTATATATGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
45121701 ATGTGATGAATGTGAGCATGCACATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
45121748 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
45121795 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
45121842 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
45121887 TAGTGTGAAA
Statistics
Matches: 241, Mismatches: 39, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 241 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:45121704 original size:22 final size:22
Alignment explanation
Indices: 45121679--45121752 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 22
45121669 ACATGTATAT
45121679 ATGTGATAAGGTCGAATGGCCA
1 ATGTGATAAGGTCGAATGGCCA
*
45121701 ATGTGATGAATGT-GAGCAT-GCACA
1 ATGTGAT-AAGGTCGA--ATGGC-CA
* *
45121725 TGTGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGTCGAATGGCCA
45121748 ATGTG
1 ATGTG
45121753 GTGAATATGA
Statistics
Matches: 40, Mismatches: 5, Indels: 14
0.68 0.08 0.24
Matches are distributed among these distances:
22 13 0.32
23 10 0.25
24 9 0.22
25 8 0.20
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (22 bp):
ATGTGATAAGGTCGAATGGCCA
Found at i:45121850 original size:25 final size:25
Alignment explanation
Indices: 45121775--45121850 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
45121765 ATGTATATAT
45121775 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
45121800 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
45121822 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
45121847 GTGA
1 GTGA
45121851 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:45121894 original size:94 final size:94
Alignment explanation
Indices: 45121560--45121886 Score: 555
Period size: 94 Copynumber: 3.5 Consensus size: 94
45121550 TTAGGATTTT
* * ** *
45121560 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCAATGTAATGAATGTGAGCA
1 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
*
45121625 TGCATATGTGTGATAAGGCTGAATGGCCA
66 TGCATATGTGTGATAAGGCCGAATGGCCA
*
45121654 ATGTGGTGAATATGAACATGTATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAGCA
1 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
*
45121719 TGCACATGTGTGATAAGGCCGAATGGCCA
66 TGCATATGTGTGATAAGGCCGAATGGCCA
45121748 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
1 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
45121813 TGCATATGTGTGATAAGGCCGAATGGCCA
66 TGCATATGTGTGATAAGGCCGAATGGCCA
* * *
45121842 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGC
45121887 TAGTGTGAAA
Statistics
Matches: 220, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 220 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (94 bp):
ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
TGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:45122155 original size:37 final size:37
Alignment explanation
Indices: 45122050--45122157 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
45122040 GAAATATATT
* * * *
45122050 CCGGGTGAGACCCGATGACTACGTGTGGAGAGTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGC
45122087 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGC
* *
45122124 CCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTT
45122158 CGTCCGAGCT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.24
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGC
Done.