Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 190 of 226
Found at i:60498788 original size:147 final size:144
Alignment explanation
Indices: 60498561--60498844 Score: 419
Period size: 148 Copynumber: 1.9 Consensus size: 144
60498551 AATTACTACT
60498561 TTTCTTAAAAATCAAAATTTTATTTCAAAATAGTTGAAAAAAAATCAAAACTTTGTTTTAAAAAA
1 TTTCTTAAAAATCAAAATTTTATTTCAAAATAGTTGAAAAAAAATCAAAACTTTGTTTT-AAAAA
*
60498626 CTTAAAATTTTCCTTTAAAATGACT-AAAAAACAGATTTTTATTTTAAAAATCTAAACTTTCTCG
65 CTTAAAATTTTCCTTTAAAATGACTAAAAAAAAAGATTTTTATTTTAAAAATCTAAAC--TCTC-
60498690 TTTTAAAAAATATATATA
127 TTTTAAAAAATATATATA
* * **
60498708 TTTCTTAAAGATCAAAGCTTTTATTTTGAAATAGTTGAAAAAAAAATCAAAACTTTGTTTT-AAA
1 TTTCTTAAAAATCAAA-ATTTTATTTCAAAATAGTTG-AAAAAAAATCAAAACTTTGTTTTAAAA
* * * *
60498772 ATTTTAAATTTTCCTTTAAAATGACTAAAAAAAAATATTTTTATTTTTAAAATCTAAACTCTCTT
64 ACTTAAAATTTTCCTTTAAAATGACTAAAAAAAAAGATTTTTATTTTAAAAATCTAAACTCTCTT
60498837 TTAAAAAA
129 TTAAAAAA
60498845 ATAAAAAAAG
Statistics
Matches: 125, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
145 10 0.08
146 4 0.03
147 42 0.34
148 46 0.37
149 23 0.18
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (144 bp):
TTTCTTAAAAATCAAAATTTTATTTCAAAATAGTTGAAAAAAAATCAAAACTTTGTTTTAAAAAC
TTAAAATTTTCCTTTAAAATGACTAAAAAAAAAGATTTTTATTTTAAAAATCTAAACTCTCTTTT
AAAAAATATATATA
Found at i:60499657 original size:42 final size:42
Alignment explanation
Indices: 60499605--60499947 Score: 463
Period size: 42 Copynumber: 8.2 Consensus size: 42
60499595 ATATACAATA
* * *
60499605 CAATGAAAAGTAAATGGACCTCTACACCTAGGCCTTTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* *
60499647 CAATGAAAAGTAAATAGACCTCCACACTTGGGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * * * * *
60499689 CAACGAAAAGTAAATAGACCTGCACACTTGAGTCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* *
60499731 CAATGAAAAGTGAATGAACCTCCACACCTGGGCCTCTAAAT-
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * *
60499772 CTAATGAAAAGTGAATGGACCTCCACACCTGGGGCTCTAAATA
1 C-AATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* *
60499815 CAATGAAAAGTGAATGGACCTCCACACCTGGGCTTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* *
60499857 TAATGAAAAGTGAATGGACCTCCACACCTGGGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * *
60499899 CAATGAAAAGTAAAAGGACCTCCACACCCGAGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
60499941 CAATGAA
1 CAATGAA
60499948 TGATTTGAGA
Statistics
Matches: 270, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
41 1 0.00
42 268 0.99
43 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.20
Consensus pattern (42 bp):
CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
Found at i:60508712 original size:34 final size:34
Alignment explanation
Indices: 60508672--60508739 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
60508662 TTTAGGTAAT
*
60508672 TAAATAATTAAATGATAAATGAAATGAAATAAAA
1 TAAATAATTAAATGATAAATGAAATAAAATAAAA
*
60508706 TAAATAATTAAATGATAAATTAAATAAAATAAAA
1 TAAATAATTAAATGATAAATGAAATAAAATAAAA
60508740 CAAGCTTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (34 bp):
TAAATAATTAAATGATAAATGAAATAAAATAAAA
Found at i:60508726 original size:12 final size:12
Alignment explanation
Indices: 60508677--60508730 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
60508667 GTAATTAAAT
60508677 AATTAAATGATA
1 AATTAAATGATA
*
60508689 AATGAAATG--A
1 AATTAAATGATA
* *
60508699 AATAAAAT-AAA
1 AATTAAATGATA
60508710 TAATTAAATGATA
1 -AATTAAATGATA
60508723 AATTAAAT
1 AATTAAAT
60508731 AAAATAAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 8 0.24
11 1 0.03
12 23 0.68
13 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (12 bp):
AATTAAATGATA
Found at i:60509715 original size:25 final size:25
Alignment explanation
Indices: 60509684--60509765 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
60509674 CAGCTCTTGT
*
60509684 AGCATACTGATTTACAGCTCGTGA-G
1 AGCATACCGATTTACAGCTCGT-ATG
* *
60509709 AGCATACCGATCTACAGCTCGAATG
1 AGCATACCGATTTACAGCTCGTATG
* *
60509734 AGCGTACCGATTCACAGCTCGTATG
1 AGCATACCGATTTACAGCTCGTATG
60509759 AGCATAC
1 AGCATAC
60509766 ATGTACAGGA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 1 0.02
25 47 0.98
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (25 bp):
AGCATACCGATTTACAGCTCGTATG
Found at i:60513146 original size:151 final size:150
Alignment explanation
Indices: 60512915--60513200 Score: 427
Period size: 151 Copynumber: 1.9 Consensus size: 150
60512905 AAATCACTAC
* *
60512915 TTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTTGAAAAAAAATCAAAACTTTGTTTTAAAAA
1 TTTTCTTAAAAATAAAAACTTTATTTCAAAATAGTTGAAAAAAAATCAAAACTTTGTCTTAAAAA
*
60512980 ATTTAAAATTTTCCTTTAAAATGACTACAAAACA-AATTTTTATTTTAAAAATCTAAACTTTCTC
66 ATTTAAAATTTTCCTTTAAAATGACTAAAAAACATAA-TTTTATTTTAAAAATCTAAACTTTCTC
60513044 T-TTTTAAAAAAAAATTTTTT
130 TCTTTTAAAAAAAAATTTTTT
* **
60513064 TTTTCTTAAAGATAAAAACTTTTATTTTGAAATAGTTGAAAAAAAAAAATCAAAACTTTGTCTT-
1 TTTTCTTAAAAATAAAAAC-TTTATTTCAAAATAGTTG---AAAAAAAATCAAAACTTTGTCTTA
* *
60513128 AAAATTTTAAAA-TTTCCTTTAAAATGACTAAAAAACATAATTTTATTTTTAAAATCTAAACTTT
62 AAAAATTTAAAATTTTCCTTTAAAATGACTAAAAAACATAATTTTATTTTAAAAATCTAAACTTT
60513192 CTCTCTTTT
127 CTCTCTTTT
60513201 TTTTTTTAAA
Statistics
Matches: 123, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
149 17 0.14
150 16 0.13
151 51 0.41
152 17 0.14
153 22 0.18
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.42
Consensus pattern (150 bp):
TTTTCTTAAAAATAAAAACTTTATTTCAAAATAGTTGAAAAAAAATCAAAACTTTGTCTTAAAAA
ATTTAAAATTTTCCTTTAAAATGACTAAAAAACATAATTTTATTTTAAAAATCTAAACTTTCTCT
CTTTTAAAAAAAAATTTTTT
Found at i:60516323 original size:14 final size:14
Alignment explanation
Indices: 60516304--60516330 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60516294 ACTAAAACTA
60516304 GAATAATTAAATTG
1 GAATAATTAAATTG
60516318 GAATAATTAAATT
1 GAATAATTAAATT
60516331 TATACAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
GAATAATTAAATTG
Found at i:60519176 original size:24 final size:23
Alignment explanation
Indices: 60519148--60519288 Score: 97
Period size: 24 Copynumber: 5.9 Consensus size: 23
60519138 ATTACCTTTT
60519148 TTTCTTTTTTTTCCTTCCTTCCC
1 TTTCTTTTTTTTCCTTCCTTCCC
*
60519171 TCTTCTTCTTTTTT-TTTCTCTTCTCC
1 T-TTCTT-TTTTTTCCTTC-CTTC-CC
* * **
60519197 TTTCCTTTTCTTTCCTTCTTTTTC
1 TTT-CTTTTTTTTCCTTCCTTCCC
* **
60519221 TTTCTTTTTTCTTCTTTCCTTTTC
1 TTTCTTTTTT-TTCCTTCCTTCCC
**
60519245 TTTCTTTTCCTTCCTTCCTT-CC
1 TTTCTTTTTTTTCCTTCCTTCCC
* *
60519267 TTTCTTTCTTTCCCTCTCCTTC
1 TTTCTTTTTTTTCCT-TCCTTC
60519289 TCCCCCCACC
Statistics
Matches: 92, Mismatches: 17, Indels: 17
0.73 0.13 0.13
Matches are distributed among these distances:
22 12 0.13
23 21 0.23
24 31 0.34
25 19 0.21
26 9 0.10
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTCTTTTTTTTCCTTCCTTCCC
Found at i:60519193 original size:18 final size:18
Alignment explanation
Indices: 60519170--60519225 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
60519160 CCTTCCTTCC
60519170 CTCTTCTTCTTTTTTTTT
1 CTCTTCTTCTTTTTTTTT
* **
60519188 CTCTTCTCCTTTCCTTTT
1 CTCTTCTTCTTTTTTTTT
*
60519206 CT-TTCCTTCTTTTTCTTT
1 CTCTT-CTTCTTTTTTTTT
60519224 CT
1 CT
60519226 TTTTTCTTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 2 0.07
18 28 0.93
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (18 bp):
CTCTTCTTCTTTTTTTTT
Found at i:60519198 original size:31 final size:32
Alignment explanation
Indices: 60519151--60519258 Score: 83
Period size: 28 Copynumber: 3.7 Consensus size: 32
60519141 ACCTTTTTTT
60519151 CTTTTTTTTC-C-T-TCCTTCCCTCTTC-TTC
1 CTTTTTTTTCTCTTCTCCTTCCCTCTTCTTTC
* * *
60519179 TTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
1 CTTTTTTTTCTCTTCTCCTTCCCTCTTCTTTC
* **
60519211 CTTCTTTTTCT-TTCT--TT-TTTCTTCTTTC
1 CTTTTTTTTCTCTTCTCCTTCCCTCTTCTTTC
*
60519239 CTTTTCTTTCT-TT-TCCTTCC
1 CTTTTTTTTCTCTTCTCCTTCC
60519259 TTCCTTCCTT
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
27 1 0.02
28 28 0.45
29 5 0.08
30 1 0.02
31 15 0.24
32 12 0.19
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (32 bp):
CTTTTTTTTCTCTTCTCCTTCCCTCTTCTTTC
Found at i:60519221 original size:14 final size:14
Alignment explanation
Indices: 60519202--60519257 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
60519192 TCTCCTTTCC
60519202 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
60519216 TTTTCTTT-CTTTT
1 TTTTCTTTCCTTCT
60519229 TTCTTCTTTCCTT-T
1 TT-TTCTTTCCTTCT
60519243 TCTTTCTTTTCCTTC
1 T-TTTC-TTTCCTTC
60519258 CTTCCTTCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 6 0.17
14 19 0.53
15 11 0.31
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:60519224 original size:4 final size:4
Alignment explanation
Indices: 60519203--60519278 Score: 52
Period size: 4 Copynumber: 19.0 Consensus size: 4
60519193 CTCCTTTCCT
*
60519203 TTTC TTTC CTTC -TT- TTTC TTTC TTT- TTTC -TTC TTTCC TTTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT-C -TTTC TTTC
* * *
60519249 TTTTCC TTCC TTCC TTCC TTTC TTTC TTTC
1 -TTT-C TTTC TTTC TTTC TTTC TTTC TTTC
60519279 CCTCTCCTTC
Statistics
Matches: 61, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
3 10 0.16
4 40 0.66
5 7 0.11
6 4 0.07
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTC
Found at i:60519275 original size:43 final size:39
Alignment explanation
Indices: 60519185--60519279 Score: 97
Period size: 38 Copynumber: 2.4 Consensus size: 39
60519175 CTTCTTTTTT
* * *
60519185 TTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTC
1 TTTCT-TTCTTCTTTCCTTTTCTTTCCTTCTTTTCCTTCC
60519225 TTT-TTTCTTCTTTCCTTTTCTTT-CTT-TTCCTTCCTTCC
1 TTTCTTTCTTCTTTCCTTTTCTTTCCTTCTT--TTCCTTCC
*
60519263 TTCCTTTCTTTCTTTCC
1 TTTCTTTC-TTCTTTCC
60519280 CTCTCCTTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
36 2 0.04
37 3 0.06
38 26 0.55
39 5 0.11
40 11 0.23
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (39 bp):
TTTCTTTCTTCTTTCCTTTTCTTTCCTTCTTTTCCTTCC
Found at i:60519366 original size:27 final size:27
Alignment explanation
Indices: 60519321--60519386 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
60519311 TATAATACTA
* *
60519321 GTGCCGCCAATGACTTTGGCACCATCG
1 GTGCCGCCAATCACATTGGCACCATCG
* * *
60519348 GTGCTGCCAATCACATTGGCACCTTTG
1 GTGCCGCCAATCACATTGGCACCATCG
60519375 GTGCCGCCAATC
1 GTGCCGCCAATC
60519387 TCTTTCCCTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.18, C:0.33, G:0.24, T:0.24
Consensus pattern (27 bp):
GTGCCGCCAATCACATTGGCACCATCG
Found at i:60524583 original size:8 final size:8
Alignment explanation
Indices: 60524562--60524597 Score: 63
Period size: 8 Copynumber: 4.4 Consensus size: 8
60524552 AAATGGATAA
60524562 ATAAAAAT
1 ATAAAAAT
60524570 AGTAAAAAT
1 A-TAAAAAT
60524579 ATAAAAAT
1 ATAAAAAT
60524587 ATAAAAAT
1 ATAAAAAT
60524595 ATA
1 ATA
60524598 TATATAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 19 0.70
9 8 0.30
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (8 bp):
ATAAAAAT
Found at i:60526199 original size:44 final size:43
Alignment explanation
Indices: 60526135--60526289 Score: 138
Period size: 44 Copynumber: 3.6 Consensus size: 43
60526125 TTTCAGTATG
* * *
60526135 CTCCGCTGCAACTTCAGGGAGATAAGGATGGTGGCTTCAATCTA
1 CTCCACTGCAACTTTAGGGAGATAAGGAT-GTAGCTTCAATCTA
* *
60526179 CTCCACTGCAACTTTAGGGAGATAA-GACTTGTAACTTCAACCTA
1 CTCCACTGCAACTTTAGGGAGATAAGGA--TGTAGCTTCAATCTA
* * * * * *
60526223 CTCAATTGCAACATTAGGGAGATAAGG-T-TTGATAT-GATCTA
1 CTCCACTGCAACTTTAGGGAGATAAGGATGTAGCT-TCAATCTA
*
60526264 CTCTACTGCAACTTTAGGGAGATAAG
1 CTCCACTGCAACTTTAGGGAGATAAG
60526290 ATCCGTAATT
Statistics
Matches: 91, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
41 29 0.32
42 2 0.02
43 2 0.02
44 56 0.62
45 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
CTCCACTGCAACTTTAGGGAGATAAGGATGTAGCTTCAATCTA
Found at i:60526485 original size:225 final size:225
Alignment explanation
Indices: 60526094--60526655 Score: 820
Period size: 225 Copynumber: 2.5 Consensus size: 225
60526084 AGTTTTATCT
* *
60526094 ACTGCAACTTCAGGGAAATAAGATTCGTTGTTTTCAGTATGCTCCGCTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAAATAAGATTCGCTGTTTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATA
*
60526159 AGGATGGTGGCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTAC
66 AGGCTGGTGGCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTAC
* *
60526224 TCAATTGCAACATTAGGGAGATAAGGTTTGATATGATCTACTCTACTGCAACTTTAGGGAGATAA
131 TCAACTGCAACATCAGGGAGATAAGGTTTGATATGATCTACTCTACTGCAACTTTAGGGAGATAA
*
60526289 GATCCGTAATTTATAATTTTAATCTATTCC
196 GATCCGTAATTTATAACTTTAATCTATTCC
* * ** *
60526319 ACTGCAACTTCAAGGAAATAAGATTCGCTGTTTTCAGTCTGTTTTGCTGTAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAAATAAGATTCGCTGTTTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATA
* * **
60526384 AGGCTGGTGGCTTTAATCTACTCCACTGCAATTTTAGGGAGATAAGACTTGTAACTTCAACCTGT
66 AGGCTGGTGGCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTAC
* * * * *
60526449 TCCACTGTAACATCAGGGAGATAATGTTTGATATGATCTGCTCTACTTCAACTTTAGGGAGATAA
131 TCAACTGCAACATCAGGGAGATAAGGTTTGATATGATCTACTCTACTGCAACTTTAGGGAGATAA
* *
60526514 GATCCGTAATTTATAGCTTTAATCTGTTCC
196 GATCCGTAATTTATAACTTTAATCTATTCC
* * * * **
60526544 ATTGCAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCACTACAACTTCAAAGAGATA
1 ACTGCAACTTCAGGGAAATAAGATTCGCTGTTTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATA
* * * *
60526609 AGGCTGGTCGCTTCAA-CTTGCTCCACTGCAACTTCAGGAAGATAAGA
66 AGGCTGGTGGCTTCAATC-TACTCCACTGCAACTTTAGGGAGATAAGA
60526656 TCCGCCATAA
Statistics
Matches: 297, Mismatches: 39, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
224 1 0.00
225 296 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (225 bp):
ACTGCAACTTCAGGGAAATAAGATTCGCTGTTTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATA
AGGCTGGTGGCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTAC
TCAACTGCAACATCAGGGAGATAAGGTTTGATATGATCTACTCTACTGCAACTTTAGGGAGATAA
GATCCGTAATTTATAACTTTAATCTATTCC
Found at i:60526693 original size:143 final size:140
Alignment explanation
Indices: 60526484--60526797 Score: 380
Period size: 143 Copynumber: 2.2 Consensus size: 140
60526474 GTTTGATATG
* * * * * * *
60526484 ATCTGCTCTACTTCAACTTTAGGGAGATAAGATCCGTAATTTATAGCTTTAATCTGTTCCATTGC
1 ATCTGCTCCACTACAACTTCAGGAAGATAAGATCCGTAATTTACAGATTTAATCTGTTCCACTGC
* *
60526549 AAC-TTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCACTACAACTTCAAAGAGATAAGGC
66 AACGCT-AGAGAAATAAGATTCGCTGTCTTCAGTCTGCTCCACTACAACTTCAAAGAGATAAGGC
*
60526613 TGGTCGCTTCA
130 TGGTCGATTCA
* *
60526624 A-CTTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGCAGATTTAATCTGTTCCA
1 ATC-TGCTCCACTACAACTTCAGGAAGATAAGATCCG---TAATTTACAGATTTAATCTGTTCCA
* * * * * * **
60526688 CTGCAACGCTAGAGAAATAAGATTCGTTGTTTTCAGTCTGCTTCGCTGCAACTTTAGGGAGATAA
62 CTGCAACGCTAGAGAAATAAGATTCGCTGTCTTCAGTCTGCTCCACTACAACTTCAAAGAGATAA
*
60526753 GGCTGGTGGATTCA
127 GGCTGGTCGATTCA
60526767 ATCTGCTCCACTACAACTTCAGGAAGATAAG
1 ATCTGCTCCACTACAACTTCAGGAAGATAAG
60526798 GCTGGTGGAT
Statistics
Matches: 147, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
139 1 0.01
140 30 0.20
143 114 0.78
144 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (140 bp):
ATCTGCTCCACTACAACTTCAGGAAGATAAGATCCGTAATTTACAGATTTAATCTGTTCCACTGC
AACGCTAGAGAAATAAGATTCGCTGTCTTCAGTCTGCTCCACTACAACTTCAAAGAGATAAGGCT
GGTCGATTCA
Found at i:60526784 original size:44 final size:44
Alignment explanation
Indices: 60526736--60526894 Score: 158
Period size: 44 Copynumber: 3.4 Consensus size: 44
60526726 TGCTTCGCTG
* *
60526736 CAACTTTAGGGAGATAAGGCTGGTGGATTCAATCTGCTCCACTA
1 CAACTTCAGGAAGATAAGGCTGGTGGATTCAATCTGCTCCACTA
* *
60526780 CAACTTCAGGAAGATAAGGCTGGTGGATTCATTTTCTTCAGTCTACTCTGCTA
1 CAACTTCAGGAAGATAAGGCTGGTGGATTCA--ATC-T--G-CT-C-C-ACTA
* * *
60526833 CAACTTCAAGG-AGATAAGGCTAGTGGCTTCAATCTGCTCCACTG
1 CAACTTC-AGGAAGATAAGGCTGGTGGATTCAATCTGCTCCACTA
60526877 CAACTTCAGGAAGATAAG
1 CAACTTCAGGAAGATAAG
60526895 ATCTACCATA
Statistics
Matches: 95, Mismatches: 9, Indels: 22
0.75 0.07 0.17
Matches are distributed among these distances:
43 3 0.03
44 45 0.47
45 1 0.01
46 3 0.03
47 3 0.03
48 1 0.01
49 1 0.01
50 3 0.03
51 3 0.03
52 1 0.01
53 28 0.29
54 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (44 bp):
CAACTTCAGGAAGATAAGGCTGGTGGATTCAATCTGCTCCACTA
Found at i:60526837 original size:97 final size:97
Alignment explanation
Indices: 60526719--60526894 Score: 273
Period size: 97 Copynumber: 1.8 Consensus size: 97
60526709 ATTCGTTGTT
* * * * *
60526719 TTCAGTCTGCTTCGCTGCAACTTTAGGGAGATAAGGCTGGTGGATTCAATCTGCTCCACTACAAC
1 TTCAGTCTACTTCGCTACAACTTCAAGGAGATAAGGCTAGTGGATTCAATCTGCTCCACTACAAC
60526784 TTCAGGAAGATAAGGCTGGTGGATTCATTTTC
66 TTCAGGAAGATAAGGCTGGTGGATTCATTTTC
* *
60526816 TTCAGTCTAC-TCTGCTACAACTTCAAGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAA
1 TTCAGTCTACTTC-GCTACAACTTCAAGGAGATAAGGCTAGTGGATTCAATCTGCTCCACTACAA
60526880 CTTCAGGAAGATAAG
65 CTTCAGGAAGATAAG
60526895 ATCTACCATA
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
96 2 0.03
97 69 0.97
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (97 bp):
TTCAGTCTACTTCGCTACAACTTCAAGGAGATAAGGCTAGTGGATTCAATCTGCTCCACTACAAC
TTCAGGAAGATAAGGCTGGTGGATTCATTTTC
Found at i:60526997 original size:240 final size:240
Alignment explanation
Indices: 60526574--60527037 Score: 678
Period size: 240 Copynumber: 1.9 Consensus size: 240
60526564 AGATTCGCTG
* *
60526574 TCTTCAGTCTGCTCCACTACAACTTCAAAGAGATAAGGCTGGTCGCTTCAACTTGCTCCACTGCA
1 TCTTCAGTCTACTCCACTACAACTTCAAAGAGATAAGGCTAGTCGCTTCAACTTGCTCCACTGCA
* *
60526639 ACTTCAGGAAGATAAGATCCGCCATAATTTGCAGATTTAATCTGTTCCACTGCAACGCTAGAGAA
66 ACTTCAGGAAGATAAGATCCACCATAATTTGCAGATTTAATCTGTTCCACTGCAACGCCAGAGAA
* * * * * * *
60526704 ATAAGATTCGTTGTTTTCAGTCTGCTTCGCTGCAACTTTAGGGAGATAAGGCTGGTGGATTCAAT
131 ATAACATTCGCTGTCTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAGGCTGGTGGATTCAAT
60526769 CTGCTCCACTACAACTTCAGGAAGATAAGGCTGGTGGATTCATTT
196 CTGCTCCACTACAACTTCAGGAAGATAAGGCTGGTGGATTCATTT
** * *
60526814 TCTTCAGTCTACTCTGCTACAACTTCAAGGAGATAAGGCTAGTGGCTTCAA-TCTGCTCCACTGC
1 TCTTCAGTCTACTCCACTACAACTTCAAAGAGATAAGGCTAGTCGCTTCAACT-TGCTCCACTGC
* ** ** * *
60526878 AACTTCAGGAAGATAAGATCTACCATAATTTTTATCTTTAATCTGTTCCACTGCAATGCCAGGGA
65 AACTTCAGGAAGATAAGATCCACCATAATTTGCAGATTTAATCTGTTCCACTGCAACGCCAGAGA
* *
60526943 AATAACATTCGCTGTCTTCAGTCTGCTCCATTGCAACTTCAGGGAAATAAGGCTGGTGGCTTCAA
130 AATAACATTCGCTGTCTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAGGCTGGTGGATTCAA
* *
60527008 TTTGCTCCACTGCAACTTCAGGAAGATAAG
195 TCTGCTCCACTACAACTTCAGGAAGATAAG
60527038 ATCCGCCATA
Statistics
Matches: 197, Mismatches: 26, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
239 1 0.01
240 196 0.99
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (240 bp):
TCTTCAGTCTACTCCACTACAACTTCAAAGAGATAAGGCTAGTCGCTTCAACTTGCTCCACTGCA
ACTTCAGGAAGATAAGATCCACCATAATTTGCAGATTTAATCTGTTCCACTGCAACGCCAGAGAA
ATAACATTCGCTGTCTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAGGCTGGTGGATTCAAT
CTGCTCCACTACAACTTCAGGAAGATAAGGCTGGTGGATTCATTT
Found at i:60527003 original size:143 final size:143
Alignment explanation
Indices: 60526814--60527241 Score: 595
Period size: 143 Copynumber: 3.0 Consensus size: 143
60526804 GGATTCATTT
* ** * * * *
60526814 TCTTCAGTCTACTCTGCTACAACTTCAAGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATATGCTCCACTGCA
* * *
60526879 ACTTCAGGAAGATAAGATCTACCATAATTTTTATCTTTAATCTGTTCCACTGCAATGCCAGGGAA
66 ACTTCAGGAAGATAAGATCTGCCATAATTTATAGCTTTAATCTGTTCCACTGCAATGCCAGGGAA
*
60526944 ATAACATTCGCTG
131 ATAAGATTCGCTG
* * *
60526957 TCTTCAGTCTGCTCCATTGCAACTTCAGGGAAATAAGGCTGGTGGCTTCAATTTGCTCCACTGCA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATATGCTCCACTGCA
* * *
60527022 ACTTCAGGAAGATAAGATCCGCCATAATTTATAGGTTTAATCTATTCCACTGCAATGCCAGGGAA
66 ACTTCAGGAAGATAAGATCTGCCATAATTTATAGCTTTAATCTGTTCCACTGCAATGCCAGGGAA
* *
60527087 ATAAGATTAGTTG
131 ATAAGATTCGCTG
* * *
60527100 TCTTCAGTCTGCTCCGCTGCAACTTTAGGGAGATAAAGCTGGTGGCTTCAATATGCTCCACTGCA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATATGCTCCACTGCA
* * * * ** *
60527165 ACTTCATGAAGATAAGATATGTCATAATTTGTAGCTTTAATCTGTTCCACTATAATGCCAGGGAG
66 ACTTCAGGAAGATAAGATCTGCCATAATTTATAGCTTTAATCTGTTCCACTGCAATGCCAGGGAA
60527230 ATAAGATTCGCT
131 ATAAGATTCGCT
60527242 ATAATGACTT
Statistics
Matches: 249, Mismatches: 36, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
143 249 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (143 bp):
TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATATGCTCCACTGCA
ACTTCAGGAAGATAAGATCTGCCATAATTTATAGCTTTAATCTGTTCCACTGCAATGCCAGGGAA
ATAAGATTCGCTG
Found at i:60528115 original size:10 final size:10
Alignment explanation
Indices: 60528100--60528151 Score: 52
Period size: 11 Copynumber: 5.0 Consensus size: 10
60528090 TGGCCTCTCC
60528100 CTTTCTTTTT
1 CTTTCTTTTT
60528110 CTTTCTTTTT
1 CTTTCTTTTT
*
60528120 TTTATCTTTTTT
1 CTT-TC-TTTTT
*
60528132 CTCTCTTTTTT
1 CTTTC-TTTTT
60528143 CTTT-TTTTT
1 CTTTCTTTTT
60528152 AAGTGAAGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 5 0.14
10 12 0.33
11 13 0.36
12 6 0.17
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:60528127 original size:11 final size:10
Alignment explanation
Indices: 60528101--60528151 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
60528091 GGCCTCTCCC
*
60528101 TTTCTTTTTC
1 TTTCTTTTTT
60528111 TTTCTTTTTT
1 TTTCTTTTTT
60528121 TTATC-TTTTT
1 TT-TCTTTTTT
* *
60528131 TCTC-TCTTT
1 TTTCTTTTTT
60528140 TTTCTTTTTT
1 TTTCTTTTTT
60528150 TT
1 TT
60528152 AAGTGAAGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 9 0.26
10 23 0.68
11 2 0.06
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:60528151 original size:9 final size:9
Alignment explanation
Indices: 60528101--60528151 Score: 57
Period size: 9 Copynumber: 5.3 Consensus size: 9
60528091 GGCCTCTCCC
60528101 TTTCTTTTT
1 TTTCTTTTT
60528110 CTTTCTTTTTT
1 -TTTC-TTTTT
60528121 TTATCTTTTT
1 TT-TCTTTTT
* *
60528131 TCTCTCTTT
1 TTTCTTTTT
60528140 TTTCTTTTT
1 TTTCTTTTT
60528149 TTT
1 TTT
60528152 AAGTGAAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 16 0.46
10 12 0.34
11 7 0.20
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:60532769 original size:14 final size:15
Alignment explanation
Indices: 60532752--60532789 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
60532742 TAAAACAATT
60532752 TAATAATATAAT-AA
1 TAATAATATAATAAA
60532766 TAATAATA-AATAAA
1 TAATAATATAATAAA
*
60532780 TAAAAATATA
1 TAATAATATA
60532790 GAAATGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 3 0.14
14 17 0.81
15 1 0.05
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TAATAATATAATAAA
Found at i:60540366 original size:17 final size:19
Alignment explanation
Indices: 60540325--60540366 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
60540315 GGGTGTGAAC
*
60540325 TACAAACTCATATATGTAG
1 TACAAACTCATATATGCAG
*
60540344 TACAAACTCA-A-ATGCAT
1 TACAAACTCATATATGCAG
60540361 TACAAA
1 TACAAA
60540367 TGCAAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 10 0.48
18 1 0.05
19 10 0.48
ACGTcount: A:0.48, C:0.19, G:0.07, T:0.26
Consensus pattern (19 bp):
TACAAACTCATATATGCAG
Found at i:60563342 original size:20 final size:21
Alignment explanation
Indices: 60563307--60563345 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
60563297 TGAGGTAGTT
60563307 TTGAAATAGAAAAGTATTGGA
1 TTGAAATAGAAAAGTATTGGA
*
60563328 TTGAAAT-GTAAAGTATTG
1 TTGAAATAGAAAAGTATTG
60563346 CATGATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (21 bp):
TTGAAATAGAAAAGTATTGGA
Found at i:60571202 original size:25 final size:26
Alignment explanation
Indices: 60571168--60571216 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
60571158 TAATGGACAT
*
60571168 TCAAAGAAGTGCTATAAATATTTTCA
1 TCAAAGAAGTGCTATAAACATTTTCA
*
60571194 TCAAA-AAGTGTTATAAACATTTT
1 TCAAAGAAGTGCTATAAACATTTT
60571217 ATTATTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (26 bp):
TCAAAGAAGTGCTATAAACATTTTCA
Found at i:60571204 original size:82 final size:82
Alignment explanation
Indices: 60571067--60571231 Score: 312
Period size: 82 Copynumber: 2.0 Consensus size: 82
60571057 TAAAGGACGC
60571067 ACCATCTATTAATGGACATTCAAAGAAGTGCTATAAATATTTCCATCAAAAAGTGTTATAAACAT
1 ACCATCTATTAATGGACATTCAAAGAAGTGCTATAAATATTTCCATCAAAAAGTGTTATAAACAT
60571132 TTTATTATTACAAAATA
66 TTTATTATTACAAAATA
*
60571149 ACCATCTATTAATGGACATTCAAAGAAGTGCTATAAATATTTTCATCAAAAAGTGTTATAAACAT
1 ACCATCTATTAATGGACATTCAAAGAAGTGCTATAAATATTTCCATCAAAAAGTGTTATAAACAT
*
60571214 TTTATTATTGCAAAATA
66 TTTATTATTACAAAATA
60571231 A
1 A
60571232 TAAAAAATTT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.35
Consensus pattern (82 bp):
ACCATCTATTAATGGACATTCAAAGAAGTGCTATAAATATTTCCATCAAAAAGTGTTATAAACAT
TTTATTATTACAAAATA
Found at i:60571303 original size:29 final size:29
Alignment explanation
Indices: 60571261--60571318 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
60571251 TAAGATTCTG
*
60571261 ATGTTCATTAAAAGTAAAACTTTATTTTA
1 ATGTCCATTAAAAGTAAAACTTTATTTTA
60571290 ATGTCCATTAAAAGTAAAACTTTATTTTA
1 ATGTCCATTAAAAGTAAAACTTTATTTTA
60571319 TTTATGCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (29 bp):
ATGTCCATTAAAAGTAAAACTTTATTTTA
Found at i:60576105 original size:139 final size:134
Alignment explanation
Indices: 60575860--60576116 Score: 399
Period size: 139 Copynumber: 1.9 Consensus size: 134
60575850 CAATATGAGT
* *
60575860 ATCAAACACATTCTAGATGAACAAATAAGTAACACAAAAAGAGGATTTCAACATTTGGAAGAGTT
1 ATCAAACACATTCTAGATAAACAAAGAAGTAACACAAAAAGAGGATTTCAACATTTGGAAGAGTT
60575925 TGAGACTCTGAGCACAAAGTAAAAATGGATATCTTTGTTAAAGGATATAATCTTTTTCATAGCAT
66 TGAGACTCTGAGCACAAAGTAAAAATGGATATCTTTGTTAAAGGATATAATCTTTTTCATAGCAT
60575990 ACTC
131 ACTC
* * *
60575994 ATCAAACACATTCTAGATAAACACAGAAGTTAA-ACAAAAAGAAAAGAAGTTTTCAGCATTTGGA
1 ATCAAACACATTCTAGATAAACAAAGAAG-TAACACAAAAAG---AG--GATTTCAACATTTGGA
*
60576058 AGAGTTTGAGACTCTGAGCATAAAGTAAAAATGGATATCTTTGTTAAAGGATATAATCT
60 AGAGTTTGAGACTCTGAGCACAAAGTAAAAATGGATATCTTTGTTAAAGGATATAATCT
60576117 GTCATAACAT
Statistics
Matches: 111, Mismatches: 6, Indels: 7
0.90 0.05 0.06
Matches are distributed among these distances:
134 34 0.31
135 3 0.03
137 2 0.02
139 72 0.65
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (134 bp):
ATCAAACACATTCTAGATAAACAAAGAAGTAACACAAAAAGAGGATTTCAACATTTGGAAGAGTT
TGAGACTCTGAGCACAAAGTAAAAATGGATATCTTTGTTAAAGGATATAATCTTTTTCATAGCAT
ACTC
Found at i:60581640 original size:17 final size:17
Alignment explanation
Indices: 60581618--60581651 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
60581608 TATTAAAGTA
60581618 AAGTATAAGTCAAATGG
1 AAGTATAAGTCAAATGG
60581635 AAGTATAAGTCAAATGG
1 AAGTATAAGTCAAATGG
60581652 CGTATAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.24
Consensus pattern (17 bp):
AAGTATAAGTCAAATGG
Found at i:60593645 original size:39 final size:39
Alignment explanation
Indices: 60593597--60593812 Score: 326
Period size: 39 Copynumber: 5.5 Consensus size: 39
60593587 ATTCACTTTT
*
60593597 AAGCATATATCACATTACAT-ATATAATCACATAACATTC
1 AAGCATATATCACAATAC-TCATATAATCACATAACATTC
* * *
60593636 AAGCCTATATCACAATACTCTTATAATCACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
60593675 AAACATATATCACAATACTAATATAATCACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
60593714 AAGCATATATCATAATACTCATATAATCACATAACACTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
60593753 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
60593792 AAGCATATATCACAGTACTCA
1 AAGCATATATCACAATACTCA
60593813 AAACCATGTT
Statistics
Matches: 160, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 1 0.01
39 159 0.99
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.30
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:60593686 original size:22 final size:22
Alignment explanation
Indices: 60593661--60593725 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
60593651 TACTCTTATA
60593661 ATCACATAACATTTAAACATAT
1 ATCACATAACATTTAAACATAT
*
60593683 ATCACA-ATAC---T-AATATA-
1 ATCACATA-ACATTTAAACATAT
*
60593700 ATCACATAACATTTAAGCATAT
1 ATCACATAACATTTAAACATAT
60593722 ATCA
1 ATCA
60593726 TAATACTCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 14
0.66 0.06 0.28
Matches are distributed among these distances:
17 8 0.24
18 6 0.18
19 1 0.03
20 1 0.03
21 5 0.15
22 12 0.36
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (22 bp):
ATCACATAACATTTAAACATAT
Found at i:60607428 original size:27 final size:26
Alignment explanation
Indices: 60607394--60607616 Score: 284
Period size: 27 Copynumber: 8.3 Consensus size: 26
60607384 CCCTAAAATA
*
60607394 GGTAAAATGACCAAAATACTCCCATAG
1 GGTAAAATGACCGAAATAC-CCCATAG
* *
60607421 GATAAAATGACCGAAATACCCTATAG
1 GGTAAAATGACCGAAATACCCCATAG
**
60607447 GGTAAAATGATTGAAATACCCCCATAG
1 GGTAAAATGACCGAAATA-CCCCATAG
* *
60607474 GGTAAAATAATCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCC-ATAG
*
60607501 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATA-CCCCATAG
*
60607528 GGTAAAATGATCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCC-ATAG
* *
60607555 GGTAGAATGACTGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCC-CATAG
60607582 GGTAAAATGACCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCC-CATAG
60607609 GGTAAAAT
1 GGTAAAAT
60607617 AAATGTTATA
Statistics
Matches: 176, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
26 29 0.16
27 142 0.81
28 5 0.03
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (26 bp):
GGTAAAATGACCGAAATACCCCATAG
Found at i:60607518 original size:54 final size:53
Alignment explanation
Indices: 60607394--60607616 Score: 313
Period size: 54 Copynumber: 4.2 Consensus size: 53
60607384 CCCTAAAATA
* * * *
60607394 GGTAAAATGACCAAAATACTCCCATAGGATAAAATGACCGAAATACCCTATAG
1 GGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCTATAG
* * *
60607447 GGTAAAATGATTGAAATACCCCCATAGGGTAAAATAATCGAAATACCCCTATAG
1 GGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATA-CCCTATAG
*
60607501 GGTAAAATGATCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAG
1 GGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATA-CCCTATAG
* *
60607555 GGTAGAATGA-CTGAAATACCCTCATAGGGTAAAATGACCGAAATACCCTCATAG
1 GGTAAAATGATC-GAAATACCCCCATAGGGTAAAATGACCGAAATACCCT-ATAG
60607609 GGTAAAAT
1 GGTAAAAT
60607617 AAATGTTATA
Statistics
Matches: 154, Mismatches: 13, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
53 43 0.28
54 111 0.72
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (53 bp):
GGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCTATAG
Found at i:60615888 original size:14 final size:14
Alignment explanation
Indices: 60615869--60615898 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
60615859 GTTGTTTTGA
60615869 TTGGTCTTTTAGCT
1 TTGGTCTTTTAGCT
60615883 TTGGTCTTTTAGCT
1 TTGGTCTTTTAGCT
60615897 TT
1 TT
60615899 AATTCTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.13, G:0.20, T:0.60
Consensus pattern (14 bp):
TTGGTCTTTTAGCT
Found at i:60616252 original size:18 final size:18
Alignment explanation
Indices: 60616226--60616260 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60616216 AGTGATAATG
*
60616226 CAAAAATGGTATCGATAT
1 CAAAAATGGTATAGATAT
*
60616244 CAAAGATGGTATAGATA
1 CAAAAATGGTATAGATA
60616261 AAAATATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.26
Consensus pattern (18 bp):
CAAAAATGGTATAGATAT
Found at i:60645932 original size:11 final size:11
Alignment explanation
Indices: 60645902--60645935 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
60645892 GTCACAAGTG
60645902 AATTAATTCACA
1 AATTAATTCA-A
*
60645914 AATGAATTCAA
1 AATTAATTCAA
60645925 AATTAATTCAA
1 AATTAATTCAA
60645936 CTTGGGTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (11 bp):
AATTAATTCAA
Found at i:60651712 original size:21 final size:20
Alignment explanation
Indices: 60651687--60651728 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
60651677 GAAAATAGAC
60651687 TAAA-TAAAGAATCTATAAATA
1 TAAATTAAA-AATCT-TAAATA
*
60651708 TAAATTAAAACTCTTAAATA
1 TAAATTAAAAATCTTAAATA
60651728 T
1 T
60651729 TTTTGTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 7 0.37
21 8 0.42
22 4 0.21
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.33
Consensus pattern (20 bp):
TAAATTAAAAATCTTAAATA
Found at i:60652731 original size:50 final size:50
Alignment explanation
Indices: 60652607--60653103 Score: 586
Period size: 50 Copynumber: 9.8 Consensus size: 50
60652597 GAATATAACA
* * * ** * * *
60652607 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * ** * *
60652656 TGCCAATGCCATATCACAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* ** *
60652706 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
60652756 TGCTAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
60652806 TGCCAACGCCATGTCCCAGACATGGTTTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
60652856 TGCCAATGCCATGTCCCAAAAATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
60652906 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
60652956 TGCCAACGCCATGTCCCAAACATGGTCTTACGTGGGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
60653006 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAATCTCAACGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT---CGG
* *
60653062 TGCCAACGCCATGTCCCA-AGCATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGA-CATGGTCTTACATGGGACCTCT
60653104 TTACCCAAAT
Statistics
Matches: 386, Mismatches: 53, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
49 35 0.09
50 307 0.80
53 4 0.01
55 1 0.00
56 39 0.10
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:60655816 original size:16 final size:17
Alignment explanation
Indices: 60655788--60655821 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
60655778 CATAATGAAT
60655788 TCAAAGAGATTTATAGC
1 TCAAAGAGATTTATAGC
60655805 TCAAAG-GATTTATAGC
1 TCAAAGAGATTTATAGC
60655821 T
1 T
60655822 TGGTTTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (17 bp):
TCAAAGAGATTTATAGC
Found at i:60658634 original size:11 final size:13
Alignment explanation
Indices: 60658610--60658641 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
60658600 TAGTTTATTA
60658610 ATATTTTAATATG
1 ATATTTTAATATG
60658623 AT-TTTTAA-ATG
1 ATATTTTAATATG
60658634 ATATTTTA
1 ATATTTTA
60658642 TTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:60663461 original size:14 final size:15
Alignment explanation
Indices: 60663444--60663481 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
60663434 CTGGTCCAGT
60663444 TGAACTGAACT-GAG
1 TGAACTGAACTCGAG
60663458 TGAACTGAA-TCGAG
1 TGAACTGAACTCGAG
*
60663472 TGAACCGAAC
1 TGAACTGAAC
60663482 CAACCAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 20 0.95
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.18
Consensus pattern (15 bp):
TGAACTGAACTCGAG
Found at i:60670871 original size:30 final size:31
Alignment explanation
Indices: 60670817--60670876 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
60670807 AAATTATTTT
* * *
60670817 TAAAAATTTGGTGGCTCTTTTTTGTAAATAC
1 TAAAAATTAGATGCCTCTTTTTTGTAAATAC
60670848 TAAAAATTAGATGCCTC-TTTTTGTAAATA
1 TAAAAATTAGATGCCTCTTTTTTGTAAATA
60670877 TTTTCAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (31 bp):
TAAAAATTAGATGCCTCTTTTTTGTAAATAC
Found at i:60686241 original size:13 final size:13
Alignment explanation
Indices: 60686223--60686261 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
60686213 AGAAATGTGC
60686223 ATTTTGAAATCGT
1 ATTTTGAAATCGT
60686236 ATTTTGAAATCGT
1 ATTTTGAAATCGT
60686249 ATTTTGAAATCGT
1 ATTTTGAAATCGT
60686262 GCATTTGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
ATTTTGAAATCGT
Found at i:60688263 original size:83 final size:83
Alignment explanation
Indices: 60688125--60688282 Score: 208
Period size: 83 Copynumber: 1.9 Consensus size: 83
60688115 ACCAACGCAA
* * * *
60688125 TTATACTGGCACACACAGTGCATCATCAGATATACCGAAGTATCTATACCGGCACACACAATTCA
1 TTATACTGGCACACACAGTGCATCATCAGATAAACCAAAGTATCTATACCAGCACACACAATGCA
60688190 TCATCGGATATGAAGTAT
66 TCATCGGATATGAAGTAT
* * * * * * *
60688208 TTATACTGGCACACACTGTGTATCATCGGATAAACCAAAGTATGTATACTAGCACATACAGTGCA
1 TTATACTGGCACACACAGTGCATCATCAGATAAACCAAAGTATCTATACCAGCACACACAATGCA
*
60688273 TCATTGGATA
66 TCATCGGATA
60688283 AACTAAAAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
83 63 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (83 bp):
TTATACTGGCACACACAGTGCATCATCAGATAAACCAAAGTATCTATACCAGCACACACAATGCA
TCATCGGATATGAAGTAT
Found at i:60688523 original size:43 final size:43
Alignment explanation
Indices: 60688091--60688526 Score: 355
Period size: 43 Copynumber: 10.2 Consensus size: 43
60688081 AATCATGCTA
* * *
60688091 ACACATAAATGCATCATCGGATAAACC-AACGCAATTATACTGGC
1 ACACAT-AGTGCATCATCGGATAAACCGAA-GAAAATATACTGGC
* * * * ** *
60688135 ACACACAGTGCATCATCAGATATACCGAAGTATCTATACCGGC
1 ACACATAGTGCATCATCGGATAAACCGAAGAAAATATACTGGC
* * * * * **
60688178 ACACACAATTCATCATCGGAT--A-TGAAGTATTTATACTGGC
1 ACACATAGTGCATCATCGGATAAACCGAAGAAAATATACTGGC
* * * ** *
60688218 ACACACT-GTGTATCATCGGATAAACCAAAGTATGTATACTAGC
1 ACACA-TAGTGCATCATCGGATAAACCGAAGAAAATATACTGGC
* * * * *
60688261 ACATACAGTGCATCATTGGATAAA-CTAAAAAAATATACTGGC
1 ACACATAGTGCATCATCGGATAAACCGAAGAAAATATACTGGC
* * * **
60688303 ATACATAGTGCATTATCGGATAAATCGAAGAAAATATACTACC
1 ACACATAGTGCATCATCGGATAAACCGAAGAAAATATACTGGC
* * * * *
60688346 ACACACAGTACAAT-ACCAGATAAACCGAAGAAAATATATTGGC
1 ACACATAGTGC-ATCATCGGATAAACCGAAGAAAATATACTGGC
* * * *
60688389 ACACACAATGCATCATCAGATAAACCGAAGAAAATATATTGGC
1 ACACATAGTGCATCATCGGATAAACCGAAGAAAATATACTGGC
** * *
60688432 ATGCATAGTGCATCATCGGATAAACCAAAGAAAATATATTGGC
1 ACACATAGTGCATCATCGGATAAACCGAAGAAAATATACTGGC
* *
60688475 ACACATAGTGCATCATCAGATAAACCGAAGAAAATATATTGGC
1 ACACATAGTGCATCATCGGATAAACCGAAGAAAATATACTGGC
60688518 ACACATAGT
1 ACACATAGT
60688527 TCATAATCAG
Statistics
Matches: 320, Mismatches: 63, Indels: 19
0.80 0.16 0.05
Matches are distributed among these distances:
40 31 0.10
41 1 0.00
42 34 0.11
43 245 0.77
44 9 0.03
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.22
Consensus pattern (43 bp):
ACACATAGTGCATCATCGGATAAACCGAAGAAAATATACTGGC
Found at i:60688536 original size:43 final size:43
Alignment explanation
Indices: 60688091--60688576 Score: 331
Period size: 43 Copynumber: 11.4 Consensus size: 43
60688081 AATCATGCTA
* * * * *
60688091 ACACATAAATGCATCATCGGATAAACC-AACGCAATTATACTGGC
1 ACACAT-AGTGCATCATCAGATAAACCGAA-GAAAATATATTGGC
* * * ** **
60688135 ACACACAGTGCATCATCAGATATACCGAAGTATCTATACCGGC
1 ACACATAGTGCATCATCAGATAAACCGAAGAAAATATATTGGC
* * * * * * ** *
60688178 ACACACAATTCATCATCGGAT--A-TGAAGTATTTATACTGGC
1 ACACATAGTGCATCATCAGATAAACCGAAGAAAATATATTGGC
* * * * ** * *
60688218 ACACACT-GTGTATCATCGGATAAACCAAAGTATGTATACTAGC
1 ACACA-TAGTGCATCATCAGATAAACCGAAGAAAATATATTGGC
* * ** * * *
60688261 ACATACAGTGCATCATTGGATAAA-CTAAAAAAATATACTGGC
1 ACACATAGTGCATCATCAGATAAACCGAAGAAAATATATTGGC
* * * * * **
60688303 ATACATAGTGCATTATCGGATAAATCGAAGAAAATATACTACC
1 ACACATAGTGCATCATCAGATAAACCGAAGAAAATATATTGGC
* * *
60688346 ACACACAGTACAAT-ACCAGATAAACCGAAGAAAATATATTGGC
1 ACACATAGTGC-ATCATCAGATAAACCGAAGAAAATATATTGGC
* *
60688389 ACACACAATGCATCATCAGATAAACCGAAGAAAATATATTGGC
1 ACACATAGTGCATCATCAGATAAACCGAAGAAAATATATTGGC
** * *
60688432 ATGCATAGTGCATCATCGGATAAACCAAAGAAAATATATTGGC
1 ACACATAGTGCATCATCAGATAAACCGAAGAAAATATATTGGC
60688475 ACACATAGTGCATCATCAGATAAACCGAAGAAAATATATTGGC
1 ACACATAGTGCATCATCAGATAAACCGAAGAAAATATATTGGC
* * * * * *
60688518 ACACATAGTTCATAATCAGACAAGCCTAA-ACAATTATATTGGC
1 ACACATAGTGCATCATCAGATAAACCGAAGA-AAATATATTGGC
* *
60688561 ACATATAATGCATCAT
1 ACACATAGTGCATCAT
60688577 TGTATACGCC
Statistics
Matches: 359, Mismatches: 73, Indels: 21
0.79 0.16 0.05
Matches are distributed among these distances:
40 31 0.09
41 1 0.00
42 35 0.10
43 283 0.79
44 9 0.03
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (43 bp):
ACACATAGTGCATCATCAGATAAACCGAAGAAAATATATTGGC
Found at i:60693710 original size:35 final size:38
Alignment explanation
Indices: 60693665--60693745 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 38
60693655 ATACTATGAT
*
60693665 GGGCTAAGGCCCAA-ACT-ATT-ACTGATACTGAAAAA
1 GGGCTTAGGCCCAAGACTCATTAACTGATACTGAAAAA
*
60693700 GGGCTTAGGCCCAAGACTGCTTTAACTGATACTGAAAAA
1 GGGCTTAGGCCCAAGACT-CATTAACTGATACTGAAAAA
60693739 GGGCTTA
1 GGGCTTA
60693746 TGTTGCATTG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
35 13 0.32
36 3 0.08
38 2 0.05
39 22 0.55
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (38 bp):
GGGCTTAGGCCCAAGACTCATTAACTGATACTGAAAAA
Found at i:60697883 original size:37 final size:37
Alignment explanation
Indices: 60697842--60697990 Score: 158
Period size: 37 Copynumber: 4.0 Consensus size: 37
60697832 CACCAAATAT
* * * *
60697842 TGCTCCAAGGAGTAATATCTATTAATTTTACTGAATG
1 TGCTCCAAAGAGCAATATCTATTGATTATACTGAATG
* * *
60697879 TGCT-CAAACAAGCAATATCTACTGGTTATACTGAATG
1 TGCTCCAAA-GAGCAATATCTATTGATTATACTGAATG
*
60697916 TGCTCCAAAGAGCAATGTCTATTGATTATACTGAATG
1 TGCTCCAAAGAGCAATATCTATTGATTATACTGAATG
* * * *
60697953 TGCT-CAAACGAGCAATAACCACTGATCATACTGAATG
1 TGCTCCAAA-GAGCAATATCTATTGATTATACTGAATG
60697990 T
1 T
60697991 TTGCTCAAAC
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
36 7 0.08
37 82 0.88
38 4 0.04
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (37 bp):
TGCTCCAAAGAGCAATATCTATTGATTATACTGAATG
Found at i:60697967 original size:74 final size:74
Alignment explanation
Indices: 60697842--60697990 Score: 208
Period size: 74 Copynumber: 2.0 Consensus size: 74
60697832 CACCAAATAT
* * * * * * *
60697842 TGCTCCAAGGAGTAATATCTATTAATTTTACTGAATGTGCTCAAACAAGCAATATCTACTGGTTA
1 TGCTCCAAAGAGCAATATCTATTAATTATACTGAATGTGCTCAAACAAGCAATAACCACTGATCA
60697907 TACTGAATG
66 TACTGAATG
* * *
60697916 TGCTCCAAAGAGCAATGTCTATTGATTATACTGAATGTGCTCAAACGAGCAATAACCACTGATCA
1 TGCTCCAAAGAGCAATATCTATTAATTATACTGAATGTGCTCAAACAAGCAATAACCACTGATCA
60697981 TACTGAATG
66 TACTGAATG
60697990 T
1 T
60697991 TTGCTCAAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (74 bp):
TGCTCCAAAGAGCAATATCTATTAATTATACTGAATGTGCTCAAACAAGCAATAACCACTGATCA
TACTGAATG
Found at i:60698005 original size:39 final size:37
Alignment explanation
Indices: 60697870--60698027 Score: 183
Period size: 37 Copynumber: 4.2 Consensus size: 37
60697860 CTATTAATTT
* * * *
60697870 TACTGAATGTGCTCAAACAAGCAATATCTACTGGTTA
1 TACTGAATGTGCTCAAACGAGCAATATCCACTGATCA
* * * *
60697907 TACTGAATGTGCTCCAAA-GAGCAATGTCTATTGATTA
1 TACTGAATGTGCT-CAAACGAGCAATATCCACTGATCA
*
60697944 TACTGAATGTGCTCAAACGAGCAATAACCACTGATCA
1 TACTGAATGTGCTCAAACGAGCAATATCCACTGATCA
*
60697981 TACTGAATGTTTGCTCAAACGAGCATTATCCACTGATCA
1 TACTGAATG--TGCTCAAACGAGCAATATCCACTGATCA
*
60698020 TATTGAAT
1 TACTGAAT
60698028 AAGACCTTCT
Statistics
Matches: 105, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
36 4 0.04
37 64 0.61
38 4 0.04
39 33 0.31
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (37 bp):
TACTGAATGTGCTCAAACGAGCAATATCCACTGATCA
Found at i:60699498 original size:39 final size:39
Alignment explanation
Indices: 60699443--60699711 Score: 362
Period size: 39 Copynumber: 6.9 Consensus size: 39
60699433 AGTAGATAAT
* *
60699443 TGTTGTACTTCGGTACCCCTGATCGCAGTTATGTGCCCC
1 TGTTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCC
* * * * *
60699482 TATTGTACTTCAGTACCCCTAACCGTACTTACGT-CCCC
1 TGTTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCC
*
60699520 TGTTGTACTTCGGTACCCCTGATGGCACTTACGTGCCCC
1 TGTTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCC
* * *
60699559 TGTTGTACTTCGGTACCACTGACCGCACTTACGTGCCAC
1 TGTTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCC
* *
60699598 TGTTGTACTTTGGTACCCTTGATCGCACTTACGTGCCCC
1 TGTTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCC
*
60699637 TATTGTACTTCGGTACCCCTGA-CAGCACTTACGTGCCCC
1 TGTTGTACTTCGGTACCCCTGATC-GCACTTACGTGCCCC
* * *
60699676 TGTTGTACTTCGGTACTCCTGATAGCACTTTCGTGC
1 TGTTGTACTTCGGTACCCCTGATCGCACTTACGTGC
60699712 TGTGTTTACG
Statistics
Matches: 198, Mismatches: 29, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
38 33 0.17
39 165 0.83
ACGTcount: A:0.16, C:0.32, G:0.20, T:0.32
Consensus pattern (39 bp):
TGTTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCC
Found at i:60699558 original size:20 final size:20
Alignment explanation
Indices: 60699508--60699677 Score: 86
Period size: 20 Copynumber: 8.8 Consensus size: 20
60699498 CCCTAACCGT
*
60699508 ACTTACGT-CCCCTG-TTGT
1 ACTTACGTGCCCCTGATTGC
* *
60699526 ACTT-CGGTACCCCTGATGGC
1 ACTTAC-GTGCCCCTGATTGC
*
60699546 ACTTACGTGCCCCTG-TTGT
1 ACTTACGTGCCCCTGATTGC
* * **
60699565 ACTT-CGGTACCACTGACCGC
1 ACTTAC-GTGCCCCTGATTGC
* *
60699585 ACTTACGTGCCACTG-TTGT
1 ACTTACGTGCCCCTGATTGC
** * * *
60699604 ACTTTGGTACCCTTGATCGC
1 ACTTACGTGCCCCTGATTGC
*
60699624 ACTTACGTGCCCCT-ATTGT
1 ACTTACGTGCCCCTGATTGC
* **
60699643 ACTT-CGGTACCCCTGACAGC
1 ACTTAC-GTGCCCCTGATTGC
60699663 ACTTACGTGCCCCTG
1 ACTTACGTGCCCCTG
60699678 TTGTACTTCG
Statistics
Matches: 109, Mismatches: 32, Indels: 20
0.68 0.20 0.12
Matches are distributed among these distances:
17 1 0.01
18 8 0.07
19 44 0.40
20 53 0.49
21 3 0.03
ACGTcount: A:0.15, C:0.34, G:0.20, T:0.31
Consensus pattern (20 bp):
ACTTACGTGCCCCTGATTGC
Found at i:60711099 original size:27 final size:27
Alignment explanation
Indices: 60711036--60711088 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
60711026 TCTATACTCT
*
60711036 CATGTTTAACGTTCCGTCAAACTATCC
1 CATGTTTAACGTCCCGTCAAACTATCC
*
60711063 CATGTTTAACGTCCCGTCGAACTATC
1 CATGTTTAACGTCCCGTCAAACTATC
60711089 TTGTGTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (27 bp):
CATGTTTAACGTCCCGTCAAACTATCC
Found at i:60711409 original size:45 final size:45
Alignment explanation
Indices: 60711358--60711443 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
60711348 ACTTGTTTAC
*
60711358 CATGATGCCATAGTATCTTTTAGCAATGGTCTTACTCATTTCCAT
1 CATGATGCCATAGCATCTTTTAGCAATGGTCTTACTCATTTCCAT
*
60711403 CATGATGCCATAGCATCTTTTAGCTATGGTCTTACTCATTT
1 CATGATGCCATAGCATCTTTTAGCAATGGTCTTACTCATTT
60711444 TAGGCGTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (45 bp):
CATGATGCCATAGCATCTTTTAGCAATGGTCTTACTCATTTCCAT
Found at i:60711972 original size:36 final size:36
Alignment explanation
Indices: 60711932--60712003 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
60711922 AACATGCAGA
* *
60711932 ACCCTTAAAAATGGTTTTTGGAAACTCTTCACTTTG
1 ACCCTTAAAAATGGTTTATGGAAACTCTTAACTTTG
60711968 ACCCTTAAAAATGGTTTATGGAAACTCTTAACTTTG
1 ACCCTTAAAAATGGTTTATGGAAACTCTTAACTTTG
60712004 TTTTCTAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (36 bp):
ACCCTTAAAAATGGTTTATGGAAACTCTTAACTTTG
Found at i:60721689 original size:30 final size:31
Alignment explanation
Indices: 60721646--60721706 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
60721636 TTGATAAACT
*
60721646 GAAAAATTAAGTACTGAAAAAATAAGTGTTG
1 GAAAAATTAAGTACTGAAAAAATAAATGTTG
*
60721677 GAAAAA-TAAGTACTGAAAAATTAAATGTTG
1 GAAAAATTAAGTACTGAAAAAATAAATGTTG
60721707 AATTTAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 22 0.79
31 6 0.21
ACGTcount: A:0.52, C:0.03, G:0.18, T:0.26
Consensus pattern (31 bp):
GAAAAATTAAGTACTGAAAAAATAAATGTTG
Found at i:60721708 original size:15 final size:15
Alignment explanation
Indices: 60721643--60721700 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
60721633 TGTTTGATAA
60721643 ACTGAAAAATTAAGT
1 ACTGAAAAATTAAGT
*
60721658 ACTGAAAAAATAAGT
1 ACTGAAAAATTAAGT
**
60721673 GTTGGAAAAA-TAAGT
1 ACT-GAAAAATTAAGT
60721688 ACTGAAAAATTAA
1 ACTGAAAAATTAA
60721701 ATGTTGAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 6 0.17
15 24 0.67
16 6 0.17
ACGTcount: A:0.55, C:0.05, G:0.16, T:0.24
Consensus pattern (15 bp):
ACTGAAAAATTAAGT
Found at i:60723322 original size:9 final size:9
Alignment explanation
Indices: 60723308--60723344 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
60723298 TATAGTTTAA
60723308 TATTCGAAT
1 TATTCGAAT
60723317 TATTCGAAT
1 TATTCGAAT
*
60723326 TATTCGAGT
1 TATTCGAAT
60723335 TATTCGAAT
1 TATTCGAAT
60723344 T
1 T
60723345 CAAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:60725522 original size:13 final size:13
Alignment explanation
Indices: 60725506--60725530 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60725496 AAATAAATTG
60725506 AAAATTTATTTGT
1 AAAATTTATTTGT
60725519 AAAATTTATTTG
1 AAAATTTATTTG
60725531 GATGCGTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
AAAATTTATTTGT
Found at i:60726675 original size:15 final size:15
Alignment explanation
Indices: 60726655--60726708 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
60726645 ATACTATAAA
60726655 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
60726670 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
60726687 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
60726704 ATATT
1 ATATT
60726709 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:60726824 original size:16 final size:18
Alignment explanation
Indices: 60726799--60726857 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 18
60726789 TAAAATTGAA
60726799 ATATTAAATAATTTATTAT
1 ATATT-AATAATTTATTAT
60726818 -T-TTAATAAATTATATTTATT
1 ATATTAAT-AATT-TA-TTA-T
60726838 ATATTAATAATTTATTAT
1 ATATTAATAATTTATTAT
60726856 AT
1 AT
60726858 GACTAAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
16 3 0.09
17 6 0.18
18 6 0.18
19 6 0.18
20 3 0.09
21 5 0.15
22 5 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATATTAATAATTTATTAT
Found at i:60726857 original size:25 final size:22
Alignment explanation
Indices: 60726809--60726852 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
60726799 ATATTAAATA
*
60726809 ATTTATTATTTTAATAAATTAT
1 ATTTATTATATTAATAAATTAT
*
60726831 ATTTATTATATTAATAATTTAT
1 ATTTATTATATTAATAAATTAT
60726853 TATATGACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTATTATATTAATAAATTAT
Found at i:60736080 original size:16 final size:16
Alignment explanation
Indices: 60736059--60736090 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
60736049 ATGGGAAGTC
60736059 TCAGATCTACCTAAAG
1 TCAGATCTACCTAAAG
60736075 TCAGATCTACCTAAAG
1 TCAGATCTACCTAAAG
60736091 GGAAAAAAAC
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:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (16 bp):
TCAGATCTACCTAAAG
Found at i:60743257 original size:22 final size:21
Alignment explanation
Indices: 60743223--60743268 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
60743213 AGGGCTTTTT
*
60743223 TTTTTATTTTTAAGTTAAG-G
1 TTTTTATTTTTAAGGTAAGAG
60743243 TTTTTATTTTATTAAGGTAAGAG
1 TTTTTA-TTT-TTAAGGTAAGAG
60743266 TTT
1 TTT
60743269 AGGGTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 6 0.27
21 3 0.14
22 9 0.41
23 4 0.18
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (21 bp):
TTTTTATTTTTAAGGTAAGAG
Found at i:60743545 original size:12 final size:12
Alignment explanation
Indices: 60743528--60743554 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
60743518 GGTGTTCATT
60743528 CGGTTAACCGAC
1 CGGTTAACCGAC
60743540 CGGTTAACCGAC
1 CGGTTAACCGAC
60743552 CGG
1 CGG
60743555 AAATTACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.33, G:0.30, T:0.15
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:60743714 original size:9 final size:9
Alignment explanation
Indices: 60743700--60743803 Score: 138
Period size: 9 Copynumber: 11.4 Consensus size: 9
60743690 TTTGGTTAAA
60743700 AATTACCCG
1 AATTACCCG
*
60743709 AATTACCCA
1 AATTACCCG
60743718 AATTACCCG
1 AATTACCCG
60743727 AATTACCCG
1 AATTACCCG
*
60743736 AATTAACCG
1 AATTACCCG
60743745 AATTACCCG
1 AATTACCCG
*
60743754 AATTAACCG
1 AATTACCCG
*
60743763 AATTAACCG
1 AATTACCCG
60743772 AATTA-CCG
1 AATTACCCG
*
60743780 AAAAATACCCG
1 --AATTACCCG
60743791 AATTACCCG
1 AATTACCCG
60743800 AATT
1 AATT
60743804 TTTTTATTTT
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
8 3 0.04
9 75 0.88
10 4 0.05
11 3 0.04
ACGTcount: A:0.40, C:0.28, G:0.10, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:60749067 original size:28 final size:28
Alignment explanation
Indices: 60749035--60749134 Score: 155
Period size: 28 Copynumber: 3.6 Consensus size: 28
60749025 TTTAATAAGT
* * *
60749035 TCGCACACTTAGTGCTTAATAATCAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
60749063 TCGCACACTTAGTGCTTTACCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
60749091 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
60749119 TCACACACTTAGTGCT
1 TCGCACACTTAGTGCT
60749135 AATCTCATTA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:60755615 original size:22 final size:23
Alignment explanation
Indices: 60755588--60755678 Score: 77
Period size: 22 Copynumber: 4.2 Consensus size: 23
60755578 ATTGTTGTTG
*
60755588 TTATTAAATTTTAATA-AATTTA
1 TTATTAAATTATAATATAATTTA
60755610 TTATTAAA-TATAATATAATTTA
1 TTATTAAATTATAATATAATTTA
* * *
60755632 ATAATAAATAATAA-ATAATTTA
1 TTATTAAATTATAATATAATTTA
* * *
60755654 --ATCATATTTTAATATAA-TTA
1 TTATTAAATTATAATATAATTTA
60755674 TTATT
1 TTATT
60755679 CAATATGTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
20 10 0.19
21 10 0.19
22 30 0.56
23 4 0.07
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (23 bp):
TTATTAAATTATAATATAATTTA
Found at i:60758043 original size:15 final size:15
Alignment explanation
Indices: 60758023--60758056 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
60758013 ATTTTGTTGC
*
60758023 AAAAATTATAATTTA
1 AAAAATTATAATTGA
60758038 AAAAATTATAATTGA
1 AAAAATTATAATTGA
60758053 AAAA
1 AAAA
60758057 GTAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
AAAAATTATAATTGA
Found at i:60771640 original size:40 final size:39
Alignment explanation
Indices: 60771596--60771865 Score: 243
Period size: 40 Copynumber: 6.8 Consensus size: 39
60771586 TATTTATCGA
* * *
60771596 TGATTGTACATGCGTGCCCCTGTTTGTACTTCGATACCCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCG-TACCCC
* ** * *
60771636 TGATTGCACATATGTGCCCGAGTTTGTGCTTCAGTACCTC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTC-GTACCCC
*
60771676 TGATTGCACATACGTGCCCTTGTTTGTACTTCTGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTC-GTACCCC
* * *
60771716 TAATTTCACATACGTGCCCATGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTC-GTACCCC
* * ** * *
60771756 TAATTGCACTTGTGTGCCCCTGTTTGTACTTTGGTACCCT
1 TGATTGCACATACGTGCCCCTGTTTGTAC-TTCGTACCCC
* * * *
60771796 TGATTGCACATTCATGCCCATGTTTGTACTGTTGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACT-TCGTACCCC
* * * * *
60771836 TGAATGTACACATGTGCCCCTGTTTATACT
1 TGATTGCACATACGTGCCCCTGTTTGTACT
60771866 CTGGTAACCC
Statistics
Matches: 186, Mismatches: 41, Indels: 6
0.80 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 182 0.98
41 3 0.02
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (39 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGTACCCC
Found at i:60771786 original size:20 final size:20
Alignment explanation
Indices: 60771729--60771786 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
60771719 TTTCACATAC
*
60771729 GTGCCCATGTTTGTACTTCG
1 GTGCCCCTGTTTGTACTTCG
* ** *
60771749 GTACCCCTAATTGCACTT-G
1 GTGCCCCTGTTTGTACTTCG
60771768 TGTGCCCCTGTTTGTACTT
1 -GTGCCCCTGTTTGTACTT
60771787 TGGTACCCTT
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.12, C:0.28, G:0.21, T:0.40
Consensus pattern (20 bp):
GTGCCCCTGTTTGTACTTCG
Found at i:60771853 original size:120 final size:119
Alignment explanation
Indices: 60771609--60771865 Score: 304
Period size: 120 Copynumber: 2.1 Consensus size: 119
60771599 TTGTACATGC
* * * *
60771609 GTGCCCCTGTTTGTACTTCGATACCCTTGATTGCACATATGTGCCCGAGTTTGTGCTTCAGTACC
1 GTGCCCCTGTTTGTACTTCGATACCCCTAATTGCACATATGTGCCCCAGTTTGTACTTCAGTACC
* * *
60771674 TCTGATTGCACATACGTGCCCTTGTTTGTACTTCTGTACCCCTAATTTCACATA
66 TCTGATTGCACATACATGCCCATGTTTGTACTTCTGTACCCCTAATTACACATA
* * * * * **
60771728 CGTGCCCATGTTTGTACTTCGGTACCCCTAATTGCACTTGTGTGCCCCTGTTTGTACTTTGGTAC
1 -GTGCCCCTGTTTGTACTTCGATACCCCTAATTGCACATATGTGCCCCAGTTTGTACTTCAGTAC
*
60771793 C-CTTGATTGCACATTCATGCCCATGTTTGTACTGT-TGTACCCCTGAATGTACACAT-
65 CTC-TGATTGCACATACATGCCCATGTTTGTACT-TCTGTACCCCT-AAT-TACACATA
*
60771849 GTGCCCCTGTTTATACT
1 GTGCCCCTGTTTGTACT
60771866 CTGGTAACCC
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
119 1 0.01
120 105 0.91
121 4 0.03
122 6 0.05
ACGTcount: A:0.17, C:0.28, G:0.18, T:0.37
Consensus pattern (119 bp):
GTGCCCCTGTTTGTACTTCGATACCCCTAATTGCACATATGTGCCCCAGTTTGTACTTCAGTACC
TCTGATTGCACATACATGCCCATGTTTGTACTTCTGTACCCCTAATTACACATA
Found at i:60772650 original size:12 final size:12
Alignment explanation
Indices: 60772633--60772662 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
60772623 TTAGTGAGTT
60772633 ACATGGCCTAAC
1 ACATGGCCTAAC
*
60772645 ACATGGCCTAGC
1 ACATGGCCTAAC
60772657 ACATGG
1 ACATGG
60772663 GCGTGTAGGG
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:0.30, C:0.30, G:0.23, T:0.17
Consensus pattern (12 bp):
ACATGGCCTAAC
Found at i:60777693 original size:38 final size:37
Alignment explanation
Indices: 60777640--60777825 Score: 194
Period size: 38 Copynumber: 4.9 Consensus size: 37
60777630 ATTACACCGA
* **
60777640 CACAAAGTCTGCTAGGCGTAGAGCCCGAATAACACAG
1 CACAAAGCCTGCTAGGCACAGAGCCCGAATAACACAG
*
60777677 ACACAAAGCCTACTAGGCACAGAGCCC-AATGAACACCAG
1 -CACAAAGCCTGCTAGGCACAGAGCCCGAAT-AACA-CAG
* * * * *
60777716 CACAAAGCCTACTAGGCACATAGCCTGAATAAAACTGG
1 CACAAAGCCTGCTAGGCACAGAGCCCGAATAACAC-AG
* * *
60777754 CACAAAGCTTGCTAGGCACACAGCCCGAATAACACCTG
1 CACAAAGCCTGCTAGGCACAGAGCCCGAATAACA-CAG
* *
60777792 CACAAAGCCTGCTAGGCACATAGCCTGAATAACA
1 CACAAAGCCTGCTAGGCACAGAGCCCGAATAACA
60777826 GCGTTTCTAT
Statistics
Matches: 126, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
37 4 0.03
38 115 0.91
39 7 0.06
ACGTcount: A:0.38, C:0.30, G:0.19, T:0.13
Consensus pattern (37 bp):
CACAAAGCCTGCTAGGCACAGAGCCCGAATAACACAG
Found at i:60777759 original size:76 final size:76
Alignment explanation
Indices: 60777678--60777823 Score: 231
Period size: 76 Copynumber: 1.9 Consensus size: 76
60777668 ATAACACAGA
*
60777678 CACAAAGCCTACTAGGCACAGAGCCC-AATGAACACCAGCACAAAGCCTACTAGGCACATAGCCT
1 CACAAAGCCTACTAGGCACACAGCCCGAAT-AACACCAGCACAAAGCCTACTAGGCACATAGCCT
60777742 GAATAAAACTGG
65 GAATAAAACTGG
* * * *
60777754 CACAAAGCTTGCTAGGCACACAGCCCGAATAACACCTGCACAAAGCCTGCTAGGCACATAGCCTG
1 CACAAAGCCTACTAGGCACACAGCCCGAATAACACCAGCACAAAGCCTACTAGGCACATAGCCTG
60777819 AATAA
66 AATAA
60777824 CAGCGTTTCT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
76 61 0.95
77 3 0.05
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (76 bp):
CACAAAGCCTACTAGGCACACAGCCCGAATAACACCAGCACAAAGCCTACTAGGCACATAGCCTG
AATAAAACTGG
Found at i:60781548 original size:40 final size:40
Alignment explanation
Indices: 60781493--60781770 Score: 315
Period size: 40 Copynumber: 7.0 Consensus size: 40
60781483 TATTTATCGA
* *
60781493 TGATTGCACATACGTGCCCCTATTTGTACTTCTGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
60781533 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * * *
60781573 TGATTGCACAAACATGCCCTTGTTTTTACTTTGGTACCTC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * * *
60781613 TAATTGCACATACATACCCTTATTTGTACTTCGGTA-CCG
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
** * *
60781652 TGATTGTTCATACGTGTCCCTGTTTGGACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
60781692 TAATTGCACATATGTGCCCCTGTCTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* ** * *
60781732 TGATTACACATTTGTGCCCATGTTTGTACTTCGTTACCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
60781771 TTAAATGAAC
Statistics
Matches: 198, Mismatches: 39, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 28 0.14
40 170 0.86
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:60781552 original size:20 final size:21
Alignment explanation
Indices: 60781493--60781582 Score: 64
Period size: 20 Copynumber: 4.5 Consensus size: 21
60781483 TATTTATCGA
*
60781493 TGATTGCACATAC-GTGCCCC
1 TGATTGCACATACGGTACCCC
* * *
60781513 T-ATTTGTAC-TTCTGTACCCC
1 TGA-TTGCACATACGGTACCCC
*
60781533 TGATTGCACATAC-GTGCCCC
1 TGATTGCACATACGGTACCCC
* * *
60781553 TGTTTGTAC-TTCGGTACCCC
1 TGATTGCACATACGGTACCCC
60781573 TGATTGCACA
1 TGATTGCACA
60781583 AACATGCCCT
Statistics
Matches: 52, Mismatches: 12, Indels: 11
0.69 0.16 0.15
Matches are distributed among these distances:
19 5 0.10
20 44 0.85
21 3 0.06
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.33
Consensus pattern (21 bp):
TGATTGCACATACGGTACCCC
Found at i:60781758 original size:119 final size:119
Alignment explanation
Indices: 60781499--60781771 Score: 312
Period size: 119 Copynumber: 2.3 Consensus size: 119
60781489 TCGATGATTG
* * *
60781499 CACATACGTGCCCCTATTTGTACTTCTGTACCCCTGATTGCACATACGTGCCCCTGTTTGTACTT
1 CACATACGTGCCCATATTTGTACTTCGGTA-CCCTGATTGCACATACGTGCCCCTGTTTGGACTT
* * * * * * *
60781564 CGGTACCCCTGATTGCACAAACATGCCCTTGTTTTTACTTTGGTACCTCTAATTG
65 CGGTACCCCTAATTGCACAAACATGCCCCTGTCTGTACTTCGGTACCCCTAATTA
* * * * ** *
60781619 CACATACATACCCTTATTTGTACTTCGGTACCGTGATTGTTCATACGTGTCCCTGTTTGGACTTC
1 CACATACGTGCCCATATTTGTACTTCGGTACCCTGATTGCACATACGTGCCCCTGTTTGGACTTC
* ** *
60781684 GGTACCCCTAATTGCACATATGTGCCCCTGTCTGTACTTCGGTACCCCTGATTA
66 GGTACCCCTAATTGCACAAACATGCCCCTGTCTGTACTTCGGTACCCCTAATTA
** * *
60781738 CACATTTGTGCCCATGTTTGTACTTCGTTACCCT
1 CACATACGTGCCCATATTTGTACTTCGGTACCCT
60781772 TAAATGAACT
Statistics
Matches: 125, Mismatches: 28, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
119 99 0.79
120 26 0.21
ACGTcount: A:0.18, C:0.29, G:0.16, T:0.36
Consensus pattern (119 bp):
CACATACGTGCCCATATTTGTACTTCGGTACCCTGATTGCACATACGTGCCCCTGTTTGGACTTC
GGTACCCCTAATTGCACAAACATGCCCCTGTCTGTACTTCGGTACCCCTAATTA
Found at i:60781786 original size:159 final size:159
Alignment explanation
Indices: 60781501--60781801 Score: 388
Period size: 159 Copynumber: 1.9 Consensus size: 159
60781491 GATGATTGCA
* * * *
60781501 CATACGTGCCCCTATTTGTACTTCTGTACCCCTGATTGCACATACGTGCCCCTGTTTGTACTTCG
1 CATACGTGCCCCTATTTGGACTTCGGTACCCCTAATTGCACATACGTGCCCCTGTCTGTACTTCG
* * * * * *
60781566 GTACCCCTGATTGCACAAACATGCCCTTGTTTTTACTTTGGTACCTCTAATTGCACATACATACC
66 GTACCCCTGATTACACAAACATGCCCATGTTTGTACTTCGGTACCTCTAAATGAACATACATACC
* *
60781631 CTTATTTGTACTTCGGTACCGTGATTGTT
131 CCTATTTATACTTCGGTACCGTGATTGTT
* * *
60781660 CATACGTGTCCCTGTTTGGACTTCGGTACCCCTAATTGCACATATGTGCCCCTGTCTGTACTTCG
1 CATACGTGCCCCTATTTGGACTTCGGTACCCCTAATTGCACATACGTGCCCCTGTCTGTACTTCG
**** * * *
60781725 GTACCCCTGATTACACATTTGTGCCCATGTTTGTACTTCGTTACC-CTTAAATGAACTTACATGC
66 GTACCCCTGATTACACAAACATGCCCATGTTTGTACTTCGGTACCTC-TAAATGAACATACATAC
60781789 CCCTATTTATACT
130 CCCTATTTATACT
60781802 CTAGTAATCC
Statistics
Matches: 119, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
158 1 0.01
159 118 0.99
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.37
Consensus pattern (159 bp):
CATACGTGCCCCTATTTGGACTTCGGTACCCCTAATTGCACATACGTGCCCCTGTCTGTACTTCG
GTACCCCTGATTACACAAACATGCCCATGTTTGTACTTCGGTACCTCTAAATGAACATACATACC
CCTATTTATACTTCGGTACCGTGATTGTT
Found at i:60793331 original size:16 final size:16
Alignment explanation
Indices: 60793310--60793360 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
60793300 TGAATTACTG
60793310 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
**
60793326 ATTACATATCTATTCC
1 ATTACAGCTCTATTCC
* *
60793342 ATTACAGCCCTATTTC
1 ATTACAGCTCTATTCC
60793358 ATT
1 ATT
60793361 GACTCCACCC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.04, T:0.41
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:60793471 original size:16 final size:17
Alignment explanation
Indices: 60793435--60793472 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
60793425 AAAAAAAGAA
60793435 AAAATAGAAAATGAATT
1 AAAATAGAAAATGAATT
* *
60793452 AAAATATAAAAT-ATTT
1 AAAATAGAAAATGAATT
60793468 AAAAT
1 AAAAT
60793473 TTATTGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
AAAATAGAAAATGAATT
Found at i:60794425 original size:34 final size:33
Alignment explanation
Indices: 60794310--60794425 Score: 128
Period size: 34 Copynumber: 3.4 Consensus size: 33
60794300 TTTTAAAAAA
* * *
60794310 TAAATCAGGGTTTAGAGTTTTTTTAAAAATTAAT
1 TAAATTAGGGTTTATAG-TTTTTAAAAAATTAAT
* *
60794344 TAAATT-GGGTTT-TAGGGGTTTAAAATAAATTAAT
1 TAAATTAGGGTTTATA--GTTTTTAAA-AAATTAAT
60794378 TAAATTAGGGTTTATAGTTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTATAGTTTTTAA-AAAATTAAT
60794412 TAAATTAGGGTTTA
1 TAAATTAGGGTTTA
60794426 CTTTTTTTGA
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
32 1 0.01
33 11 0.16
34 48 0.70
35 7 0.10
36 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.17, T:0.43
Consensus pattern (33 bp):
TAAATTAGGGTTTATAGTTTTTAAAAAATTAAT
Found at i:60794663 original size:126 final size:126
Alignment explanation
Indices: 60794525--60794793 Score: 371
Period size: 126 Copynumber: 2.1 Consensus size: 126
60794515 GATTTTGTTT
* * *
60794525 TTTTTTCTACAGTAGTTT-TAGAAAAATTAATTTTGAGAAGACGGTTCT-AAAAAGATAATATCA
1 TTTTTT-TACAGTAGTTTCTA-AAAAAATAATTTTGAGAAGACAGTTCTGAAAAA-ATAATACCA
* *
60794588 AAAACGCTTCAAGCATGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGAACGCTC
63 AAAACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTAAAAAAAGCTCCCACGTGAACGCTC
* *
60794652 TTTTTTTACAGTAGTTTCTAAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGCCAAAA
1 TTTTTTTACAGTAGTTTCTAAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAATACCAAAA
* * * * *
60794717 ATGCTTCAAGTAGGATGCACTGTCAACAAAATTATTGAAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTAAAAAAAGCTCCCACGTGAACGCTC
* *
60794778 TTTTTCTAAAGTAGTT
1 TTTTTTTACAGTAGTT
60794794 CCTGCTTGGC
Statistics
Matches: 126, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
126 113 0.90
127 13 0.10
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (126 bp):
TTTTTTTACAGTAGTTTCTAAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAATACCAAAA
ACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTAAAAAAAGCTCCCACGTGAACGCTC
Found at i:60811742 original size:41 final size:41
Alignment explanation
Indices: 60811655--60811732 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
60811645 ATAGGTGAAA
* *
60811655 AAAAAAATCCTCAAATGAGGTATTTGTTTGACAGCTGGATG
1 AAAAAAATCCTCAAATGAGGTATTTGATTGACACCTGGATG
* *
60811696 AAAAAAATCCTCTAATGAGTTATTTGATTGACACCTG
1 AAAAAAATCCTCAAATGAGGTATTTGATTGACACCTG
60811733 TCTTAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (41 bp):
AAAAAAATCCTCAAATGAGGTATTTGATTGACACCTGGATG
Found at i:60811742 original size:42 final size:41
Alignment explanation
Indices: 60811654--60811742 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
60811644 TATAGGTGAA
* * *
60811654 AAAAAAAATCCTCAAATGAGGTATTTGTTTGACAGCTGGAT
1 AAAAAAAATCCTCAAATGAGGTATTTGATTGACACCTGCAT
* * * *
60811695 GAAAAAAATCCTCTAATGAGTTATTTGATTGACACCTGTCTT
1 AAAAAAAATCCTCAAATGAGGTATTTGATTGACACCTG-CAT
60811737 AAAAAA
1 AAAAAA
60811743 GGACATAAGT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
41 33 0.85
42 6 0.15
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (41 bp):
AAAAAAAATCCTCAAATGAGGTATTTGATTGACACCTGCAT
Found at i:60813297 original size:17 final size:17
Alignment explanation
Indices: 60813260--60813298 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
60813250 CCATATTATT
* *
60813260 TCTTTTGTTTCTTTTCC
1 TCTTTTGTTTCTTCTCA
*
60813277 TCTTTTGTTTCTTCTGA
1 TCTTTTGTTTCTTCTCA
60813294 TCTTT
1 TCTTT
60813299 GGTTACCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.03, C:0.21, G:0.08, T:0.69
Consensus pattern (17 bp):
TCTTTTGTTTCTTCTCA
Found at i:60813672 original size:19 final size:16
Alignment explanation
Indices: 60813650--60813703 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 16
60813640 CTGTGATTGA
60813650 ATTTTTGTAAATTCAATAT
1 ATTTTT-TAAATT--ATAT
60813669 ATTTTATTAAATTATAT
1 ATTTT-TTAAATTATAT
60813686 ATTTTTATTAAATTATAT
1 A-TTTT-TTAAATTATAT
60813704 TTAATAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.15
18 16 0.48
19 11 0.33
20 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
ATTTTTTAAATTATAT
Found at i:60813691 original size:18 final size:17
Alignment explanation
Indices: 60813665--60813703 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
60813655 TGTAAATTCA
60813665 ATATATTTTATTAAATT
1 ATATATTTTATTAAATT
60813682 ATATATTTTTATTAAATT
1 ATATA-TTTTATTAAATT
60813700 ATAT
1 ATAT
60813704 TTAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATATTTTATTAAATT
Found at i:60813893 original size:21 final size:21
Alignment explanation
Indices: 60813867--60813921 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
60813857 ACCGCTATTT
* *
60813867 CTAATCTCACTGCTACATTATC
1 CTAATCTCACCGCTACAATA-C
60813889 C-AATCTCACCGCTACAATAC
1 CTAATCTCACCGCTACAATAC
60813909 CTAATCTCACCGC
1 CTAATCTCACCGC
60813922 CACCGCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.29, C:0.38, G:0.05, T:0.27
Consensus pattern (21 bp):
CTAATCTCACCGCTACAATAC
Found at i:60815621 original size:51 final size:48
Alignment explanation
Indices: 60815540--60815634 Score: 163
Period size: 51 Copynumber: 1.9 Consensus size: 48
60815530 AGGTCCTAAC
60815540 ACTTGATGTAGTAAGTAGCTTTTAGCGTTGATTCTTTCTTGAAACTAT
1 ACTTGATGTAGTAAGTAGCTTTTAGCGTTGATTCTTTCTTGAAACTAT
60815588 ACTTAGATGTAGTAAGTAGTGCTTTTAGCGTTGATTCTTTCTTGAAA
1 ACTT-GATGTAGTAAGTA--GCTTTTAGCGTTGATTCTTTCTTGAAA
60815635 TTGGTATTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
48 4 0.09
49 13 0.30
51 27 0.61
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (48 bp):
ACTTGATGTAGTAAGTAGCTTTTAGCGTTGATTCTTTCTTGAAACTAT
Found at i:60830038 original size:11 final size:11
Alignment explanation
Indices: 60830022--60830053 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
60830012 ATATTACGGA
60830022 TGCTACTTTAT
1 TGCTACTTTAT
60830033 TGCTACTTTAT
1 TGCTACTTTAT
60830044 TGCTACTTTA
1 TGCTACTTTA
60830054 GTGGCAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.09, T:0.53
Consensus pattern (11 bp):
TGCTACTTTAT
Found at i:60838560 original size:45 final size:45
Alignment explanation
Indices: 60838500--60838609 Score: 159
Period size: 45 Copynumber: 2.4 Consensus size: 45
60838490 CAGTAATCAG
* * *
60838500 TAACGGTAGCAGTAACAGTATTCAACACACAAAGTGCTGAATCTG-
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATC-GA
* *
60838545 TAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
60838590 TAACAGTAACAGTAACAGTA
1 TAACAGTAACAGTAACAGTA
60838610 ACAGTAATAG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 1 0.02
45 57 0.98
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
Found at i:60838601 original size:6 final size:6
Alignment explanation
Indices: 60838590--60838621 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
60838580 GCCGAATCGA
*
60838590 TAACAG TAACAG TAACAG TAACAG TAATAG TA
1 TAACAG TAACAG TAACAG TAACAG TAACAG TA
60838622 TTCGACACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.22
Consensus pattern (6 bp):
TAACAG
Found at i:60838606 original size:57 final size:57
Alignment explanation
Indices: 60838544--60838723 Score: 245
Period size: 57 Copynumber: 3.1 Consensus size: 57
60838534 TGCTGAATCT
60838544 GTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCGATAACAGTAACA
1 GTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCGATAACAGTAACA
* * * * *
60838601 GTAACAGTAACAGTAATAGTATTCGACACACAAAGTGCCGAGTCGGTAACAGTAATA
1 GTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCGATAACAGTAACA
60838658 GTAACAGTAACAGTAATAGTAACAGTATTCGACACACAAAGTGCCGAATC-AGTAACAGTAACA
1 GTAACAGTAAC-G-----GTAACAGTATTCGACACACAAAGTGCCGAATCGA-TAACAGTAACA
60838721 GTA
1 GTA
60838724 GTCGGCACAT
Statistics
Matches: 106, Mismatches: 10, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
57 63 0.59
63 43 0.41
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (57 bp):
GTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCGATAACAGTAACA
Found at i:60838660 original size:6 final size:6
Alignment explanation
Indices: 60838646--60838684 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
60838636 TGCCGAGTCG
* *
60838646 GTAACA GTAATA GTAACA GTAACA GTAATA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
60838685 TTCGACACAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.23
Consensus pattern (6 bp):
GTAACA
Found at i:60838662 original size:63 final size:62
Alignment explanation
Indices: 60838544--60838723 Score: 262
Period size: 63 Copynumber: 3.0 Consensus size: 62
60838534 TGCTGAATCT
*
60838544 GTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCG----A-TAACAGTAACA
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGTAACAGTAACAGTAACA
* * *
60838601 GTAACAGTAACAGTAATAGTATTCGACACACAAAGTGCCGAGTCGGTAACAGTAATAGTAACA
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC-GTAACAGTAACAGTAACA
*
60838664 GTAACAGTAATAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAACAGTA
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC-GTAACAGTAACAGTA
60838724 GTCGGCACAT
Statistics
Matches: 108, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
57 41 0.38
58 1 0.01
62 1 0.01
63 65 0.60
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (62 bp):
GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGTAACAGTAACAGTAACA
Found at i:60838669 original size:18 final size:18
Alignment explanation
Indices: 60838646--60838684 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
60838636 TGCCGAGTCG
60838646 GTAACAGTAATAGTAACA
1 GTAACAGTAATAGTAACA
60838664 GTAACAGTAATAGTAACA
1 GTAACAGTAATAGTAACA
60838682 GTA
1 GTA
60838685 TTCGACACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.23
Consensus pattern (18 bp):
GTAACAGTAATAGTAACA
Found at i:60838747 original size:38 final size:39
Alignment explanation
Indices: 60838668--60838750 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 39
60838658 GTAACAGTAA
* *
60838668 CAGTAATAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCGAAT
* * *
60838707 CAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTAAT
1 CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCGAAT
60838745 CAGTAA
1 CAGTAA
60838751 GCCGGCAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 16 0.41
39 23 0.59
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.20
Consensus pattern (39 bp):
CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCGAAT
Found at i:60844129 original size:7 final size:7
Alignment explanation
Indices: 60844104--60844142 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
60844094 GAGAGAATGA
*
60844104 ATGAGAG
1 ATGAGGG
*
60844111 ATGAGTG
1 ATGAGGG
*
60844118 TTGAGGG
1 ATGAGGG
60844125 ATGAGGG
1 ATGAGGG
60844132 ATGAGGG
1 ATGAGGG
60844139 ATGA
1 ATGA
60844143 TTTGAGAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.31, C:0.00, G:0.49, T:0.21
Consensus pattern (7 bp):
ATGAGGG
Found at i:60848025 original size:57 final size:58
Alignment explanation
Indices: 60847940--60848062 Score: 167
Period size: 57 Copynumber: 2.1 Consensus size: 58
60847930 ATATAAATGG
* * * *
60847940 TGAAAATGGAGAAATGAGAAACATTTGGAAATGATTATGATTTTTTCCAAAATGCAAA
1 TGAAAATGAAGAAATGAGAAACATTTGGAAATAATTATGATTTTCTCCAAAATGAAAA
* * * *
60847998 TGAAAATGAAGAAGTGA-AATCATTTGGAAATAATTATGGTTTTCTCCACAATGAAAA
1 TGAAAATGAAGAAATGAGAAACATTTGGAAATAATTATGATTTTCTCCAAAATGAAAA
60848055 TGAAAATG
1 TGAAAATG
60848063 TAAATGACCT
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
57 42 0.74
58 15 0.26
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.29
Consensus pattern (58 bp):
TGAAAATGAAGAAATGAGAAACATTTGGAAATAATTATGATTTTCTCCAAAATGAAAA
Found at i:60854110 original size:17 final size:17
Alignment explanation
Indices: 60854088--60854122 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
60854078 TAATAATTAT
60854088 TTTAAGTGATATTTTTC
1 TTTAAGTGATATTTTTC
60854105 TTTAAGTGATATTTTTC
1 TTTAAGTGATATTTTTC
60854122 T
1 T
60854123 ACTTCATTAT
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:0.23, C:0.06, G:0.11, T:0.60
Consensus pattern (17 bp):
TTTAAGTGATATTTTTC
Found at i:60856060 original size:13 final size:13
Alignment explanation
Indices: 60856039--60856096 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
60856029 ACCCAAAATA
*
60856039 AATTTATTTAATC
1 AATTAATTTAATC
*
60856052 AATTAATTTAATT
1 AATTAATTTAATC
* *
60856065 AATTAAATTAACTA
1 AATTAATTTAA-TC
*
60856079 AATTAATTT-CTC
1 AATTAATTTAATC
60856091 AATTAA
1 AATTAA
60856097 ATAATCTTCT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
12 7 0.19
13 21 0.57
14 9 0.24
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTAATTTAATC
Found at i:60856106 original size:17 final size:17
Alignment explanation
Indices: 60856077--60856109 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
60856067 TTAAATTAAC
60856077 TAAATTAATTTCTCAAT
1 TAAATTAATTTCTCAAT
60856094 TAAA-TAATCTTCTCAA
1 TAAATTAAT-TTCTCAA
60856110 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATTAATTTCTCAAT
Found at i:60858936 original size:42 final size:42
Alignment explanation
Indices: 60858850--60859082 Score: 283
Period size: 42 Copynumber: 5.6 Consensus size: 42
60858840 ACTGGCGCTT
* *
60858850 AGCCTGCTAGACATATAGTCTGAAA-TGTTTCACC-GACATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACCAG-CATTA
* *
60858891 AGCCTACTAGACGTAAAGTCTGAAATTATTTCACCAGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACCAGCATTA
* * *
60858933 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCA-CTGCCAATA
1 AGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACCAG-CATTA
* * * *
60858975 AGCCTGCTAGACGTAACGTCTAAAATTATTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACCAGCATTA
* * * *
60859017 AGCCTTCTAGACGTAAAGTCTGATATTGTTTCACTAGCAATA
1 AGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACCAGCATTA
*
60859059 AGCCTGCTAGGCGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
60859083 GTCTCAAGTT
Statistics
Matches: 162, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
41 24 0.15
42 135 0.83
43 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.29
Consensus pattern (42 bp):
AGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACCAGCATTA
Found at i:60858990 original size:84 final size:83
Alignment explanation
Indices: 60858850--60859082 Score: 333
Period size: 84 Copynumber: 2.8 Consensus size: 83
60858840 ACTGGCGCTT
* * * * * *
60858850 AGCCTGCTAGACATATAGTCTGA-AATGTTTCACCGACATTAAGCCTACTAGACGTAAAGTCTGA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTG-CAATAAGCCTGCTAGACGTAAAGTCTGA
60858914 AATTATTTCACCAGCATTA
65 AATTATTTCACCAGCATTA
* *
60858933 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGCCAATAAGCCTGCTAGACGTAACGTCTAA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTG-CAATAAGCCTGCTAGACGTAAAGTCTGA
*
60858998 AATTATTTCACCGGCATTA
65 AATTATTTCACCAGCATTA
* *
60859017 AGCCTTCTAGACGTAAAGTCTGATATTGTTTCACTAGCAATAAGCCTGCTAGGCGTAAAGTCTGA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACT-GCAATAAGCCTGCTAGACGTAAAGTCTGA
60859082 A
65 A
60859083 GTCTCAAGTT
Statistics
Matches: 134, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
83 21 0.16
84 112 0.84
85 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.29
Consensus pattern (83 bp):
AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGCAATAAGCCTGCTAGACGTAAAGTCTGAA
ATTATTTCACCAGCATTA
Found at i:60859020 original size:126 final size:125
Alignment explanation
Indices: 60858850--60859081 Score: 349
Period size: 126 Copynumber: 1.8 Consensus size: 125
60858840 ACTGGCGCTT
* *
60858850 AGCCTGCTAGACATATAGTCTGAAATGTTTCACCGACATTAAGCCTACTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACATATAGTCTAAAATATTTCACCGACATTAAGCCTACTAGACGTAAAGTCTGAA
*
60858915 ATTATTTCACCAGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGCCAATA
66 ATTATTTCACCAGCAATAAGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGCCAATA
* * *
60858975 AGCCTGCTAGACGTA-ACGTCTAAAATTATTTCACCGGCATTAAGCCTTCTAGACGTAAAGTCTG
1 AGCCTGCTAGACATATA-GTCTAAAA-TATTTCACCGACATTAAGCCTACTAGACGTAAAGTCTG
* * * *
60859039 ATATTGTTTCACTAGCAATAAGCCTGCTAGGCGTAAAGTCTGA
64 AAATTATTTCACCAGCAATAAGCCTGCTAGACGTAAAGTCTGA
60859082 AGTCTCAAGT
Statistics
Matches: 95, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
124 1 0.01
125 21 0.22
126 73 0.77
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (125 bp):
AGCCTGCTAGACATATAGTCTAAAATATTTCACCGACATTAAGCCTACTAGACGTAAAGTCTGAA
ATTATTTCACCAGCAATAAGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGCCAATA
Found at i:60868055 original size:23 final size:23
Alignment explanation
Indices: 60868010--60868054 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
60868000 TATCCCCACA
*
60868010 TGGAGTGTAGGGTTGGATGGGGT
1 TGGAGTGTAGGGCTGGATGGGGT
*
60868033 TGGAGTGTAGAGGCTGGCTGGG
1 TGGAGTGTAG-GGCTGGATGGG
60868055 TAGGAATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.13, C:0.04, G:0.56, T:0.27
Consensus pattern (23 bp):
TGGAGTGTAGGGCTGGATGGGGT
Found at i:60870053 original size:16 final size:16
Alignment explanation
Indices: 60870032--60870080 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
60870022 GTCAATTATT
60870032 ATATACTGCATAAGTC
1 ATATACTGCATAAGTC
*
60870048 ATATACTGCTTAAGTC
1 ATATACTGCATAAGTC
60870064 ATATACTGCATAAGTC
1 ATATACTGCATAAGTC
60870080 A
1 A
60870081 ATTAAGTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (16 bp):
ATATACTGCATAAGTC
Found at i:60873519 original size:16 final size:16
Alignment explanation
Indices: 60873498--60873559 Score: 88
Period size: 16 Copynumber: 3.9 Consensus size: 16
60873488 TTTGGTTCGC
* *
60873498 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
60873514 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
60873530 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
60873546 TGTAATGGAATAGA
1 TGTAATGGAATAGA
60873560 TGTGAAATAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:60873829 original size:14 final size:15
Alignment explanation
Indices: 60873785--60873831 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
60873775 TCATATTTAA
*
60873785 AAATA-ATTATTATT
1 AAATATATTATAATT
60873799 AAATATATTATAATT
1 AAATATATTATAATT
60873814 AAA-ATA-TATAATT
1 AAATATATTATAATT
*
60873827 TAATA
1 AAATA
60873832 AAATTCTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 9 0.31
14 9 0.31
15 11 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATATATTATAATT
Found at i:60873949 original size:14 final size:15
Alignment explanation
Indices: 60873900--60873951 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
60873890 ATAAAATATA
60873900 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
60873915 TATTAAATATATTAT
1 AATTAAATATATTAT
60873930 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
60873943 AATTTAATA
1 AATTAAATA
60873952 AAATTCTTAA
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:60874060 original size:16 final size:16
Alignment explanation
Indices: 60874017--60874062 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
60874007 ACTATAAAAG
*
60874017 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
60874033 ATTATT-AAATATATT
1 ATAATTAAAATATATT
60874048 ATAATTAAAATATAT
1 ATAATTAAAATATAT
60874063 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:60874069 original size:14 final size:15
Alignment explanation
Indices: 60874017--60874071 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
60874007 ACTATAAAAG
60874017 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
60874033 ATTATTAAATATATT
1 ATAATTAAATATATT
60874048 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
60874061 ATAATTTAATA
1 ATAATTAAATA
60874072 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:60874207 original size:120 final size:120
Alignment explanation
Indices: 60873787--60874196 Score: 743
Period size: 120 Copynumber: 3.4 Consensus size: 120
60873777 ATATTTAAAA
60873787 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
* *
60873852 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAAC
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
60873907 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
60873972 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
60874027 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
60874092 TCTTATATGAATTTACTCAAATCATAATATATTG-TACTATAAAAGATAATTTGAA-
66 TCTTATATGAATTTACTCAAATCATAATATA-TGATACTATAAAAGATAATTT-AAC
* * *
60874147 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
60874197 TAAAATAATT
Statistics
Matches: 283, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
120 279 0.99
121 4 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
Found at i:60883135 original size:54 final size:54
Alignment explanation
Indices: 60883086--60883228 Score: 204
Period size: 54 Copynumber: 2.7 Consensus size: 54
60883076 CTGTAATGGG
60883086 AGCCTTTGTGGCTATCCATGTAAAGGAAGCCTTTGTGGCTACCCTTGTAAAAGA
1 AGCCTTTGTGGCTATCCATGTAAAGGAAGCCTTTGTGGCTACCCTTGTAAAAGA
* * * *
60883140 AGCCTTTGTGGCTATTCATGTAAAGGAAGCCTTTCTCGCTACCCATGTAAAAGA
1 AGCCTTTGTGGCTATCCATGTAAAGGAAGCCTTTGTGGCTACCCTTGTAAAAGA
* *
60883194 AG-C---GTGCCTATCCATGTAAAGGAAGCCCTTGTGGC
1 AGCCTTTGTGGCTATCCATGTAAAGGAAGCCTTTGTGGC
60883229 AATCTGAATA
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
50 27 0.34
53 1 0.01
54 52 0.65
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (54 bp):
AGCCTTTGTGGCTATCCATGTAAAGGAAGCCTTTGTGGCTACCCTTGTAAAAGA
Found at i:60883180 original size:27 final size:27
Alignment explanation
Indices: 60883052--60883228 Score: 166
Period size: 27 Copynumber: 6.7 Consensus size: 27
60883042 AAAACCTCTA
* * *
60883052 TAAAGGAAGACTTTGTGGCAATCTC-TG
1 TAAAGGAAGCCTTTGTGGCTA-CCCATG
* * *
60883079 TAATGGGAGCCTTTGTGGCTATCCATG
1 TAAAGGAAGCCTTTGTGGCTACCCATG
*
60883106 TAAAGGAAGCCTTTGTGGCTACCCTTG
1 TAAAGGAAGCCTTTGTGGCTACCCATG
* **
60883133 TAAAAGAAGCCTTTGTGGCTATTCATG
1 TAAAGGAAGCCTTTGTGGCTACCCATG
* *
60883160 TAAAGGAAGCCTTTCTCGCTACCCATG
1 TAAAGGAAGCCTTTGTGGCTACCCATG
* * *
60883187 TAAAAGAAG-C---GTGCCTATCCATG
1 TAAAGGAAGCCTTTGTGGCTACCCATG
*
60883210 TAAAGGAAGCCCTTGTGGC
1 TAAAGGAAGCCTTTGTGGC
60883229 AATCTGAATA
Statistics
Matches: 119, Mismatches: 26, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
23 17 0.14
24 1 0.01
26 2 0.02
27 99 0.83
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (27 bp):
TAAAGGAAGCCTTTGTGGCTACCCATG
Done.