Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 93 of 325
Found at i:30834843 original size:26 final size:27
Alignment explanation
Indices: 30834805--30834915 Score: 80
Period size: 31 Copynumber: 3.9 Consensus size: 27
30834795 TTTTTATCAT
* *
30834805 AAAAAATATAAAAATTATTAAATATTA
1 AAAAAATATAAAAATTATAAAAAATTA
*
30834832 AAAAAATA-AAAATTTATAAAAAATTA
1 AAAAAATATAAAAATTATAAAAAATTA
* *
30834858 TAAAACATATCTAAAATTTTATAAAAAATTA
1 -AAAA-A-ATATAAAA-ATTATAAAAAATTA
** *
30834889 TTAAAATTCTATAAAAATAATAAAAAA
1 --AAAA-AATATAAAAATTATAAAAAA
30834916 ATATAAAGAG
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
26 15 0.22
27 12 0.18
28 1 0.01
29 2 0.03
30 13 0.19
31 20 0.29
32 5 0.07
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (27 bp):
AAAAAATATAAAAATTATAAAAAATTA
Found at i:30834879 original size:21 final size:21
Alignment explanation
Indices: 30834837--30834905 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
30834827 TATTAAAAAA
* **
30834837 ATAAAAATTTA-TAAAAAATT
1 ATAAAAAATTATTAAAATTTT
*
30834857 ATAAAACA-TATCTAAAATTTT
1 ATAAAAAATTAT-TAAAATTTT
*
30834878 ATAAAAAATTATTAAAATTCT
1 ATAAAAAATTATTAAAATTTT
30834899 ATAAAAA
1 ATAAAAA
30834906 TAATAAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 2 0.05
20 6 0.15
21 29 0.73
22 3 0.08
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAAAAATTATTAAAATTTT
Found at i:30834904 original size:31 final size:32
Alignment explanation
Indices: 30834837--30834922 Score: 99
Period size: 31 Copynumber: 2.8 Consensus size: 32
30834827 TATTAAAAAA
30834837 ATAAAAATTTATAAAAAATTATAAAACATATC
1 ATAAAAATTTATAAAAAATTATAAAACATATC
* *
30834869 -TAAAATTTTATAAAAAATTATTAAA-AT-TC
1 ATAAAAATTTATAAAAAATTATAAAACATATC
* *
30834898 TATAAAAA-TAATAAAAAAATATAAA
1 -ATAAAAATTTATAAAAAATTATAAA
30834923 GAGTATTAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
29 2 0.04
30 16 0.35
31 28 0.61
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (32 bp):
ATAAAAATTTATAAAAAATTATAAAACATATC
Found at i:30834959 original size:9 final size:9
Alignment explanation
Indices: 30834803--30834962 Score: 83
Period size: 10 Copynumber: 16.8 Consensus size: 9
30834793 CTTTTTTATC
*
30834803 ATAAAAAAT
1 ATAAAAATT
30834812 ATAAAAATT
1 ATAAAAATT
*
30834821 ATTAAATATT
1 A-TAAAAATT
30834831 A-AAAAA--
1 ATAAAAATT
30834837 ATAAAAATTT
1 ATAAAAA-TT
30834847 ATAAAAAATT
1 AT-AAAAATT
30834857 ATAAAACATAT
1 ATAAAA-AT-T
* *
30834868 CTAAAATTTT
1 ATAAAA-ATT
30834878 ATAAAAAATT
1 AT-AAAAATT
*
30834888 ATTAAAATTCT
1 A-TAAAAAT-T
*
30834899 ATAAAAATA
1 ATAAAAATT
*
30834908 ATAAAAAAAT
1 AT-AAAAATT
* *
30834918 ATAAAGAGT
1 ATAAAAATT
* *
30834927 ATTAAGATT
1 ATAAAAATT
*
30834936 GATATAAACTT
1 -ATA-AAAATT
30834947 ATAAAAATT
1 ATAAAAATT
30834956 ATAAAAA
1 ATAAAAA
30834963 AATCGCAAAA
Statistics
Matches: 116, Mismatches: 21, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
6 1 0.01
7 5 0.04
8 4 0.03
9 39 0.34
10 44 0.38
11 23 0.20
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:30835283 original size:29 final size:30
Alignment explanation
Indices: 30835251--30835314 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
30835241 AATAAGTTTT
*
30835251 AAAAA-AAAGTTA-AAATACTT-AAAATAAA
1 AAAAATAAAATTAGAAAT-CTTAAAAATAAA
* *
30835279 AAAAATAACATTAGAAATCTTAAAAATAAT
1 AAAAATAAAATTAGAAATCTTAAAAATAAA
30835309 AAAAAT
1 AAAAAT
30835315 TGTAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 5 0.17
29 8 0.27
30 17 0.57
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (30 bp):
AAAAATAAAATTAGAAATCTTAAAAATAAA
Found at i:30836468 original size:16 final size:17
Alignment explanation
Indices: 30836439--30836479 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
30836429 ATATATATAT
*
30836439 AAAGTAAAAGGAATA-AA
1 AAAG-AAAAAGAATAGAA
30836456 AAAGAAAAAGAATAGAA
1 AAAGAAAAAGAATAGAA
30836473 AAAGAAA
1 AAAGAAA
30836480 GGAAGGATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (17 bp):
AAAGAAAAAGAATAGAA
Found at i:30836551 original size:16 final size:16
Alignment explanation
Indices: 30836507--30836545 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
30836497 CAGAGAGCAG
* *
30836507 GGAAAGAAAGAAGGAA
1 GGAAAAAAAGAAAGAA
30836523 GGAAAAAAAGAAAGAA
1 GGAAAAAAAGAAAGAA
30836539 GGAAAAA
1 GGAAAAA
30836546 GGGAAAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
GGAAAAAAAGAAAGAA
Found at i:30838334 original size:19 final size:18
Alignment explanation
Indices: 30838310--30838351 Score: 68
Period size: 17 Copynumber: 2.3 Consensus size: 18
30838300 CGGTTGAATG
30838310 AAAGGAAAATTGACGGTAA
1 AAAGG-AAATTGACGGTAA
30838329 AAAGG-AATTGACGGTAA
1 AAAGGAAATTGACGGTAA
30838346 AAAGGA
1 AAAGGA
30838352 TCTAGCCCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 17 0.77
19 5 0.23
ACGTcount: A:0.52, C:0.05, G:0.29, T:0.14
Consensus pattern (18 bp):
AAAGGAAATTGACGGTAA
Found at i:30838339 original size:17 final size:17
Alignment explanation
Indices: 30838317--30838351 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
30838307 ATGAAAGGAA
30838317 AATTGACGGTAAAAAGG
1 AATTGACGGTAAAAAGG
30838334 AATTGACGGTAAAAAGG
1 AATTGACGGTAAAAAGG
30838351 A
1 A
30838352 TCTAGCCCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.06, G:0.29, T:0.17
Consensus pattern (17 bp):
AATTGACGGTAAAAAGG
Found at i:30838670 original size:46 final size:46
Alignment explanation
Indices: 30838618--30838893 Score: 426
Period size: 46 Copynumber: 6.0 Consensus size: 46
30838608 AGTGTGCTCT
**
30838618 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
30838664 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
30838710 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
30838756 GTGACATGAAAAGAATAAGACCATAGTTGCAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
30838802 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
30838848 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCACGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
30838894 ATGACAGAAA
Statistics
Matches: 214, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 214 1.00
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:30838871 original size:138 final size:141
Alignment explanation
Indices: 30838632--30838941 Score: 484
Period size: 138 Copynumber: 2.2 Consensus size: 141
30838622 TATGAAATGT
* **
30838632 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAG
1 GTAAGACCATAGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAG
* * * *
30838697 ATACCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACA
66 ATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCACGGCAACATGACA
30838762 TGAAAA-G-A-A
131 -GAAAATGAAGA
*
30838771 -TAAGACCATAGTTGCAAGATACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAG
1 GTAAGACCATAGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAG
30838835 ATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCACGGCAACATGACA
66 ATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCACGGCAACATGACA
30838900 GAAAATGAATGA
131 GAAAATGAA-GA
* *
30838912 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATAGTTGAAAGATACCATGGCA
30838942 TCATGTCAAA
Statistics
Matches: 155, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
137 5 0.03
138 122 0.79
139 1 0.01
141 1 0.01
142 26 0.17
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (141 bp):
GTAAGACCATAGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAG
ATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCACGGCAACATGACA
GAAAATGAAGA
Found at i:30838899 original size:46 final size:46
Alignment explanation
Indices: 30838633--30838941 Score: 413
Period size: 46 Copynumber: 6.6 Consensus size: 46
30838623 ATGAAATGTG
* * * **
30838633 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* *
30838679 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
30838725 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * * * *
30838771 TAAGACCATAGTTGCAAGATACCATGGCAACCTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
30838817 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* *
30838863 TAAGACCATGGTTGAAAGATACCACGGCAACATGACA-GAAAATGAATGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-G-A--A
* * *
30838912 GTAAGACCATAGTTGAAAGACACTATGGCA
1 -TAAGACCATGGTTGAAAGATACCATGGCA
30838942 TCATGTCAAA
Statistics
Matches: 237, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 5 0.02
46 205 0.86
47 1 0.00
49 1 0.00
50 25 0.11
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
Found at i:30840766 original size:51 final size:50
Alignment explanation
Indices: 30840679--30840809 Score: 185
Period size: 51 Copynumber: 2.6 Consensus size: 50
30840669 TGGAGAGCTT
* * *
30840679 GGTTTAGCCACTGGT-GGG-GGTTGTGGTTTTGATTCAGAGGGAGGATTC
1 GGTTTAGCCACTGATGGGGTGGTTGTGGTTTTGATTCAGAGGAAAGATTC
*
30840727 GGTTTAGCCACTGATGGGGATGGTTGTGGTTTTGGTTCAGAGGAAAGATTC
1 GGTTTAGCCACTGATGGGG-TGGTTGTGGTTTTGATTCAGAGGAAAGATTC
*
30840778 GGTGTAGCCACTGATGGGGGTGGTTGTGGTTT
1 GGTTTAGCCACTGAT-GGGGTGGTTGTGGTTT
30840810 GTTTTGAGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
48 14 0.19
49 3 0.04
51 53 0.72
52 4 0.05
ACGTcount: A:0.15, C:0.10, G:0.41, T:0.34
Consensus pattern (50 bp):
GGTTTAGCCACTGATGGGGTGGTTGTGGTTTTGATTCAGAGGAAAGATTC
Found at i:30845211 original size:23 final size:23
Alignment explanation
Indices: 30845184--30845232 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
30845174 AGGAGTAACA
30845184 AATAAATGAATAAACA-AAAT-AAT
1 AATAAAT-AATAAA-ATAAATAAAT
30845207 AATAAATAATAAAATAAATAAAT
1 AATAAATAATAAAATAAATAAAT
30845230 AAT
1 AAT
30845233 CAAAGGCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 1 0.04
22 10 0.42
23 13 0.54
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (23 bp):
AATAAATAATAAAATAAATAAAT
Found at i:30845222 original size:12 final size:12
Alignment explanation
Indices: 30845183--30845227 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
30845173 AAGGAGTAAC
30845183 AAATAAATGAATA
1 AAATAAAT-AATA
30845196 AACA-AAATAAT-
1 AA-ATAAATAATA
30845207 -AATAAATAATA
1 AAATAAATAATA
30845218 AAATAAATAA
1 AAATAAATAA
30845228 ATAATCAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
9 1 0.04
10 8 0.29
12 12 0.43
13 6 0.21
14 1 0.04
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:30846821 original size:15 final size:15
Alignment explanation
Indices: 30846801--30846829 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30846791 ACTGTGGACT
30846801 TTAATATTTTATTTA
1 TTAATATTTTATTTA
30846816 TTAATATTTTATTT
1 TTAATATTTTATTT
30846830 TGGTTATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTAATATTTTATTTA
Found at i:30847268 original size:44 final size:44
Alignment explanation
Indices: 30847220--30847656 Score: 262
Period size: 44 Copynumber: 9.9 Consensus size: 44
30847210 GACTTGTTGT
* * *
30847220 TTCAATATACTCCACTGTAACTTCAGGGAGATAAGATTAGTAGC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* * * ** *
30847264 TTCAATCTGCTCTACTGCAACATCAAAGAGATAAGATTTGCTATC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGC
* * * ** * *
30847309 TTCGATCTACTCTACTACAACTTTTGGGAGATAAGATCTGTAAC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* * * *
30847353 TTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGATTTATAGC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* * * * ** *
30847397 TTTAATCTGCTCTACTGCAACTTTAGATAGATAAGATTTGCTATC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGC
* * * * *
30847442 TTCAACCTGA-TTCGCTGTAACTTTAGGGAGATAAGATTTGTAACTTGTAGC
1 TTCAATCT-ACTCCACTGCAACTTCAGGGAGATAAGA----T---TTGTAGC
* * * * *
30847493 TTTAATTTATTCCACTGCAACTTCAGGGAAATAAGATTTGCTATC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGC
* * *
30847538 TTCCATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGTAG-
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* * * *
30847581 -----T-TACTCCACTGCAACTTTAGGGAGATAAAATTTAT-GAA
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAG-C
* ** * *
30847619 TTTAATCTTTTCCATTGCAACTTCAAGGAGATAAGATT
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
30847657 CGTCACTGTA
Statistics
Matches: 300, Mismatches: 73, Indels: 40
0.73 0.18 0.10
Matches are distributed among these distances:
36 1 0.00
37 29 0.10
38 1 0.00
43 1 0.00
44 134 0.45
45 99 0.33
47 1 0.00
49 1 0.00
50 1 0.00
51 29 0.10
52 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (44 bp):
TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
Found at i:30847384 original size:89 final size:88
Alignment explanation
Indices: 30847220--30847577 Score: 259
Period size: 89 Copynumber: 3.9 Consensus size: 88
30847210 GACTTGTTGT
* * ** * * * *
30847220 TTCAATATACTCCACTGTAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCTCTACTGCAAC
1 TTCAATCTACTCTACTACAACTTTAGGGAGATAAGATT-GTAACTTCAATCTGCTCCACTGTAAC
* * ** * *
30847285 ATCAAAGAGATAAGATTTGCTATC
65 TTTAGGGAGATAAGATTTGATAGC
* *
30847309 TTCGATCTACTCTACTACAACTTTTGGGAGATAAGATCTGTAACTTCAATCTGCTCCACTGTAAC
1 TTCAATCTACTCTACTACAACTTTAGGGAGATAAGAT-TGTAACTTCAATCTGCTCCACTGTAAC
30847374 TTTAGGGAGATAAGATTT-ATAGC
65 TTTAGGGAGATAAGATTTGATAGC
* * * ** * * * * *
30847397 TTTAATCTGCTCTACTGCAACTTTAGATAGATAAGATTTGCTATCTTCAACCTGATTCGCTGTAA
1 TTCAATCTACTCTACTACAACTTTAGGGAGATAAGA-TTG-TAACTTCAATCTGCTCCACTGTAA
30847462 CTTTAGGGAGATAAGATTTGTAACTTGTAGC
64 CTTTAGGGAGATAAGATTTG--A----TAGC
* * * * * * * * * *
30847493 TTTAATTTATTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCCATCTGCTCCACTGCAA
1 TTCAATCTACTCTACTACAACTTTAGGGAGATAAGA-TTG-TAACTTCAATCTGCTCCACTGTAA
* *
30847558 CTTCAGGGAGATGAGATTTG
64 CTTTAGGGAGATAAGATTTG
30847578 TAGTTACTCC
Statistics
Matches: 215, Mismatches: 44, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
88 34 0.16
89 106 0.49
90 1 0.00
92 1 0.00
96 73 0.34
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (88 bp):
TTCAATCTACTCTACTACAACTTTAGGGAGATAAGATTGTAACTTCAATCTGCTCCACTGTAACT
TTAGGGAGATAAGATTTGATAGC
Found at i:30847464 original size:133 final size:133
Alignment explanation
Indices: 30847220--30847577 Score: 360
Period size: 133 Copynumber: 2.6 Consensus size: 133
30847210 GACTTGTTGT
30847220 TTCAATATACTCCACTGTAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCTCTACTGCAAC
1 TTCAATATACTCCACTGTAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCTCTACTGCAAC
* * *
30847285 ATCAAAGAGATAAGATTTGCTATCTTCGATCTACTCTACTACAACTTTTGGGAGATAAGATCTGT
66 ATCAAAGAGATAAGATTTGCTATCTTCAACCTACTCTACTACAACTTTAGGGAGATAAGATCTGT
30847350 AAC
131 AAC
* * * *
30847353 TTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGATTTA-TAGCTTTAATCTGCTCTACTGCAA
1 TTCAATATACTCCACTGTAACTTCAGGGAGATAAGA-TTAGTAGCTTCAATCTGCTCTACTGCAA
* * * * * * ** *
30847417 CTTTAGATAGATAAGATTTGCTATCTTCAACCTGATTC-GCTGTAACTTTAGGGAGATAAGATTT
65 CATCAAAGAGATAAGATTTGCTATCTTCAACCT-ACTCTACTACAACTTTAGGGAGATAAGATCT
30847481 GTAAC
129 GTAAC
* * * * * * * *
30847486 TTGTAGCTTTAATTTATTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCCATCTGCTCC
1 -T-T--C---AATATACTCCACTGTAACTTCAGGGAGATAAGATTAG-TAGCTTCAATCTGCTCT
* ** *
30847551 ACTGCAACTTCAGGGAGATGAGATTTG
58 ACTGCAACATCAAAGAGATAAGATTTG
30847578 TAGTTACTCC
Statistics
Matches: 183, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
133 109 0.60
134 7 0.04
135 1 0.01
137 1 0.01
139 2 0.01
140 27 0.15
141 36 0.20
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (133 bp):
TTCAATATACTCCACTGTAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCTCTACTGCAAC
ATCAAAGAGATAAGATTTGCTATCTTCAACCTACTCTACTACAACTTTAGGGAGATAAGATCTGT
AAC
Found at i:30860906 original size:12 final size:11
Alignment explanation
Indices: 30860888--30860936 Score: 55
Period size: 12 Copynumber: 4.3 Consensus size: 11
30860878 TAAAAAGGAG
30860888 TAATAAATAAA
1 TAATAAATAAA
*
30860899 TGAATAAACAAAA
1 T-AATAAA-TAAA
30860912 TAAT-AATAAA
1 TAATAAATAAA
30860922 TAATAAAATAAA
1 TAAT-AAATAAA
30860934 TAA
1 TAA
30860937 ATAATCAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
10 7 0.22
11 3 0.09
12 18 0.56
13 4 0.12
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (11 bp):
TAATAAATAAA
Found at i:30860931 original size:27 final size:26
Alignment explanation
Indices: 30860888--30860941 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
30860878 TAAAAAGGAG
*
30860888 TAATAAATAAATGAATAAACAAAATAA
1 TAATAAATAAATAAATAAA-AAAATAA
*
30860915 TAATAAAT-AATAAAATAAATAAATAA
1 TAATAAATAAAT-AAATAAAAAAATAA
30860941 T
1 T
30860942 CAAAGGCTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (26 bp):
TAATAAATAAATAAATAAAAAAATAA
Found at i:30864582 original size:28 final size:26
Alignment explanation
Indices: 30864538--30864596 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
30864528 TATATTATAT
30864538 TATATTATTTTAGTATTTGATAATTTTA
1 TATATTATTTTAGTA-TTGA-AATTTTA
* *
30864566 TATATT-TTTTACTTATTGAAATTTTT
1 TATATTATTTTA-GTATTGAAATTTTA
30864592 TATAT
1 TATAT
30864597 AGTTATCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 11 0.39
27 9 0.32
28 8 0.29
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (26 bp):
TATATTATTTTAGTATTGAAATTTTA
Found at i:30866635 original size:20 final size:20
Alignment explanation
Indices: 30866608--30866656 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
30866598 ATATTTAATT
30866608 TTTTTTTAAAA-TTTAAATA
1 TTTTTTTAAAATTTTAAATA
30866627 TTATTTTTAAAATTTTAAATA
1 TT-TTTTTAAAATTTTAAATA
30866648 TTTTTTTAA
1 TTTTTTTAA
30866657 TAATATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.07
20 16 0.57
21 10 0.36
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTTAAAATTTTAAATA
Found at i:30866642 original size:33 final size:32
Alignment explanation
Indices: 30866576--30866636 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
30866566 TGTTTTATAA
*
30866576 TTTTTTTAAATTTTAAATATATATATTTAATT
1 TTTTTTTAAAATTTAAATATATATATTTAATT
*
30866608 TTTTTTTAAAATTTAAATAT-TATTTTTAA
1 TTTTTTTAAAATTTAAATATATATATTTAA
30866637 AATTTTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 8 0.30
32 19 0.70
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (32 bp):
TTTTTTTAAAATTTAAATATATATATTTAATT
Found at i:30866750 original size:16 final size:16
Alignment explanation
Indices: 30866711--30866759 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
30866701 TTATTATTAT
30866711 TTTTATAATATTTTAAA
1 TTTTA-AATATTTTAAA
*
30866728 -TGT--ATATTTTAAA
1 TTTTAAATATTTTAAA
*
30866741 TTTTAAATATTTTTAA
1 TTTTAAATATTTTAAA
30866757 TTT
1 TTT
30866760 GTTTTATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
13 10 0.38
14 2 0.08
16 14 0.54
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
TTTTAAATATTTTAAA
Found at i:30866809 original size:38 final size:37
Alignment explanation
Indices: 30866708--30866816 Score: 103
Period size: 38 Copynumber: 2.8 Consensus size: 37
30866698 AATTTATTAT
*
30866708 TATTTTTATAATATTTTAAATGTATATTTTAAATTTTAAA
1 TATTTTTATAATA-TTTAAA-ATAT-TTTTAAATTTTAAA
* * * *
30866748 TATTTTTA-ATTTGTTTTATAATATTTTTAAGTTTTTAAA
1 TATTTTTATA-AT-ATTTAAAATATTTTTAA-ATTTTAAA
*
30866787 TTTTTTTATAATATTTAAAATATTTTTAAA
1 TATTTTTATAATATTTAAAATATTTTTAAA
30866817 ATATATTATT
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
38 21 0.38
39 19 0.35
40 15 0.27
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (37 bp):
TATTTTTATAATATTTAAAATATTTTTAAATTTTAAA
Found at i:30866812 original size:29 final size:30
Alignment explanation
Indices: 30866697--30866812 Score: 95
Period size: 29 Copynumber: 4.0 Consensus size: 30
30866687 ATAACCTTTC
*
30866697 AAATTTATTATTAT--T-TTTATAATATTTT
1 AAATTTATT-TTATAATATTTAAAATATTTT
30866725 AAATGTATATTTTA-AAT-TTT-AAATATTTT
1 AAAT-T-TATTTTATAATATTTAAAATATTTT
* * * *
30866754 TAATTTGTTTTATAATATTTTTAAGT-TTTT
1 AAATTTATTTTATAATA-TTTAAAATATTTT
30866784 AAATTT-TTTTATAATATTTAAAATATTTT
1 AAATTTATTTTATAATATTTAAAATATTTT
30866813 TAAAATATAT
Statistics
Matches: 72, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
27 6 0.08
28 14 0.19
29 29 0.40
30 20 0.28
31 3 0.04
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (30 bp):
AAATTTATTTTATAATATTTAAAATATTTT
Found at i:30866904 original size:31 final size:29
Alignment explanation
Indices: 30866860--30866991 Score: 99
Period size: 31 Copynumber: 4.4 Consensus size: 29
30866850 TTATTGTTTG
* *
30866860 TTTTATAATATTTTAAATGTATATTTTAAATA
1 TTTT-TAAAATTTTAAAT-TA-ATTTTAAAAA
30866892 TTTTTAAAATTTTAAATATAATTTTTAAAAA
1 TTTTTAAAATTTTAAAT-TAA-TTTTAAAAA
* *
30866923 TTTTT-AATTTTTAAATTAATTTTAAAGA
1 TTTTTAAAATTTTAAATTAATTTTAAAAA
* * * *
30866951 TATTCAAATGTTTTTTAAATTAAATTT-AAAA
1 TTTTTAAA---ATTTTAAATTAATTTTAAAAA
30866982 -TTTTAAAATT
1 TTTTTAAAATT
30866992 AATATTTTAT
Statistics
Matches: 83, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
27 2 0.02
28 11 0.13
29 5 0.06
30 16 0.19
31 30 0.36
32 19 0.23
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (29 bp):
TTTTTAAAATTTTAAATTAATTTTAAAAA
Found at i:30870032 original size:48 final size:48
Alignment explanation
Indices: 30869972--30870169 Score: 288
Period size: 48 Copynumber: 4.1 Consensus size: 48
30869962 CCTCAGATGG
** * *
30869972 TGGTTGCGGTTTTGGTTTTGAAGGAGGGTTAGGTTTAGGCACTGGTGA
1 TGGTTGCGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGGCACTGGTGA
* * * *
30870020 TGGTTGTGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGTCACTGTTAA
1 TGGTTGCGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGGCACTGGTGA
*
30870068 TGGTTGCGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGGCACTGGTGG
1 TGGTTGCGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGGCACTGGTGA
* * *
30870116 TGGTTGCGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGCCACTGTTGG
1 TGGTTGCGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGGCACTGGTGA
30870164 TGGTTG
1 TGGTTG
30870170 TGGCTGCGGA
Statistics
Matches: 135, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 135 1.00
ACGTcount: A:0.12, C:0.09, G:0.42, T:0.37
Consensus pattern (48 bp):
TGGTTGCGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGGCACTGGTGA
Found at i:30870168 original size:96 final size:96
Alignment explanation
Indices: 30869969--30870169 Score: 321
Period size: 96 Copynumber: 2.1 Consensus size: 96
30869959 GCTCCTCAGA
** *
30869969 TGGTGGTTGCGGTTTTGGTTTTGAAGGAGGGTTAGGTTTAGGCACTGGTGATGGTTGTGGTTTTG
1 TGGTGGTTGCGGTTTTGGTTCAGAAGGAGGGTTAGGTTTAGGCACTGGTGATGGTTGCGGTTTTG
*
30870034 GTTCAGAGGGCGGGTTAGGTTTAGTCACTGT
66 GTTCAGAGGGCGGGTTAGGTTTAGCCACTGT
** * * *
30870065 TAATGGTTGCGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGGCACTGGTGGTGGTTGCGGTTTTG
1 TGGTGGTTGCGGTTTTGGTTCAGAAGGAGGGTTAGGTTTAGGCACTGGTGATGGTTGCGGTTTTG
30870130 GTTCAGAGGGCGGGTTAGGTTTAGCCACTGT
66 GTTCAGAGGGCGGGTTAGGTTTAGCCACTGT
30870161 TGGTGGTTG
1 TGGTGGTTG
30870170 TGGCTGCGGA
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.12, C:0.09, G:0.42, T:0.37
Consensus pattern (96 bp):
TGGTGGTTGCGGTTTTGGTTCAGAAGGAGGGTTAGGTTTAGGCACTGGTGATGGTTGCGGTTTTG
GTTCAGAGGGCGGGTTAGGTTTAGCCACTGT
Found at i:30870187 original size:84 final size:84
Alignment explanation
Indices: 30870099--30870309 Score: 289
Period size: 84 Copynumber: 2.5 Consensus size: 84
30870089 GGGCGGGTTA
* * * *
30870099 GGTTTAGGCACTGGTGGTGGTTGCGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGCCACTGTTGG
1 GGTTTAGGCACTGGTGGTGGTTGTGGTTTTGGTTCAGAGGGCGGGTCAGGTTTAGCCACCGGTGG
30870164 TGGTTGTGGCTGCGGATTT
66 TGGTTGTGGCTGCGGATTT
* * * * *
30870183 GGTTTAGGAATTGGTGGTGGTTGTGGTTTTGTTTCAGAGGGCGGGTCCGGTTTAGCTACCGGTGG
1 GGTTTAGGCACTGGTGGTGGTTGTGGTTTTGGTTCAGAGGGCGGGTCAGGTTTAGCCACCGGTGG
*
30870248 TGGTTGTGGCTGCGGTTTT
66 TGGTTGTGGCTGCGGATTT
* * *
30870267 GGTTCAGGCACTGGTGGCT-GCTGTGGTTTTGGTTCAGACGGCG
1 GGTTTAGGCACTGGTGG-TGGTTGTGGTTTTGGTTCAGAGGGCG
30870310 AGTTTAGTGG
Statistics
Matches: 110, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 109 0.99
85 1 0.01
ACGTcount: A:0.09, C:0.13, G:0.43, T:0.36
Consensus pattern (84 bp):
GGTTTAGGCACTGGTGGTGGTTGTGGTTTTGGTTCAGAGGGCGGGTCAGGTTTAGCCACCGGTGG
TGGTTGTGGCTGCGGATTT
Found at i:30870815 original size:25 final size:27
Alignment explanation
Indices: 30870787--30870844 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
30870777 ACGTTTTGAA
30870787 ATTATAATTTT-GTA-AAAATAATTAT
1 ATTATAATTTTGGTACAAAATAATTAT
*
30870812 ATTA-ATTTTTGGTACCTAAAATAATTAT
1 ATTATAATTTTGGTA-C-AAAATAATTAT
30870840 ATTAT
1 ATTAT
30870845 TTGTGTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 5 0.19
25 7 0.26
28 15 0.56
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (27 bp):
ATTATAATTTTGGTACAAAATAATTAT
Found at i:30880448 original size:6 final size:6
Alignment explanation
Indices: 30880430--30880549 Score: 77
Period size: 6 Copynumber: 19.3 Consensus size: 6
30880420 AAGAAACATT
* *
30880430 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
30880479 ATCAAA ATCAGC ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
30880530 A-CAGA ATCAAA AGTCAGA AT
1 ATCAGA ATCAGA A-TCAGA AT
30880550 GTGAATGCAA
Statistics
Matches: 88, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
5 6 0.07
6 65 0.74
7 14 0.16
8 3 0.03
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:30880475 original size:31 final size:31
Alignment explanation
Indices: 30880439--30880549 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
30880429 TATCAGAACT
* * *
30880439 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
* * *
30880470 AGAATCAGAATCAAAATCAGCATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
*
30880501 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
30880532 AGAATCAAAAGTCAGAAT
1 AGAATCAAAA-TCAGAAT
30880550 GTGAATGCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
31 65 0.90
32 7 0.10
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:30880733 original size:27 final size:26
Alignment explanation
Indices: 30880694--30880785 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 26
30880684 CAGTTATCAA
* *
30880694 ATATTGTGACAGAGTCACCAGATACAG
1 ATATTGTGGCAGAGCCACCAGA-ACAG
30880721 ATATTGTGGCAGAGCCACCAGAACAG
1 ATATTGTGGCAGAGCCACCAGAACAG
*
30880747 ATATTTGTGGCATAGCCACCAGAAACAG
1 ATA-TTGTGGCAGAGCCACCAG-AACAG
*
30880775 ATAATGTGGCA
1 ATATTGTGGCA
30880786 AAGCTACTTA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 7 0.12
27 44 0.75
28 8 0.14
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.21
Consensus pattern (26 bp):
ATATTGTGGCAGAGCCACCAGAACAG
Found at i:30880986 original size:22 final size:22
Alignment explanation
Indices: 30880961--30881014 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
30880951 TGGCATACAA
* *
30880961 CCATAATCAGGTTGGCACAGAG
1 CCATAATCAGGTTGACACAAAG
*
30880983 CCAT-ATGTAGGTTGACACAAAG
1 CCATAAT-CAGGTTGACACAAAG
30881005 CCATAATCAG
1 CCATAATCAG
30881015 AAAGCTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (22 bp):
CCATAATCAGGTTGACACAAAG
Found at i:30881498 original size:27 final size:27
Alignment explanation
Indices: 30881468--30881709 Score: 282
Period size: 27 Copynumber: 9.0 Consensus size: 27
30881458 AGGTATCTCG
* *
30881468 GTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTC
*
30881495 GTAATTCTACCCTACAGGAGTA-TTTC
1 GTAATTCTACCCTACAGGGGTATTTTC
* * *
30881521 GGTAATTTTACCCTACAGGGATA-TTGC
1 -GTAATTCTACCCTACAGGGGTATTTTC
30881548 GATAATTCTACCCTACAGGGGTA-TTTC
1 G-TAATTCTACCCTACAGGGGTATTTTC
30881575 GATAATTCTACCCTACAGGGGTA-TTTC
1 G-TAATTCTACCCTACAGGGGTATTTTC
*
30881602 GATAATTCTACCATACAGGGGTA-TTTC
1 G-TAATTCTACCCTACAGGGGTATTTTC
30881629 GATAATTCTACCCTACAGGGGTA-TTTC
1 G-TAATTCTACCCTACAGGGGTATTTTC
* *
30881656 GGTAATTGTACCTTACAGGGGTA-TTTC
1 -GTAATTCTACCCTACAGGGGTATTTTC
*
30881683 GGTAATTCTACCCTACAAGGGTATTTT
1 -GTAATTCTACCCTACAGGGGTATTTT
30881710 GATATTTTAC
Statistics
Matches: 194, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
26 4 0.02
27 186 0.96
28 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTTC
Found at i:30881538 original size:54 final size:55
Alignment explanation
Indices: 30881459--30881713 Score: 349
Period size: 54 Copynumber: 4.7 Consensus size: 55
30881449 TACCCCATAA
* * *
30881459 GGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAG-TAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTCGATAATTCTACCCTACAGG
* * * *
30881513 AGTATTTCGGTAATTTTACCCTACAGGGATA-TTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTCGATAATTCTACCCTACAGG
* *
30881567 GGTATTTCGATAATTCTACCCTACAGGGGTA-TTTCGATAATTCTACCATACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTCGATAATTCTACCCTACAGG
* * * *
30881621 GGTATTTCGATAATTCTACCCTACAGGGGTA-TTTCGGTAATTGTACCTTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTCGATAATTCTACCCTACAGG
*
30881675 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTT-GATA
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTCGATA
30881714 TTTTACAAAT
Statistics
Matches: 180, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
53 3 0.02
54 174 0.97
55 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (55 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTCGATAATTCTACCCTACAGG
Found at i:30881708 original size:81 final size:81
Alignment explanation
Indices: 30881441--30881713 Score: 361
Period size: 81 Copynumber: 3.4 Consensus size: 81
30881431 GGGGTAAAAT
* * * * * * **
30881441 GGTAATTTTACCCCATAA-GGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
*
30881505 CCTACAGGAGTATTTC
66 CCTACAGGGGTATTTC
* * *
30881521 GGTAATTTTACCCTAC-AGGGATATTGCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTA
1 GGTAATTCTACCCTACAAGGG-TATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
30881585 CCCTACAGGGGTATTTC
65 CCCTACAGGGGTATTTC
* * * *
30881602 GATAATTCTACCATACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTGTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
*
30881667 CTTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
*
30881683 GGTAATTCTACCCTACAAGGGTATTTTGATA
1 GGTAATTCTACCCTACAAGGGTATTTCGATA
30881714 TTTTACAAAT
Statistics
Matches: 168, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.01
80 16 0.10
81 148 0.88
82 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
CCTACAGGGGTATTTC
Found at i:30881796 original size:54 final size:54
Alignment explanation
Indices: 30881729--30882110 Score: 455
Period size: 54 Copynumber: 7.3 Consensus size: 54
30881719 CAAATCGACA
* * * * * * *
30881729 GTATTTCGATAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGCCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGG
* *
30881783 GTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGG
* * *
30881837 GTATTTTAGTAATTTTACAAACCATGGGTATTTTGGTAATTTTATAAACAAAGG
1 GTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGG
* * * *
30881891 GTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGG
1 GTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGG
*
30881945 GTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTAATAAACCAAGG
1 GTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGG
* * *
30881999 GTATTCTAGTAATTTTACAAACCAAGGGTATTTTGG--------T-AA--AAGG
1 GTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGG
** * *
30882042 GTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACC-AGG
1 GTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGG
30882095 GATATTTTGGTAATTT
1 G-TATTTTGGTAATTT
30882111 GGTAAACTAA
Statistics
Matches: 285, Mismatches: 31, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
43 36 0.13
45 2 0.01
46 1 0.00
52 2 0.01
53 4 0.01
54 240 0.84
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (54 bp):
GTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGG
Found at i:30881825 original size:27 final size:27
Alignment explanation
Indices: 30881698--30882037 Score: 394
Period size: 27 Copynumber: 12.6 Consensus size: 27
30881688 TTCTACCCTA
* *
30881698 CAAGGGTATTTTGAT-ATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** * * * *
30881724 CGACAGTATTTCGATAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
30881751 CAGGGGTATTTTGGTAATTTTACAAGC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
30881778 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * **
30881805 TAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
30881832 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
30881859 CATGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
30881886 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * **
30881913 TAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
30881940 TAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
30881967 CAGGGGTATTTTGGTAATTTAATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
30881994 CAAGGGTATTCTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
30882021 CAAGGGTATTTTGGTAA
1 CAAGGGTATTTTGGTAA
30882038 AAGGGTATTT
Statistics
Matches: 264, Mismatches: 49, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
26 11 0.04
27 253 0.96
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:30882043 original size:16 final size:16
Alignment explanation
Indices: 30882022--30882053 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
30882012 TTTACAAACC
30882022 AAGGGTATTTTGGTAA
1 AAGGGTATTTTGGTAA
30882038 AAGGGTATTTTGGTAA
1 AAGGGTATTTTGGTAA
30882054 TTTTGTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (16 bp):
AAGGGTATTTTGGTAA
Found at i:30882056 original size:43 final size:43
Alignment explanation
Indices: 30881995--30882080 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
30881985 TTAATAAACC
30881995 AAGGGTATTCTAGTAATTTTACAAACCAAGGGTATTTTGGTAA
1 AAGGGTATTCTAGTAATTTTACAAACCAAGGGTATTTTGGTAA
* * **
30882038 AAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAA
1 AAGGGTATTCTAGTAATTTTACAAACCAAGGGTATTTTGGTAA
30882081 TTTTACAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (43 bp):
AAGGGTATTCTAGTAATTTTACAAACCAAGGGTATTTTGGTAA
Found at i:30882073 original size:27 final size:27
Alignment explanation
Indices: 30882038--30882117 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
30882028 ATTTTGGTAA
30882038 AAGGGTATTTTGGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTGTAAACC
**
30882065 AAGGGTATTTTGGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTGTAAACC
*
30882092 -AGGGATATTTTGGTAATTTGGTAAAC
1 AAGGG-TATTTTGGTAATTTTGTAAAC
30882118 TAAAGTATTC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 4 0.09
27 43 0.91
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.39
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTGTAAACC
Found at i:30882083 original size:70 final size:70
Alignment explanation
Indices: 30881970--30882107 Score: 224
Period size: 70 Copynumber: 2.0 Consensus size: 70
30881960 TACAAACCAG
30881970 GGGTATTTTGGTAATTTAATAAACCAAGGGTATTCTAGTAATTTTACAAACCAAGGG-TATTTTG
1 GGGTATTTTGGTAATTTAATAAACCAAGGGTATTCTAGTAATTTTACAAACC-AGGGATATTTTG
30882034 GTAAAA
65 GTAAAA
** * *
30882040 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGATATTTTGG
1 GGGTATTTTGGTAATTTAATAAACCAAGGGTATTCTAGTAATTTTACAAACCAGGGATATTTTGG
30882105 TAA
66 TAA
30882108 TTTGGTAAAC
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
69 4 0.06
70 59 0.94
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.38
Consensus pattern (70 bp):
GGGTATTTTGGTAATTTAATAAACCAAGGGTATTCTAGTAATTTTACAAACCAGGGATATTTTGG
TAAAA
Found at i:30883405 original size:27 final size:26
Alignment explanation
Indices: 30883368--30883419 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
30883358 AATATTTTTT
*
30883368 GTTTTTATTTTCTAGTTTTTAAAAATA
1 GTTTTCATTTTCTA-TTTTTAAAAATA
*
30883395 GTTTTCATTTTCTATTTTTAGAAAT
1 GTTTTCATTTTCTATTTTTAAAAAT
30883420 TGAAAGGTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.60
Consensus pattern (26 bp):
GTTTTCATTTTCTATTTTTAAAAATA
Found at i:30883756 original size:16 final size:16
Alignment explanation
Indices: 30883735--30883785 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
30883725 TATTTTCAAA
30883735 ATTTTCAACCGAACAC
1 ATTTTCAACCGAACAC
***
30883751 ATTTTCCTTC-AA-A-
1 ATTTTCAACCGAACAC
30883764 ATTTTCAACCGAACAC
1 ATTTTCAACCGAACAC
30883780 ATTTTC
1 ATTTTC
30883786 CTTATTGTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
13 7 0.27
14 3 0.12
15 3 0.12
16 13 0.50
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.35
Consensus pattern (16 bp):
ATTTTCAACCGAACAC
Found at i:30883761 original size:29 final size:29
Alignment explanation
Indices: 30883729--30883788 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
30883719 AAAAATTATT
30883729 TTCAAAATTTTCAACCGAACACATTTTCC
1 TTCAAAATTTTCAACCGAACACATTTTCC
30883758 TTCAAAATTTTCAACCGAACACATTTTCC
1 TTCAAAATTTTCAACCGAACACATTTTCC
30883787 TT
1 TT
30883789 ATTGTTTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (29 bp):
TTCAAAATTTTCAACCGAACACATTTTCC
Found at i:30890906 original size:21 final size:21
Alignment explanation
Indices: 30890880--30890926 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
30890870 TATTGTTATT
30890880 AAATTATCCATTGTTCAAGTA
1 AAATTATCCATTGTTCAAGTA
30890901 AAATTATCCATTGTTCAAGTA
1 AAATTATCCATTGTTCAAGTA
30890922 AAATT
1 AAATT
30890927 CTAGTACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (21 bp):
AAATTATCCATTGTTCAAGTA
Found at i:30892869 original size:41 final size:40
Alignment explanation
Indices: 30892801--30893090 Score: 355
Period size: 41 Copynumber: 7.1 Consensus size: 40
30892791 GTAAAAATTG
* * * *
30892801 TAAAACACAGAGCAATAGCGGTGTTTTTGTTAACACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* * *
30892842 TAAAAACAGAGCAATAGCGGCGTTTTTTGTTAAAATGCCGC
1 TAAAAACAGAGCAATAGCGGCG-CTTTTGGTAAAACGCCGC
*
30892883 TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCAC
1 TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* *
30892923 TAAAAGTCGGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
** *
30892964 TAAAGTCGGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* * * *
30893004 TAAAAGTCGGAGCATTAGCGGCGCTTTTGGTAAAACGCAGC
1 TAAAA-ACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* * *
30893045 TAAAAACCAGAGCATTAGTGGCGCTTTTGGTAAAACGCCAC
1 TAAAAA-CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
30893086 TAAAA
1 TAAAA
30893091 GTCATATAAC
Statistics
Matches: 226, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
40 74 0.33
41 152 0.67
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.22
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:30892951 original size:81 final size:81
Alignment explanation
Indices: 30892801--30893093 Score: 390
Period size: 81 Copynumber: 3.6 Consensus size: 81
30892791 GTAAAAATTG
* * * * * * *
30892801 TAAAACACAGAGCAATAGCGGTGTTTTTGTTAACACGCCGCTAAAA-ACAGAGCAATAGCGGCGT
1 TAAAA-ACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCACTAAAAGTCGGAGCAATAGCGGCG-
* * *
30892865 TTTTTGTTAAAATGCCGC
64 CTTTTGGTAAAACGCCGC
30892883 TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCACTAAAAGTCGGAGCAATAGCGGCGCT
1 TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCACTAAAAGTCGGAGCAATAGCGGCGCT
30892948 TTTGGTAAAACGCCGC
66 TTTGGTAAAACGCCGC
** * * *
30892964 TAAAGTCGGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAGCATTAGCGGCGCT
1 TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCACTAAAAGTCGGAGCAATAGCGGCGCT
*
30893029 TTTGGTAAAACGCAGC
66 TTTGGTAAAACGCCGC
* *
30893045 TAAAAACCAGAGCATTAGTGGCGCTTTTGGTAAAACGCCACTAAAAGTC
1 TAAAAA-CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCACTAAAAGTC
30893094 ATATAACCCT
Statistics
Matches: 187, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
81 129 0.69
82 58 0.31
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (81 bp):
TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCACTAAAAGTCGGAGCAATAGCGGCGCT
TTTGGTAAAACGCCGC
Found at i:30892976 original size:122 final size:122
Alignment explanation
Indices: 30892802--30893090 Score: 366
Period size: 122 Copynumber: 2.4 Consensus size: 122
30892792 TAAAAATTGT
* * * * *
30892802 AAAACACAGAGCAATAGCGGTGTTTTTGTTAACACGCCGCTAAAAACAGAGCAATAGCGGCGTTT
1 AAAAC-CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCG-CT
* *
30892867 TTTGTTAAAATGCCGCTAAAA-ACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCA-CTA
64 TTTGGTAAAACGCCGCTAAAAGACAGAGCAATAGCGGCGCTTTTGGTAAAACG-CAGCTA
** * ** *
30892925 AAAGTCGGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAGTCGGAGCAATAGCGGCGCTTT
1 AAAACCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTT
* * *
30892990 TGGTAAAACGCCGCTAAAAGTCGGAGCATTAGCGGCGCTTTTGGTAAAACGCAGCTA
66 TGGTAAAACGCCGCTAAAAGACAGAGCAATAGCGGCGCTTTTGGTAAAACGCAGCTA
* * *
30893047 AAAACCAGAGCATTAGTGGCGCTTTTGGTAAAACGCCACTAAAA
1 AAAACCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
30893091 GTCATATAAC
Statistics
Matches: 141, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
121 22 0.16
122 116 0.82
123 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (122 bp):
AAAACCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTT
TGGTAAAACGCCGCTAAAAGACAGAGCAATAGCGGCGCTTTTGGTAAAACGCAGCTA
Found at i:30893154 original size:46 final size:45
Alignment explanation
Indices: 30893094--30893217 Score: 126
Period size: 46 Copynumber: 2.7 Consensus size: 45
30893084 ACTAAAAGTC
* *** *
30893094 ATATAACCCTTAAAACCTTAAACCCCAAAAAATTTTGAACACTAA
1 ATATAACCCCTAAAACCTTAAACCCCAAAAAACCCTAAACACTAA
* *
30893139 TATATAACCCCTAAAATAC-TAAACCCCTAAAAACCCTAAACACTAA
1 -ATATAACCCCTAAAA-CCTTAAACCCCAAAAAACCCTAAACACTAA
**
30893185 ACTATAACTTCTAAAACCTTAAA-CCCAAAAAAC
1 A-TATAACCCCTAAAACCTTAAACCCCAAAAAAC
30893218 ATCACATGGA
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
45 11 0.17
46 52 0.81
47 1 0.02
ACGTcount: A:0.50, C:0.27, G:0.01, T:0.22
Consensus pattern (45 bp):
ATATAACCCCTAAAACCTTAAACCCCAAAAAACCCTAAACACTAA
Found at i:30893333 original size:7 final size:7
Alignment explanation
Indices: 30893321--30893384 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
30893311 TTTATTTTTT
*
30893321 GGTTTAC
1 GGTTTAA
30893328 GGTTTAA
1 GGTTTAA
**
30893335 TATTTAA
1 GGTTTAA
30893342 GGTTTAA
1 GGTTTAA
* *
30893349 GGTCTAT
1 GGTTTAA
*
30893356 GGTTTAG
1 GGTTTAA
*
30893363 GGTTTTAT
1 GG-TTTAA
30893371 GGTTTAA
1 GGTTTAA
30893378 GGTTTAA
1 GGTTTAA
30893385 TGGCCATGGG
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:30893373 original size:15 final size:15
Alignment explanation
Indices: 30893337--30893387 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
30893327 CGGTTTAATA
*
30893337 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* *
30893351 TCTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
30893366 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
30893381 TTAATGG
1 TTTATGG
30893388 CCATGGGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:30893892 original size:7 final size:7
Alignment explanation
Indices: 30893882--30893942 Score: 61
Period size: 7 Copynumber: 8.3 Consensus size: 7
30893872 CATTAAACTG
30893882 AAATAAA
1 AAATAAA
30893889 AAATAAA
1 AAATAAA
30893896 CTCAAA-AAA
1 ---AAATAAA
30893905 AAATAAA
1 AAATAAA
* *
30893912 AATTTAA
1 AAATAAA
30893919 AAATAAA
1 AAATAAA
30893926 AAATAAAA
1 AAAT-AAA
30893934 AAATAAA
1 AAATAAA
30893941 AA
1 AA
30893943 CTTAAAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
6 3 0.07
7 29 0.64
8 7 0.16
9 3 0.07
10 3 0.07
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.16
Consensus pattern (7 bp):
AAATAAA
Found at i:30893907 original size:16 final size:17
Alignment explanation
Indices: 30893875--30893911 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
30893865 AATTACACAT
*
30893875 TAAACTGAAATAAAAAA
1 TAAACTCAAATAAAAAA
30893892 TAAACTCAAA-AAAAAA
1 TAAACTCAAATAAAAAA
30893908 TAAA
1 TAAA
30893912 AATTTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.73, C:0.08, G:0.03, T:0.16
Consensus pattern (17 bp):
TAAACTCAAATAAAAAA
Found at i:30893920 original size:14 final size:14
Alignment explanation
Indices: 30893903--30893951 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
30893893 AAACTCAAAA
30893903 AAAAATAAAAATTT
1 AAAAATAAAAATTT
**
30893917 AAAAATAAAAAATAA
1 AAAAAT-AAAAATTT
*
30893932 AAAAATAAAAACTT
1 AAAAATAAAAATTT
30893946 AAAAAT
1 AAAAAT
30893952 TTAATATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAAATAAAAATTT
Found at i:30893920 original size:15 final size:15
Alignment explanation
Indices: 30893902--30893950 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
30893892 TAAACTCAAA
30893902 AAAAAAT-AAAAATT
1 AAAAAATAAAAAATT
* *
30893916 TAAAAATAAAAAATA
1 AAAAAATAAAAAATT
*
30893931 AAAAAATAAAAACTT
1 AAAAAATAAAAAATT
30893946 AAAAA
1 AAAAA
30893951 TTTAATATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 6 0.21
15 23 0.79
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAAAATAAAAAATT
Found at i:30893942 original size:37 final size:37
Alignment explanation
Indices: 30893882--30893955 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
30893872 CATTAAACTG
**
30893882 AAATAAAAAATAAACTCAAAAAAAAATAAAAATTTAA
1 AAATAAAAAATAAACAAAAAAAAAAATAAAAATTTAA
**
30893919 AAATAAAAAATAAA-AAAATAAAAACTTAAAAATTTAA
1 AAATAAAAAATAAACAAAA-AAAAAAATAAAAATTTAA
30893956 TATTTAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 2 0.06
37 30 0.94
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (37 bp):
AAATAAAAAATAAACAAAAAAAAAAATAAAAATTTAA
Found at i:30894047 original size:18 final size:16
Alignment explanation
Indices: 30894026--30894063 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
30894016 TTCAAAAGAG
30894026 AAAAATAAAAAATATCTT
1 AAAAATAAAAAA-AT-TT
30894044 AAAAATAAAAAAATTT
1 AAAAATAAAAAAATTT
30894060 AAAA
1 AAAA
30894064 TTAATCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 2 0.10
18 12 0.60
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATAAAAAAATTT
Found at i:30894048 original size:26 final size:25
Alignment explanation
Indices: 30894001--30894057 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
30893991 TTCAATATTC
* * *
30894001 AAAATTAAAAAAAATTTCAAAAGAG
1 AAAAATAAAAAAAATTTAAAAAGAA
* *
30894026 AAAAATAAAAAATATCTTAAAAATAA
1 AAAAATAAAAAAAAT-TTAAAAAGAA
30894052 AAAAAT
1 AAAAAT
30894058 TTAAAATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.21
Consensus pattern (25 bp):
AAAAATAAAAAAAATTTAAAAAGAA
Found at i:30894106 original size:41 final size:41
Alignment explanation
Indices: 30894060--30894145 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 41
30894050 AAAAAAATTT
* *
30894060 AAAATT-AATCAATAGTGGCG-TTTTACATTAAAACGCCACAA
1 AAAATTGAAT-AATAATGGCGTTTTTAC-TGAAAACGCCACAA
* * *
30894101 AAAATTGAGTTATAATGGCGTTTTTACTGAAAACGCCGCAA
1 AAAATTGAATAATAATGGCGTTTTTACTGAAAACGCCACAA
30894142 AAAA
1 AAAA
30894146 AAAGTACTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
41 30 0.79
42 8 0.21
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (41 bp):
AAAATTGAATAATAATGGCGTTTTTACTGAAAACGCCACAA
Found at i:30898545 original size:19 final size:19
Alignment explanation
Indices: 30898523--30898563 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
30898513 TTTATTGATA
30898523 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
30898541 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
30898560 TTTT
1 TTTT
30898564 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:30899048 original size:43 final size:43
Alignment explanation
Indices: 30898808--30899046 Score: 316
Period size: 43 Copynumber: 5.4 Consensus size: 43
30898798 TTTGAATTTT
**
30898808 ATGACCTTTAGCGGCGTTTGTGGGATAAGCGCTACTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGGTC
*
30898851 ATGACCTTTAGCTTAGCGGCGCTTGTGGGATAAGCGCCGCTAAAGGTC
1 ATGACC--T---TTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGGTC
* * *
30898899 ATGACCTTTAGCGGCGTTTTTGGGACAAGAGCCGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGGTC
*
30898942 GTGACCTTTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGGTC
* * * * *
30898985 ACGATCTTTAGCAGCGTTTTTGGGATAAGCACCGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGGTC
*
30899028 ATGATCTTTAGCGGCGTTT
1 ATGACCTTTAGCGGCGTTT
30899047 TTTTTAAATA
Statistics
Matches: 172, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
43 131 0.76
45 1 0.01
46 1 0.01
48 39 0.23
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (43 bp):
ATGACCTTTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGGTC
Found at i:30907403 original size:22 final size:22
Alignment explanation
Indices: 30907378--30907419 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
30907368 TAAGATAATT
30907378 TTAAAAAACAAAT-AATAAAATC
1 TTAAAAAA-AAATGAATAAAATC
*
30907400 TTAAATAAAAATGAATAAAA
1 TTAAAAAAAAATGAATAAAA
30907420 GCATAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (22 bp):
TTAAAAAAAAATGAATAAAATC
Found at i:30907426 original size:22 final size:21
Alignment explanation
Indices: 30907387--30907429 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
30907377 TTTAAAAAAC
* *
30907387 AAATAATAAAATCTTAAATAA
1 AAATAATAAAAGCATAAATAA
30907408 AAATGAATAAAAGCATAAATAA
1 AAAT-AATAAAAGCATAAATAA
30907430 GTAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (21 bp):
AAATAATAAAAGCATAAATAA
Found at i:30918695 original size:16 final size:16
Alignment explanation
Indices: 30918667--30918700 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
30918657 CATGCTTCAT
30918667 TATTTATTTTTAATTA
1 TATTTATTTTTAATTA
30918683 TATTT-TTTATTAATTA
1 TATTTATTT-TTAATTA
30918699 TA
1 TA
30918701 GCGAGAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTATTTTTAATTA
Found at i:30920157 original size:33 final size:33
Alignment explanation
Indices: 30920120--30920209 Score: 99
Period size: 41 Copynumber: 2.5 Consensus size: 33
30920110 ACAAAATAAG
30920120 AATGTAATCATTTTAATAGATACACATAATACA
1 AATGTAATCATTTTAATAGATACACATAATACA
30920153 AATGTAATCATATTAACATATTAATAGATACACATAATACA
1 AATGTAATC--A-T----T-TTAATAGATACACATAATACA
*
30920194 AATGTAATCATATTAA
1 AATGTAATCATTTTAA
30920210 CATATATACA
Statistics
Matches: 48, Mismatches: 1, Indels: 16
0.74 0.02 0.25
Matches are distributed among these distances:
33 13 0.27
35 1 0.02
36 1 0.02
38 1 0.02
39 1 0.02
40 1 0.02
41 30 0.62
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (33 bp):
AATGTAATCATTTTAATAGATACACATAATACA
Found at i:30920160 original size:24 final size:24
Alignment explanation
Indices: 30920133--30920201 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 24
30920123 GTAATCATTT
30920133 TAATAGATACACATAATACAAATG
1 TAATAGATACACATAATACAAATG
* * *
30920157 ---TA-AT-CATATTA-ACATAT-
1 TAATAGATACACATAATACAAATG
30920174 TAATAGATACACATAATACAAATG
1 TAATAGATACACATAATACAAATG
30920198 TAAT
1 TAAT
30920202 CATATTAACA
Statistics
Matches: 32, Mismatches: 6, Indels: 14
0.62 0.12 0.27
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
20 4 0.12
21 4 0.12
22 5 0.16
23 5 0.16
24 4 0.12
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (24 bp):
TAATAGATACACATAATACAAATG
Found at i:30920179 original size:41 final size:41
Alignment explanation
Indices: 30920132--30920214 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
30920122 TGTAATCATT
30920132 TTAATAGATACACATAATACAAATGTAATCATATTAACATA
1 TTAATAGATACACATAATACAAATGTAATCATATTAACATA
30920173 TTAATAGATACACATAATACAAATGTAATCATATTAACATA
1 TTAATAGATACACATAATACAAATGTAATCATATTAACATA
30920214 T
1 T
30920215 ATACAAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.33
Consensus pattern (41 bp):
TTAATAGATACACATAATACAAATGTAATCATATTAACATA
Found at i:30925412 original size:10 final size:10
Alignment explanation
Indices: 30925397--30925434 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
30925387 ATTTATTTTC
*
30925397 ATTTATCTTT
1 ATTTATCTAT
*
30925407 AATTATCTAT
1 ATTTATCTAT
30925417 ATTTATCTAT
1 ATTTATCTAT
30925427 ATTTATCT
1 ATTTATCT
30925435 TTTAGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTTATCTAT
Found at i:30926212 original size:39 final size:36
Alignment explanation
Indices: 30926154--30926228 Score: 96
Period size: 39 Copynumber: 2.0 Consensus size: 36
30926144 AATTTTGAAA
* *
30926154 TTCCAATCAAAAATTTTAATTCTGTTTTTATTTTATTT
1 TTCCAATCAAAAATATTAATTCT-ATTTT-TTTTATTT
*
30926192 TTCCAGATCAAAACTATTAATTCTATTTTTTTTATTT
1 TTCCA-ATCAAAAATATTAATTCTATTTTTTTTATTT
30926229 CTTTTCCAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 8 0.24
38 9 0.27
39 16 0.48
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (36 bp):
TTCCAATCAAAAATATTAATTCTATTTTTTTTATTT
Found at i:30929265 original size:17 final size:18
Alignment explanation
Indices: 30929243--30929282 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
30929233 TCTGCATTGA
30929243 TTACAAGAAGTTAAATT-
1 TTACAAGAAGTTAAATTC
*
30929260 TTACAAGAAGTTGAATTC
1 TTACAAGAAGTTAAATTC
30929278 TTACA
1 TTACA
30929283 CTAGAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (18 bp):
TTACAAGAAGTTAAATTC
Found at i:30931713 original size:10 final size:10
Alignment explanation
Indices: 30931698--30931758 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
30931688 TAATTTTAGG
30931698 ATTTAT-TTT
1 ATTTATCTTT
30931707 CATTTATCTTT
1 -ATTTATCTTT
30931718 ATTTATCTTT
1 ATTTATCTTT
*
30931728 AATTATCTTT
1 ATTTATCTTT
*
30931738 ATTTATTTATT
1 ATTTATCT-TT
30931749 ATTTATCTTT
1 ATTTATCTTT
30931759 TAGAATTTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
10 33 0.73
11 12 0.27
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:30937530 original size:28 final size:28
Alignment explanation
Indices: 30937490--30937549 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
30937480 TGTAACATAA
30937490 CTCAAAGACATACTCACCAATGGCTTAT
1 CTCAAAGACATACTCACCAATGGCTTAT
30937518 CTCAAAGACATACTCACCAATGGCTTAT
1 CTCAAAGACATACTCACCAATGGCTTAT
30937546 CTCA
1 CTCA
30937550 TTGAGATCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.35, C:0.30, G:0.10, T:0.25
Consensus pattern (28 bp):
CTCAAAGACATACTCACCAATGGCTTAT
Found at i:30941439 original size:7 final size:7
Alignment explanation
Indices: 30941427--30941514 Score: 160
Period size: 7 Copynumber: 12.7 Consensus size: 7
30941417 GAGGCAACCC
30941427 AATTTTT
1 AATTTTT
30941434 AATTTTT
1 AATTTTT
30941441 -ATTTTT
1 AATTTTT
*
30941447 ATTTTTT
1 AATTTTT
30941454 AATTTTT
1 AATTTTT
30941461 AATTTTT
1 AATTTTT
30941468 AATTTTT
1 AATTTTT
30941475 AATTTTT
1 AATTTTT
30941482 AATTTTT
1 AATTTTT
30941489 AATTTTT
1 AATTTTT
30941496 AATTTTT
1 AATTTTT
30941503 AATTTTT
1 AATTTTT
30941510 AATTT
1 AATTT
30941515 ATTTTAATTT
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
6 6 0.08
7 72 0.92
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
AATTTTT
Found at i:30941451 original size:5 final size:6
Alignment explanation
Indices: 30941428--30941556 Score: 84
Period size: 7 Copynumber: 19.5 Consensus size: 6
30941418 AGGCAACCCA
30941428 ATTTTT AATTTTT ATTTTT ATTTTTT AATTTTT AATTTTT AATTTTT AATTTTT
1 ATTTTT -ATTTTT ATTTTT A-TTTTT -ATTTTT -ATTTTT -ATTTTT -ATTTTT
* *
30941482 AATTTTT AATTTTT AATTTTT AATTTTT A-ATTT ATTTTA ATTTATT -TATTTT
1 -ATTTTT -ATTTTT -ATTTTT -ATTTTT ATTTTT ATTTTT ATTT-TT AT-TTTT
30941534 ATCTTATT A-TTTT ATTATTT ATT
1 AT-TT-TT ATTTTT ATT-TTT ATT
30941557 ATTTCCAGAT
Statistics
Matches: 108, Mismatches: 5, Indels: 18
0.82 0.04 0.14
Matches are distributed among these distances:
5 7 0.06
6 20 0.19
7 77 0.71
8 4 0.04
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (6 bp):
ATTTTT
Found at i:30941460 original size:21 final size:21
Alignment explanation
Indices: 30941429--30941533 Score: 140
Period size: 21 Copynumber: 4.9 Consensus size: 21
30941419 GGCAACCCAA
30941429 TTTTTAATTTTT-ATTTTTAT
1 TTTTTAATTTTTAATTTTTAT
*
30941449 TTTTTAATTTTTAATTTTTAA
1 TTTTTAATTTTTAATTTTTAT
*
30941470 TTTTTAATTTTTAATTTTTAA
1 TTTTTAATTTTTAATTTTTAT
30941491 TTTTTAATTTTTAATTTTTAATT
1 TTTTTAATTTTTAATTTTT-A-T
*
30941514 TATTTTAATTTATTTATTTT
1 T-TTTTAATTT-TTAATTTT
30941534 ATCTTATTAT
Statistics
Matches: 77, Mismatches: 3, Indels: 5
0.91 0.04 0.06
Matches are distributed among these distances:
20 12 0.16
21 47 0.61
22 1 0.01
23 1 0.01
24 9 0.12
25 7 0.09
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTAATTTTTAATTTTTAT
Found at i:30943104 original size:101 final size:98
Alignment explanation
Indices: 30942944--30943174 Score: 311
Period size: 100 Copynumber: 2.3 Consensus size: 98
30942934 CTGGTACGCA
* *
30942944 TAGTAGCCTGCACTTAG-ACTACACATGTGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* *
30943008 GTACTACACACGTGACCTAACCATCTGACACACG
66 GTACTACACACGCGACC-AACCATCCGACACACG
* * * *
30943042 TAGTAGCCAGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* ** **
30943107 TAGTACTACACATGCGACCAATTATCCGGTACACG
64 TAGTACTACACACGCGACCAACCATCCGACACACG
30943142 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
30943175 TCACAATAGA
Statistics
Matches: 115, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
98 16 0.14
99 13 0.11
100 44 0.38
101 42 0.37
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCCGACACACG
Found at i:30943151 original size:49 final size:49
Alignment explanation
Indices: 30942944--30943174 Score: 311
Period size: 49 Copynumber: 4.7 Consensus size: 49
30942934 CTGGTACGCA
*
30942944 TAGTAGCCTGCACTTAG-ACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * **
30942992 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGACACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
30943042 TAGTAGCCAGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
* *
30943093 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
30943142 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
30943175 TCACAATAGA
Statistics
Matches: 155, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
48 17 0.11
49 56 0.36
50 46 0.30
51 36 0.23
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:30943433 original size:27 final size:27
Alignment explanation
Indices: 30943393--30943446 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
30943383 AGGTACAACC
* *
30943393 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
30943420 CATGTAACAATAATTTGTCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
30943447 TCCCATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:30944676 original size:22 final size:22
Alignment explanation
Indices: 30944651--30944693 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
30944641 CCCTGGACCA
*
30944651 CCCTAATCCTGCAGCCAAACAG
1 CCCTAATCCTGCAACCAAACAG
* *
30944673 CCCTACTCCTGGAACCAAACA
1 CCCTAATCCTGCAACCAAACA
30944694 CCACCTTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.42, G:0.12, T:0.14
Consensus pattern (22 bp):
CCCTAATCCTGCAACCAAACAG
Found at i:30946551 original size:26 final size:26
Alignment explanation
Indices: 30946526--30946583 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
30946516 TTTATTTAAT
*
30946526 TAAAT-AAAAAAATTTAAAAATATAA
1 TAAATCAAAAAAATTTAAAAACATAA
* *
30946551 TAAATCAAATATATTTAAAAACATAA
1 TAAATCAAAAAAATTTAAAAACATAA
30946577 -AAA-CAAA
1 TAAATCAAA
30946584 TATTAAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 4 0.14
25 8 0.28
26 17 0.59
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (26 bp):
TAAATCAAAAAAATTTAAAAACATAA
Found at i:30946977 original size:21 final size:20
Alignment explanation
Indices: 30946945--30946983 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
30946935 ATTTTAGGAT
30946945 TTATTTTTATTTATCTTTAA
1 TTATTTTTATTTATCTTTAA
30946965 TTATTTATTATTTATCTTT
1 TTATTT-TTATTTATCTTT
30946984 TAGAATTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TTATTTTTATTTATCTTTAA
Found at i:30946991 original size:21 final size:21
Alignment explanation
Indices: 30946947--30946996 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
30946937 TTTAGGATTT
**
30946947 ATTT-TTATTTATCTTTAATT
1 ATTTATTATTTATCTTTAAGA
*
30946967 ATTTATTATTTATCTTTTAGA
1 ATTTATTATTTATCTTTAAGA
30946988 ATTTCATTA
1 ATTT-ATTA
30946997 GGAATAGACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 4 0.16
21 17 0.68
22 4 0.16
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (21 bp):
ATTTATTATTTATCTTTAAGA
Found at i:30948299 original size:6 final size:6
Alignment explanation
Indices: 30948288--30948377 Score: 71
Period size: 6 Copynumber: 15.0 Consensus size: 6
30948278 TTGCAACTCA
* * *
30948288 ATTTTT ATTTTT ATTTTT ATTTTT ATCTTT ATCTTT ATTAATT -TTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATT-TTT ATTTTT
* *
30948336 -GTTTT ATTCTT A-TTTT A-TTTT ATTATTT ACTATTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATT-TTT A-T-TTTT ATTTTT
30948378 GAATGTTAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
5 15 0.21
6 42 0.60
7 7 0.10
8 5 0.07
9 1 0.01
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:30948342 original size:29 final size:27
Alignment explanation
Indices: 30948300--30948354 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
30948290 TTTTATTTTT
30948300 ATTTTTATTTTTA-TCTTTATCTTTATTA
1 ATTTTTATTTTTATTC-TTAT-TTTATTA
*
30948328 ATTTTTTTGTTTTATTCTTATTTTATT
1 ATTTTTAT-TTTTATTCTTATTTTATT
30948355 TTATTATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 13 0.54
29 9 0.38
30 2 0.08
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (27 bp):
ATTTTTATTTTTATTCTTATTTTATTA
Found at i:30948361 original size:19 final size:19
Alignment explanation
Indices: 30948290--30948376 Score: 58
Period size: 20 Copynumber: 4.5 Consensus size: 19
30948280 GCAACTCAAT
30948290 TTTTATTTTTATT-TTTAT-
1 TTTTA-TTTTATTATTTATA
*
30948308 TTTTATCTTTA-TCTTTATTAA
1 TTTTAT-TTTATTATTTA-T-A
*
30948329 TTTT-TTTGTTTTATTCT-TA
1 TTTTATTT-TATTATT-TATA
30948348 TTTTATTTTATTATTTACTA
1 TTTTATTTTATTATTTA-TA
30948368 TTTTATTTT
1 TTTTATTTT
30948377 TGAATGTTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 20
0.71 0.04 0.26
Matches are distributed among these distances:
17 2 0.04
18 14 0.25
19 14 0.25
20 17 0.31
21 7 0.13
22 1 0.02
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (19 bp):
TTTTATTTTATTATTTATA
Found at i:30960683 original size:96 final size:94
Alignment explanation
Indices: 30960519--30960712 Score: 244
Period size: 96 Copynumber: 2.0 Consensus size: 94
30960509 GAATTAATTT
* * * *
30960519 TTAAGAATGTGTTGGGCTAAGTAATCGGGGTGAGGTGCTTGGCTGTAATCTTTTTTCACGTCAAA
1 TTAAGAATATGTTGGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTAATCTCTCTTCACGTCAAA
* *
30960584 AGGTTCGATATGTTCTTAAGAAAAATAAAAA
66 AGGTTCCATATATTCTT-A-AAAAATAAAAA
* * * * * **
30960615 TTAAGAGTATGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGTTGTCATCTCTCTTCGTGTCAAA
1 TTAAGAATATGTTGGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTAATCTCTCTTCACGTCAAA
*
30960680 AGGTTCCATATATTCTTAAAAAATAATAA
66 AGGTTCCATATATTCTTAAAAAATAAAAA
30960709 TTAA
1 TTAA
30960713 TTAATTAATT
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
94 14 0.17
95 1 0.01
96 69 0.82
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (94 bp):
TTAAGAATATGTTGGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTAATCTCTCTTCACGTCAAA
AGGTTCCATATATTCTTAAAAAATAAAAA
Found at i:30961372 original size:10 final size:10
Alignment explanation
Indices: 30961357--30961404 Score: 69
Period size: 10 Copynumber: 4.8 Consensus size: 10
30961347 ATTTTAGGAT
30961357 TTATCTTTAA
1 TTATCTTTAA
30961367 TTATCTTTAA
1 TTATCTTTAA
*
30961377 TTATCTTTAT
1 TTATCTTTAA
* *
30961387 TTATCTGTAT
1 TTATCTTTAA
30961397 TTATCTTT
1 TTATCTTT
30961405 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 35 1.00
ACGTcount: A:0.23, C:0.10, G:0.02, T:0.65
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:30961659 original size:39 final size:38
Alignment explanation
Indices: 30961611--30961690 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 38
30961601 ATTTTTCAAA
30961611 TTCCAATCAAAACTTTTAATTCTATTTTTATTTTATTT
1 TTCCAATCAAAACTTTTAATTCTATTTTTATTTTATTT
* * *
30961649 TTCCAGATCAAAACTTTTAATTCTGTTTTTTTTTTCTTT
1 TTCCA-ATCAAAACTTTTAATTCTATTTTTATTTTATTT
30961688 TTC
1 TTC
30961691 AGGTACGCAG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
38 5 0.13
39 33 0.87
ACGTcount: A:0.24, C:0.15, G:0.03, T:0.59
Consensus pattern (38 bp):
TTCCAATCAAAACTTTTAATTCTATTTTTATTTTATTT
Found at i:30966161 original size:14 final size:14
Alignment explanation
Indices: 30966142--30966172 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
30966132 ACTTATTTTG
30966142 AAAAATAAAATAAT
1 AAAAATAAAATAAT
30966156 AAAAATAAAATAAT
1 AAAAATAAAATAAT
30966170 AAA
1 AAA
30966173 TAAGAAGGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAAATAAAATAAT
Found at i:30968038 original size:7 final size:7
Alignment explanation
Indices: 30968014--30968049 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
30968004 GTCCGGATTT
30968014 ATTTT-A
1 ATTTTCA
30968020 ATTTTCA
1 ATTTTCA
30968027 A--TTCA
1 ATTTTCA
30968032 ATTTTCA
1 ATTTTCA
30968039 ATTTTCA
1 ATTTTCA
30968046 ATTT
1 ATTT
30968050 ATTACTTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.19
6 5 0.19
7 17 0.63
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTTCA
Found at i:30977950 original size:18 final size:18
Alignment explanation
Indices: 30977912--30977944 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30977902 TATTTTTAGG
30977912 AATTAAATATTATATTAA
1 AATTAAATATTATATTAA
30977930 AATTAAA-ATT-TATTA
1 AATTAAATATTATATTA
30977945 TTAAATATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 3 0.20
18 7 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTAAATATTATATTAA
Found at i:30984136 original size:29 final size:32
Alignment explanation
Indices: 30984107--30984180 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
30984097 TTGATATATG
30984107 AACTTTAATTTAGTATA-AT-TATATACATGA
1 AACTTTAATTTAGTATATATATATATACATGA
* * *
30984137 AACTTAAATTGCATTATATATATATATACATGA
1 AACTTTAATT-TAGTATATATATATATACATGA
*
30984170 AATTTTAATTT
1 AACTTTAATTT
30984181 TGATTCAACT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
30 9 0.26
31 5 0.14
32 2 0.06
33 19 0.54
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (32 bp):
AACTTTAATTTAGTATATATATATATACATGA
Found at i:30985557 original size:19 final size:19
Alignment explanation
Indices: 30985535--30985575 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
30985525 TGTATTATTA
* *
30985535 ATGTAAATATGATTCTAGC
1 ATGTAAATATAATTCGAGC
*
30985554 ATGTAAATTTAATTCGAGC
1 ATGTAAATATAATTCGAGC
30985573 ATG
1 ATG
30985576 ATTCTAGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (19 bp):
ATGTAAATATAATTCGAGC
Found at i:30986436 original size:38 final size:38
Alignment explanation
Indices: 30986385--30986461 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
30986375 TCGCCCTGAG
30986385 TATGAGCCAATTTGAGCCTCTCTACAACATTGGAGTCC
1 TATGAGCCAATTTGAGCCTCTCTACAACATTGGAGTCC
*
30986423 TATGAGCCAATTTGAGCCTCTCTGCAACATTGGAGTCC
1 TATGAGCCAATTTGAGCCTCTCTACAACATTGGAGTCC
30986461 T
1 T
30986462 CTTCTATCCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (38 bp):
TATGAGCCAATTTGAGCCTCTCTACAACATTGGAGTCC
Found at i:30989523 original size:46 final size:46
Alignment explanation
Indices: 30989257--30989530 Score: 361
Period size: 46 Copynumber: 6.0 Consensus size: 46
30989247 TTTGACATGA
* * * * *
30989257 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * * *
30989303 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * *** *
30989349 TGCCGTGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
30989395 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTAATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
30989441 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
30989487 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
30989531 AGAGCACACT
Statistics
Matches: 207, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 203 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:30993331 original size:8 final size:7
Alignment explanation
Indices: 30993318--30993416 Score: 60
Period size: 8 Copynumber: 13.0 Consensus size: 7
30993308 ACCCAAACAA
30993318 AATAAAGT
1 AATAAA-T
30993326 AATAAAT
1 AATAAAT
30993333 AATAAAAT
1 AAT-AAAT
30993341 AAAATAAAGT
1 --AATAAA-T
*
30993351 AATGAAT
1 AATAAAT
30993358 AAATAAAT
1 -AATAAAT
30993366 AATAAAAT
1 AAT-AAAT
30993374 AATAAAAT
1 AAT-AAAT
30993382 AATAAAATAT
1 AAT--AA-AT
30993392 AATAAA-
1 AATAAAT
*
30993398 AATAAAG
1 AATAAAT
30993405 AA-AAAT
1 AATAAAT
30993411 AA-AAAT
1 AATAAAT
30993417 TGGGTTACCT
Statistics
Matches: 79, Mismatches: 3, Indels: 20
0.77 0.03 0.20
Matches are distributed among these distances:
6 15 0.19
7 11 0.14
8 38 0.48
9 6 0.08
10 9 0.11
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (7 bp):
AATAAAT
Found at i:30993343 original size:5 final size:5
Alignment explanation
Indices: 30993333--30993414 Score: 53
Period size: 5 Copynumber: 15.4 Consensus size: 5
30993323 AGTAATAAAT
*
30993333 AATAA AATAA AATAA AGTAA TGAAT-A AATAAA TAATAA AATAA TAA-AA
1 AATAA AATAA AATAA AATAA --AATAA AAT-AA -AATAA AATAA -AATAA
*
30993381 TAATAA AATAT AATAAA AATAA AGA-AA AATAA AA
1 -AATAA AATAA AAT-AA AATAA A-ATAA AATAA AA
30993415 ATTGGGTTAC
Statistics
Matches: 63, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
4 4 0.06
5 41 0.65
6 13 0.21
7 5 0.08
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:30993374 original size:16 final size:16
Alignment explanation
Indices: 30993326--30993413 Score: 92
Period size: 16 Copynumber: 5.4 Consensus size: 16
30993316 AAAATAAAGT
30993326 AATAAATAATAAAATAA
1 AATAAATAATAAAAT-A
*
30993343 AATAAAGTAAT-GAATA
1 AATAAA-TAATAAAATA
30993359 AATAAATAATAAAAT-
1 AATAAATAATAAAATA
30993374 AATAAAATAATAAAATA
1 AAT-AAATAATAAAATA
*
30993391 TAATAAA-AATAAAGAAA
1 -AATAAATAATAAA-ATA
30993408 AATAAA
1 AATAAA
30993414 AATTGGGTTA
Statistics
Matches: 62, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
15 7 0.11
16 34 0.55
17 14 0.23
18 7 0.11
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AATAAATAATAAAATA
Found at i:30993411 original size:49 final size:48
Alignment explanation
Indices: 30993318--30993413 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 48
30993308 ACCCAAACAA
* * *
30993318 AATAAAGTAATAAATAATAAAATAAAATAAAGTAATGAATAAATAAAT
1 AATAAAATAATAAATAATAAAATAAAATAAAATAAAGAATAAATAAAT
*
30993366 AATAAAATAATAAAATAATAAAATATAATAAAAATAAAGAA-AAATAAA
1 AATAAAATAAT-AAATAATAAAATAAAAT-AAAATAAAGAATAAATAAA
30993414 AATTGGGTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
48 10 0.24
49 23 0.55
50 9 0.21
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (48 bp):
AATAAAATAATAAATAATAAAATAAAATAAAATAAAGAATAAATAAAT
Found at i:30996364 original size:179 final size:179
Alignment explanation
Indices: 30996057--30996591 Score: 1007
Period size: 179 Copynumber: 3.0 Consensus size: 179
30996047 TGGCGGCAAC
30996057 TTCCCTTGAAAGTTCAATTTCTCAATTGATATGGTCAATTCTCTTATAGATGCTTCGGTTTTCTG
1 TTCCCTTGAAAGTTCAATTTCTCAATTGATATGGTCAATTCTCTTATAGATGCTTCGGTTTTCT-
* *
30996122 TTGAAAATCAAGCATATTAGCTGCTAATTTATTGACCAAAGTTTCTAGAGAATTACCTAAATCTT
65 ATGAAAATCAAGCATATTAGCTACTAATTTATTGACCAAAGTTTCTAGAGAATTACCTAAATCTT
30996187 GTGGCTGTTGTGGAACCCAATTTTGGTATGGCTGGTTATATCTTGGAAAT
130 GTGGCTGTTGTGGAACCCAATTTTGGTATGGCTGGTTATATCTTGGAAAT
* *
30996237 TTCCCTTGAAATTTCAATTTCTCAATTGATATGGTCAATTCTCTTATAGATGCTTCAGTTTTCTA
1 TTCCCTTGAAAGTTCAATTTCTCAATTGATATGGTCAATTCTCTTATAGATGCTTCGGTTTTCTA
30996302 TGAAAATCAAGCATATTAGCTACTAATTTATTGACCAAAGTTTCTAGAGAATTACCTAAATCTTG
66 TGAAAATCAAGCATATTAGCTACTAATTTATTGACCAAAGTTTCTAGAGAATTACCTAAATCTTG
30996367 TGGCTGTTGTGGAACCCAATTTTGGTATGGCTGGTTATATCTTGGAAAT
131 TGGCTGTTGTGGAACCCAATTTTGGTATGGCTGGTTATATCTTGGAAAT
*
30996416 TTCCCTTGAAAGTTCAATTTCTCAATTGATATGGTCAATTCTCTTATAGATGCTTCGGTTTTCTG
1 TTCCCTTGAAAGTTCAATTTCTCAATTGATATGGTCAATTCTCTTATAGATGCTTCGGTTTTCTA
30996481 TGAAAATCAAGCATATTAGCTACTAATTTATTGACCAAAGTTTCTAGAGAATTACCTAAATCTTG
66 TGAAAATCAAGCATATTAGCTACTAATTTATTGACCAAAGTTTCTAGAGAATTACCTAAATCTTG
*
30996546 TGGCTGTTGTGGAACCCAATTTTGGTATGGCTGGTTATATCGTGGA
131 TGGCTGTTGTGGAACCCAATTTTGGTATGGCTGGTTATATCTTGGA
30996592 TTGGCTCCAT
Statistics
Matches: 347, Mismatches: 8, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
179 285 0.82
180 62 0.18
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (179 bp):
TTCCCTTGAAAGTTCAATTTCTCAATTGATATGGTCAATTCTCTTATAGATGCTTCGGTTTTCTA
TGAAAATCAAGCATATTAGCTACTAATTTATTGACCAAAGTTTCTAGAGAATTACCTAAATCTTG
TGGCTGTTGTGGAACCCAATTTTGGTATGGCTGGTTATATCTTGGAAAT
Found at i:30998860 original size:16 final size:17
Alignment explanation
Indices: 30998839--30998882 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
30998829 TACAAATAAT
*
30998839 TAAATATAAATAAA-GC
1 TAAATATAAATAAATCC
*
30998855 TAAATAAAAATAAATCC
1 TAAATATAAATAAATCC
*
30998872 TAAAAATAAAT
1 TAAATATAAAT
30998883 CTAAATAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (17 bp):
TAAATATAAATAAATCC
Found at i:30998877 original size:13 final size:13
Alignment explanation
Indices: 30998859--30998897 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
30998849 TAAAGCTAAA
30998859 TAAAAATAAATCC
1 TAAAAATAAATCC
30998872 TAAAAATAAAT-C
1 TAAAAATAAATCC
30998884 TAAATAAT-AATCC
1 TAAA-AATAAATCC
30998897 T
1 T
30998898 TAATAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAAATAAATCC
Found at i:31000868 original size:10 final size:10
Alignment explanation
Indices: 31000853--31000878 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
31000843 CATCGGACAG
31000853 ACAGAACATT
1 ACAGAACATT
31000863 ACAGAACATT
1 ACAGAACATT
31000873 ACAGAA
1 ACAGAA
31000879 TTACTGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.19, G:0.12, T:0.15
Consensus pattern (10 bp):
ACAGAACATT
Found at i:31001748 original size:17 final size:17
Alignment explanation
Indices: 31001708--31001741 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31001698 TATATTAAAA
* *
31001708 TTATTATTATTATGGTT
1 TTATAATTATTATGATT
31001725 TTATAATTATTATGATT
1 TTATAATTATTATGATT
31001742 ATTTAATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
TTATAATTATTATGATT
Found at i:31003169 original size:39 final size:39
Alignment explanation
Indices: 31003062--31003199 Score: 120
Period size: 39 Copynumber: 3.5 Consensus size: 39
31003052 GACCTCGAGT
* * * *
31003062 CGATGAGACACTGGCTGTC-ACTAAATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAACT--ATTACTTCGGCTAG-TC
** ** *
31003103 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
31003141 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
31003180 CGATGAGGCACTGGGTGTCA
1 CGATGAGACACTGGGTGTCA
31003200 TATTGGTGTG
Statistics
Matches: 78, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.24
39 39 0.50
40 3 0.04
41 14 0.18
42 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:31003340 original size:18 final size:18
Alignment explanation
Indices: 31003317--31003357 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
31003307 AGAAAAGAAA
31003317 AGAAATT-GAATTATGAAT
1 AGAAATTGGAATTATG-AT
*
31003335 AGAAATTGGAATTGTGAT
1 AGAAATTGGAATTATGAT
31003353 AGAAA
1 AGAAA
31003358 GAGAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (18 bp):
AGAAATTGGAATTATGAT
Found at i:31003868 original size:20 final size:20
Alignment explanation
Indices: 31003845--31003882 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31003835 GTTATTAAGT
31003845 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
31003865 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
31003883 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:31007671 original size:23 final size:23
Alignment explanation
Indices: 31007645--31007689 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
31007635 TTTTGAGTTC
31007645 AAATCATTTCATATCAGAACTTG
1 AAATCATTTCATATCAGAACTTG
*
31007668 AAATTATTTCATATCAGAACTT
1 AAATCATTTCATATCAGAACTT
31007690 TACTCATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.38
Consensus pattern (23 bp):
AAATCATTTCATATCAGAACTTG
Found at i:31028149 original size:43 final size:43
Alignment explanation
Indices: 31028102--31028244 Score: 196
Period size: 43 Copynumber: 3.3 Consensus size: 43
31028092 TCACAAAAAT
* *
31028102 GCCGCTATGGAACATGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTATAGAACATGACCTTCAGCGGCGCTTTTCCCACAAAC
* * *
31028145 GCCGCTATAGAATATGACCTTCAGTGGCGCTTTTCTCACAAAC
1 GCCGCTATAGAACATGACCTTCAGCGGCGCTTTTCCCACAAAC
** * *
31028188 GCCGCTATAGAACATGACCTTCAGCAACGCTTTTACCATAAAC
1 GCCGCTATAGAACATGACCTTCAGCGGCGCTTTTCCCACAAAC
*
31028231 GCCGCTAAAGAACA
1 GCCGCTATAGAACA
31028245 CAATCTTTAA
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 87 1.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (43 bp):
GCCGCTATAGAACATGACCTTCAGCGGCGCTTTTCCCACAAAC
Found at i:31028643 original size:66 final size:65
Alignment explanation
Indices: 31028552--31028689 Score: 161
Period size: 66 Copynumber: 2.1 Consensus size: 65
31028542 TCATATTTTG
* * *
31028552 AAGTTGTCGCTGAAGTTCATAATATTTTCTGCTT-GCCTCTACTTCCCTTGCTGCTGCCTCCGCT
1 AAGTTGTAGCTGAAGTTCATAATATTTTCT--TTAGCCTCTACTTCCCTCGATGCTGCCTCCGCT
31028616 TT
64 TT
* * * * **
31028618 AAGTTGTAGCTGGAGTTCTTCATATTTTCTTTGAGCCTCTACTTCTCTCGATGCTGCCTCTTCTT
1 AAGTTGTAGCTGAAGTTCATAATATTTTCTTT-AGCCTCTACTTCCCTCGATGCTGCCTCCGCTT
31028683 T
65 T
31028684 AAGTTG
1 AAGTTG
31028690 AGCAATTTAC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
64 2 0.03
66 59 0.97
ACGTcount: A:0.14, C:0.25, G:0.17, T:0.43
Consensus pattern (65 bp):
AAGTTGTAGCTGAAGTTCATAATATTTTCTTTAGCCTCTACTTCCCTCGATGCTGCCTCCGCTTT
Found at i:31033701 original size:19 final size:20
Alignment explanation
Indices: 31033652--31033702 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 20
31033642 GCTTTGTATA
31033652 AATATATAATATTTAAAATATT
1 AATATA-AATA-TTAAAATATT
* *
31033674 -ATTTTAATATTAAAA-ATT
1 AATATAAATATTAAAATATT
31033692 AATATAAATAT
1 AATATAAATAT
31033703 AAGGCGAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
18 3 0.12
19 14 0.58
20 4 0.17
21 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATATAAATATTAAAATATT
Found at i:31044747 original size:18 final size:18
Alignment explanation
Indices: 31044668--31044749 Score: 58
Period size: 18 Copynumber: 4.3 Consensus size: 18
31044658 AAAAAAGGCC
*
31044668 AAAACAAATAAATAAAATG
1 AAAATAAATAAATAAAA-G
* * *
31044687 CACAATAAATACAAGAACAG
1 -AAAATAAATA-AATAAAAG
*
31044707 ACCAAA-AAATAAATAATAG
1 A--AAATAAATAAATAAAAG
*
31044726 AAAATAAATAAATAAAAT
1 AAAATAAATAAATAAAAG
31044744 AAAATA
1 AAAATA
31044750 TGAAAAGTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
17 3 0.06
18 17 0.35
19 8 0.16
20 14 0.29
21 7 0.14
ACGTcount: A:0.71, C:0.09, G:0.05, T:0.16
Consensus pattern (18 bp):
AAAATAAATAAATAAAAG
Found at i:31044749 original size:14 final size:13
Alignment explanation
Indices: 31044712--31044746 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
31044702 AACAGACCAA
31044712 AAAATAAATAATAG
1 AAAATAAATAA-AG
*
31044726 AAAATAAATAAAT
1 AAAATAAATAAAG
31044739 AAAATAAA
1 AAAATAAA
31044747 ATATGAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (13 bp):
AAAATAAATAAAG
Found at i:31053842 original size:23 final size:21
Alignment explanation
Indices: 31053815--31053868 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
31053805 TAGAAATATT
* *
31053815 AATTAAATTTATAACTTTAAGC
1 AATTAAATTTAGAA-TTTAACC
*
31053837 ATATTAAATGTAGAATTTAACC
1 A-ATTAAATTTAGAATTTAACC
31053859 AATTAAATTT
1 AATTAAATTT
31053869 TACTAGTACC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 8 0.30
22 8 0.30
23 11 0.41
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (21 bp):
AATTAAATTTAGAATTTAACC
Found at i:31054299 original size:122 final size:123
Alignment explanation
Indices: 31054146--31054389 Score: 427
Period size: 122 Copynumber: 2.0 Consensus size: 123
31054136 TGCCAACTTG
* **
31054146 GATGTCCTACGTGGCAGTTCAAATTAAATTTATTTAATTAAAAACCTATTTTTGTCCCAACAATT
1 GATGTCCTACGTGGCAGTCCAAATTAAATTTATTTAATTAAAAACCTATTTTCATCCCAACAATT
*
31054211 GAATATCCAAGTTGGTATTTAAAACCTA-TTTGGACTGTTACGTAGGAATGTTGTTAA
66 AAATATCCAAGTTGGTATTTAAAACCTATTTTGGACTGTTACGTAGGAATGTTGTTAA
*
31054268 GATGTCCTACGTGGCAGTCCAAATTAAATTTATTTAATTAAAAACCTATTTTCATCTCAACAATT
1 GATGTCCTACGTGGCAGTCCAAATTAAATTTATTTAATTAAAAACCTATTTTCATCCCAACAATT
*
31054333 AAATATCCAAGTTGGTATTTAAAACCTATTTTGGATTGTTACGTAGGAATGTTGTTA
66 AAATATCCAAGTTGGTATTTAAAACCTATTTTGGACTGTTACGTAGGAATGTTGTTA
31054390 GGGAGGGAAC
Statistics
Matches: 115, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
122 88 0.77
123 27 0.23
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (123 bp):
GATGTCCTACGTGGCAGTCCAAATTAAATTTATTTAATTAAAAACCTATTTTCATCCCAACAATT
AAATATCCAAGTTGGTATTTAAAACCTATTTTGGACTGTTACGTAGGAATGTTGTTAA
Found at i:31055872 original size:26 final size:27
Alignment explanation
Indices: 31055821--31055873 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
31055811 TTAATTAAAG
*
31055821 TTTTAATGTGTCTTTAGTTGAGGACAAT
1 TTTTAATGTGTC-TTAGTTGAAGACAAT
*
31055849 TTTTAATGTGTC-TAGTTTAAGACAA
1 TTTTAATGTGTCTTAGTTGAAGACAA
31055874 ACTAATTAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 11 0.48
28 12 0.52
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.45
Consensus pattern (27 bp):
TTTTAATGTGTCTTAGTTGAAGACAAT
Done.