Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold329
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: 4121247
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 5938 characters in sequence are not A, C, G, or T
File 17 of 25
Found at i:2565910 original size:6 final size:7
Alignment explanation
Indices: 2565893--2565917 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2565883 AATAAAACAT
2565893 TTTTTAA
1 TTTTTAA
2565900 TTTTTAA
1 TTTTTAA
2565907 TTTTTAA
1 TTTTTAA
2565914 TTTT
1 TTTT
2565918 GAAATCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTAA
Found at i:2572413 original size:13 final size:13
Alignment explanation
Indices: 2572395--2572419 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2572385 CATAAAGTGT
2572395 TGTATCGATACAA
1 TGTATCGATACAA
2572408 TGTATCGATACA
1 TGTATCGATACA
2572420 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2572435 original size:32 final size:33
Alignment explanation
Indices: 2572375--2572440 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
2572365 TTCAATGATT
2572375 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
2572408 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2572440 T
1 T
2572441 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2572570 original size:52 final size:52
Alignment explanation
Indices: 2572514--2572642 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
2572504 CACTGATCTT
* * * *
2572514 TGTATCGATACATGCAAGAAAATTTGCCTAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
2572566 TGTATCGATACATGCAGGCAAATTTGCCCAGATTTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2572618 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2572643 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2575723 original size:19 final size:19
Alignment explanation
Indices: 2575699--2575749 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
2575689 TACGACACAT
2575699 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
2575718 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
2575737 TGTATTGATACAA
1 TGTATCGATACAA
2575750 TTTCTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:2576946 original size:43 final size:43
Alignment explanation
Indices: 2576879--2577609 Score: 625
Period size: 43 Copynumber: 15.9 Consensus size: 43
2576869 AAAAGATGAC
* *
2576879 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTG
** * * * *
2576922 GGAGCTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAAAAGATG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATT-GG------A-CTG
* * * *
2576973 ACAAAGGCGCCAATATGCTGATTCAAGACTAGCGATATTGGACTG
1 --AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTG
** * *
2577018 GGAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGCCTTAAAAGATG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGG-------A-CTG
* * * *
2577069 ACAAAGGCGCAAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 --AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTG
* * * *
2577114 AAGGGAGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTG
* *
2577157 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-T---G
* * *
2577204 ACAAGGTGCCAATATGCTGATTCAAGGACAGCGATATTGGACTT
1 A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTG
* *
2577248 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-T---G
* * * *
2577295 ACAAAGTGCAAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTG
* *
2577339 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-T---G
* *
2577386 ATAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTG
* *
2577430 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-T---G
* *
2577477 ATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 --AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTG
* *
2577522 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-T---G
*
2577569 ATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
1 --AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGG
2577610 GCTTAGAAGG
Statistics
Matches: 557, Mismatches: 84, Indels: 88
0.76 0.12 0.12
Matches are distributed among these distances:
43 284 0.51
44 10 0.02
45 3 0.01
46 2 0.00
47 6 0.01
48 109 0.20
49 74 0.13
50 2 0.00
51 4 0.01
52 2 0.00
53 61 0.11
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.23
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTG
Found at i:2576984 original size:96 final size:98
Alignment explanation
Indices: 2576624--2577524 Score: 807
Period size: 91 Copynumber: 9.4 Consensus size: 98
2576614 TTAAAGATGA
* *
2576624 AGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAAGATGACAAATGCGCCAATAT
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAGGCGCCAATAT
* *
2576689 GCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGA
66 GCTGATTCAAGGCCAGCGATATTGGACTT--AG--GG
* *
2576726 AGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAGGTGCCAATAT
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAGGCGCCAATAT
* *
2576791 GCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGA
66 GCTGATTCAAGGCCAGCGATATTGGACTT--AG--GG
* *
2576828 AGGTGCCAATGTGCTGATTAAAGGCCAGCGACATTGAACTTAAAAGATGACAAAGGCGCCAATAT
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAGGCGCCAATAT
2576893 GCTGATTCAAGGCCAGCGATATTGGAC-T-GGG
66 GCTGATTCAAGGCCAGCGATATTGGACTTAGGG
* * *
2576924 AGCTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAAAAGATGACAAAGGCGCCAATAT
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAGGCGCCAATAT
* *
2576989 GCTGATTCAAGACTAGCGATATTGGAC-T-GGG
66 GCTGATTCAAGGCCAGCGATATTGGACTTAGGG
* *
2577020 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGCCTTAAAAGATGACAAAGGCGCAAATAT
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAGGCGCCAATAT
2577085 GCTGATTCAAGGCCAGCGATATTGGACTTAAGGG
66 GCTGATTCAAGGCCAGCGATATTGGACTT-AGGG
* *
2577119 A---GCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC-T------T---AAAGGTGCCAATGT
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAGGCGCCAATAT
* * **
2577171 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGACA
66 GCTGATTCAAGGCCAGCGATATTGGACTT--AG-GG
* * * * *
2577207 AGGTGCCAATATGCTGATTCAAGGACAGCGATATTGGAC-T------T---AAAGGTGCCAATGT
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAGGCGCCAATAT
* * **
2577262 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGACA
66 GCTGATTCAAGGCCAGCGATATTGGACTT--AG-GG
* * * * * *
2577298 AAGTGCAAATATGCTGATTCAAGGCCAGCGATATTGGAC-T------T---AAAGGTGCCAATGT
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAGGCGCCAATAT
* * **
2577353 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
66 GCTGATTCAAGGCCAGCGATATTGGACTT--AG-GG
* * * *
2577389 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T------T---AAAGGTGCCAATGT
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAGGCGCCAATAT
* * **
2577444 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAA
66 GCTGATTCAAGGCCAGCGATATTGGACTT--AG--GG
* *
2577481 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA
2577525 GGTGCCAATG
Statistics
Matches: 742, Mismatches: 44, Indels: 32
0.91 0.05 0.04
Matches are distributed among these distances:
86 38 0.05
87 3 0.00
88 1 0.00
89 1 0.00
91 257 0.35
92 40 0.05
93 1 0.00
95 1 0.00
96 210 0.28
97 1 0.00
98 1 0.00
99 4 0.01
101 1 0.00
102 183 0.25
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (98 bp):
AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAGGCGCCAATAT
GCTGATTCAAGGCCAGCGATATTGGACTTAGGG
Found at i:2577248 original size:91 final size:91
Alignment explanation
Indices: 2577084--2577619 Score: 904
Period size: 91 Copynumber: 5.9 Consensus size: 91
2577074 GGCGCAAATA
* * * *
2577084 TGCTGATTCAAGGCCAGCGATATTGGACTT-AAG----GGAGCCAATGTGCTGATTCAAGGCCAG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAGGTGCCAATATGCTGATTCAAGGCCAG
*
2577144 CGACATTGGACTTAAAGGTGCCAATG
66 CGATATTGGACTTAAAGGTGCCAATG
* *
2577170 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGACAAGGTGCCAATATGCTGATTCAAGGACAG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAGGTGCCAATATGCTGATTCAAGGCCAG
2577235 CGATATTGGACTTAAAGGTGCCAATG
66 CGATATTGGACTTAAAGGTGCCAATG
*
2577261 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGACAAA-GTGCAAATATGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AAAGGTGCCAATATGCTGATTCAAGGCCA
2577325 GCGATATTGGACTTAAAGGTGCCAATG
65 GCGATATTGGACTTAAAGGTGCCAATG
*
2577352 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGCCAATATGCTGATTCAAGGCCAG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAGGTGCCAATATGCTGATTCAAGGCCAG
2577417 CGATATTGGACTTAAAGGTGCCAATG
66 CGATATTGGACTTAAAGGTGCCAATG
2577443 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AAAGGTGCCAATATGCTGATTCAAGGCCA
2577508 GCGATATTGGACTTAAAGGTGCCAATG
65 GCGATATTGGACTTAAAGGTGCCAATG
2577535 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AAAGGTGCCAATATGCTGATTCAAGGCCA
*
2577600 GCGATATTGGGCTTAGAAGG
65 GCGATATTGGACTTA-AAGG
2577620 GTTGCCACCG
Statistics
Matches: 428, Mismatches: 13, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
86 28 0.07
87 3 0.01
90 2 0.00
91 255 0.60
92 136 0.32
93 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (91 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAGGTGCCAATATGCTGATTCAAGGCCAG
CGATATTGGACTTAAAGGTGCCAATG
Found at i:2577658 original size:33 final size:33
Alignment explanation
Indices: 2577614--2577710 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
2577604 TATTGGGCTT
*
2577614 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
*
2577647 AGAATGGTTGCCACCAACTTGTGTGGGC-TT-G
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
*
2577678 AGAGGGGATTGCCACCAACTTGTGTGGGCTTTA
1 AGAAGGG-TTGCCACCAACTTGTGTGGGCTTTA
2577711 AAAAGAAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
31 6 0.11
32 23 0.40
33 28 0.49
ACGTcount: A:0.20, C:0.19, G:0.34, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
Found at i:2586004 original size:13 final size:13
Alignment explanation
Indices: 2585986--2586010 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2585976 CAAAGATCAG
2585986 TGTATCGATACAA
1 TGTATCGATACAA
2585999 TGTATCGATACA
1 TGTATCGATACA
2586011 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2593263 original size:54 final size:54
Alignment explanation
Indices: 2593182--2593288 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 54
2593172 ATAAAACCAA
2593182 AAAATACTTTGAAAAATCATAACAAGTTTTATTCACTTAAAAATACTCTAAAAG
1 AAAATACTTTGAAAAATCATAACAAGTTTTATTCACTTAAAAATACTCTAAAAG
* * *
2593236 AAAATACTTTGAAAAATCGTAATAAGTTTTTTTCACTTAAAAATACTCTAAAA
1 AAAATACTTTGAAAAATCATAACAAGTTTTATTCACTTAAAAATACTCTAAAA
2593289 ACCTTGCTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.34
Consensus pattern (54 bp):
AAAATACTTTGAAAAATCATAACAAGTTTTATTCACTTAAAAATACTCTAAAAG
Found at i:2599825 original size:13 final size:13
Alignment explanation
Indices: 2599807--2599843 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
2599797 GAGGATCTTA
2599807 GTATCGATATATT
1 GTATCGATATATT
*
2599820 GTATCGATACATT
1 GTATCGATATATT
2599833 GTATCGATATA
1 GTATCGATATA
2599844 GGGGCACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (13 bp):
GTATCGATATATT
Found at i:2602311 original size:54 final size:54
Alignment explanation
Indices: 2602248--2602354 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
2602238 ATAAAACCAA
* *
2602248 AAAATACTTTGAAAAA-CTGTAAAAAGTTTTATTCATTTAAAAATACTCTAAAAG
1 AAAATACTTTGAAAAATC-ATAAAAAGTTTTATTCACTTAAAAATACTCTAAAAG
* *
2602302 AAAATACTTTGAAAAATCATAATAAGTTTTATTCACTTAAAAATACTTTAAAA
1 AAAATACTTTGAAAAATCATAAAAAGTTTTATTCACTTAAAAATACTCTAAAA
2602355 ACCTTGCTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 47 0.98
55 1 0.02
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (54 bp):
AAAATACTTTGAAAAATCATAAAAAGTTTTATTCACTTAAAAATACTCTAAAAG
Found at i:2602617 original size:18 final size:19
Alignment explanation
Indices: 2602579--2602617 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
2602569 CATGATCTTG
2602579 GTATCAATACATAGTAAATT
1 GTATCAATACATAG-AAATT
*
2602599 GTATCTATACATA-AAATT
1 GTATCAATACATAGAAATT
2602617 G
1 G
2602618 ACAGTAGCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (19 bp):
GTATCAATACATAGAAATT
Found at i:2604370 original size:20 final size:19
Alignment explanation
Indices: 2604345--2604398 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
2604335 CTACCACTGT
2604345 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
*
2604365 TTGTATCAATACATGATGAA
1 TTGTATCGATACATGA-GAA
2604385 TTGTATCGATACAT
1 TTGTATCGATACAT
2604399 TGCTTCAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:2605981 original size:3 final size:3
Alignment explanation
Indices: 2605966--2605999 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
2605956 AACCATCAAA
* *
2605966 GAT GAT GAA GAT GAT GAT GAT GAT AAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
2606000 GTGACTCGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:2610694 original size:21 final size:22
Alignment explanation
Indices: 2610670--2610719 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
2610660 ATCAAATCTT
* *
2610670 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
2610691 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
2610713 --TCAAAAT
1 CTTCAAAAT
2610720 CATCAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:2613197 original size:13 final size:13
Alignment explanation
Indices: 2613179--2613203 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2613169 TACATGGCAC
2613179 ATTGTATCGATAT
1 ATTGTATCGATAT
2613192 ATTGTATCGATA
1 ATTGTATCGATA
2613204 CATGATGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTGTATCGATAT
Found at i:2613197 original size:33 final size:32
Alignment explanation
Indices: 2613160--2613228 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 32
2613150 CTACCACTAT
*
2613160 TTGTATCGATACATG-GCACATTGTATCGATATA
1 TTGTATCGATACATGAG-A-ATTGTATCGATACA
2613193 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGA-GAATTGTATCGATACA
2613226 TTG
1 TTG
2613229 CTTCAAACGG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
33 31 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACATGAGAATTGTATCGATACA
Found at i:2616264 original size:95 final size:95
Alignment explanation
Indices: 2616147--2616333 Score: 311
Period size: 95 Copynumber: 2.0 Consensus size: 95
2616137 GCATTATTTC
*
2616147 ATGTGAATCTACAATTTAAGTAACATTTGCATTAGCATCGTGGCATGAACATTTACACCTTTGGA
1 ATGTGAATCTACAATTTAAGTAACATTTGCATTAGCATCGTGCCATGAACATTTACACCTTTGGA
*
2616212 TGACATTACCATTCACATATTTTCACACGG
66 TGACATTACCATTCACATAATTTCACACGG
* * *
2616242 ATGTGAATTTGCAATTTAAGTAACATTTGCATTAGCATCGTGCCATGAACATTTACACTTTTGGA
1 ATGTGAATCTACAATTTAAGTAACATTTGCATTAGCATCGTGCCATGAACATTTACACCTTTGGA
* *
2616307 TGACATTAGCATTTACATAATTTCACA
66 TGACATTACCATTCACATAATTTCACA
2616334 TGCATTTGCC
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
95 85 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (95 bp):
ATGTGAATCTACAATTTAAGTAACATTTGCATTAGCATCGTGCCATGAACATTTACACCTTTGGA
TGACATTACCATTCACATAATTTCACACGG
Found at i:2616656 original size:58 final size:59
Alignment explanation
Indices: 2616586--2616747 Score: 202
Period size: 58 Copynumber: 2.8 Consensus size: 59
2616576 GCTCATATAT
* * * **
2616586 AGTCATTTTTAGGTTTTTGGTTTTATCTAAGCCATTTCA-TTGAGTATTAGATTT-TTCA
1 AGTCAATTTTAGGTTTTTGGTTTCATCCAAGCCATTT-AGTTGAGTATTAGATTTGCCCA
* * * * *
2616644 AGTTAATTTTAGGTTTTTGGTTTCGTCCAAGCCATTTAGTTGAGTTTTGGGTTTGCCCA
1 AGTCAATTTTAGGTTTTTGGTTTCATCCAAGCCATTTAGTTGAGTATTAGATTTGCCCA
*
2616703 AGTCAATTTCAGGTTTTTGGTTTCATCCAAGCCATTTAGTTGAGT
1 AGTCAATTTTAGGTTTTTGGTTTCATCCAAGCCATTTAGTTGAGT
2616748 CTATGGCTTC
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
57 1 0.01
58 44 0.49
59 44 0.49
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.47
Consensus pattern (59 bp):
AGTCAATTTTAGGTTTTTGGTTTCATCCAAGCCATTTAGTTGAGTATTAGATTTGCCCA
Found at i:2616692 original size:30 final size:30
Alignment explanation
Indices: 2616658--2616747 Score: 89
Period size: 30 Copynumber: 3.0 Consensus size: 30
2616648 AATTTTAGGT
2616658 TTTTGGTTTCGTCCAAGCCATTTAGTTGAG
1 TTTTGGTTTCGTCCAAGCCATTTAGTTGAG
* * *
2616688 TTTTGGGTTT-GCCCAAGTCAATTTCAG--G-T
1 TTTT-GGTTTCGTCCAAG-CCATTT-AGTTGAG
*
2616717 TTTTGGTTTCATCCAAGCCATTTAGTTGAG
1 TTTTGGTTTCGTCCAAGCCATTTAGTTGAG
2616747 T
1 T
2616748 CTATGGCTTC
Statistics
Matches: 46, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
27 2 0.04
28 10 0.22
29 10 0.22
30 12 0.26
31 10 0.22
32 2 0.04
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (30 bp):
TTTTGGTTTCGTCCAAGCCATTTAGTTGAG
Found at i:2616724 original size:59 final size:59
Alignment explanation
Indices: 2616642--2616827 Score: 187
Period size: 59 Copynumber: 3.1 Consensus size: 59
2616632 TTAGATTTTT
* * *
2616642 CAAGTTAATTTTAGGTTTTTGGTTTCGTCCAAGCCATTTAGTTGAGTTTTGGGTTTGCC
1 CAAGTCAATTTAAGGTTTTTGGTTTCGTCCAAGCCATTTAGTTGAGTTTTGGCTTTGCC
* * * **
2616701 CAAGTCAATTTCAGGTTTTTGGTTTCATCCAAGCCATTTAGTTGAGTCTATGGCTTCACC
1 CAAGTCAATTTAAGGTTTTTGGTTTCGTCCAAGCCATTTAGTTGAGT-TTTGGCTTTGCC
* * * * * * *
2616761 TAAGTC-ATTGCTAAGGCTTTTGGTTTTGTCC-AGACCATTTTGTTGAGTCTTGGTTTTGCT
1 CAAGTCAATT--TAAGGTTTTTGGTTTCGTCCAAG-CCATTTAGTTGAGTTTTGGCTTTGCC
2616821 CAAGTCA
1 CAAGTCA
2616828 TTGTATAGGT
Statistics
Matches: 102, Mismatches: 20, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
59 47 0.46
60 26 0.25
61 29 0.28
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (59 bp):
CAAGTCAATTTAAGGTTTTTGGTTTCGTCCAAGCCATTTAGTTGAGTTTTGGCTTTGCC
Found at i:2616885 original size:60 final size:56
Alignment explanation
Indices: 2616792--2616945 Score: 154
Period size: 56 Copynumber: 2.7 Consensus size: 56
2616782 GGTTTTGTCC
**
2616792 AGACCATTTTGTTGAGTCTTGGTTTTGCTCAAGTCATTGTATAGGTTTCTAATTTTATCT
1 AGACCATTTCATTGAGTCTTGGTTTTGCTCAAGTCA---T-TAGGTTTCTAATTTTATCT
* * * * *
2616852 AGGCCATTTCATTGAGTCTTGG-TTT-CATCCAAGTCATTAGGTTTTTAGTTTTGTTT
1 AGACCATTTCATTGAGTCTTGGTTTTGC-T-CAAGTCATTAGGTTTCTAATTTTATCT
2616908 AGACCATTTCATTGAGTCTTGGTTTT--TCGAAGTCATTA
1 AGACCATTTCATTGAGTCTTGGTTTTGCTC-AAGTCATTA
2616946 TCTAGGTTCT
Statistics
Matches: 82, Mismatches: 8, Indels: 13
0.80 0.08 0.13
Matches are distributed among these distances:
54 1 0.01
55 10 0.12
56 36 0.44
57 4 0.05
58 1 0.01
59 4 0.05
60 26 0.32
ACGTcount: A:0.20, C:0.14, G:0.19, T:0.47
Consensus pattern (56 bp):
AGACCATTTCATTGAGTCTTGGTTTTGCTCAAGTCATTAGGTTTCTAATTTTATCT
Found at i:2616886 original size:120 final size:116
Alignment explanation
Indices: 2616652--2616933 Score: 270
Period size: 120 Copynumber: 2.4 Consensus size: 116
2616642 CAAGTTAATT
* * * *
2616652 TTAGGTTTTTGGTTTCGTCCA-AGCCATTTAGTTGAGTTTTGGGTTTGCCCAAGTCAATTTCAGG
1 TTAGGCTTTTGGTTTTGTCCAGA-CCATTTAGTTGAGTCTTGGTTTTGCCCAAGTCAATTTCAGG
* **
2616716 TTTTTGGTTTCATCCAAGCCATTTAGTTGAGTCTATGGCTTCACCTAAGTCA
65 TTTCTAATTTCATCCAAGCCATTTAGTTGAGTCTATGGCTTCACCTAAGTCA
* *
2616768 TTGCTAAGGCTTTTGGTTTTGTCCAGACCATTTTGTTGAGTCTTGGTTTTGCTCAAGTC-ATTGT
1 -T--T-AGGCTTTTGGTTTTGTCCAGACCATTTAGTTGAGTCTTGGTTTTGCCCAAGTCAATT-T
* * * * *
2616832 ATAGGTTTCTAATTTTATCTAGGCCATTTCA-TTGAGTCT-TGGTTTCATCC-AAGTCA
61 -CAGGTTTCTAATTTCATCCAAGCCATTT-AGTTGAGTCTATGGCTTCA-CCTAAGTCA
* * **
2616888 TTAGGTTTTTAGTTTTGTTTAGACCATTTCA-TTGAGTCTTGGTTTT
1 TTAGGCTTTTGGTTTTGTCCAGACCATTT-AGTTGAGTCTTGGTTTT
2616934 TCGAAGTCAT
Statistics
Matches: 137, Mismatches: 19, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
116 38 0.28
117 2 0.01
119 5 0.04
120 59 0.43
121 32 0.23
122 1 0.01
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.45
Consensus pattern (116 bp):
TTAGGCTTTTGGTTTTGTCCAGACCATTTAGTTGAGTCTTGGTTTTGCCCAAGTCAATTTCAGGT
TTCTAATTTCATCCAAGCCATTTAGTTGAGTCTATGGCTTCACCTAAGTCA
Found at i:2618181 original size:131 final size:132
Alignment explanation
Indices: 2617993--2618269 Score: 319
Period size: 131 Copynumber: 2.1 Consensus size: 132
2617983 TTAGGTTTCA
* * * * * *
2617993 CCTAGTGACCCTTTGATGGTTTGTATTGTTTCATCCCACCCAACATTGTTTTGACTTA-GTTTTC
1 CCTAGTCACCCTTTGATAGTTTGTATGGTTTCATCCCAACCAACATTGTTTTAACTTAGGTTCT-
* * * *
2618057 GCCCTAGTCTCCCTTTGTTGG-TCTGTATAGTTTTCTCTTGGTCAATTCTTTTTCAACTTAGATT
65 ACCCTAGTCACCCTTTGTTGGTTC-GTATAGTTTTCTCTTGGCCAACTCTTTTTCAACTTAGATT
*
2618121 TTAC
129 CTAC
* * * *
2618125 CCTAGTTACCCTTT-ATTAGTTTGTATGGTTTTATCCCAACCAA-TTTTTTTTAACTTAGGTTCT
1 CCTAGTCACCCTTTGA-TAGTTTGTATGGTTTCATCCCAACCAACATTGTTTTAACTTAGGTTCT
* * ** *
2618188 ACCCTAGTCACCCTTTGTTGGTTCGTATGGTTTTGTCTTGGCCAACTCTTTTTTTACTTAGGTTC
65 ACCCTAGTCACCCTTTGTTGGTTCGTATAGTTTTCTCTTGGCCAACTCTTTTTCAACTTAGATTC
2618253 TAC
130 TAC
2618256 CCTAGTCACCCTTT
1 CCTAGTCACCCTTT
2618270 TTTGGTTCAC
Statistics
Matches: 122, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
131 80 0.66
132 42 0.34
ACGTcount: A:0.16, C:0.23, G:0.14, T:0.46
Consensus pattern (132 bp):
CCTAGTCACCCTTTGATAGTTTGTATGGTTTCATCCCAACCAACATTGTTTTAACTTAGGTTCTA
CCCTAGTCACCCTTTGTTGGTTCGTATAGTTTTCTCTTGGCCAACTCTTTTTCAACTTAGATTCT
AC
Found at i:2618432 original size:66 final size:66
Alignment explanation
Indices: 2617507--2618504 Score: 473
Period size: 66 Copynumber: 15.1 Consensus size: 66
2617497 TTACCTTGGT
* * *** *
2617507 CAAC-CTTTTCTTGACTTAGG-TTTAGCCTTAGTCATCTAAAGTTGGTTCATATGGTTTTGTCTC
1 CAACTCTTTT-TTGACTTAGGTTTTA-CCCTAGTCACCTTTTGTTGGTTCATATGGTTTTATC-C
2617570 T-GC
63 TAGC
* * * * * * * * *
2617573 CAA-TTTTTTTTTACTTAGGTTCTACCTTTGTCACCTTTTGTTGTTTCATATGGCTTCATCCCAG
1 CAACTCTTTTTTGACTTAGGTTTTACCCTAGTCACCTTTTGTTGGTTCATATGGTTTTATCCTAG
2617637 C
66 C
* ** * * * * * * * *
2617638 CAACTCCTTTTCAACTTAGATTCTGCCCTAGTCAACTTTTTTTGGTTTATATGGTTTTGTCCCAG
1 CAACTCTTTTTTGACTTAGGTTTTACCCTAGTCACCTTTTGTTGGTTCATATGGTTTTATCCTAG
2617703 C
66 C
* ** * ** ** * * *
2617704 CAATTCTTTTTCAACTTAAGTTCCACTTTGGTCACCCTTTGTTGGTTTC-TATGGTTTTATACTA
1 CAACTCTTTTTTGACTTAGGTTTTACCCTAGTCACCTTTTGTTGG-TTCATATGGTTTTATCCTA
*
2617768 CC
65 GC
* * * * *
2617770 CAACT-TCTTTTTAACTTAGGTTTTACTCTGGTCACCCTTTGTTGGTTCATATGGTTTCATCCT-
1 CAACTCT-TTTTTGACTTAGGTTTTACCCTAGTCACCTTTTGTTGGTTCATATGGTTTTATCCTA
2617833 GAC
65 G-C
* * * * * * * * *
2617836 TAAACAC-TTGTTGACTTAGGTTTTGCCCTGGTCACCCTTTATTAGTTCATATAGTTTTATCCTA
1 -CAACTCTTTTTTGACTTAGGTTTTACCCTAGTCACCTTTTGTTGGTTCATATGGTTTTATCCTA
2617900 GC
65 GC
* * * *** * * * * * * *
2617902 TAACCCCTTACCGACTTAGGTTCTACCATGGTTATCTTCTGTTGGTTCATATGGTTTTATCC-CG
1 CAACTCTTTTTTGACTTAGGTTTTACCCTAGTCACCTTTTGTTGGTTCATATGGTTTTATCCTAG
2617966 AC
66 -C
* * * * * * ** * * * *
2617968 CAACCCTTTGTTGACTTAGGTTTCA-CCTAGTGACCCTTTGATGGTTTGTATTGTTTCATCCCAC
1 CAACTCTTTTTTGACTTAGGTTTTACCCTAGTCACCTTTTGTTGGTTCATATGGTTTTATCCTAG
2618032 C
66 C
* * * * * * * *
2618033 CAACAT-TGTTTTGACTTA-GTTTTCGCCCTAGTCTCCCTTTGTTGG-TCTGTATAGTTTTCTCT
1 CAAC-TCTTTTTTGACTTAGGTTTT-ACCCTAGTCACCTTTTGTTGGTTC-ATATGGTTTTATCC
* *
2618095 TGGT
63 TAGC
* ** * * * * * ** * *
2618099 CAATTCTTTTTCAACTTAGATTTTACCCTAGTTACCCTTTATTAGTTTGTATGGTTTTATCCCAA
1 CAACTCTTTTTTGACTTAGGTTTTACCCTAGTCACCTTTTGTTGGTTCATATGGTTTTATCCTAG
2618164 C
66 C
* * * * * * * *
2618165 CAA-TTTTTTTTAACTTAGGTTCTACCCTAGTCACCCTTTGTTGGTTCGTATGGTTTTGTCTTGG
1 CAACTCTTTTTTGACTTAGGTTTTACCCTAGTCACCTTTTGTTGGTTCATATGGTTTTATCCTAG
2618229 C
66 C
* * * * *
2618230 CAACTCTTTTTTTACTTAGGTTCTACCCTAGTCACCCTTTT-TTGGTTCACATGGTTTCAT-CTC
1 CAACTCTTTTTTGACTTAGGTTTTACCCTAGTCA-CCTTTTGTTGGTTCATATGGTTTTATCCTA
2618293 GAC
65 G-C
** * * * * *
2618296 CAACT-TTTTTTCGACTTAGGTTTTAAACTAAGTCACCTTTTATTGGCTCGTATGGTTTCATCCC
1 CAACTCTTTTTT-GACTTAGGTTTTACCCT-AGTCACCTTTTGTTGGTTCATATGGTTTTATCCT
*
2618360 ATC
64 AGC
* * * * * *
2618363 CAACTCTTTTTTGACTTAGGTTTTACCCTGGTTACCTTTTATTGGTTCATATGGTTTTGTCGTGG
1 CAACTCTTTTTTGACTTAGGTTTTACCCTAGTCACCTTTTGTTGGTTCATATGGTTTTATCCTAG
2618428 C
66 C
* * * * * * * * * ** * *
2618429 CAACCCCTTATGGACTTAAGTTCTACCTTAATCACCCTTTGTTGGTTTGTATGATTTCATCCTAG
1 CAACTCTTTTTTGACTTAGGTTTTACCCTAGTCACCTTTTGTTGGTTCATATGGTTTTATCCTAG
*
2618494 T
66 C
2618495 CAACCTCTTT
1 CAA-CTCTTT
2618505 GTTGGTTCAT
Statistics
Matches: 701, Mismatches: 201, Indels: 59
0.73 0.21 0.06
Matches are distributed among these distances:
64 5 0.01
65 152 0.22
66 475 0.68
67 62 0.09
68 7 0.01
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.45
Consensus pattern (66 bp):
CAACTCTTTTTTGACTTAGGTTTTACCCTAGTCACCTTTTGTTGGTTCATATGGTTTTATCCTAG
C
Found at i:2618503 original size:133 final size:131
Alignment explanation
Indices: 2618177--2618504 Score: 311
Period size: 133 Copynumber: 2.5 Consensus size: 131
2618167 ATTTTTTTTA
* ** * * *
2618177 ACTTAGGTTCTACCCTAGTCACCCTTTGTTGGTTCGTATGGTTTTGTCTTGGCCAACTCTTTTTT
1 ACTTAGGTTCTA-CCTAATCACCCTTTGTTGGTTCGTATGGTTTCATCCTAGTCAACTCTTTTTT
* *** *
2618242 TACTTAGGTTCTACCCTAGTCACCCTTTTTTGGTTCACATGGTTTCATCTCGACCAACTTTTTTT
65 GACTTAGGTTCTACCCTAGTCACCCTTTTTTGGTTCACATGGTTTCATCTCGACCAACCCCTTAT
2618307 CG
130 CG
* * * * * *
2618309 ACTTAGGTTTTAAACTAAGTCACCTTTTATTGGCTCGTATGGTTTCATCCCA-TCCAACTCTTTT
1 ACTTAGGTTCT-ACCTAA-TCACCCTTTGTTGGTTCGTATGGTTTCATCCTAGT-CAACTCTTTT
* * * * ** *
2618373 TTGACTTAGGTTTTACCCTGGTTA-CCTTTTATTGGTTCATATGGTTTTGTCGT-GGCCAACCCC
63 TTGACTTAGGTTCTACCCTAGTCACCCTTTT-TTGGTTCACATGGTTTCATC-TCGACCAACCCC
*
2618436 TTATGG
126 TTATCG
* * *
2618442 ACTTAAGTTCTACCTTAATCACCCTTTGTTGGTTTGTATGATTTCATCCTAGTCAACCTCTTT
1 ACTTAGGTTCTACC-TAATCACCCTTTGTTGGTTCGTATGGTTTCATCCTAGTCAA-CTCTTT
2618505 GTTGGTTCAT
Statistics
Matches: 154, Mismatches: 34, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
132 51 0.33
133 102 0.66
134 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.44
Consensus pattern (131 bp):
ACTTAGGTTCTACCTAATCACCCTTTGTTGGTTCGTATGGTTTCATCCTAGTCAACTCTTTTTTG
ACTTAGGTTCTACCCTAGTCACCCTTTTTTGGTTCACATGGTTTCATCTCGACCAACCCCTTATC
G
Found at i:2618800 original size:66 final size:65
Alignment explanation
Indices: 2618497--2618800 Score: 245
Period size: 66 Copynumber: 4.6 Consensus size: 65
2618487 ATCCTAGTCA
* * * * * * * *
2618497 ACCTCTTTGTTGGTTCATATGGTTTCATCTCGACTAACTCTTTTTTTTTATTTAGCTTCGACCTT
1 ACCT-TTTGTTGGTTCATATGGTTTTATCTCTACCAACTC--CTTTTTAACTTAGGTTCCACC-T
*
2618562 GGTT
62 GGTC
* * * * * * *
2618566 ACCTTTTGTTGGTTCATATGGTTTTATTTCAAGCAACACTTTTTTTA-TTGAGGTTCTACCCTGG
1 ACCTTTTGTTGGTTCATATGGTTTTATCTCTACCAACTCCTTTTTAACTT-AGGTTCCA-CCTGG
2618630 TC
64 TC
* * * * *
2618632 ACCTTTTTATTGATTCATATGGTTTCATC-CTAGCCAACTCCTTTTTGACTTAGGTTTCACCTTG
1 ACC-TTTTGTTGGTTCATATGGTTTTATCTCTA-CCAACTCCTTTTTAACTTAGGTTCCACC-TG
2618696 GTC
63 GTC
* * * *
2618699 ACCCTTTGTTAGTTCATATAGTTTTATCT-TAACCAACTCCTTTTCAACTTAGGTTCCACACTGG
1 ACCTTTTGTTGGTTCATATGGTTTTATCTCT-ACCAACTCCTTTTTAACTTAGGTTCCAC-CTGG
2618763 TC
64 TC
* *
2618765 ACCTTTTGTTGGCTCATATGGTTTTGTCTCTACCAA
1 ACCTTTTGTTGGTTCATATGGTTTTATCTCTACCAA
2618801 GCCCTTAAAC
Statistics
Matches: 191, Mismatches: 34, Indels: 23
0.77 0.14 0.09
Matches are distributed among these distances:
65 2 0.01
66 103 0.54
67 51 0.27
68 31 0.16
69 4 0.02
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (65 bp):
ACCTTTTGTTGGTTCATATGGTTTTATCTCTACCAACTCCTTTTTAACTTAGGTTCCACCTGGTC
Found at i:2618905 original size:40 final size:40
Alignment explanation
Indices: 2618841--2618961 Score: 125
Period size: 41 Copynumber: 3.0 Consensus size: 40
2618831 GTCAACCTCT
* * *
2618841 TCATATGGTTTTGTCCCAACCAACCCTTAAACTTGTTAAC
1 TCATATGGTTTTATCCCGATCAACCCTTAAACTTGTTAAC
* * * *
2618881 TCGTATGGTTTTATCCCGATCAACCCCCTAAACTCGTTGAC
1 TCATATGGTTTTATCCCGATCAA-CCCTTAAACTTGTTAAC
* * **
2618922 TTATATGGTTTCATTGCGATCAACCCTTTAAACTTGTTAA
1 TCATATGGTTTTATCCCGATCAACCC-TTAAACTTGTTAA
2618962 GTTTATGATT
Statistics
Matches: 64, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
40 22 0.34
41 42 0.66
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (40 bp):
TCATATGGTTTTATCCCGATCAACCCTTAAACTTGTTAAC
Found at i:2620138 original size:26 final size:25
Alignment explanation
Indices: 2620099--2620151 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
2620089 AAAAAAAATT
*
2620099 AAAATTTATATTTGTGTTATTATAGAA
1 AAAATTTATATTTGGGTTA-TATA-AA
*
2620126 AAAATTT-TGTTTGGGTTATATAAA
1 AAAATTTATATTTGGGTTATATAAA
2620150 AA
1 AA
2620152 TTTTGAAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 4 0.17
25 4 0.17
26 9 0.38
27 7 0.29
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (25 bp):
AAAATTTATATTTGGGTTATATAAA
Found at i:2620363 original size:13 final size:13
Alignment explanation
Indices: 2620345--2620391 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
2620335 ATTGCTACAT
2620345 TTTTTTTCATGAC
1 TTTTTTTCATGAC
*
2620358 TTTTTTTCATGAGT
1 TTTTTTTCATGA-C
*
2620372 TTTTTTTCATGAG
1 TTTTTTTCATGAC
2620385 TTTTTTT
1 TTTTTTT
2620392 TTTTAAGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
13 19 0.61
14 12 0.39
ACGTcount: A:0.13, C:0.09, G:0.11, T:0.68
Consensus pattern (13 bp):
TTTTTTTCATGAC
Found at i:2620363 original size:14 final size:14
Alignment explanation
Indices: 2620344--2620392 Score: 82
Period size: 14 Copynumber: 3.6 Consensus size: 14
2620334 AATTGCTACA
2620344 TTTTTTTTCATGA-
1 TTTTTTTTCATGAG
*
2620357 CTTTTTTTCATGAG
1 TTTTTTTTCATGAG
2620371 TTTTTTTTCATGAG
1 TTTTTTTTCATGAG
2620385 TTTTTTTT
1 TTTTTTTT
2620393 TTTAAGTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
13 12 0.36
14 21 0.64
ACGTcount: A:0.12, C:0.08, G:0.10, T:0.69
Consensus pattern (14 bp):
TTTTTTTTCATGAG
Found at i:2623044 original size:97 final size:97
Alignment explanation
Indices: 2622697--2623031 Score: 422
Period size: 97 Copynumber: 3.5 Consensus size: 97
2622687 TTGAAAGATG
* ** * * * * * * *
2622697 GGGTTGGAGTATCCCCTCGGAAGAATGGAGTTAGAGTATCCCCGACT-ATAATAAATTAGGCAAA
1 GGGTTGGAGTATCCCTTCAAAAGAATGGGGTTGGAGTATCCCCGA-TGATGACAATTTAAGTAAA
* * * * * * *
2622761 AATGAGAGTTAAGTCTTGACATGTTGAAAAACA
65 GATAAGACTTAAATCTTGACAAGTTTAAAAGCA
* * **
2622794 AGATTGGAGTATCCCCTT-GGAAGAATGGGGTTGGAGTATCCCCGATGATGACAATTTAAGTAAA
1 GGGTTGGAGTAT-CCCTTCAAAAGAATGGGGTTGGAGTATCCCCGATGATGACAATTTAAGTAAA
2622858 GATAAGACTTAAATCTTGACAAGTTTAAAAGCA
65 GATAAGACTTAAATCTTGACAAGTTTAAAAGCA
*
2622891 GGGTTGGAGTATCCCTTCAAAAGAATGGGGTTGGAGTATCCTCGATGATGACAATTTAAGTAAAG
1 GGGTTGGAGTATCCCTTCAAAAGAATGGGGTTGGAGTATCCCCGATGATGACAATTTAAGTAAAG
*
2622956 ATAAGGCTTAAATCTTGACAAGTTTAAAAGCA
66 ATAAGACTTAAATCTTGACAAGTTTAAAAGCA
*
2622988 GGGTTGGAGTATCCCTTCAAAAGAATGGGGTTGGAGTGTCCCCG
1 GGGTTGGAGTATCCCTTCAAAAGAATGGGGTTGGAGTATCCCCG
2623032 TGAATAAAAA
Statistics
Matches: 210, Mismatches: 25, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
96 6 0.03
97 200 0.95
98 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (97 bp):
GGGTTGGAGTATCCCTTCAAAAGAATGGGGTTGGAGTATCCCCGATGATGACAATTTAAGTAAAG
ATAAGACTTAAATCTTGACAAGTTTAAAAGCA
Found at i:2625296 original size:20 final size:20
Alignment explanation
Indices: 2625269--2625344 Score: 134
Period size: 20 Copynumber: 3.8 Consensus size: 20
2625259 TCAAAAGCTC
*
2625269 AAAATGTATCGATACAATGA
1 AAAATGTATCGATACAATTA
*
2625289 ATAATGTATCGATACAATTA
1 AAAATGTATCGATACAATTA
2625309 AAAATGTATCGATACAATTA
1 AAAATGTATCGATACAATTA
2625329 AAAATGTATCGATACA
1 AAAATGTATCGATACA
2625345 TTTTCTTTCC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.29
Consensus pattern (20 bp):
AAAATGTATCGATACAATTA
Found at i:2627631 original size:88 final size:89
Alignment explanation
Indices: 2627274--2628142 Score: 850
Period size: 89 Copynumber: 9.9 Consensus size: 89
2627264 ATAAAATTAA
* * * * * *
2627274 TCTTGGAACTCGAAAGATATGATAGATACATGTGGGTATCAAATTTCTTTTGACACGATAGAAAA
1 TCTTGGAACTCGAAAGATGTGATAGATGCATGTGGGTATCAGATTCCTTCTGACATGATAGAAAA
2627339 TATTTCACTAATGCCTAATAAATT
66 TATTTCACTAATGCCTAATAAATT
* * * ** * * * *
2627363 TCTTGGAAC-CTAAAAGATGTGACAAATGCATACGGGTATCAGATTCTTTCTGATAAGATAAAAA
1 TCTTGGAACTC-GAAAGATGTGATAGATGCATGTGGGTATCAGATTCCTTCTGACATGATAGAAA
*
2627427 ATATTTGACTAATGCCTAATAAATT
65 ATATTTCACTAATGCCTAATAAATT
** ** ** * * * *
2627452 TCTTAAAACTTAAAAGACATAATAGATGCATGTGGGTATCAGATTCCTTCTGACACGACAAAAAA
1 TCTTGGAACTCGAAAGATGTGATAGATGCATGTGGGTATCAGATTCCTTCTGACATGATAGAAAA
*
2627517 TATTTGACTAATGCCTAATAAATT
66 TATTTCACTAATGCCTAATAAATT
** * * * *
2627541 TCTTGGAACTTAAAAGATGTGATAAATGCATG-GGGTATCAAATTCCTTCTCG-CACGACAGAAA
1 TCTTGGAACTCGAAAGATGTGATAGATGCATGTGGGTATCAGATTCCTTCT-GACATGATAGAAA
* *
2627604 ATATTTCACTAATACCTAATAAGTT
65 ATATTTCACTAATGCCTAATAAATT
* * * * *
2627629 TCTTGGAACCCGAAAGATGTGACAGATACATGTGGGTATTAGATTCCTTCTGACATGATAAAAAA
1 TCTTGGAACTCGAAAGATGTGATAGATGCATGTGGGTATCAGATTCCTTCTGACATGATAGAAAA
2627694 TATTTCACTAATGCCTAATAAATT
66 TATTTCACTAATGCCTAATAAATT
* * * * * *
2627718 TTTTGGAAC-CCAAAGATATGA-ATGATGCATGTAGGTATCAAATTCCTTCTG-CTATAATAGAA
1 TCTTGGAACTCGAAAGATGTGATA-GATGCATGTGGGTATCAGATTCCTTCTGAC-ATGATAGAA
* *
2627780 AATATTTCATTAATGTCTAATAAATT
64 AATATTTCACTAATGCCTAATAAATT
** * * * * *
2627806 TCTTAAAACTTGAAAGATGTGAGAAATGCATG-GGGTATCAAATTCCTTCTAACATGATAGAAAA
1 TCTTGGAACTCGAAAGATGTGATAGATGCATGTGGGTATCAGATTCCTTCTGACATGATAGAAAA
* *
2627870 TATTTCACTAATGCATACTAAATT
66 TATTTCACTAATGCCTAATAAATT
** * * * * *
2627894 TCTTAAAACCCGAAAGATGTGAGAGATGCATAT-AG-AT---ATTCCTTCTGACATGATAGAACA
1 TCTTGGAACTCGAAAGATGTGATAGATGCATGTGGGTATCAGATTCCTTCTGACATGATAGAAAA
* *
2627954 TATTTGAGTAATGCCTAATAAATT
66 TATTTCACTAATGCCTAATAAATT
* * * * * *
2627978 TCTTGAAACTCGAAAGATGTGATAGATGTATGTGGGTATCAGATTCCTT-TGGATACGACATAAA
1 TCTTGGAACTCGAAAGATGTGATAGATGCATGTGGGTATCAGATTCCTTCT-GACATGATAGAAA
* **
2628042 ATATTTGACTAATATCTAATAAATT
65 ATATTTCACTAATGCCTAATAAATT
* * * ** *
2628067 TCTT-GAACTTGAAAGATGTGACAAATGCATG-AAGTATCAGATTCTTTCTGACATGATAGAAAA
1 TCTTGGAACTCGAAAGATGTGATAGATGCATGTGGGTATCAGATTCCTTCTGACATGATAGAAAA
*
2628130 TATTTCGCTAATG
66 TATTTCACTAATG
2628143 ATACCATAGA
Statistics
Matches: 644, Mismatches: 118, Indels: 38
0.81 0.15 0.05
Matches are distributed among these distances:
84 69 0.11
85 1 0.00
86 2 0.00
87 37 0.06
88 248 0.39
89 286 0.44
90 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (89 bp):
TCTTGGAACTCGAAAGATGTGATAGATGCATGTGGGTATCAGATTCCTTCTGACATGATAGAAAA
TATTTCACTAATGCCTAATAAATT
Found at i:2627694 original size:177 final size:177
Alignment explanation
Indices: 2627274--2628142 Score: 916
Period size: 177 Copynumber: 4.9 Consensus size: 177
2627264 ATAAAATTAA
* * * * * * *
2627274 TCTTGGAACTCGAAAGATATGATAGATACATGTGGGTATCAAATTTCTTTTGACACGATAGAAAA
1 TCTTGAAACTCGAAAGATGTGATAGATGCATGTGGGTATCAGATTCCTTCTGACACGATAAAAAA
2627339 TATTTCACTAATGCCTAATAAATTTCTTGGAACCTAAAAGATGTGACAAATGCAT-ACGGGTATC
66 TATTTCACTAATGCCTAATAAATTTCTTGGAACCTAAAAGATGTGACAAATGCATGA--GGTATC
* * * * * *
2627403 AGATTCTTTCTGATAAGATAAAAAATATTTGACTAATGCCTAATAAATT
129 AAATTCCTTCTGACATGATAGAAAATATTTCACTAATGCCTAATAAATT
* ** ** * *
2627452 TCTTAAAACTTAAAAGACATAATAGATGCATGTGGGTATCAGATTCCTTCTGACACGACAAAAAA
1 TCTTGAAACTCGAAAGATGTGATAGATGCATGTGGGTATCAGATTCCTTCTGACACGATAAAAAA
* * * *
2627517 TATTTGACTAATGCCTAATAAATTTCTTGGAACTTAAAAGATGTGATAAATGCATGGGGTATCAA
66 TATTTCACTAATGCCTAATAAATTTCTTGGAACCTAAAAGATGTGACAAATGCATGAGGTATCAA
* * * *
2627582 ATTCCTTCTCG-CACGACAGAAAATATTTCACTAATACCTAATAAGTT
131 ATTCCTTCT-GACATGATAGAAAATATTTCACTAATGCCTAATAAATT
* * * * * *
2627629 TCTTGGAACCCGAAAGATGTGACAGATACATGTGGGTATTAGATTCCTTCTGACATGATAAAAAA
1 TCTTGAAACTCGAAAGATGTGATAGATGCATGTGGGTATCAGATTCCTTCTGACACGATAAAAAA
* * * *
2627694 TATTTCACTAATGCCTAATAAATTTTTTGGAACC-CAAAGATATGA-ATGATGCATGTAGGTATC
66 TATTTCACTAATGCCTAATAAATTTCTTGGAACCTAAAAGATGTGACA-AATGCATG-AGGTATC
* * *
2627757 AAATTCCTTCTG-CTATAATAGAAAATATTTCATTAATGTCTAATAAATT
129 AAATTCCTTCTGAC-ATGATAGAAAATATTTCACTAATGCCTAATAAATT
* * * * * * * *
2627806 TCTTAAAACTTGAAAGATGTGAGAAATGCATG-GGGTATCAAATTCCTTCTAACATGATAGAAAA
1 TCTTGAAACTCGAAAGATGTGATAGATGCATGTGGGTATCAGATTCCTTCTGACACGATAAAAAA
* * ** ** * * * *
2627870 TATTTCACTAATGCATACTAAATTTCTTAAAACCCGAAAGATGTGAGAGATGCAT-A--TA-GAT
66 TATTTCACTAATGCCTAATAAATTTCTTGGAACCTAAAAGATGTGACAAATGCATGAGGTATCAA
* * *
2627931 ATTCCTTCTGACATGATAGAACATATTTGAGTAATGCCTAATAAATT
131 ATTCCTTCTGACATGATAGAAAATATTTCACTAATGCCTAATAAATT
* * * *
2627978 TCTTGAAACTCGAAAGATGTGATAGATGTATGTGGGTATCAGATTCCTT-TGGATACGACATAAA
1 TCTTGAAACTCGAAAGATGTGATAGATGCATGTGGGTATCAGATTCCTTCT-GACACGATAAAAA
* ** * * *
2628042 ATATTTGACTAATATCTAATAAATTTCTT-GAACTTGAAAGATGTGACAAATGCATGAAGTATCA
65 ATATTTCACTAATGCCTAATAAATTTCTTGGAACCTAAAAGATGTGACAAATGCATGAGGTATCA
* * *
2628106 GATTCTTTCTGACATGATAGAAAATATTTCGCTAATG
130 AATTCCTTCTGACATGATAGAAAATATTTCACTAATG
2628143 ATACCATAGA
Statistics
Matches: 572, Mismatches: 105, Indels: 30
0.81 0.15 0.04
Matches are distributed among these distances:
172 90 0.16
173 51 0.09
175 4 0.01
176 107 0.19
177 213 0.37
178 107 0.19
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (177 bp):
TCTTGAAACTCGAAAGATGTGATAGATGCATGTGGGTATCAGATTCCTTCTGACACGATAAAAAA
TATTTCACTAATGCCTAATAAATTTCTTGGAACCTAAAAGATGTGACAAATGCATGAGGTATCAA
ATTCCTTCTGACATGATAGAAAATATTTCACTAATGCCTAATAAATT
Found at i:2628246 original size:16 final size:16
Alignment explanation
Indices: 2628221--2628254 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2628211 GTCATTATTC
*
2628221 TCATTTTCATTTACTT
1 TCATTGTCATTTACTT
*
2628237 TCATTGTCATTTTCTT
1 TCATTGTCATTTACTT
2628253 TC
1 TC
2628255 CAATTTATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.21, G:0.03, T:0.62
Consensus pattern (16 bp):
TCATTGTCATTTACTT
Found at i:2632407 original size:50 final size:51
Alignment explanation
Indices: 2632342--2632457 Score: 171
Period size: 50 Copynumber: 2.3 Consensus size: 51
2632332 AAAAATAATG
* * *
2632342 GGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTGGAAATAAAATC-
1 GGGTTGGAGTATCCCCAATGGTGAAAAATCAATGTTTTAGAAATAAAACCA
* *
2632392 GGGTTGGAGTATCCCCAATTGTGGAAAATCAATGTTTTAGAAATAAAACCA
1 GGGTTGGAGTATCCCCAATGGTGAAAAATCAATGTTTTAGAAATAAAACCA
*
2632443 GAGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
2632458 TTCAGAAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 45 0.76
51 14 0.24
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCAATGGTGAAAAATCAATGTTTTAGAAATAAAACCA
Found at i:2632480 original size:79 final size:79
Alignment explanation
Indices: 2632392--2632769 Score: 371
Period size: 79 Copynumber: 4.8 Consensus size: 79
2632382 AAATAAAATC
* * ** *
2632392 GGGTTGGAGTATCCCCAATTGTGGAAAATCAATGTTTTAGAAATAAAACCAGAGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCC
*
2632457 CTTC-AGAAATAACA
66 CTTCGA-AAATAACG
* * ** *
2632471 GGGTTGGAGTATCTCCGATTATGAAAAATTGATGTTTTAGAAATAAAA-TTGGGTTAGAGTAT-C
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCC
2632534 CTCTCGAAAATAACG
66 CT-TCGAAAATAACG
* * ** *
2632549 GGGTT-GAGGTAT-CCTGATGGTGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTGCAGTATC
1 GGGTTGGA-GTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATC
*
2632612 CCCTCGAAAATAACG
65 CCTTCGAAAATAACG
* * * * * * * **
2632627 GGGTTGGAGTATCCTCGGTGGTGGAAAATTGATATTTTGGAAATAAAA-CTGGGTTAAAGTATCC
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCC
*
2632691 CTT-GGAAATAAC-
66 CTTCGAAAATAACG
* * *
2632703 GGGTTGGAGTATCCTCGATTGTGAAAAA-TCA-GTATCTTAGAAATAAAACAAGGGTTGGAGTAT
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTGATGT-T-TTAGAAATAAAACCAGGGTTGGAGTAT
2632766 CCCT
64 CCCT
2632770 GATAATGAAA
Statistics
Matches: 248, Mismatches: 41, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
74 1 0.00
75 3 0.01
76 36 0.15
77 58 0.23
78 74 0.30
79 76 0.31
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCC
CTTCGAAAATAACG
Found at i:2632623 original size:156 final size:154
Alignment explanation
Indices: 2632391--2632768 Score: 433
Period size: 156 Copynumber: 2.4 Consensus size: 154
2632381 GAAATAAAAT
* * * * * *
2632391 CGGGTTGGAGTATCCCCAATTGTGGAAAATCAATGTTTTAGAAATAAAACCAGAGTTGGAGTATC
1 CGGGTTGGAGTATCCTCGATGGTGAAAAATC-ATGTTTTAGAAATAAAACAAGGGTTGGAGTATC
* * * *
2632456 CCTTCAGAAATAACAGGGTTGGAGTAT-CTCCGATTATGAAAAATTGATGTTTTAGAAATAAAAT
65 CCCTCAGAAATAACAGGGTTGGAGTATCCT-CGATGATGAAAAATTGATATTTTAGAAATAAAAC
*
2632520 TGGGTTAGAGTATCCTCTCGAAAATAA
129 TGGGTTAAAGTATCC-CTCGAAAATAA
* ** *
2632547 CGGGGTT-GAGGTATCCT-GATGGTGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTGCAGTA
1 C-GGGTTGGA-GTATCCTCGATGGTGAAAAA-TCATGTTTTAGAAATAAAACAAGGGTTGGAGTA
* * * * *
2632610 TCCCCTC-GAAAATAACGGGGTTGGAGTATCCTCGGTGGTGGAAAATTGATATTTTGGAAATAAA
63 TCCCCTCAG-AAATAACAGGGTTGGAGTATCCTCGATGATGAAAAATTGATATTTTAGAAATAAA
* *
2632674 ACTGGGTTAAAGTATCCCTTGGAAATAA
127 ACTGGGTTAAAGTATCCCTCGAAAATAA
*
2632702 CGGGTTGGAGTATCCTCGATTGTGAAAAATCA-GTATCTTAGAAATAAAACAAGGGTTGGAGTAT
1 CGGGTTGGAGTATCCTCGATGGTGAAAAATCATGT-T-TTAGAAATAAAACAAGGGTTGGAGTAT
2632766 CCC
64 CCC
2632769 TGATAATGAA
Statistics
Matches: 187, Mismatches: 26, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
153 2 0.01
154 15 0.08
155 51 0.27
156 105 0.56
157 14 0.07
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (154 bp):
CGGGTTGGAGTATCCTCGATGGTGAAAAATCATGTTTTAGAAATAAAACAAGGGTTGGAGTATCC
CCTCAGAAATAACAGGGTTGGAGTATCCTCGATGATGAAAAATTGATATTTTAGAAATAAAACTG
GGTTAAAGTATCCCTCGAAAATAA
Found at i:2632760 original size:51 final size:52
Alignment explanation
Indices: 2632703--2632821 Score: 145
Period size: 51 Copynumber: 2.3 Consensus size: 52
2632693 TGGAAATAAC
** *
2632703 GGGTTGGAGTATCCTC-GATTGTGAAAAATCAGTATCTTAGAAATAAAA-CAA
1 GGGTTGGAGTATCCTCTGATAATGAAAAATCAGTATCTTAAAAATAAAATC-A
* * * *
2632754 GGGTTGGAGTATCC-CTGATAATGAAAAATCGGTGTTTTAAAAATAAAATCG
1 GGGTTGGAGTATCCTCTGATAATGAAAAATCAGTATCTTAAAAATAAAATCA
2632805 GGGTTGGAGTATCCTCT
1 GGGTTGGAGTATCCTCT
2632822 CAGAGATAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
50 1 0.02
51 54 0.93
52 3 0.05
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (52 bp):
GGGTTGGAGTATCCTCTGATAATGAAAAATCAGTATCTTAAAAATAAAATCA
Found at i:2641840 original size:21 final size:21
Alignment explanation
Indices: 2641816--2641872 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
2641806 TACAAACAGT
2641816 AAATATATCGATACATGCCTA
1 AAATATATCGATACATGCCTA
* *
2641837 AAATATAGCAATACATGCCTA
1 AAATATATCGATACATGCCTA
* *
2641858 AAATTTATTGATACA
1 AAATATATCGATACA
2641873 ATGTATTGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.30
Consensus pattern (21 bp):
AAATATATCGATACATGCCTA
Found at i:2641933 original size:52 final size:52
Alignment explanation
Indices: 2641858--2641976 Score: 175
Period size: 52 Copynumber: 2.3 Consensus size: 52
2641848 TACATGCCTA
* * * * *
2641858 AAATTTATTGATACAATGTATTGATACAAAACCACCCTGCATACTGCTAAGG
1 AAATGTATTGATATAATGTATTGATACAAAACCACCCTACATACTACCAAGG
* *
2641910 AAATGTATCGATATAATGTATTGATACAAAACTACCCTACATACTACCAAGG
1 AAATGTATTGATATAATGTATTGATACAAAACCACCCTACATACTACCAAGG
2641962 AAATGTATTGATATA
1 AAATGTATTGATATA
2641977 CCATTCAACC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 59 1.00
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (52 bp):
AAATGTATTGATATAATGTATTGATACAAAACCACCCTACATACTACCAAGG
Found at i:2644887 original size:13 final size:13
Alignment explanation
Indices: 2644869--2644893 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2644859 ACCAAGATCA
2644869 TGTATCGATACAG
1 TGTATCGATACAG
2644882 TGTATCGATACA
1 TGTATCGATACA
2644894 AAGCAATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2645723 original size:31 final size:31
Alignment explanation
Indices: 2645682--2645742 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
2645672 TAATCTCTCC
2645682 TTTTACAAAACAATTTCTCCCCCTTTTTCAT
1 TTTTACAAAACAATTTCTCCCCCTTTTTCAT
* *
2645713 TTTTAGAAAACAATTTGTCCCCCTTTTTCA
1 TTTTACAAAACAATTTCTCCCCCTTTTTCA
2645743 AAATTTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.44
Consensus pattern (31 bp):
TTTTACAAAACAATTTCTCCCCCTTTTTCAT
Found at i:2645945 original size:16 final size:16
Alignment explanation
Indices: 2645921--2645961 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
2645911 TTTCATTCAT
* **
2645921 CAAGGAAAGTTAAGTA
1 CAAGCAAAGTTAAAAA
2645937 CAAGCAAAGTTAAAAA
1 CAAGCAAAGTTAAAAA
2645953 CAAGCAAAG
1 CAAGCAAAG
2645962 AAACAAAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.56, C:0.12, G:0.20, T:0.12
Consensus pattern (16 bp):
CAAGCAAAGTTAAAAA
Found at i:2647612 original size:13 final size:13
Alignment explanation
Indices: 2647594--2647622 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2647584 AGTGCCCTTA
2647594 TATCGATACAATG
1 TATCGATACAATG
2647607 TATCGATACAATG
1 TATCGATACAATG
2647620 TAT
1 TAT
2647623 ATTGATACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:2654699 original size:61 final size:61
Alignment explanation
Indices: 2654395--2655128 Score: 769
Period size: 60 Copynumber: 11.7 Consensus size: 61
2654385 ACCTTCTTTA
* * * * * * *
2654395 ACCTTTTAGTCCTCAAAAAGTAGGATGCATTTTTCTTTTTAAAGCCTACACAAATTAGTGAC
1 ACCTTTTAGTCCTCAAAGAGCAGGATGC-CTTTTCTTTTTAAAGCCCACACAAGTTGGTGGC
*
2654457 ACCTTTTAGTCCTCAAAAAGCAGGA--CACTTTTCTTTTTAAAGCCCACACAAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGATGC-CTTTTCTTTTTAAAGCCCACACAAGTTGGTGGC
* * * *
2654517 ACCTTTTAGTCCTCAAAAAGTAGGGCGCTTTCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGG
1 ACCTTTTAGTCCTCAAAGAGCA--G-G-ATGCC-TTTTCTTTTTAAAGCCCACACAAGTTGGTGG
2654582 C
61 C
* * * * * *
2654583 ACCTTTTAGTCTTCAAAGAGCAAGACG-CTTTCCTTTTTAAAGCCCACACGAGTTGGTAGC
1 ACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGC
* * *
2654643 ACTTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGC
** * *
2654704 ACCTTTTAGTCCTCAAAGAGTGGGATGCTTTCCTTTTTCTTTTTAAAGCCTACACAAGTTAGTGG
1 ACCTTTTAGTCCTCAAAGAGCAGGATG----CC-TTTTCTTTTTAAAGCCCACACAAGTTGGTGG
2654769 C
61 C
* * * * * * *
2654770 ACCTTTTAGTCCTTAAAGAGTAGGACG-CTTTCCTTTTTAAAGCCCACACGACTTGGTAGC
1 ACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGC
* * *
2654830 ACCTTTTAGTCCTCAAAGAGTAGGATGCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGC
* * * * * *
2654891 ACTTTTTAGTCCTCAAAGAGCAAGACACTTTCCGTTTTCCTTTTTAAAACTCACATAAGTTGGTG
1 ACCTTTTAGTCCTCAAAGAGC-AG-GA--TGCC-TTTT-CTTTTTAAAGCCCACACAAGTTGGTG
2654956 GC
60 GC
* * * *
2654958 ACTTTTTAGTCCTCAAAGAGCAGGACGTCTTTTCTTTTTAAAGCCCACACAAATTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGC
* *
2655019 ACCTCTTAGTCCTCAAAGAGCAGGGTGCTTTTCATTTTCTTTTTAAAGCCCACACAAGTTGGTGG
1 ACCTTTTAGTCCTCAAAGAGCAGGATGC----C-TTTTCTTTTTAAAGCCCACACAAGTTGGTGG
2655084 C
61 C
* *
2655085 ACCTTTTAGTCCTAAAAGAGCAGGA--CGTTTTCCTTTTTAAAGCC
1 ACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTT-CTTTTTAAAGCC
2655129 TGTCGTAACG
Statistics
Matches: 574, Mismatches: 72, Indels: 54
0.82 0.10 0.08
Matches are distributed among these distances:
59 4 0.01
60 167 0.29
61 151 0.26
62 31 0.05
63 4 0.01
64 1 0.00
65 7 0.01
66 164 0.29
67 45 0.08
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (61 bp):
ACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGC
Found at i:2654743 original size:187 final size:188
Alignment explanation
Indices: 2654395--2655122 Score: 937
Period size: 187 Copynumber: 3.9 Consensus size: 188
2654385 ACCTTCTTTA
* * * * * * *
2654395 ACCTTTTAGTCCTCAAAAAGTAGGATGCATTTTTCTTTTTAAAGCCTACACAAATTAGT-GACAC
1 ACCTTTTAGTCTTCAAAGAGCAGGACGC--TTTCCTTTTTAAAGCCCACACAAATTGGTAG-CAC
* *
2654459 CTTTTAGTCCTCAAAAAGCAGGA--CACTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTT
63 CTTTTAGTCCTCAAAGAGCAGGATGCTCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * *
2654522 TTAGTCCTCAAAAAGTAGGGCGCTTTCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGC
128 TTAGTCCTCAAAGAGCAGGACGCTTTCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGC
* * * *
2654583 ACCTTTTAGTCTTCAAAGAGCAAGACGCTTTCCTTTTTAAAGCCCACACGAGTTGGTAGCACTTT
1 ACCTTTTAGTCTTCAAAGAGCAGGACGCTTTCCTTTTTAAAGCCCACACAAATTGGTAGCACCTT
* *
2654648 TTAGTCCTCAAAGAGCAAGATGC-CTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
66 TTAGTCCTCAAAGAGCAGGATGCTCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTA
** * * *
2654712 GTCCTCAAAGAGTGGGATGCTTTCCTTTTTCTTTTTAAAGCCTACACAAGTTAGTGGC
131 GTCCTCAAAGAGCAGGACGCTTTCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGC
* * *
2654770 ACCTTTTAGTCCTT-AAAGAGTAGGACGCTTTCCTTTTTAAAGCCCACACGACTTGGTAGCACCT
1 ACCTTTTAGT-CTTCAAAGAGCAGGACGCTTTCCTTTTTAAAGCCCACACAAATTGGTAGCACCT
* * *
2654834 TTTAGTCCTCAAAGAGTAGGATGCT-TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACTTTTT
65 TTTAGTCCTCAAAGAGCAGGATGCTCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* * * * * *
2654898 AGTCCTCAAAGAGCAAGACACTTTCCGTTTTCCTTTTTAAAACTCACATAAGTTGGTGGC
130 AGTCCTCAAAGAGCAGGACGCTTTCC-TTTTTCTTTTTAAAGCCCACACAAGTTGGTGGC
* * * *
2654958 ACTTTTTAGTCCTCAAAGAGCAGGACGTCTTTTCTTTTTAAAGCCCACACAAATTGGTGGCACCT
1 ACCTTTTAGTCTTCAAAGAGCAGGACG-CTTTCCTTTTTAAAGCCCACACAAATTGGTAGCACCT
* *
2655023 CTTAGTCCTCAAAGAGCAGGGTGCTTTTCATTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACC
65 TTTAGTCCTCAAAGAGCAGGATGC---TC-TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACC
* *
2655088 TTTTAGTCCTAAAAGAGCAGGACGTTTTCCTTTTT
126 TTTTAGTCCTCAAAGAGCAGGACGCTTTCCTTTTT
2655123 AAAGCCTGTC
Statistics
Matches: 472, Mismatches: 55, Indels: 21
0.86 0.10 0.04
Matches are distributed among these distances:
186 47 0.10
187 232 0.49
188 75 0.16
189 54 0.11
192 1 0.00
193 4 0.01
194 59 0.12
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (188 bp):
ACCTTTTAGTCTTCAAAGAGCAGGACGCTTTCCTTTTTAAAGCCCACACAAATTGGTAGCACCTT
TTAGTCCTCAAAGAGCAGGATGCTCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTA
GTCCTCAAAGAGCAGGACGCTTTCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGC
Found at i:2654971 original size:67 final size:63
Alignment explanation
Indices: 2654425--2655106 Score: 660
Period size: 66 Copynumber: 10.9 Consensus size: 63
2654415 TAGGATGCAT
* * * * * * *
2654425 TTTTCTTTTTAAAGCCTACACAAATTAGTGACACCTTTTAGTCCTCAAAAAGC-AGGAC--AC
1 TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGCACTTTC
* * * *
2654485 TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGTAGGGCGCTTTCC
1 TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCA-AGCACTTT-C
* *
2654550 TTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAAG-AC--GC
1 -TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGCACTTTC
* * * * **
2654611 TTTCCTTTTTAAAGCCCACACGAGTTGGTAGCACTTTTTAGTCCTCAAAGAGCAAG-A-TGCC
1 TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGCACTTTC
* ** *
2654672 TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAG-TGGGATGCTTTC
1 TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGCA--CTTT-
2654736 C
63 C
* * * * * *
2654737 TTTTTCTTTTTAAAGCCTACACAAGTTAGTGGCACCTTTTAGTCCTTAAAGAG-TAGGAC--GC
1 -TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGCACTTTC
* * * * * * *
2654798 TTTCCTTTTTAAAGCCCACACGACTTGGTAGCACCTTTTAGTCCTCAAAGAG-TAGGA--TGC
1 TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGCACTTTC
* *
2654858 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAAGACACTTTC
1 -TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAG-CACTTT-
2654923 C
63 C
* * * * * *
2654924 GTTTTCCTTTTTAAAACTCACATAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGC-AGGAC-GTC
1 -TTTT-CTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGCACTTTC
* * * **
2654987 TTTTCTTTTTAAAGCCCACACAAATTGGTGGCACCTCTTAGTCCTCAAAGAGCAGGGTGCTTTTC
1 TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCA-AGCAC-TTTC
*
2655052 ATTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTAAAAGAGCA
1 -TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCA
2655107 GGACGTTTTC
Statistics
Matches: 527, Mismatches: 68, Indels: 48
0.82 0.11 0.07
Matches are distributed among these distances:
60 153 0.29
61 144 0.27
62 8 0.02
63 4 0.01
64 4 0.01
65 8 0.02
66 161 0.31
67 45 0.09
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (63 bp):
TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGCACTTTC
Found at i:2658324 original size:52 final size:52
Alignment explanation
Indices: 2658218--2658329 Score: 172
Period size: 52 Copynumber: 2.2 Consensus size: 52
2658208 TATAAAAAGT
***
2658218 TATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTTTATAATG
1 TATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACAAGATATAATG
*
2658270 TATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACAAAGAT-TAGTG
1 TATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATAC-AAGATATAATG
2658322 TATCGATA
1 TATCGATA
2658330 TAATGTATCG
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
52 53 0.96
53 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
TATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACAAGATATAATG
Found at i:2658411 original size:19 final size:19
Alignment explanation
Indices: 2658387--2658470 Score: 108
Period size: 19 Copynumber: 4.7 Consensus size: 19
2658377 TAGCTTAAAT
*
2658387 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
2658406 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
2658425 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
2658438 TGTATCGATACAACACTTTA
1 TGTATCGATACAACAC-TTA
2658458 TGTATCGATACAA
1 TGTATCGATACAA
2658471 TCGTTGAAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 13
0.80 0.01 0.18
Matches are distributed among these distances:
13 9 0.16
14 1 0.02
16 6 0.11
19 28 0.49
20 13 0.23
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:2658443 original size:13 final size:13
Alignment explanation
Indices: 2658425--2658449 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2658415 ACAACACTTA
2658425 TGTATCGATACAT
1 TGTATCGATACAT
2658438 TGTATCGATACA
1 TGTATCGATACA
2658450 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2658447 original size:32 final size:33
Alignment explanation
Indices: 2658406--2658469 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
2658396 ACAAAACTTA
2658406 TGTATCGATACAACAC-TTATGTATCGATACAT
1 TGTATCGATACAACACTTTATGTATCGATACAT
2658438 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAACACTTTATGTATCGATACA
2658470 ATCGTTGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAACACTTTATGTATCGATACAT
Found at i:2658828 original size:60 final size:59
Alignment explanation
Indices: 2658730--2658960 Score: 237
Period size: 66 Copynumber: 3.7 Consensus size: 59
2658720 AAGTGTCTAC
* * * * *
2658730 AAAACCCACACAAGTTGGTGACACCTTTTAGTCTTCAAAGAGTATGACGCCTTTTTTTT
1 AAAACCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGCCTTTTTTTT
* *
2658789 AAAAGCCCACACGAGTTGGCGGCACCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCTTTTT
1 AAAA-CCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGCC-TTT-TTTTT
* * * * *
2658851 AAAGCTCACACGAGTTTGTGGCACCTTTCAGTTCTCAAAGAGCAAGACGCTTTCCTTTTTCTTTT
1 AAAACCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACG----CC--TTT-TTTT
2658916 T
59 T
* * *
2658917 AATACCCACATGAGTTGGTGGAACCTTTTAGTCCTCAAAGAGCA
1 AAAACCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCA
2658961 GGATTTAAAG
Statistics
Matches: 142, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
59 4 0.03
60 40 0.28
61 42 0.30
62 8 0.06
65 2 0.01
66 46 0.32
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (59 bp):
AAAACCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGCCTTTTTTTT
Found at i:2658943 original size:66 final size:61
Alignment explanation
Indices: 2658734--2658960 Score: 251
Period size: 61 Copynumber: 3.7 Consensus size: 61
2658724 GTCTACAAAA
* * * * * * *
2658734 CCCACACAAGTTGGTGACACCTTTTAGTCTTCAAAGAGTATGACGCCTTTT-TTTTAAAAG
1 CCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCTTTTTAAAG
*
2658794 CCCACACGAGTTGGCGGCACCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCTTTTTAAAG
1 CCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCTTTTTAAAG
* * * * *
2658855 CTCACACGAGTTTGTGGCACCTTTCAGTTCTCAAAGAGCAAGACGCTTTCCTTTTTCTTTTTAAT
1 CCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGA----TGCC-TTTTCTTTTTAA-
2658920 A-
60 AG
* *
2658921 CCCACATGAGTTGGTGGAACCTTTTAGTCCTCAAAGAGCA
1 CCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCA
2658961 GGATTTAAAG
Statistics
Matches: 140, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
60 44 0.31
61 46 0.33
65 3 0.02
66 46 0.33
67 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (61 bp):
CCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCTTTTTAAAG
Found at i:2660519 original size:12 final size:12
Alignment explanation
Indices: 2660502--2660527 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2660492 TAAGTCAACT
2660502 TTTTCATCATCA
1 TTTTCATCATCA
2660514 TTTTCATCATCA
1 TTTTCATCATCA
2660526 TT
1 TT
2660528 AATGGTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (12 bp):
TTTTCATCATCA
Found at i:2661171 original size:30 final size:30
Alignment explanation
Indices: 2661136--2661202 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
2661126 TGAATGAACA
*
2661136 ATCTCATTTTGTCTCCATTGAAGTAATGAG
1 ATCTCATTTGGTCTCCATTGAAGTAATGAG
*
2661166 CTCTCATTTGGTCTCCATTGAAGTAATGAG
1 ATCTCATTTGGTCTCCATTGAAGTAATGAG
2661196 ATCTCAT
1 ATCTCAT
2661203 AGTCGAGTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.39
Consensus pattern (30 bp):
ATCTCATTTGGTCTCCATTGAAGTAATGAG
Found at i:2662244 original size:13 final size:13
Alignment explanation
Indices: 2662226--2662250 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2662216 TACTATGAAC
2662226 ATGTATCGATACA
1 ATGTATCGATACA
2662239 ATGTATCGATAC
1 ATGTATCGATAC
2662251 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2664806 original size:21 final size:21
Alignment explanation
Indices: 2664773--2664813 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2664763 CTAAGTAAAA
2664773 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
2664794 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
2664814 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:2664993 original size:13 final size:13
Alignment explanation
Indices: 2664975--2665000 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2664965 TACACAAAGT
2664975 ATGTATCGATACA
1 ATGTATCGATACA
2664988 ATGTATCGATACA
1 ATGTATCGATACA
2665001 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2664998 original size:32 final size:33
Alignment explanation
Indices: 2664957--2665020 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2664947 TAGCCAAACT
**
2664957 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2664989 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2665021 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2666646 original size:21 final size:21
Alignment explanation
Indices: 2666620--2666661 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2666610 AATCAACCGT
* *
2666620 TCAAGATGATGATGAAGATGA
1 TCAAGAGGATGATGAAAATGA
*
2666641 TCAAGAGGTTGATGAAAATGA
1 TCAAGAGGATGATGAAAATGA
2666662 AGAAATGGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.29, T:0.24
Consensus pattern (21 bp):
TCAAGAGGATGATGAAAATGA
Found at i:2667229 original size:84 final size:84
Alignment explanation
Indices: 2667056--2667216 Score: 209
Period size: 84 Copynumber: 1.9 Consensus size: 84
2667046 ACTCAAAGAA
* * * * * *
2667056 GAAAATAAATCAATAAGTGTAGAGAATGATTTTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAA
1 GAAAATAAATCAATAAGTGTAGAAAATAATTTTCTTAAAAAGAAAATAAATGAAATAGAGAAGAA
*
2667121 TATGAAAGAGTTACAAAAT
66 TAAGAAAGAGTTACAAAAT
* *
2667140 GAAAATAAATCAATAAGTTTAGAAAATAATTCTT-TTAAAAAGAAAATAAATGAAATAGAGGAGA
1 GAAAATAAATCAATAAGTGTAGAAAATAATT-TTCTTAAAAAGAAAATAAATGAAATAGAGAAGA
2667204 A-AAGAAATGAGTT
65 ATAAGAAA-GAGTT
2667217 GCAAGTGGAA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
83 5 0.08
84 59 0.89
85 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.17, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATAATTTTCTTAAAAAGAAAATAAATGAAATAGAGAAGAA
TAAGAAAGAGTTACAAAAT
Found at i:2670275 original size:21 final size:21
Alignment explanation
Indices: 2670242--2670282 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2670232 CTAAGTAAAA
2670242 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
2670263 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
2670283 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:2672062 original size:79 final size:79
Alignment explanation
Indices: 2671962--2672163 Score: 219
Period size: 79 Copynumber: 2.6 Consensus size: 79
2671952 AATAACAGGG
* * * * *
2671962 TTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTT
1 TTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTT
*
2672025 AAAAAAAAAATCGGGA
64 AAAAAAAAAACCGGGA
* * **
2672041 TTGGAGTATCCCTTCGAAAATAGCGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAA
* * * *
2672106 GAATAAAGCCGGGG
66 AAAAAAAACCGGGA
* * *
2672120 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGAT
2672164 GAAATAACGA
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
78 7 0.07
79 95 0.93
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (79 bp):
TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAA
AAAAAAAACCGGGA
Found at i:2672155 original size:28 final size:28
Alignment explanation
Indices: 2672115--2672186 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
2672105 GGAATAAAGC
** *
2672115 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2672143 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2672171 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2672187 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:2672244 original size:52 final size:50
Alignment explanation
Indices: 2672174--2672299 Score: 135
Period size: 52 Copynumber: 2.4 Consensus size: 50
2672164 GAAATAACGA
* * * *
2672174 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGG-AGTTTTGAAAATAAAACCG
** * *
2672225 GAGTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCG
1 G-GTTGGAGTATCCCCGATT-GTGAAAAATTGGAGTTTTGAAAATAAAACCG
*
2672277 GGATTGGAATATCCCCGATTGTG
1 GG-TTGGAGTATCCCCGATTGTG
2672300 GAGAATTGAG
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
51 3 0.05
52 49 0.80
53 9 0.15
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGAGTTTTGAAAATAAAACCG
Found at i:2674665 original size:13 final size:13
Alignment explanation
Indices: 2674647--2674672 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2674637 ACAAAGATCC
2674647 ATGTATCGATACA
1 ATGTATCGATACA
2674660 ATGTATCGATACA
1 ATGTATCGATACA
2674673 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2674668 original size:33 final size:33
Alignment explanation
Indices: 2674626--2674692 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2674616 AAAATTTCCA
***
2674626 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2674659 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2674692 A
1 A
2674693 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2674736 original size:19 final size:18
Alignment explanation
Indices: 2674712--2674779 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2674702 CAGTAGCTAA
2674712 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2674731 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2674746 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2674763 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2674780 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2674752 original size:13 final size:13
Alignment explanation
Indices: 2674734--2674758 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2674724 ACAATACTTA
2674734 TGTATCGATACAT
1 TGTATCGATACAT
2674747 TGTATCGATACA
1 TGTATCGATACA
2674759 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2674756 original size:32 final size:32
Alignment explanation
Indices: 2674715--2674777 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2674705 TAGCTAATTA
*
2674715 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2674747 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2674778 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2674859 original size:21 final size:21
Alignment explanation
Indices: 2674835--2674891 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2674825 CATTTGTAGG
2674835 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
2674856 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
2674877 ATGTATCGATACATT
1 ATGTATCGATACATT
2674892 TGGAATTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:2675737 original size:55 final size:54
Alignment explanation
Indices: 2675653--2676437 Score: 1116
Period size: 55 Copynumber: 14.3 Consensus size: 54
2675643 ATAAAGTGTA
* * * * *
2675653 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
2675708 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGCGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
2675763 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
2675818 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
2675873 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
2675928 TCCTGCTCTTTGGGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGATG
1 TCCTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
2675983 TCCTGCTCTTTGTGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
2676038 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
2676093 TCCTGCTCTTTGGGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGATG
1 TCCTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
2676148 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
2676203 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
2676258 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
2676313 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
2676368 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
2676423 TCCTGCTCTTTGAGG
1 TCCTGCTCTTTGAGG
2676438 GCTAATAAGC
Statistics
Matches: 675, Mismatches: 35, Indels: 40
0.90 0.05 0.05
Matches are distributed among these distances:
54 29 0.04
55 622 0.92
56 24 0.04
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:2675846 original size:110 final size:110
Alignment explanation
Indices: 2675653--2676437 Score: 1228
Period size: 110 Copynumber: 7.1 Consensus size: 110
2675643 ATAAAGTGTA
* * * * *
2675653 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
*
2675717 TTGAGGACTGAAAGGTGCCACCAACTTGCGTGGGCTTTAAGAGGTG
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
2675763 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
*
2675828 TGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
2675873 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* * *
2675938 TGGGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGATG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
2675983 TCCTGCTCTTTGTGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTC
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTC
* *
2676046 TTTGAGGATTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
64 TTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
2676093 TCCTGCTCTTTGGGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGATGTCCTGCTC
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTC
2676156 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
64 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
2676203 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* *
2676268 TGAGGACTGGAAA-ATGCCACCAACTTGGGTGGGCTTTGAA-AGGTG
66 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
2676313 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* *
2676378 TGGGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAGAGGTG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
2676423 TCCTGCTCTTTGAGG
1 TCCTGCTCTTTGAGG
2676438 GCTAATAAGC
Statistics
Matches: 629, Mismatches: 32, Indels: 28
0.91 0.05 0.04
Matches are distributed among these distances:
109 18 0.03
110 588 0.93
111 23 0.04
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (110 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:2676381 original size:26 final size:26
Alignment explanation
Indices: 2676352--2676434 Score: 60
Period size: 26 Copynumber: 3.1 Consensus size: 26
2676342 CCAACTTGTG
2676352 TGGGCTTTGAAAGGTGTCCTGCTCTT
1 TGGGCTTTGAAAGGTGTCCTGCTCTT
*** * ** *
2676378 TGGGGACTGAAAGGTGCCACCAACTCGTG
1 TGGGCTTTGAAAGGTG--TCCTGCTC-TT
2676407 TGGGCTTT-AAGAGGTGTCCTGCTCTT
1 TGGGCTTTGAA-AGGTGTCCTGCTCTT
2676433 TG
1 TG
2676435 AGGGCTAATA
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
26 16 0.41
27 5 0.13
28 7 0.18
29 11 0.28
ACGTcount: A:0.16, C:0.20, G:0.33, T:0.31
Consensus pattern (26 bp):
TGGGCTTTGAAAGGTGTCCTGCTCTT
Found at i:2677457 original size:21 final size:21
Alignment explanation
Indices: 2677405--2677472 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
2677395 CTTAAGTAGG
* *
2677405 TTTTTTTCCTTTT-CTCTCTT
1 TTTTTTTCTTTTTGCTCTTTT
* * * *
2677425 TTTCTTT-GTTTTGTTTTTTT
1 TTTTTTTCTTTTTGCTCTTTT
2677445 TTTTTTTCTTTTTGCTCTTTT
1 TTTTTTTCTTTTTGCTCTTTT
2677466 TTTTTTT
1 TTTTTTT
2677473 GAAGAGAAGG
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
19 4 0.11
20 16 0.43
21 17 0.46
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.82
Consensus pattern (21 bp):
TTTTTTTCTTTTTGCTCTTTT
Found at i:2678769 original size:20 final size:20
Alignment explanation
Indices: 2678744--2678816 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2678734 CAACTTTTTT
2678744 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2678764 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2678785 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2678805 ATGTATCGATAC
1 ATGTATCGATAC
2678817 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2678782 original size:41 final size:41
Alignment explanation
Indices: 2678723--2678816 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2678713 CTGCCAAGAA
*
2678723 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
2678764 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
2678805 ATGTATCGATAC
1 ATGTATCGATAC
2678817 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:2678798 original size:21 final size:21
Alignment explanation
Indices: 2678723--2678798 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
2678713 CTGCCAAGAA
* *
2678723 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2678744 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2678764 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2678785 ATGTATCGATACAT
1 ATGTATCGATACAT
2678799 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2681285 original size:13 final size:13
Alignment explanation
Indices: 2681267--2681305 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2681257 ATAATCACCC
*
2681267 TGTATCGATACAG
1 TGTATCGATACAA
2681280 TGTATCGATACAA
1 TGTATCGATACAA
2681293 TGTATCGATACAA
1 TGTATCGATACAA
2681306 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2681316 original size:20 final size:20
Alignment explanation
Indices: 2681291--2681369 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
2681281 GTATCGATAC
2681291 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
2681311 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
2681336 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
2681356 CATGTATCGATACA
1 AATGTATCGATACA
2681370 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:2682190 original size:15 final size:15
Alignment explanation
Indices: 2682170--2682200 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2682160 ATTTCGTTTG
*
2682170 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2682185 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2682200 G
1 G
2682201 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2686281 original size:13 final size:13
Alignment explanation
Indices: 2686263--2686288 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2686253 CAATTTTTTG
2686263 TGTATCGATACAT
1 TGTATCGATACAT
2686276 TGTATCGATACAT
1 TGTATCGATACAT
2686289 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2686373 original size:20 final size:20
Alignment explanation
Indices: 2686348--2686420 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2686338 CAACTTTTTT
2686348 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2686368 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2686389 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2686409 ATGTATCGATAC
1 ATGTATCGATAC
2686421 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2686386 original size:41 final size:41
Alignment explanation
Indices: 2686327--2686420 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2686317 CTGCCAAGAA
*
2686327 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
2686368 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
2686409 ATGTATCGATAC
1 ATGTATCGATAC
2686421 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:2686402 original size:21 final size:21
Alignment explanation
Indices: 2686327--2686402 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
2686317 CTGCCAAGAA
* *
2686327 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2686348 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2686368 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2686389 ATGTATCGATACAT
1 ATGTATCGATACAT
2686403 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2687458 original size:13 final size:13
Alignment explanation
Indices: 2687440--2687464 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2687430 AATAGTGCCC
2687440 ATGTATCGATACA
1 ATGTATCGATACA
2687453 ATGTATCGATAC
1 ATGTATCGATAC
2687465 TAAGAACACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2688380 original size:10 final size:10
Alignment explanation
Indices: 2688365--2688421 Score: 51
Period size: 10 Copynumber: 5.3 Consensus size: 10
2688355 TGTATCGATA
2688365 CATTACTGTT
1 CATTACTGTT
*
2688375 CATTACTATT
1 CATTACTGTT
*
2688385 CATCACTGTT
1 CATTACTGTT
2688395 CATGTATAACTGTT
1 CA--T-T-ACTGTT
*
2688409 CATCACTGTT
1 CATTACTGTT
2688419 CAT
1 CAT
2688422 GTATCACTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
10 28 0.74
12 2 0.05
14 8 0.21
ACGTcount: A:0.25, C:0.23, G:0.09, T:0.44
Consensus pattern (10 bp):
CATTACTGTT
Found at i:2688415 original size:24 final size:24
Alignment explanation
Indices: 2688379--2688449 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
2688369 ACTGTTCATT
2688379 ACTATTCATCACTGTTCATGTATA
1 ACTATTCATCACTGTTCATGTATA
* *
2688403 ACTGTTCATCACTGTTCATGTATC
1 ACTATTCATCACTGTTCATGTATA
2688427 ACTATTCATCACTGTTCATGTAT
1 ACTATTCATCACTGTTCATGTAT
2688450 TGATACAGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (24 bp):
ACTATTCATCACTGTTCATGTATA
Found at i:2688427 original size:14 final size:14
Alignment explanation
Indices: 2688386--2688435 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
2688376 ATTACTATTC
2688386 ATCACTGTTCATGT
1 ATCACTGTTCATGT
*
2688400 ATAACTGTTC----
1 ATCACTGTTCATGT
2688410 ATCACTGTTCATGT
1 ATCACTGTTCATGT
*
2688424 ATCACTATTCAT
1 ATCACTGTTCAT
2688436 CACTGTTCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
10 9 0.31
14 20 0.69
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.42
Consensus pattern (14 bp):
ATCACTGTTCATGT
Found at i:2688951 original size:36 final size:33
Alignment explanation
Indices: 2688908--2689000 Score: 118
Period size: 36 Copynumber: 2.8 Consensus size: 33
2688898 CTAAGTGATT
2688908 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAG
1 GAGAGGTTCTATCTTAGCC-TTGAAAAAGATAG-G
*
2688943 AGAGAGGTTCTATCTTAGCCCGTG-AAAAGATAGG
1 -GAGAGGTTCTATCTTAG-CCTTGAAAAAGATAGG
*
2688977 GAG-GTTTCTATCTTAGCCTTGAAA
1 GAGAGGTTCTATCTTAGCCTTGAAA
2689001 GATAGTGTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
31 4 0.08
32 14 0.27
33 3 0.06
34 1 0.02
35 9 0.17
36 19 0.37
37 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (33 bp):
GAGAGGTTCTATCTTAGCCTTGAAAAAGATAGG
Found at i:2690584 original size:20 final size:20
Alignment explanation
Indices: 2690561--2690631 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 20
2690551 AATATTCTTA
* *
2690561 AAAAGAAATTAAGTGAATTG
1 AAAAGAAAATAAATGAATTG
2690581 AAAAGAAAATAAATGAATTAG
1 AAAAGAAAATAAATGAATT-G
** * *
2690602 AGGAGAAAAGAAATGAGTTG
1 AAAAGAAAATAAATGAATTG
*
2690622 CAAATGAAAA
1 -AAAAGAAAA
2690632 ATGATGAATT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
20 18 0.45
21 22 0.55
ACGTcount: A:0.59, C:0.01, G:0.21, T:0.18
Consensus pattern (20 bp):
AAAAGAAAATAAATGAATTG
Found at i:2692037 original size:23 final size:21
Alignment explanation
Indices: 2691998--2692055 Score: 55
Period size: 23 Copynumber: 2.7 Consensus size: 21
2691988 GTTTATGGTA
* *
2691998 ATTGATTAATGTTTTAATTGAAT
1 ATTGATTGAT-TTTTAAGTG-AT
2692021 ATTGATTGATTTGTTAAGTGAT
1 ATTGATTGATTT-TTAAGTGAT
*
2692043 A-AGATTGATTTTT
1 ATTGATTGATTTTT
2692056 GAATGTTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 2 0.06
21 9 0.29
22 5 0.16
23 15 0.48
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (21 bp):
ATTGATTGATTTTTAAGTGAT
Found at i:2693947 original size:20 final size:20
Alignment explanation
Indices: 2693922--2693969 Score: 80
Period size: 20 Copynumber: 2.4 Consensus size: 20
2693912 ATGTTCATTA
2693922 TATCGATAC-ATCATGAATTG
1 TATCGATACAAT-ATGAATTG
2693942 TATCGATACAATATGAATTG
1 TATCGATACAATATGAATTG
2693962 TATCGATA
1 TATCGATA
2693970 TATTACTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 25 0.93
21 2 0.07
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (20 bp):
TATCGATACAATATGAATTG
Found at i:2694055 original size:24 final size:24
Alignment explanation
Indices: 2693984--2694056 Score: 110
Period size: 24 Copynumber: 3.0 Consensus size: 24
2693974 ACTGTTCATT
*
2693984 ACTATTCATCACTGTTCATGTATA
1 ACTATTCATCACTGTTCATGTATC
* * *
2694008 ATTGTTCATCATTGTTCATGTATC
1 ACTATTCATCACTGTTCATGTATC
2694032 ACTATTCATCACTGTTCATGTATC
1 ACTATTCATCACTGTTCATGTATC
2694056 A
1 A
2694057 ATACAATGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.44
Consensus pattern (24 bp):
ACTATTCATCACTGTTCATGTATC
Found at i:2694549 original size:36 final size:33
Alignment explanation
Indices: 2694503--2694591 Score: 99
Period size: 36 Copynumber: 2.6 Consensus size: 33
2694493 TTAAGTGATT
*
2694503 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGG
1 GAGAGCTTCTATCTTAGCCTTTG-AAAAGATA-GG
* **
2694538 AGAGAGCTTCTATCGTAGCCCATGAAAAGATAGG
1 -GAGAGCTTCTATCTTAGCCTTTGAAAAGATAGG
*
2694572 GAG-GTTTCTATCTTAGCCTT
1 GAGAGCTTCTATCTTAGCCTT
2694592 GGAAGATAGT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
32 13 0.29
33 3 0.07
34 2 0.04
35 8 0.18
36 19 0.42
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (33 bp):
GAGAGCTTCTATCTTAGCCTTTGAAAAGATAGG
Found at i:2694573 original size:35 final size:36
Alignment explanation
Indices: 2694503--2694574 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
2694493 TTAAGTGATT
* * **
2694503 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
1 GAGAGCTTCTATCGTAGCCCATGAAAAAGATAGGGA
2694539 GAGAGCTTCTATCGTAGCCCATG-AAAAGATAGGGA
1 GAGAGCTTCTATCGTAGCCCATGAAAAAGATAGGGA
2694574 G
1 G
2694575 GTTTCTATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 13 0.41
36 19 0.59
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (36 bp):
GAGAGCTTCTATCGTAGCCCATGAAAAAGATAGGGA
Found at i:2694589 original size:32 final size:34
Alignment explanation
Indices: 2694503--2694589 Score: 106
Period size: 35 Copynumber: 2.6 Consensus size: 34
2694493 TTAAGTGATT
**
2694503 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGG
1 GAGAGGTTCTATCTTAGCCCATGAAAAAGATAGG
*
2694537 GAGAGAGCTTCTATCGTAGCCCATG-AAAAGATAGG
1 GAGAG-G-TTCTATCTTAGCCCATGAAAAAGATAGG
*
2694572 GAG-GTTTCTATCTTAGCC
1 GAGAGGTTCTATCTTAGCC
2694590 TTGGAAGATA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
32 12 0.26
34 6 0.13
35 14 0.30
36 14 0.30
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (34 bp):
GAGAGGTTCTATCTTAGCCCATGAAAAAGATAGG
Found at i:2701319 original size:11 final size:11
Alignment explanation
Indices: 2701303--2701341 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
2701293 AGAGTCTCCA
2701303 TTTGACATTCT
1 TTTGACATTCT
* *
2701314 TTTGAC-TCCA
1 TTTGACATTCT
2701324 TTTGACATTCT
1 TTTGACATTCT
2701335 TTTGACA
1 TTTGACA
2701342 CTCACTACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.49
Consensus pattern (11 bp):
TTTGACATTCT
Found at i:2701324 original size:21 final size:21
Alignment explanation
Indices: 2701298--2701340 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2701288 TTAGTAGAGT
2701298 CTCCATTTGACATTCTTTTGA
1 CTCCATTTGACATTCTTTTGA
2701319 CTCCATTTGACATTCTTTTGA
1 CTCCATTTGACATTCTTTTGA
2701340 C
1 C
2701341 ACTCACTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.47
Consensus pattern (21 bp):
CTCCATTTGACATTCTTTTGA
Found at i:2703910 original size:33 final size:33
Alignment explanation
Indices: 2703820--2703899 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
2703810 GCCAAAGAAA
2703820 TGTATCGATACATTATTCAATGTATCGATACAT
1 TGTATCGATACATTATTCAATGTATCGATACAT
* *
2703853 TGTAACGATACATTATTCAATGTATCGATGCAT
1 TGTATCGATACATTATTCAATGTATCGATACAT
2703886 TGTATCGATACATT
1 TGTATCGATACATT
2703900 GATCTTTGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTATTCAATGTATCGATACAT
Found at i:2707262 original size:57 final size:57
Alignment explanation
Indices: 2707193--2707309 Score: 234
Period size: 57 Copynumber: 2.1 Consensus size: 57
2707183 ATACTAGGCC
2707193 CTTGGAGCATATTTTAACCCATATAAAGCTTTGTGAAGCTTGTACACCTTTCCTTCA
1 CTTGGAGCATATTTTAACCCATATAAAGCTTTGTGAAGCTTGTACACCTTTCCTTCA
2707250 CTTGGAGCATATTTTAACCCATATAAAGCTTTGTGAAGCTTGTACACCTTTCCTTCA
1 CTTGGAGCATATTTTAACCCATATAAAGCTTTGTGAAGCTTGTACACCTTTCCTTCA
2707307 CTT
1 CTT
2707310 TATAGAGCTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.38
Consensus pattern (57 bp):
CTTGGAGCATATTTTAACCCATATAAAGCTTTGTGAAGCTTGTACACCTTTCCTTCA
Found at i:2711899 original size:209 final size:209
Alignment explanation
Indices: 2711539--2711953 Score: 785
Period size: 209 Copynumber: 2.0 Consensus size: 209
2711529 CATCAATATA
* * *
2711539 ATAATAAATATTATTATATTATATGATATTTGACACCTGAACTCTTAAAATGTGGCACATGAAGA
1 ATAATAAATATTATTATATTATAGGATATTTGACACCTGAACACATAAAATGTGGCACATGAAGA
2711604 TACAACTAATTAAATAATTTTTTAATTAATATTAATTTATTTTTGTTTGATTATTACAAATGGTT
66 TACAACTAATTAAATAATTTTTTAATTAATATTAATTTATTTTTGTTTGATTATTACAAATGGTT
2711669 GGATTTGTTTAGACAAAACATTTTTTTTGAAACATTAGTGTAGACATGACATATATGAACCAAAA
131 GGATTTGTTTAGACAAAACATTTTTTTTGAAACATTAGTGTAGACATGACATATATGAACCAAAA
2711734 ATCATGTTGTAACT
196 ATCATGTTGTAACT
*
2711748 ATAATAAATATTATTATATTATAGGATATTTGACACTTGAACACATAAAATGTGGCACATGAAGA
1 ATAATAAATATTATTATATTATAGGATATTTGACACCTGAACACATAAAATGTGGCACATGAAGA
2711813 TACAACTAATTAAATAATTTTTTAATTAATATTAATTTATTTTTGTTTGATTATTACAAATGGTT
66 TACAACTAATTAAATAATTTTTTAATTAATATTAATTTATTTTTGTTTGATTATTACAAATGGTT
*
2711878 GGATTTGTTTAGACAAAACATTTTTTTTGAAACATTAGTGTAGACATGACATATATGAATCAAAA
131 GGATTTGTTTAGACAAAACATTTTTTTTGAAACATTAGTGTAGACATGACATATATGAACCAAAA
2711943 ATCATGTTGTA
196 ATCATGTTGTA
2711954 TAAATTTTAA
Statistics
Matches: 201, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
209 201 1.00
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.40
Consensus pattern (209 bp):
ATAATAAATATTATTATATTATAGGATATTTGACACCTGAACACATAAAATGTGGCACATGAAGA
TACAACTAATTAAATAATTTTTTAATTAATATTAATTTATTTTTGTTTGATTATTACAAATGGTT
GGATTTGTTTAGACAAAACATTTTTTTTGAAACATTAGTGTAGACATGACATATATGAACCAAAA
ATCATGTTGTAACT
Found at i:2713292 original size:16 final size:17
Alignment explanation
Indices: 2713269--2713314 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
2713259 ATAACTACTA
2713269 TCAAATTATATTTTAAT
1 TCAAATTATATTTTAAT
* *
2713286 T-AAATTACATTTTACT
1 TCAAATTATATTTTAAT
2713302 TCAAATATATATT
1 TCAAAT-TATATT
2713315 AAATATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 14 0.58
17 5 0.21
18 5 0.21
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (17 bp):
TCAAATTATATTTTAAT
Found at i:2715070 original size:22 final size:22
Alignment explanation
Indices: 2715044--2715086 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2715034 GGATAATTTT
* *
2715044 ATATAGTTTACTTTTTGATAAG
1 ATATAATTTACTTTTTCATAAG
*
2715066 ATATAATTTATTTTTTCATAA
1 ATATAATTTACTTTTTCATAA
2715087 ATTATTATCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (22 bp):
ATATAATTTACTTTTTCATAAG
Found at i:2717583 original size:16 final size:17
Alignment explanation
Indices: 2717564--2717598 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
2717554 ATTCATGTAA
2717564 AAATTATTTTT-AAAAT
1 AAATTATTTTTCAAAAT
*
2717580 AAATTTTTTTTCAAAAT
1 AAATTATTTTTCAAAAT
2717597 AA
1 AA
2717599 TAATCTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATTATTTTTCAAAAT
Found at i:2718856 original size:23 final size:20
Alignment explanation
Indices: 2718818--2718877 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 20
2718808 ATTAGTCAAA
2718818 TAAAATATTTAAATTAAATAT
1 TAAAATATTTAAATT-AATAT
2718839 TAAAATATTT---TT-ATAT
1 TAAAATATTTAAATTAATAT
* *
2718855 TAATAT-TTTAAATTAAAAT
1 TAAAATATTTAAATTAATAT
2718874 TAAA
1 TAAA
2718878 TAAAACTAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
15 3 0.09
16 9 0.28
18 4 0.12
19 6 0.19
21 10 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TAAAATATTTAAATTAATAT
Found at i:2719156 original size:25 final size:25
Alignment explanation
Indices: 2719126--2719196 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
2719116 TTAAAAATTT
2719126 ATATTTAATATAATTAATAATAATA
1 ATATTTAATATAATTAATAATAATA
* *
2719151 ATATTTATTAT-ATATAATTATAATA
1 ATATTTAATATAAT-TAATAATAATA
*
2719176 A-ATATTAA-ATAATTAAAAATA
1 ATAT-TTAATATAATTAATAATA
2719197 TATTTATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
24 12 0.32
25 26 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
ATATTTAATATAATTAATAATAATA
Found at i:2719181 original size:22 final size:20
Alignment explanation
Indices: 2719141--2719190 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
2719131 TAATATAATT
* **
2719141 AATAATAATAATATTTATTA
1 AATAATTATAATAAATATTA
2719161 TATATAATTATAATAAATATTA
1 -A-ATAATTATAATAAATATTA
2719183 AATAATTA
1 AATAATTA
2719191 AAAATATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 7 0.28
21 2 0.08
22 16 0.64
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATAATTATAATAAATATTA
Found at i:2720815 original size:21 final size:20
Alignment explanation
Indices: 2720791--2720831 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
2720781 TTAAAAAAAT
*
2720791 TATTATTATATTTAATATTTA
1 TATTATTATAATTAA-ATTTA
*
2720812 TATTTTTATAATTAAATTTA
1 TATTATTATAATTAAATTTA
2720832 AATAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTATTATAATTAAATTTA
Found at i:2721154 original size:2 final size:2
Alignment explanation
Indices: 2721149--2721179 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2721139 TCCTTTTTTT
2721149 TG TG TG TG TG TG TG TG T- TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2721180 AGTGGAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:2721171 original size:15 final size:15
Alignment explanation
Indices: 2721151--2721179 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2721141 CTTTTTTTTG
2721151 TGTGTGTGTGTGTGT
1 TGTGTGTGTGTGTGT
2721166 TGTGTGTGTGTGTG
1 TGTGTGTGTGTGTG
2721180 AGTGGAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (15 bp):
TGTGTGTGTGTGTGT
Found at i:2722669 original size:6 final size:6
Alignment explanation
Indices: 2722658--2722684 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2722648 TACTATGTAC
2722658 ATTTTA ATTTTA ATTTTA ATTTTA ATT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATT
2722685 AAGGTAAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTTA
Found at i:2722991 original size:16 final size:15
Alignment explanation
Indices: 2722972--2723001 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2722962 ATTATTTTTA
2722972 TATATACTTATAAATT
1 TATATACTTA-AAATT
2722988 TATATACTTAAAAT
1 TATATACTTAAAAT
2723002 AAATAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
TATATACTTAAAATT
Found at i:2723802 original size:3 final size:3
Alignment explanation
Indices: 2723794--2723832 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
2723784 TTGCAAATTG
*
2723794 ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2723833 TAACACAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2724060 original size:36 final size:34
Alignment explanation
Indices: 2724011--2724077 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 34
2724001 ATTATGTTTA
*
2724011 ATTTAAATTATTATTAATAATA-ATAAATATTTTT
1 ATTTAAATTATTA-TAAAAATATATAAATATTTTT
2724045 ATTTAAATTTAATTATAAAAATATATAAATATT
1 ATTTAAA-TT-ATTATAAAAATATATAAATATT
2724078 AATATAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 7 0.24
35 9 0.31
36 13 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (34 bp):
ATTTAAATTATTATAAAAATATATAAATATTTTT
Found at i:2724095 original size:22 final size:22
Alignment explanation
Indices: 2724044--2724091 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
2724034 TAAATATTTT
2724044 TATTTAAATTTAATTATAAAAA
1 TATTTAAATTTAATTATAAAAA
*
2724066 TATATAAATATTAA-TAT-AAAA
1 TATTTAAAT-TTAATTATAAAAA
2724087 TATTT
1 TATTT
2724092 TAAAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 8 0.35
22 11 0.48
23 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TATTTAAATTTAATTATAAAAA
Done.