Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 26 of 161
Found at i:8261103 original size:20 final size:20
Alignment explanation
Indices: 8261069--8261117 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
8261059 TTTGGTTAAA
8261069 AATTACCCG--AATTACCCG
1 AATTACCCGAAAATTACCCG
8261087 AATTACCCGAAAATTACCCG
1 AATTACCCGAAAATTACCCG
8261107 AATTACCCGAA
1 AATTACCCGAA
8261118 TTAAATCACT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.31
20 20 0.69
ACGTcount: A:0.39, C:0.31, G:0.10, T:0.20
Consensus pattern (20 bp):
AATTACCCGAAAATTACCCG
Found at i:8261334 original size:14 final size:14
Alignment explanation
Indices: 8261315--8261343 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8261305 AAAATAAGAT
8261315 TGCATACATATACA
1 TGCATACATATACA
8261329 TGCATACATATACA
1 TGCATACATATACA
8261343 T
1 T
8261344 ATATAATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (14 bp):
TGCATACATATACA
Found at i:8263117 original size:28 final size:28
Alignment explanation
Indices: 8263076--8263130 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
8263066 TACACACACA
*
8263076 TAAAAAATAGTCACTACATGCATATTAT
1 TAAAAAATACTCACTACATGCATATTAT
*
8263104 TAAAAAATACTCACTGCATGCATATTA
1 TAAAAAATACTCACTACATGCATATTA
8263131 AAAAATAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.31
Consensus pattern (28 bp):
TAAAAAATACTCACTACATGCATATTAT
Found at i:8263135 original size:25 final size:27
Alignment explanation
Indices: 8263076--8263137 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 27
8263066 TACACACACA
*
8263076 TAAAAAATAGTCACTACATGCATATTAT
1 TAAAAAATACTCACTACATGCA-ATTAT
*
8263104 TAAAAAATACTCACTGCATGC-A-TAT
1 TAAAAAATACTCACTACATGCAATTAT
8263129 TAAAAAATA
1 TAAAAAATA
8263138 GTCAACACAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 12 0.38
26 1 0.03
28 19 0.59
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (27 bp):
TAAAAAATACTCACTACATGCAATTAT
Found at i:8265408 original size:6 final size:6
Alignment explanation
Indices: 8265399--8265570 Score: 65
Period size: 6 Copynumber: 27.7 Consensus size: 6
8265389 AAATAACCCT
* * ** * * **
8265399 AAATCA AAATCC AAATAA AAATTT AAATCG AGATCA AAATTG AAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
* * * * ** *
8265447 AAATCT AAATCT AAATCA AGATCG AAATTG AAATCA AAATAA AAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
* ** ** * **
8265495 GAATCA GTGAGTGTTTCA AAATTG AAATCA AAATCA AAATCG AAATTG
1 AAATCA ---A---AATCA AAATCA AAATCA AAATCA AAATCA AAATCA
**
8265543 AAATCA AAATCA AAATGG AAATCA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAAT
8265571 TGCAATCGAA
Statistics
Matches: 118, Mismatches: 42, Indels: 12
0.69 0.24 0.07
Matches are distributed among these distances:
6 114 0.97
9 1 0.01
12 3 0.03
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.23
Consensus pattern (6 bp):
AAATCA
Found at i:8265426 original size:18 final size:18
Alignment explanation
Indices: 8265405--8265582 Score: 81
Period size: 18 Copynumber: 9.6 Consensus size: 18
8265395 CCCTAAATCA
* * *
8265405 AAATCCAAATAAAAATTT
1 AAATCAAAATCAAAATTG
* *
8265423 AAATCGAGATCAAAATTG
1 AAATCAAAATCAAAATTG
*
8265441 AAATCAAAATCTAAATCT-
1 AAATCAAAATCAAAAT-TG
* *
8265459 AAATCAAGATCGAAATTG
1 AAATCAAAATCAAAATTG
* *
8265477 AAATCAAAAT-AAAAATC
1 AAATCAAAATCAAAATTG
**
8265494 AGAATCAGTGAGTGTTTCAAAATTG
1 A-AATCA---A---AATCAAAATTG
*
8265519 AAATCAAAATCAAAATCG
1 AAATCAAAATCAAAATTG
** **
8265537 AAATTGAAATCAAAATCA
1 AAATCAAAATCAAAATTG
**
8265555 AAATGGAAATCAAAATTG
1 AAATCAAAATCAAAATTG
* *
8265573 CAATCGAAAT
1 AAATCAAAAT
8265583 AACCCTAAAT
Statistics
Matches: 122, Mismatches: 28, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
17 6 0.05
18 101 0.83
19 1 0.01
21 2 0.02
24 6 0.05
25 6 0.05
ACGTcount: A:0.54, C:0.12, G:0.10, T:0.24
Consensus pattern (18 bp):
AAATCAAAATCAAAATTG
Found at i:8265437 original size:30 final size:30
Alignment explanation
Indices: 8265401--8265457 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
8265391 ATAACCCTAA
*
8265401 ATCAAAATCCAAATAAAAATTTAAATCGAG
1 ATCAAAATCCAAATAAAAATCTAAATCGAG
** *
8265431 ATCAAAATTGAAATCAAAATCTAAATC
1 ATCAAAATCCAAATAAAAATCTAAATC
8265458 TAAATCAAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.25
Consensus pattern (30 bp):
ATCAAAATCCAAATAAAAATCTAAATCGAG
Found at i:8265493 original size:36 final size:36
Alignment explanation
Indices: 8265405--8265493 Score: 124
Period size: 36 Copynumber: 2.5 Consensus size: 36
8265395 CCCTAAATCA
* * *
8265405 AAATCCAAATAAAAATTTAAATCGAGATCAAAATTG
1 AAATCAAAATAAAAATCTAAATCAAGATCAAAATTG
** *
8265441 AAATCAAAATCTAAATCTAAATCAAGATCGAAATTG
1 AAATCAAAATAAAAATCTAAATCAAGATCAAAATTG
8265477 AAATCAAAATAAAAATC
1 AAATCAAAATAAAAATC
8265494 AGAATCAGTG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.57, C:0.12, G:0.07, T:0.24
Consensus pattern (36 bp):
AAATCAAAATAAAAATCTAAATCAAGATCAAAATTG
Found at i:8265554 original size:24 final size:24
Alignment explanation
Indices: 8265513--8265564 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
8265503 GAGTGTTTCA
8265513 AAATTGAAATCAAAATCAAAATCG
1 AAATTGAAATCAAAATCAAAATCG
*
8265537 AAATTGAAATCAAAATCAAAATGG
1 AAATTGAAATCAAAATCAAAATCG
8265561 AAAT
1 AAAT
8265565 CAAAATTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.21
Consensus pattern (24 bp):
AAATTGAAATCAAAATCAAAATCG
Found at i:8274104 original size:9 final size:8
Alignment explanation
Indices: 8274089--8274113 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
8274079 GGCTTCATTC
8274089 ATTTTTTT
1 ATTTTTTT
8274097 ATTTTTTT
1 ATTTTTTT
8274105 ATTTTTTT
1 ATTTTTTT
8274113 A
1 A
8274114 AATTTCGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
ATTTTTTT
Found at i:8274431 original size:13 final size:13
Alignment explanation
Indices: 8274393--8274433 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
8274383 CTTTCTTTAC
8274393 AACAAAATTATAT
1 AACAAAATTATAT
*
8274406 AAC-ATATTAATAT
1 AACAAAATT-ATAT
8274419 AACAAAATTATAT
1 AACAAAATTATAT
8274432 AA
1 AA
8274434 TTATTCAAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 4 0.17
13 16 0.67
14 4 0.17
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (13 bp):
AACAAAATTATAT
Found at i:8275114 original size:21 final size:21
Alignment explanation
Indices: 8275056--8275142 Score: 86
Period size: 21 Copynumber: 4.1 Consensus size: 21
8275046 CCTGATCAGT
8275056 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* ** *
8275076 AAACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
* *
8275097 ATACAACACATAAAGTGCCTA
1 ATACGACACATAAAGTGCCTG
*
8275118 ATGTATGACACATAAAGTGCCTG
1 A--TACGACACATAAAGTGCCTG
8275141 AT
1 AT
8275143 CGGCAAAGCC
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
20 9 0.17
21 25 0.48
23 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:8275436 original size:16 final size:17
Alignment explanation
Indices: 8275415--8275446 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
8275405 TAATAATAGT
8275415 ACTTACCTTA-TATTTC
1 ACTTACCTTATTATTTC
8275431 ACTTACCTTATTATTT
1 ACTTACCTTATTATTT
8275447 GCTTATCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (17 bp):
ACTTACCTTATTATTTC
Found at i:8278339 original size:41 final size:40
Alignment explanation
Indices: 8278288--8278367 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 40
8278278 CATGTTAACG
* *
8278288 CATATCGATGCCACTATCCCAGACAGGGTCTTATACGAAT
1 CATATCGATGCCAATATCCCAGACAGGGTCTTACACGAAT
* *
8278328 CATATACGATGCCAATGTCCCAGACATGGTCTTACACGAA
1 CATAT-CGATGCCAATATCCCAGACAGGGTCTTACACGAA
8278368 ATCACACCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
40 5 0.14
41 30 0.86
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (40 bp):
CATATCGATGCCAATATCCCAGACAGGGTCTTACACGAAT
Found at i:8278616 original size:92 final size:92
Alignment explanation
Indices: 8278488--8279071 Score: 841
Period size: 92 Copynumber: 6.3 Consensus size: 92
8278478 ATTTAATACT
** * * **
8278488 CAAATC-AATTCGGTAATATATATCCATATACGAATCAAATTCGGCAATGTATATCTATATACAA
1 CAAATCAAATTCGACAATGTATAACCATATATAAATCAAATTCGGCAATGTATATCTATATACAA
8278552 ATCAATTCGGCAATGAATATCCATATA
66 ATCAATTCGGCAATGAATATCCATATA
8278579 CAAATCAAATTCGACAATGTATAACCATATATAAATCAAATTCGGCAATGTATATCTATATACAA
1 CAAATCAAATTCGACAATGTATAACCATATATAAATCAAATTCGGCAATGTATATCTATATACAA
8278644 ATCAATTCGGCAATGAATATCCATATA
66 ATCAATTCGGCAATGAATATCCATATA
8278671 CAAATCAAATTCGACAATGTATAACCATATATAAATCAAATTCGGCAATGTATATCTATATACAA
1 CAAATCAAATTCGACAATGTATAACCATATATAAATCAAATTCGGCAATGTATATCTATATACAA
8278736 ATCAATTCGGCAATGAATATCCATATA
66 ATCAATTCGGCAATGAATATCCATATA
* *
8278763 CAAATCAAATGCGGCAATGTATAACCATATATAAATCAAATTCGGCAATGTATATCTATATACAA
1 CAAATCAAATTCGACAATGTATAACCATATATAAATCAAATTCGGCAATGTATATCTATATACAA
* *
8278828 ATCAAATTCGGCAATGTATAACCATATA
66 ATC-AATTCGGCAATGAATATCCATATA
* * ** * *
8278856 CAAATAAAATTC-AGCAATGTATAATCATATACGAATAAAATTCGGCAATGTGTATCTATATACA
1 CAAATCAAATTCGA-CAATGTATAACCATATATAAATCAAATTCGGCAATGTATATCTATATACA
* * * *
8278920 AATCGATTCGGCAATGTATATCTATAAA
65 AATCAATTCGGCAATGAATATCCATATA
* * * * *
8278948 CAAATCAAATTCGACAATGTATATCTATAAATAAATCAATTTCGGCAATGTATATCTATAAACAA
1 CAAATCAAATTCGACAATGTATAACCATATATAAATCAAATTCGGCAATGTATATCTATATACAA
* **
8279013 ATCAAATTCGGCAATGTATATCTTTATA
66 ATC-AATTCGGCAATGAATATCCATATA
* *
8279041 CAAATC-AATTCGGCAATGTATACAACATATA
1 CAAATCAAATTCGACAATGTATA-ACCATATA
8279072 CATTTAAATT
Statistics
Matches: 446, Mismatches: 41, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
91 6 0.01
92 327 0.73
93 113 0.25
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.30
Consensus pattern (92 bp):
CAAATCAAATTCGACAATGTATAACCATATATAAATCAAATTCGGCAATGTATATCTATATACAA
ATCAATTCGGCAATGAATATCCATATA
Found at i:8278707 original size:123 final size:123
Alignment explanation
Indices: 8278488--8279062 Score: 762
Period size: 123 Copynumber: 4.7 Consensus size: 123
8278478 ATTTAATACT
* * *
8278488 CAAATC-AATTCGGTAATATATATCCATATACGAATCAAATTCGGCAATGTATATCTATATACAA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
*
8278552 ATCAATTCGGCAATGAATATCCATATACAAATCAAATTCGACAATGTATAACCATATA
66 ATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGACAATGTATAACCATATA
* * * *
8278610 TAAATCAAATTCGGCAATGTATATCTATATACAAATC-AATTCGGCAATGAATATCCATATACAA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
* * * * * *
8278674 ATCAAATTCGACAATGTATAACCATATATAAATCAAATTCGGCAATGTATATCTATATA
66 ATC-AATTCGGCAATGTATATCCATATACAAATCAAATTCGACAATGTATAACCATATA
* * * * *
8278733 CAAATC-AATTCGGCAATGAATATCCATATACAAATCAAATGCGGCAATGTATAACCATATATAA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
* *
8278797 ATCAAATTCGGCAATGTATATCTATATACAAATCAAATTCGGCAATGTATAACCATATA
66 ATC-AATTCGGCAATGTATATCCATATACAAATCAAATTCGACAATGTATAACCATATA
* * * * *
8278856 CAAATAAAATTCAGCAATGTATAAT-CATATACGAATAAAATTCGGCAATGTGTATCTATATACA
1 CAAATCAAATTCGGCAATGTAT-ATCCATATACAAATCAAATTCGGCAATGTATATCTATATACA
* * * * * *
8278920 AATCGATTCGGCAATGTATATCTATAAACAAATCAAATTCGACAATGTATATCTATAAA
65 AATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGACAATGTATAACCATATA
* * * * *
8278979 TAAATCAATTTCGGCAATGTATATCTATAAACAAATCAAATTCGGCAATGTATATCTTTATACAA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
8279044 ATCAATTCGGCAATGTATA
66 ATCAATTCGGCAATGTATA
8279063 CAACATATAC
Statistics
Matches: 393, Mismatches: 54, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
122 63 0.16
123 279 0.71
124 49 0.12
125 2 0.01
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (123 bp):
CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
ATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGACAATGTATAACCATATA
Found at i:8279073 original size:31 final size:31
Alignment explanation
Indices: 8278488--8279062 Score: 750
Period size: 31 Copynumber: 18.7 Consensus size: 31
8278478 ATTTAATACT
* *
8278488 CAAATC-AATTCGGTAATATATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
8278518 CGAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
8278549 CAAATC-AATTCGGCAATGAATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
8278579 CAAATCAAATTCGACAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
8278610 TAAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
8278641 CAAATC-AATTCGGCAATGAATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
8278671 CAAATCAAATTCGACAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
8278702 TAAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
8278733 CAAATC-AATTCGGCAATGAATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
8278763 CAAATCAAATGCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
8278794 TAAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
8278825 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
8278856 CAAATAAAATTCAGCAATGTATAAT-CATATA
1 CAAATCAAATTCGGCAATGTAT-ATCCATATA
* * * *
8278887 CGAATAAAATTCGGCAATGTGTATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
8278918 CAAATC-GATTCGGCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
8278948 CAAATCAAATTCGACAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * * *
8278979 TAAATCAATTTCGGCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCCATATA
**
8279010 CAAATCAAATTCGGCAATGTATATCTTTATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
8279041 CAAATC-AATTCGGCAATGTATA
1 CAAATCAAATTCGGCAATGTATA
8279063 CAACATATAC
Statistics
Matches: 480, Mismatches: 58, Indels: 14
0.87 0.11 0.03
Matches are distributed among these distances:
30 134 0.28
31 345 0.72
32 1 0.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCCATATA
Found at i:8288625 original size:80 final size:79
Alignment explanation
Indices: 8288538--8288694 Score: 287
Period size: 80 Copynumber: 2.0 Consensus size: 79
8288528 TTGCAATATA
* *
8288538 AGTAAAAATAATTTAAAATATAAAAATTTATTAATATATATTAATATATGTAAAAACAATTTTTT
1 AGTAAAAATAATTTAAAATATAAAAATTTATTAATATATATTAATATATGTAAAAACAACTTTTC
8288603 CGAAAAATATTTCC
66 CGAAAAATATTTCC
8288617 ANGTAAAAATAATTTAAAATATAAAAATTTATTAATATATATTAATATATGTAAAAACAACTTTT
1 A-GTAAAAATAATTTAAAATATAAAAATTTATTAATATATATTAATATATGTAAAAACAACTTTT
8288682 CCGAAAAATATTT
65 CCGAAAAATATTT
8288695 TCAAAAAATC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
79 1 0.01
80 74 0.99
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.38
Consensus pattern (79 bp):
AGTAAAAATAATTTAAAATATAAAAATTTATTAATATATATTAATATATGTAAAAACAACTTTTC
CGAAAAATATTTCC
Found at i:8288769 original size:14 final size:15
Alignment explanation
Indices: 8288747--8288823 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
8288737 CAATCAAACA
8288747 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
8288761 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
8288776 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
8288796 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
8288810 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
8288824 ACTGGAAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:8288788 original size:20 final size:20
Alignment explanation
Indices: 8288763--8288802 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8288753 AATATTTTCC
*
8288763 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
8288783 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
8288803 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:8288808 original size:34 final size:35
Alignment explanation
Indices: 8288751--8288817 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
8288741 CAAACACCAG
*
8288751 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
8288786 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
8288818 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:8288824 original size:14 final size:16
Alignment explanation
Indices: 8288800--8288831 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8288790 CATTTTCCAG
8288800 AAATCATTTTAC-GGA
1 AAATCATTTTACTGGA
8288815 AAAT-ATTTTACTGGA
1 AAATCATTTTACTGGA
8288830 AA
1 AA
8288832 TCAAACAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (16 bp):
AAATCATTTTACTGGA
Found at i:8289185 original size:31 final size:32
Alignment explanation
Indices: 8289145--8289205 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
8289135 TTTATTAAAA
* * *
8289145 ATTATAATTTGACTCTTTTTGAAAGGTTGATG
1 ATTATAATTTGACTATCTTTAAAAGGTTGATG
*
8289177 ATTA-AATTTGATTATCTTTAAAAGGTTGA
1 ATTATAATTTGACTATCTTTAAAAGGTTGA
8289206 AGAGCTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.46
Consensus pattern (32 bp):
ATTATAATTTGACTATCTTTAAAAGGTTGATG
Found at i:8290300 original size:31 final size:31
Alignment explanation
Indices: 8290265--8290324 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
8290255 ATAACACAAT
**
8290265 GACTTAAAT-AAAATCTTTTGAATAATTTAGC
1 GACTTAAATGAAAA-CTTTCAAATAATTTAGC
8290296 GACTTAAATGAAAACTTTCAAATAATTTA
1 GACTTAAATGAAAACTTTCAAATAATTTA
8290325 CCAAATTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (31 bp):
GACTTAAATGAAAACTTTCAAATAATTTAGC
Found at i:8300051 original size:114 final size:114
Alignment explanation
Indices: 8299724--8300043 Score: 450
Period size: 114 Copynumber: 2.8 Consensus size: 114
8299714 CTGAAAATAA
* * * * *
8299724 GCATTAGCGGC-ATTTTCCAGAAAGCGCCGC-AAAATACCTAAGTCCAACGACGCCGTTTTCCGA
1 GCATTAGCGGCGATTTTGC-GAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGA
* *
8299787 GCTTTCGGGAGATTTAGTGGCGTTTTTAAGGAAGCAG-CGCTAATGCTCAGG
65 GCTTTCGGG-GATTTAGCGGCGTTTTTGAGGAAGC-GCCGCTAATGCTCAGG
* * *
8299838 GCTTTAGTGGCGTTTTTGCGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAG
1 GCATTAGCGGCGATTTTGCGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAG
* * *
8299903 CTTTCGGGGATTTAGCAGCTTTTTTGGGGAAGCGCCGCTAATGC-CTAGG
66 CTTTCGGGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTC-AGG
*
8299952 GCATTAGCGGCGATTTTGCGAAAGTGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAG
1 GCATTAGCGGCGATTTTGCGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAG
8300017 CTTTCGGGGATTTAGCGGCGTTTTTGA
66 CTTTCGGGGATTTAGCGGCGTTTTTGA
8300044 TAAAGCGCTA
Statistics
Matches: 182, Mismatches: 20, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
113 2 0.01
114 136 0.75
115 44 0.24
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (114 bp):
GCATTAGCGGCGATTTTGCGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAG
CTTTCGGGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGG
Found at i:8300085 original size:187 final size:187
Alignment explanation
Indices: 8299840--8300239 Score: 602
Period size: 187 Copynumber: 2.1 Consensus size: 187
8299830 TGCTCAGGGC
* ** **
8299840 TTTAGTGGCGTTTTTGCGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGAAACCGTTTTCTGAGCT
* * * * * *
8299905 TTCGGGGATTTAGCAGCTTTTTTGGGGAAGCGCCGCTAATGCCTAGGGCATTAGCGGCGATTTTG
66 TTCAGGGATTTAGCAGCGTTTTTCGGGAAGCGACGCTAATACCCAGGGCATTAGCGGCGATTTTG
* *
8299970 CGAAAGTGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGA
131 CGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGA
* * *
8300027 TTTAGCGGCGTTTTTGATAAAGCGCTACAAAAAAACCTAATCCCAACGAAATCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGAAACCGTTTTCTGAGCT
* * * *
8300092 TTCAGGGATTTAGCGGCGTTTTTCGGGAAGCGACGCTAATACCCAGGGCTTTAGCGGTGTTTTTG
66 TTCAGGGATTTAGCAGCGTTTTTCGGGAAGCGACGCTAATACCCAGGGCATTAGCGGCGATTTTG
*
8300157 CTAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGA
131 CGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGA
*
8300214 TTTAGCGGCGTTTTTAATAAAGCGCC
1 TTTAGCGGCGTTTTTGATAAAGCGCC
8300240 GCTAATGCTC
Statistics
Matches: 190, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
187 190 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.26
Consensus pattern (187 bp):
TTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGAAACCGTTTTCTGAGCT
TTCAGGGATTTAGCAGCGTTTTTCGGGAAGCGACGCTAATACCCAGGGCATTAGCGGCGATTTTG
CGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGA
Found at i:8300123 original size:73 final size:73
Alignment explanation
Indices: 8299955--8300114 Score: 230
Period size: 73 Copynumber: 2.2 Consensus size: 73
8299945 GCCTAGGGCA
* * * * **
8299955 TTAGCGGCGATTTTGCGAAAGTGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCTACAAAAAAACCTAAGCCCAACGAAACCGTTTTCTGAGCTT
*
8300020 TCGGGGAT
66 TCAGGGAT
* * *
8300028 TTAGCGGCGTTTTTGATAAAGCGCTACAAAAAAACCTAATCCCAACGAAATCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCTACAAAAAAACCTAAGCCCAACGAAACCGTTTTCTGAGCTT
8300093 TCAGGGAT
66 TCAGGGAT
8300101 TTAGCGGCGTTTTT
1 TTAGCGGCGTTTTT
8300115 CGGGAAGCGA
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (73 bp):
TTAGCGGCGTTTTTGAGAAAGCGCTACAAAAAAACCTAAGCCCAACGAAACCGTTTTCTGAGCTT
TCAGGGAT
Found at i:8300145 original size:114 final size:114
Alignment explanation
Indices: 8300027--8300417 Score: 561
Period size: 114 Copynumber: 3.4 Consensus size: 114
8300017 CTTTCGGGGA
* * *
8300027 TTTAGCGGCGTTTTTGATAAAGCGCTACAAAAAAACCTAATCCCAACGAAATCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGAAGTCGTTTTCTGAGCT
* ** * * * *
8300092 TTCAGGGATTTAGCGGCGTTTTTCGGGAAGCGACGCTAATACCCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * * * *
8300141 TTTAGCGGTGTTTTTGCTAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCT
1 TTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGAAGTCGTTTTCTGAGCT
*
8300206 TTCGGGGATTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTCAGGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA-GGGC
* *
8300256 TTTAGCGGCGTTTTTGCTAAAGCACCAC-AAAAAACCTAAGCCCAAC-AATGTCGTTTTCTGAGC
1 TTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGAA-GTCGTTTTCTGAGC
* * *
8300319 TTTCGGGGATTTAGCGGCATTTTTAAGTAAGAGCCGCTAATGCTCAGGGC
65 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
8300369 TTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGA
1 TTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGA
8300418 CGCCNNNNNN
Statistics
Matches: 246, Mismatches: 27, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
113 31 0.13
114 184 0.75
115 31 0.13
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGAAGTCGTTTTCTGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:8300290 original size:301 final size:302
Alignment explanation
Indices: 8299777--8300342 Score: 843
Period size: 301 Copynumber: 1.9 Consensus size: 302
8299767 CCAACGACGC
* * * *
8299777 CGTTTTCCGAGCTTTCGGGAGATTTAGTGGCGTTTTTAAGGAAGCAGCGCTAATGCTCAGGGCTT
1 CGTTTTCCGAGCTTTCAGGAGATTTAGCGGCGTTTTTAAGGAAGCAGCGCTAATACCCAGGGCTT
* *
8299842 TAGTGGCGTTTTTGCGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTT
66 TAGCGGCGTTTTTGCGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTT
* ** *
8299907 CGGGGATTTAGCAGCTTTTTTGGGGAAGCGCCGCTAATGCCTAGGGCATTAGCGGCGATTTTGCG
131 CGGGGATTTAGCAGCGTTTTTAAGAAAGCGCCGCTAATGCCTAGGGCATTAGCGGCGATTTTGCG
** * *
8299972 AAAGTGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG
196 AAAGCACCACAAAAAAACCTAAGCCCAACAACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCA
8300037 TTTTTGATAAAGCGCTACAAAAAAACCTAATCCCAACGAAAT
261 TTTTTGATAAAGCGCTACAAAAAAACCTAATCCCAACGAAAT
* **
8300079 CGTTTTCTGAGCTTTCAGG-GATTTAGCGGCGTTTTTCGGGAAGC-GACGCTAATACCCAGGGCT
1 CGTTTTCCGAGCTTTCAGGAGATTTAGCGGCGTTTTTAAGGAAGCAG-CGCTAATACCCAGGGCT
* *
8300142 TTAGCGGTGTTTTTGCTAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTT
65 TTAGCGGCGTTTTTGCGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTT
* * * *
8300207 TCGGGGATTTAGCGGCGTTTTTAATAAAGCGCCGCTAATG-CTCAGGGGCTTTAGCGGCGTTTTT
130 TCGGGGATTTAGCAGCGTTTTTAAGAAAGCGCCGCTAATGCCT-A-GGGCATTAGCGGCGATTTT
* * *
8300271 GCTAAAGCACCAC-AAAAAACCTAAGCCCAACAATGTCGTTTTCTGAGCTTTCGGGGATTTAGCG
193 GCGAAAGCACCACAAAAAAACCTAAGCCCAACAACGCCGTTTTCTGAGCTTTCGGGGATTTAGCG
8300335 GCATTTTT
258 GCATTTTT
8300343 AAGTAAGAGC
Statistics
Matches: 235, Mismatches: 26, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
300 3 0.01
301 188 0.80
302 44 0.19
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (302 bp):
CGTTTTCCGAGCTTTCAGGAGATTTAGCGGCGTTTTTAAGGAAGCAGCGCTAATACCCAGGGCTT
TAGCGGCGTTTTTGCGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTT
CGGGGATTTAGCAGCGTTTTTAAGAAAGCGCCGCTAATGCCTAGGGCATTAGCGGCGATTTTGCG
AAAGCACCACAAAAAAACCTAAGCCCAACAACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCA
TTTTTGATAAAGCGCTACAAAAAAACCTAATCCCAACGAAAT
Found at i:8301625 original size:24 final size:24
Alignment explanation
Indices: 8301598--8301678 Score: 99
Period size: 24 Copynumber: 3.2 Consensus size: 24
8301588 AATAAACAAA
8301598 TAAATAAATAGGTAATTAATTATT
1 TAAATAAATAGGTAATTAATTATT
* *
8301622 TAAATTAATTTTTAGGTAATTAATTGTT
1 TAAA-TAA---ATAGGTAATTAATTATT
*
8301650 TAAATAGATAGGTAATTAATTATT
1 TAAATAAATAGGTAATTAATTATT
8301674 TAAAT
1 TAAAT
8301679 GAATGATACA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
24 24 0.50
25 3 0.06
27 2 0.04
28 19 0.40
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (24 bp):
TAAATAAATAGGTAATTAATTATT
Found at i:8301626 original size:28 final size:28
Alignment explanation
Indices: 8301595--8301678 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 28
8301585 ATAAATAAAC
8301595 AAATAAATAAATAGGTAATTAATTATTT
1 AAATAAATAAATAGGTAATTAATTATTT
* *** *
8301623 AAATTAATTTTTAGGTAATTAATT-GTT
1 AAATAAATAAATAGGTAATTAATTATTT
*
8301650 ---TAAATAGATAGGTAATTAATTATTT
1 AAATAAATAAATAGGTAATTAATTATTT
8301675 AAAT
1 AAAT
8301679 GAATGATACA
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
24 17 0.40
25 2 0.05
27 2 0.05
28 21 0.50
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (28 bp):
AAATAAATAAATAGGTAATTAATTATTT
Found at i:8302415 original size:365 final size:366
Alignment explanation
Indices: 8301730--8302442 Score: 1230
Period size: 365 Copynumber: 2.0 Consensus size: 366
8301720 TTTAGAGGCG
8301730 TTTTGATAAAAAAACGCCACAAAAATTTATTGCATTTACCGATACGGAGTCGTTTCAGCTTAGGA
1 TTTTGATAAAAAAACGCCACAAAAATTTATTGCATTTACCGATACGGAGTCGTTTCAGCTTAGGA
*
8301795 AATAAGTTTTAGTTGTGGCGTTTTTCCGAAAAGCGCCGTAAATAATATTTAAACTTTGCCAAAAC
66 AATAAATTTTAGTTGTGGCGTTTTTCCGAAAAGCGCCGTAAATAATATTTAAACTTTGCCAAAAC
* *
8301860 GGCGCCGTTTCAGTTGAAGGATGGAATATTTTAGTGGCGTTTTATTATAAATGCCGCAAGGATGT
131 GGCGCCGTTTCAGTTAAAGGATGGAATATTTTAGTGGCGTTTTATTAAAAATGCCGCAAGGATGT
* * *
8301925 ATAAAATTTTCTGAAAACGGCGCCGGTTCGATAATATATTAATTGTGGCGTTTTTGGGAAAACGC
196 ATAAAATTTACTGAAAACGACGCCGGTTCGATAATATATTAATTGTGGCGTGTTTGGGAAAACGC
* *
8301990 CAGAATGTTTCCTTATATTTTTATAAAATGGCATCGTTTCTTTCTGTACTTGAAATTTTAGTGGC
261 CAGAATGTTTCCTTAAATTTTTATAAAACGGCATCGTTTCTTTCTGTACTTGAAATTTTAGTGGC
*
8302055 GTTTTTAATTAAAACGCCGCAAAAGGTAGACATTACCGGCT
326 ATTTTTAATTAAAACGCCGCAAAAGGTAGACATTACCGGCT
* * * * *
8302096 TTTTGAT-AAAAAATGCCACAAATATTTATTGCATTTACCGATACGGCGTCGTTTCGGCTTAGGG
1 TTTTGATAAAAAAACGCCACAAAAATTTATTGCATTTACCGATACGGAGTCGTTTCAGCTTAGGA
* * *
8302160 AATAAATTTTAGTTGTGGCGTTTTTCCTAAAAGCGCCGTAAATAATATTTGAACTTTGCGAAAAC
66 AATAAATTTTAGTTGTGGCGTTTTTCCGAAAAGCGCCGTAAATAATATTTAAACTTTGCCAAAAC
* * *
8302225 GGCGCCGTTTTAGTTAAAGGATGGAATCTTTTAGTGGCGTTTTATTAAAAATGCCGTAAGGATGT
131 GGCGCCGTTTCAGTTAAAGGATGGAATATTTTAGTGGCGTTTTATTAAAAATGCCGCAAGGATGT
8302290 ATAAAATTTACTGAAAACGACGCCGGTTCGATAATATATTAATTGTGGCGTGTTTGGGAAAACGC
196 ATAAAATTTACTGAAAACGACGCCGGTTCGATAATATATTAATTGTGGCGTGTTTGGGAAAACGC
*
8302355 CAGAATGTTTCCTTAAATTTTTATAAAACGGCGTCGTTTCTTTCTGTACTTGAAATTTTAGTGGC
261 CAGAATGTTTCCTTAAATTTTTATAAAACGGCATCGTTTCTTTCTGTACTTGAAATTTTAGTGGC
8302420 ATTTTTAATTAAAACGCCGCAAA
326 ATTTTTAATTAAAACGCCGCAAA
8302443 TGTCGATGCA
Statistics
Matches: 326, Mismatches: 21, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
365 319 0.98
366 7 0.02
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (366 bp):
TTTTGATAAAAAAACGCCACAAAAATTTATTGCATTTACCGATACGGAGTCGTTTCAGCTTAGGA
AATAAATTTTAGTTGTGGCGTTTTTCCGAAAAGCGCCGTAAATAATATTTAAACTTTGCCAAAAC
GGCGCCGTTTCAGTTAAAGGATGGAATATTTTAGTGGCGTTTTATTAAAAATGCCGCAAGGATGT
ATAAAATTTACTGAAAACGACGCCGGTTCGATAATATATTAATTGTGGCGTGTTTGGGAAAACGC
CAGAATGTTTCCTTAAATTTTTATAAAACGGCATCGTTTCTTTCTGTACTTGAAATTTTAGTGGC
ATTTTTAATTAAAACGCCGCAAAAGGTAGACATTACCGGCT
Found at i:8303127 original size:18 final size:18
Alignment explanation
Indices: 8303104--8303141 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
8303094 TGTTTGTTAG
8303104 TTACTTGCAGTGTTAATA
1 TTACTTGCAGTGTTAATA
8303122 TTACTTGCAGTGTTAATA
1 TTACTTGCAGTGTTAATA
8303140 TT
1 TT
8303142 TTTGAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (18 bp):
TTACTTGCAGTGTTAATA
Found at i:8303964 original size:16 final size:17
Alignment explanation
Indices: 8303943--8303976 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8303933 ATTTTACATG
8303943 ACATA-TTTTTACTAAA
1 ACATATTTTTTACTAAA
8303959 ACATATTTTTTACTAAA
1 ACATATTTTTTACTAAA
8303976 A
1 A
8303977 TTTACTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (17 bp):
ACATATTTTTTACTAAA
Found at i:8303994 original size:13 final size:13
Alignment explanation
Indices: 8303978--8304796 Score: 92
Period size: 13 Copynumber: 61.5 Consensus size: 13
8303968 TTACTAAAAT
* *
8303978 TTACTTTAATATA
1 TTACTTAAATAAA
8303991 TTACTTAAATAAA
1 TTACTTAAATAAA
*
8304004 TTACTTAAATACA
1 TTACTTAAATAAA
*
8304017 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
8304031 TTGGTTAAATTTA
1 TTACTTAAATAAA
**
8304044 TTACTTAAATATG
1 TTACTTAAATAAA
*
8304057 TTACTTAAATACA
1 TTACTTAAATAAA
*
8304070 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
8304084 TTGTTTAAATTTA
1 TTACTTAAATAAA
*
8304097 TTACTTAAATACA
1 TTACTTAAATAAA
*
8304110 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
8304124 TTGTTTAAATTTA
1 TTACTTAAATAAA
*
8304137 TTACTTAAATACA
1 TTACTTAAATAAA
*
8304150 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
8304164 TTGTTTAAATTTA
1 TTACTTAAATAAA
*
8304177 TTACTTAAATACA
1 TTACTTAAATAAA
*
8304190 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
8304204 TTGTTTAAATTTA
1 TTACTTAAATAAA
*
8304217 TTACTTAAATACA
1 TTACTTAAATAAA
*
8304230 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
8304244 TTGTTTAAATTTA
1 TTACTTAAATAAA
*
8304257 TTACTTAAATACA
1 TTACTTAAATAAA
*
8304270 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
8304284 TTGTTTAAATTTA
1 TTACTTAAATAAA
*
8304297 TTACTTAAATACA
1 TTACTTAAATAAA
*
8304310 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
8304324 TTGTTTAAATTTA
1 TTACTTAAATAAA
*
8304337 TTACTTAAATACA
1 TTACTTAAATAAA
*
8304350 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
8304364 TTGTTTAAATTTA
1 TTACTTAAATAAA
*
8304377 TTACTTAAATACA
1 TTACTTAAATAAA
*
8304390 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
8304404 TTGTTTAAATTTA
1 TTACTTAAATAAA
*
8304417 TTACTTAAATACA
1 TTACTTAAATAAA
*
8304430 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
8304444 TTGTTTAAATTTA
1 TTACTTAAATAAA
*
8304457 TTACTTAAATACA
1 TTACTTAAATAAA
*
8304470 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
8304484 TTGTTTAAATTTA
1 TTACTTAAATAAA
*
8304497 TTACTTAAATACA
1 TTACTTAAATAAA
*
8304510 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
8304524 TTGTTTAAATTTA
1 TTACTTAAATAAA
*
8304537 TTACTTAAATACA
1 TTACTTAAATAAA
*
8304550 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
8304564 TTGTTTAAATTTA
1 TTACTTAAATAAA
*
8304577 TTACTTAAATACA
1 TTACTTAAATAAA
*
8304590 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
8304604 TTGTTTAAATTTA
1 TTACTTAAATAAA
*
8304617 TTACTTAAATACA
1 TTACTTAAATAAA
*
8304630 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
8304644 TTGTTTAAATTTA
1 TTACTTAAATAAA
*
8304657 TTACTTAAATACA
1 TTACTTAAATAAA
*
8304670 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
8304684 TTGTTTAAATTTA
1 TTACTTAAATAAA
*
8304697 TTACTTAAATACA
1 TTACTTAAATAAA
*
8304710 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
8304724 TTGTTTAAATTTA
1 TTACTTAAATAAA
*
8304737 TTACTTAAATACA
1 TTACTTAAATAAA
*
8304750 TTACTTACTAA-AAT
1 TTACTTA--AATAAA
** **
8304764 TTGTTTAAATTTA
1 TTACTTAAATAAA
*
8304777 TTACTTAAATACA
1 TTACTTAAATAAA
8304790 TTACTTA
1 TTACTTA
8304797 CTAAAATTTA
Statistics
Matches: 535, Mismatches: 214, Indels: 114
0.62 0.25 0.13
Matches are distributed among these distances:
12 38 0.07
13 345 0.64
14 114 0.21
15 38 0.07
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (13 bp):
TTACTTAAATAAA
Found at i:8304025 original size:53 final size:52
Alignment explanation
Indices: 8303968--8304116 Score: 217
Period size: 53 Copynumber: 2.8 Consensus size: 52
8303958 AACATATTTT
* *
8303968 TTACTAAAATTTACTTTAATATATTACTTAAATAAATTACTTAAATACATTAC
1 TTACTAAAATTT-GTTTAATTTATTACTTAAATAAATTACTTAAATACATTAC
* **
8304021 TTACTAAAATTTGGTTAAATTTATTACTTAAATATGTTACTTAAATACATTAC
1 TTACTAAAATTT-GTTTAATTTATTACTTAAATAAATTACTTAAATACATTAC
*
8304074 TTACTAAAATTTGTTTAAATTTATTACTTAAATACATTACTTA
1 TTACTAAAATTTGTTT-AATTTATTACTTAAATAAATTACTTA
8304117 CTAAAATTTG
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 3 0.03
53 83 0.97
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.46
Consensus pattern (52 bp):
TTACTAAAATTTGTTTAATTTATTACTTAAATAAATTACTTAAATACATTAC
Found at i:8304047 original size:40 final size:40
Alignment explanation
Indices: 8304003--8304805 Score: 1471
Period size: 40 Copynumber: 19.8 Consensus size: 40
8303993 ACTTAAATAA
*
8304003 ATTACTTAAATACATTACTTACTAAAATTTGGTTAAATTT
1 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
*
8304043 ATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTACTT-AA-A---TAC---ATTAC-TTAC-TA--AAA-TTTGTTTAAATTT
8304096 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
8304136 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
8304176 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
8304216 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
8304256 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
8304296 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
8304336 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
8304376 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
8304416 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
8304456 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
8304496 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
8304536 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
8304576 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
8304616 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
8304656 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
8304696 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
8304736 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
8304776 ATTACTTAAATACATTACTTACTAAAATTT
1 ATTACTTAAATACATTACTTACTAAAATTT
8304806 AAGTATATAT
Statistics
Matches: 747, Mismatches: 3, Indels: 26
0.96 0.00 0.03
Matches are distributed among these distances:
40 690 0.92
41 5 0.01
42 1 0.00
43 2 0.00
44 4 0.01
45 7 0.01
48 7 0.01
49 4 0.01
50 2 0.00
51 1 0.00
52 5 0.01
53 19 0.03
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (40 bp):
ATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
Found at i:8305028 original size:23 final size:23
Alignment explanation
Indices: 8305000--8305043 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
8304990 CTTATATGTA
*
8305000 AACTTACATAATACATTACTTTT
1 AACTTACATAATACATAACTTTT
8305023 AACTTACATAATACATAACTT
1 AACTTACATAATACATAACTT
8305044 ATAATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (23 bp):
AACTTACATAATACATAACTTTT
Found at i:8306752 original size:21 final size:21
Alignment explanation
Indices: 8306679--8306789 Score: 123
Period size: 21 Copynumber: 5.3 Consensus size: 21
8306669 CTACAACTTA
* * *
8306679 AAGCAGAGACGGCAACGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
8306700 AAGTAGAGGCGGCAACGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
8306721 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
8306742 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
8306763 AAGAAGAGGCTGCAGCGCGAG
1 AAGCAGAGGCTGCAGCGAGGG
8306784 AAGCAG
1 AAGCAG
8306790 CGAGAGAAGG
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.35, C:0.18, G:0.43, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:8307269 original size:43 final size:43
Alignment explanation
Indices: 8307173--8307400 Score: 234
Period size: 42 Copynumber: 5.3 Consensus size: 43
8307163 AATCCCAAAA
* ** *
8307173 TTAGTGGCGTTTTTTACAAAAGCGCCGCTAAAGAACATTA-CT
1 TTAGCGGCGTTTTTTATGAAAGCGCCGCTAAAGAACATGATCT
* * *
8307215 TT-TCGTAGCGTTTGTGATGAAAGCGCCGCTAAAGAACATGATCT
1 TTAGCG--GCGTTTTTTATGAAAGCGCCGCTAAAGAACATGATCT
* ** *
8307259 ATAGCGGCGTTTTTTA-CCAAGCGCCGCTAAAGAATATGATCT
1 TTAGCGGCGTTTTTTATGAAAGCGCCGCTAAAGAACATGATCT
* *
8307301 TTAGCGGCGTTTTTCT-T-TAAGCGCTGCTAAAGAACATGATCT
1 TTAGCGGCGTTTTT-TATGAAAGCGCCGCTAAAGAACATGATCT
* * *
8307343 TTAGCGGCGTTTTTTTTCG-AAGCGCCACTAAAGAACATGACCT
1 TTAGCGGCGTTTTTTAT-GAAAGCGCCGCTAAAGAACATGATCT
8307386 TTAGCGGCGTTTTTT
1 TTAGCGGCGTTTTTT
8307401 TCTGTAAACG
Statistics
Matches: 156, Mismatches: 21, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
41 2 0.01
42 75 0.48
43 74 0.47
44 3 0.02
45 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTATGAAAGCGCCGCTAAAGAACATGATCT
Found at i:8307348 original size:84 final size:85
Alignment explanation
Indices: 8307235--8307399 Score: 260
Period size: 85 Copynumber: 2.0 Consensus size: 85
8307225 TTTGTGATGA
* * *
8307235 AAGCGCCGCTAAAGAACATGATCTATAGCGGCG-TTTTTTACCAAGCGCCGCTAAAGAATATGAT
1 AAGCGCCGCTAAAGAACATGATCTATAGCGGCGTTTTTTTACCAAGCGCCACTAAAGAACATGAC
8307299 CTTTAGCGGCGTTTTTCTTT
66 CTTTAGCGGCGTTTTTCTTT
* * * *
8307319 AAGCGCTGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCGAAGCGCCACTAAAGAACATGAC
1 AAGCGCCGCTAAAGAACATGATCTATAGCGGCGTTTTTTTACCAAGCGCCACTAAAGAACATGAC
8307384 CTTTAGCGGCGTTTTT
66 CTTTAGCGGCGTTTTT
8307400 TTCTGTAAAC
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
84 31 0.42
85 42 0.58
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATGATCTATAGCGGCGTTTTTTTACCAAGCGCCACTAAAGAACATGAC
CTTTAGCGGCGTTTTTCTTT
Found at i:8307401 original size:43 final size:42
Alignment explanation
Indices: 8307235--8307401 Score: 246
Period size: 42 Copynumber: 4.0 Consensus size: 42
8307225 TTTGTGATGA
* **
8307235 AAGCGCCGCTAAAGAACATGATCTATAGCGGCGTTTTTTACC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTC
*
8307277 AAGCGCCGCTAAAGAATATGATCTTTAGCGGCGTTTTTCTTT-
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT-TTTC
*
8307319 AAGCGCTGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTC
* *
8307361 GAAGCGCCACTAAAGAACATGACCTTTAGCGGCGTTTTTTT
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
8307402 CTGTAAACGC
Statistics
Matches: 113, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
41 3 0.03
42 72 0.64
43 38 0.34
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTC
Found at i:8309079 original size:17 final size:19
Alignment explanation
Indices: 8309038--8309079 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
8309028 AATCTTCAAG
*
8309038 GATATGCAATCTTAGGTAT
1 GATATGCAATCTTAGGTAA
8309057 GATATGCAATCTTA-G-AA
1 GATATGCAATCTTAGGTAA
8309074 GATATG
1 GATATG
8309080 ATTTTGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 1 0.05
19 14 0.64
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (19 bp):
GATATGCAATCTTAGGTAA
Found at i:8311751 original size:19 final size:19
Alignment explanation
Indices: 8311727--8311771 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8311717 TCTTTCTTTT
*
8311727 TGCATT-CATTCCATGCATC
1 TGCATTACATTCCAT-CATA
*
8311746 TGCATTACATTGCATCATA
1 TGCATTACATTCCATCATA
8311765 TGCATTA
1 TGCATTA
8311772 GATTTTCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (19 bp):
TGCATTACATTCCATCATA
Found at i:8314220 original size:41 final size:41
Alignment explanation
Indices: 8314175--8314276 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
8314165 GCTTAGCGCT
* *
8314175 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAAACTAAATGTC
* * *
8314216 TAGCAGGCTTAATGCCGGTGAAATATTTCAAACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAAACTAAATGTC
8314257 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
8314277 TACTGAATCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 3 0.05
41 52 0.95
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAAACTAAATGTC
Found at i:8319125 original size:44 final size:44
Alignment explanation
Indices: 8319053--8319462 Score: 339
Period size: 44 Copynumber: 9.2 Consensus size: 44
8319043 CAGTGAAACC
* * * *
8319053 ACAAATCTTATCTCCCTGAGGTTACAGTGGAGCGGATTAAAGTT
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * * **
8319097 ACAAGTCTTATCTCCCTGAAGTTGCAGTGAAACAGACTGAAGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * *
8319141 AGCAAGTCTTAT-TCCCCTGAAGTTGCAGTGGGGCAGACTGAAAATGG
1 A-CAAGTCTTATCT-CCCTGAAGTTGCAGTGGAGCAGA-TTAAAGT-T
* * **
8319188 A-AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCC
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * *
8319231 A-ATAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTT
1 ACA-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * *
8319275 ACAAGTCTTATCTCCCTGAAATTGTAGTGGAGCAGACTGAAG--
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * * * *
8319317 A-AAGTAACCTTATCCCCCTGAAATTGCAGTGGGGCAGACTGAAGATG
1 ACAAGT---CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TT
* *
8319364 GCGAA-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTT
1 AC-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * *
8319408 ACAAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTT
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
8319452 ACAAGTCTTAT
1 ACAAGTCTTAT
8319463 TGAAGAAAGC
Statistics
Matches: 292, Mismatches: 58, Indels: 32
0.76 0.15 0.08
Matches are distributed among these distances:
41 4 0.01
42 1 0.00
43 4 0.01
44 186 0.64
45 90 0.31
46 3 0.01
47 1 0.00
48 1 0.00
49 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
Found at i:8319399 original size:177 final size:178
Alignment explanation
Indices: 8319051--8319462 Score: 648
Period size: 177 Copynumber: 2.3 Consensus size: 178
8319041 ATCAGTGAAA
* * * *
8319051 CCACAAATCTTATCTCCCTGAGGTTACAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGA
1 CCACAAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGA
* * * *
8319116 AGTTGCAGTGAAACAGACTGAAGAAAGCAAGTCTTATTCCCCTGAAGTTGCAGTGGGGCAGACTG
66 AATTGCAGTGAAACAGACTGAAGAAAGCAAGCCTTATCCCCCTGAAATTGCAGTGGGGCAGACTG
8319181 AAAATGGAAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG
131 AAAATGGAAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG
8319229 CCA-ATAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTG
1 CCACA-AATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTG
* * * *
8319293 AAATTGTAGTGGAGCAGACTGAAGAAAGTAA-CCTTATCCCCCTGAAATTGCAGTGGGGCAGACT
65 AAATTGCAGTGAAACAGACTGAAGAAAGCAAGCCTTATCCCCCTGAAATTGCAGTGGGGCAGACT
* **
8319357 GAAGATGGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG
130 GAAAATGGAAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG
**
8319406 TTACAAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTAT
1 CCACAAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTAT
8319463 TGAAGAAAGC
Statistics
Matches: 215, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
177 130 0.60
178 85 0.40
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (178 bp):
CCACAAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGA
AATTGCAGTGAAACAGACTGAAGAAAGCAAGCCTTATCCCCCTGAAATTGCAGTGGGGCAGACTG
AAAATGGAAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG
Found at i:8319893 original size:44 final size:45
Alignment explanation
Indices: 8319839--8319963 Score: 143
Period size: 44 Copynumber: 2.9 Consensus size: 45
8319829 CACATCAAAC
8319839 CTTATCTCCCTGAAGTTGCAGTGGAA-CAGG-TTGAAAATACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAAGC-GGATTGAAAATACCAAT
* * ** *
8319883 CTTATCTCCCTAAAGTTGCAGT-AAAGCGGATTGAAGCTACTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAAGCGGATTGAAAATACCAAT
* *
8319927 CCTATCTCCTTGAAGTTGCAGTGG-AGCGGATT-AAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAAGCGGATTGAAAAT
8319964 GATGAATCTT
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
43 7 0.10
44 60 0.90
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAAGCGGATTGAAAATACCAAT
Found at i:8319918 original size:225 final size:223
Alignment explanation
Indices: 8319469--8319953 Score: 557
Period size: 225 Copynumber: 2.2 Consensus size: 223
8319459 TTATTGAAGA
* * * * * *
8319469 AAGC-AAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATAGCGAATCTCATTTTCCT
1 AAGCTAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCTCATTTCCCT
* * * *
8319533 GAAGCTGCAGTGGAACAAATTAAAGTTATAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGA
66 GAAGCTGCAGTGGAACAAATCAAAGATATAAATCAAAGATCTTATCTCTCTGAAGTTGCAATAGA
* * * * * *
8319598 GTAGATCATGACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCTAATAATCCTAT
131 GCAGATCATCACAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGATAACAATCCTAT
** *
8319663 CTACTAGAAGTTGCAGTGGAGTGAATTG
196 CTACTAGAAGTTGCAGTAAAGCGAATTG
** *
8319691 AAG-TGAAGTCTTATCTCCTTGAAGTTATAGTGGAGCAAACTGAAGATAGCAAATCTCGTTTCCC
1 AAGCT-AAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCTCATTTCCC
* * * *
8319755 TGAAGATTGCAGTGGAATAGATCAAAGATATAAATCATAAGATCTTATCTTTCTGAAGTTGCAAT
65 TGAAG-CTGCAGTGGAACAAATCAAAGATATAAATCA-AAGATCTTATCTCTCTGAAGTTGCAAT
* * *
8319820 AGAGCAGATCA-CATCAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAA-ATACCAAT
128 AGAGCAGATCATCA-CAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATT-AAAGATAACAAT
* * *
8319883 CTTATCTCCCTA-AAGTTGCAGTAAAGCGGATTG
191 CCTATCT-ACTAGAAGTTGCAGTAAAGCGAATTG
* *
8319916 AAGCTACTAATCCTATCTCCTTGAAGTTGCAGTGGAGC
1 AAGCTA--AGTCTTATCTCCTTGAAGTTGCAGTGGAGC
8319954 GGATTAAAAT
Statistics
Matches: 217, Mismatches: 36, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
222 3 0.01
223 55 0.25
224 27 0.12
225 99 0.46
226 7 0.03
227 26 0.12
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (223 bp):
AAGCTAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCTCATTTCCCT
GAAGCTGCAGTGGAACAAATCAAAGATATAAATCAAAGATCTTATCTCTCTGAAGTTGCAATAGA
GCAGATCATCACAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGATAACAATCCTAT
CTACTAGAAGTTGCAGTAAAGCGAATTG
Found at i:8320131 original size:89 final size:88
Alignment explanation
Indices: 8320035--8320312 Score: 342
Period size: 89 Copynumber: 3.1 Consensus size: 88
8320025 CTCCTTAAAG
8320035 TTGCAGCGGAGCAGACTAACGATAGTAGATCTTGTCTTCCTATATTGGCAGCGAAGCAGATCGAA
1 TTGCAGCGGAGCAGACTAA-GATAGTAGATCTTGTCTTCCTATATTGGCAGCGAAGCAGATCGAA
8320100 GACACCAGCCTTACCTCCTTGAGT
65 GACACCAGCCTTACCTCCTTGAGT
* * *
8320124 TTGCAGCGGAGCAGACTGAAGATAGTAGATCTTCTCTTCCTATATTGGCAACGAAACAGATCGAA
1 TTGCAGCGGAGCAGACT-AAGATAGTAGATCTTGTCTTCCTATATTGGCAGCGAAGCAGATCGAA
* *
8320189 GACACCAGTCTTACCTCCCTGAGT
65 GACACCAGCCTTACCTCCTTGAGT
* * * * ** * * * * *
8320213 TTGCAACGGAACAGACTAAAAACAACAAATCTTGTCTTCTTGTACTGGCAGTGAAGCAGATCGAA
1 TTGCAGCGGAGCAGACT-AAGATAGTAGATCTTGTCTTCCTATATTGGCAGCGAAGCAGATCGAA
* *
8320278 AACACCAGCCTTGCCT-CTCTGAGT
65 GACACCAGCCTTACCTCCT-TGAGT
*
8320302 TTGCAGTGGAG
1 TTGCAGCGGAG
8320313 TATGTAATAT
Statistics
Matches: 160, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
88 1 0.01
89 157 0.98
90 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (88 bp):
TTGCAGCGGAGCAGACTAAGATAGTAGATCTTGTCTTCCTATATTGGCAGCGAAGCAGATCGAAG
ACACCAGCCTTACCTCCTTGAGT
Found at i:8320226 original size:44 final size:44
Alignment explanation
Indices: 8320091--8320227 Score: 120
Period size: 44 Copynumber: 3.1 Consensus size: 44
8320081 GGCAGCGAAG
* * * *
8320091 CAGATCGAAGACACCAGCCTTACCTCCTTGAGTTTGCAGCGGAG
1 CAGATCGAAGACACCAGTCTTACCTCCCTGAGTTTGCAACGGAA
* ** * *
8320135 CAGA-CTGAAGATAGTAGATCTT-CTCTTCCT-A-TATTGGCAACGAAA
1 CAGATC-GAAGACACCAG-TCTTAC-CTCCCTGAGT-TT-GCAACGGAA
8320180 CAGATCGAAGACACCAGTCTTACCTCCCTGAGTTTGCAACGGAA
1 CAGATCGAAGACACCAGTCTTACCTCCCTGAGTTTGCAACGGAA
8320224 CAGA
1 CAGA
8320228 CTAAAAACAA
Statistics
Matches: 70, Mismatches: 14, Indels: 18
0.69 0.14 0.18
Matches are distributed among these distances:
43 2 0.03
44 37 0.53
45 29 0.41
46 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (44 bp):
CAGATCGAAGACACCAGTCTTACCTCCCTGAGTTTGCAACGGAA
Found at i:8322819 original size:131 final size:132
Alignment explanation
Indices: 8322528--8322911 Score: 592
Period size: 131 Copynumber: 2.9 Consensus size: 132
8322518 GGGTGTTACA
8322528 GAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAA
1 GAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAA
* *
8322593 TCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCTTGAGCAGCAA
66 TCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAGCAA
8322658 TG
131 TG
* * * * * *
8322660 GAGTAGGTTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAATGGAGTAGATCGAAGACGACAAA
1 GAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAA
* * * *
8322725 TCTTATCTTCCCGAGATAGTA-GGAAGCAGATTTAAGCCACCAGTTCTATCTCCCTGAGCAGTAG
66 TCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAGCAA
8322789 TG
131 TG
* *
8322791 GAGTAGGTTGAAGATTGTATATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAG
1 GAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAA
* * *
8322856 TCTTATCTTCCCGAGGTAGTAGGGAAACAGATTTAAGCTACTAG-CCTTATCTCCCT
66 TCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCC-TATCTCCCT
8322912 AAAGTTGCAG
Statistics
Matches: 225, Mismatches: 25, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
131 119 0.53
132 106 0.47
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (132 bp):
GAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAA
TCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAGCAA
TG
Found at i:8323245 original size:15 final size:14
Alignment explanation
Indices: 8323218--8323248 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8323208 GGGCTCACAA
8323218 AAAAATAATAAACC
1 AAAAATAATAAACC
*
8323232 AAAAATAATAAAAC
1 AAAAATAATAAACC
8323246 AAA
1 AAA
8323249 GTCCAAGTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAATAATAAACC
Found at i:8323383 original size:19 final size:19
Alignment explanation
Indices: 8323359--8323414 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
8323349 ATAATCTTCA
*
8323359 ATGATATGCAATCATAGGT
1 ATGATATGCAATCATAGAT
*
8323378 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCATAGAT
*
8323397 ATGATATGCAATCTTAGA
1 ATGATATGCAATCATAGA
8323415 AGATATGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (19 bp):
ATGATATGCAATCATAGAT
Found at i:8325213 original size:20 final size:20
Alignment explanation
Indices: 8325184--8325221 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
8325174 TTTTAAACTC
*
8325184 TTTAACTCGATTGAAACATT
1 TTTAAATCGATTGAAACATT
8325204 TTTAAATCGATTGAAACA
1 TTTAAATCGATTGAAACA
8325222 CTGCTCCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (20 bp):
TTTAAATCGATTGAAACATT
Found at i:8326290 original size:23 final size:23
Alignment explanation
Indices: 8326247--8326290 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
8326237 TGACCATTAT
* *
8326247 ATAAAAGAGATCAAGTTAGGTAG
1 ATAAAAGAGATCAAATCAGGTAG
8326270 ATAAAAGAGATCAAATCAGGT
1 ATAAAAGAGATCAAATCAGGT
8326291 GAACAGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.23, T:0.20
Consensus pattern (23 bp):
ATAAAAGAGATCAAATCAGGTAG
Found at i:8341398 original size:15 final size:15
Alignment explanation
Indices: 8341374--8341404 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8341364 GTTAATTGTG
*
8341374 ATTAAGGTTTAATTA
1 ATTAAAGTTTAATTA
8341389 ATTAAAGTTTAATTA
1 ATTAAAGTTTAATTA
8341404 A
1 A
8341405 GTGATTAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (15 bp):
ATTAAAGTTTAATTA
Found at i:8348476 original size:18 final size:18
Alignment explanation
Indices: 8348455--8348497 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
8348445 AATGAGATAA
8348455 AGATGAAGATGAAGATGG
1 AGATGAAGATGAAGATGG
* *
8348473 AGATGGAGATGAAGGTGG
1 AGATGAAGATGAAGATGG
*
8348491 AGGTGAA
1 AGATGAA
8348498 TGTAATATCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.44, T:0.16
Consensus pattern (18 bp):
AGATGAAGATGAAGATGG
Found at i:8348491 original size:12 final size:12
Alignment explanation
Indices: 8348455--8348497 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
8348445 AATGAGATAA
*
8348455 AGATGAAGATGA
1 AGATGAAGATGG
*
8348467 AGATGGAGATGG
1 AGATGAAGATGG
*
8348479 AGATGAAGGTGG
1 AGATGAAGATGG
*
8348491 AGGTGAA
1 AGATGAA
8348498 TGTAATATCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.44, T:0.16
Consensus pattern (12 bp):
AGATGAAGATGG
Found at i:8348582 original size:27 final size:27
Alignment explanation
Indices: 8348552--8348639 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
8348542 TTGGTATTTT
* **
8348552 CCAGTAGGCTTGGCGAGCAGGGGTTCG
1 CCAGAAGGCTTGGTAAGCAGGGGTTCG
* *
8348579 CCAGAAGGCTTAGTAAGCAGAGGTTCG
1 CCAGAAGGCTTGGTAAGCAGGGGTTCG
* *
8348606 CTAGAAGGCTTGGTAAGTAGGGGGTTCG
1 CCAGAAGGCTTGGTAAGCA-GGGGTTCG
8348634 CCAGAA
1 CCAGAA
8348640 AGCCTAGCGA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 38 0.76
28 12 0.24
ACGTcount: A:0.24, C:0.18, G:0.39, T:0.19
Consensus pattern (27 bp):
CCAGAAGGCTTGGTAAGCAGGGGTTCG
Found at i:8352337 original size:19 final size:19
Alignment explanation
Indices: 8352286--8352337 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
8352276 TTATGGTACA
* *
8352286 GATACTCTTTTATAAGTATC
1 GATACTATTTT-TTAGTATC
**
8352306 GATACTAAATTTTAGTATC
1 GATACTATTTTTTAGTATC
8352325 GATACTATTTTTT
1 GATACTATTTTTT
8352338 GATTCTGTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.48
Consensus pattern (19 bp):
GATACTATTTTTTAGTATC
Found at i:8352401 original size:19 final size:21
Alignment explanation
Indices: 8352377--8352427 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
8352367 AAAGCCATGT
*
8352377 GTATCGATAC-CT-TTGTAAA
1 GTATCGATACTCTGATGTAAA
8352396 GTATCGATACTCTGATGTAAA
1 GTATCGATACTCTGATGTAAA
*
8352417 GTACCGATACT
1 GTATCGATACT
8352428 TTAGTCCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 10 0.36
20 2 0.07
21 16 0.57
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (21 bp):
GTATCGATACTCTGATGTAAA
Found at i:8379504 original size:41 final size:41
Alignment explanation
Indices: 8379454--8379540 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 41
8379444 TTTTAAATCC
8379454 AGTTAAAATTTAAATTACATTTTAATCATTCAACTTTAAAA
1 AGTTAAAATTTAAATTACATTTTAATCATTCAACTTTAAAA
*
8379495 AGTTAAAATTTAAATTACATTTTAATCATTCAATTTTAAAA
1 AGTTAAAATTTAAATTACATTTTAATCATTCAACTTTAAAA
8379536 AGTTA
1 AGTTA
8379541 TGATATAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (41 bp):
AGTTAAAATTTAAATTACATTTTAATCATTCAACTTTAAAA
Found at i:8380064 original size:20 final size:18
Alignment explanation
Indices: 8380041--8380093 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 18
8380031 GATAAAATAA
8380041 AGTTAAAATTGTTTCAATTG
1 AGTTAAAA-TGTTTCAA-TG
8380061 AGTTAAACAT-TTTCAATG
1 AGTTAAA-ATGTTTCAATG
8380079 ATGTTAAAACTGTTT
1 A-GTTAAAA-TGTTT
8380094 TTAAACAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 4 0.14
19 13 0.45
20 11 0.38
21 1 0.03
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (18 bp):
AGTTAAAATGTTTCAATG
Found at i:8383575 original size:25 final size:25
Alignment explanation
Indices: 8383547--8383605 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
8383537 ACACGGGAAC
8383547 AATGCTCACACAAGCTGGGACAGTA
1 AATGCTCACACAAGCTGGGACAGTA
* * *
8383572 AATGCTCACACTAGCTGTGACTGTA
1 AATGCTCACACAAGCTGGGACAGTA
*
8383597 AATGTTCAC
1 AATGCTCAC
8383606 GAGATGTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (25 bp):
AATGCTCACACAAGCTGGGACAGTA
Found at i:8385931 original size:21 final size:22
Alignment explanation
Indices: 8385907--8385951 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
8385897 TGTATTAAAA
*
8385907 TTATCAAATTAATTTTT-AATT
1 TTATAAAATTAATTTTTAAATT
8385928 TTATAAAATTAATTTTTAAATT
1 TTATAAAATTAATTTTTAAATT
8385950 TT
1 TT
8385952 TATGTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATAAAATTAATTTTTAAATT
Found at i:8388186 original size:10 final size:10
Alignment explanation
Indices: 8388165--8388206 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
8388155 CATACGAACC
8388165 AGAAAG-AAA
1 AGAAAGAAAA
8388174 AGAAAGAAAA
1 AGAAAGAAAA
*
8388184 AGAAAAAAAA
1 AGAAAGAAAA
8388194 AGAAAGAAGAA
1 AGAAAGAA-AA
8388205 AG
1 AG
8388207 GAGAAAGACG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 6 0.21
10 19 0.66
11 4 0.14
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AGAAAGAAAA
Found at i:8388203 original size:7 final size:7
Alignment explanation
Indices: 8388173--8388214 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
8388163 CCAGAAAGAA
8388173 AAGAAAG
1 AAGAAAG
8388180 AA-AAAG
1 AAGAAAG
* *
8388186 AAAAAAA
1 AAGAAAG
8388193 AAGAAAG
1 AAGAAAG
8388200 AAGAAAG
1 AAGAAAG
*
8388207 GAGAAAG
1 AAGAAAG
8388214 A
1 A
8388215 CGCAAGGCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (7 bp):
AAGAAAG
Found at i:8396937 original size:46 final size:46
Alignment explanation
Indices: 8396868--8396962 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
8396858 ACAAAGATAG
*
8396868 AAACCAAAATATTATCTCTTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
*
8396914 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTTATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
8396960 AAA
1 AAA
8396963 AGAAAAGAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.36
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:8398738 original size:57 final size:56
Alignment explanation
Indices: 8398650--8398759 Score: 202
Period size: 57 Copynumber: 1.9 Consensus size: 56
8398640 GCCGTGGAGG
8398650 GGAGAATTTCGGGGATGGACTTTTCTTCTGAATGGTGTGTATGACAAAGTCCCGTA
1 GGAGAATTTCGGGGATGGACTTTTCTTCTGAATGGTGTGTATGACAAAGTCCCGTA
*
8398706 NGGAGAATTTTGGGGATGGACTTTTCTTCTGAATGGTGTGTATGACAAAGTCCC
1 -GGAGAATTTCGGGGATGGACTTTTCTTCTGAATGGTGTGTATGACAAAGTCCC
8398760 ACAACCGAAC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.33
Consensus pattern (56 bp):
GGAGAATTTCGGGGATGGACTTTTCTTCTGAATGGTGTGTATGACAAAGTCCCGTA
Found at i:8401530 original size:46 final size:46
Alignment explanation
Indices: 8401478--8402308 Score: 1662
Period size: 46 Copynumber: 18.1 Consensus size: 46
8401468 ACAAAGATAG
8401478 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
8401524 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
8401570 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
8401616 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
8401662 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
8401708 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
8401754 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
8401800 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
8401846 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
8401892 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
8401938 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
8401984 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
8402030 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
8402076 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
8402122 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
8402168 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
8402214 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
8402260 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
8402306 AAA
1 AAA
8402309 AAAAAAAGGA
Statistics
Matches: 785, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 785 1.00
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:8409468 original size:108 final size:108
Alignment explanation
Indices: 8409324--8409565 Score: 412
Period size: 108 Copynumber: 2.2 Consensus size: 108
8409314 GTTATCCGTT
* *
8409324 ATCGGTGGATTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTC
1 ATCGG-GGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTC
*
8409389 ACATTTAAGATACGGTGGGATCAGCACTTAGCAACCACCAATGA
65 ACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGA
* * *
8409433 TTCGGGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCTTTTCG
1 ATCGGGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCA
8409498 CATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGA
66 CATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGA
*
8409541 ATCGGGGAATCAACACTTAGCAACC
1 ATCGGGGAATCAGCACTTAGCAACC
8409566 CCTTTCACAT
Statistics
Matches: 125, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
108 121 0.97
109 4 0.03
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (108 bp):
ATCGGGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCA
CATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGA
Found at i:8409517 original size:75 final size:75
Alignment explanation
Indices: 8409438--8409644 Score: 378
Period size: 75 Copynumber: 2.8 Consensus size: 75
8409428 AATGATTCGG
* * *
8409438 GGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCTTTTCGCATTT
1 GGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTTCACATTT
8409503 AAGATACGGT
66 AAGATACGGT
8409513 GGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTTCACATTT
1 GGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTTCACATTT
8409578 AAGATACGGT
66 AAGATACGGT
*
8409588 GGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTT
1 GGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTT
8409645 GGGGGAATCA
Statistics
Matches: 128, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 128 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (75 bp):
GGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTTCACATTT
AAGATACGGT
Found at i:8409530 original size:42 final size:40
Alignment explanation
Indices: 8409471--8409607 Score: 135
Period size: 42 Copynumber: 3.5 Consensus size: 40
8409461 AATGAGTCGG
8409471 GGAATCAACACTTAGCAACCCTTTTCGCATTTAAGATACGGT
1 GGAATCAACACTTAGCAACCC-TTTC-CATTTAAGATACGGT
* * * *
8409513 GGAATCAGCACTTAGCAA-CC--ACCA-ATGA-AT-CGG-
1 GGAATCAACACTTAGCAACCCTTTCCATTTAAGATACGGT
8409546 GGAATCAACACTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAACACTTAGCAA-CCCTTTC-CATTTAAGATACGGT
* *
8409588 GGGATCAGCACTTAGCAACC
1 GGAATCAACACTTAGCAACC
8409608 ACCAATGAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
33 17 0.22
34 3 0.04
35 4 0.05
36 2 0.03
37 3 0.04
38 3 0.04
39 2 0.03
40 2 0.03
41 7 0.09
42 33 0.43
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (40 bp):
GGAATCAACACTTAGCAACCCTTTCCATTTAAGATACGGT
Found at i:8409656 original size:27 final size:28
Alignment explanation
Indices: 8409619--8409672 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 28
8409609 CCAATGAATC
8409619 GGGGAATCAACACTTAGCAA-CCCCTTG
1 GGGGAATCAACACTTAGCAAGCCCCTTG
8409646 GGGGAATCAACACTTAGCAAGCCCCTT
1 GGGGAATCAACACTTAGCAAGCCCCTT
8409673 TATATTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (28 bp):
GGGGAATCAACACTTAGCAAGCCCCTTG
Found at i:8416611 original size:102 final size:101
Alignment explanation
Indices: 8416486--8416674 Score: 326
Period size: 102 Copynumber: 1.9 Consensus size: 101
8416476 CACCAATGAG
* * *
8416486 TCGGGGGATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAAC
1 TCGGGGGATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGATGGAATCAGCACTTAGCAAC
8416551 CACCAATGA-TTCGGGGAATCAACACTTAGCAACCCC
66 CACCAATGAGTT-GGGGAATCAACACTTAGCAACCCC
8416587 TCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGATGGAATCAGCACTTAGCAA
1 TCGGGGG-ATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGATGGAATCAGCACTTAGCAA
8416652 CCACCAATGAGTTGGGGAATCAA
65 CCACCAATGAGTTGGGGAATCAA
8416675 GGAATGTTAT
Statistics
Matches: 83, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
101 7 0.08
102 74 0.89
103 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (101 bp):
TCGGGGGATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGATGGAATCAGCACTTAGCAAC
CACCAATGAGTTGGGGAATCAACACTTAGCAACCCC
Found at i:8417738 original size:79 final size:79
Alignment explanation
Indices: 8417638--8417799 Score: 252
Period size: 79 Copynumber: 2.1 Consensus size: 79
8417628 GATGGCCTTA
* * *
8417638 AGATTGCTTGGAACTAAGGATATAGACAAGTTGCAACGGTAGTTGACTGCTTGTAGGCTATTAAT
1 AGATGGCTTGGAACAAAGGATATAGACAAGTTGCAACGGTAGTTGACTACTTGTAGGCTATTAAT
8417703 TTGATTACTACACT
66 TTGATTACTACACT
** *
8417717 AGATGGCTTGGAACAAAGGATATAGACAAGTTGCAGTGGTAGTTGACTACTTGTAGGCTATTTAT
1 AGATGGCTTGGAACAAAGGATATAGACAAGTTGCAACGGTAGTTGACTACTTGTAGGCTATTAAT
**
8417782 TTGATTGGTACACT
66 TTGATTACTACACT
8417796 AGAT
1 AGAT
8417800 ACGCATAGAA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (79 bp):
AGATGGCTTGGAACAAAGGATATAGACAAGTTGCAACGGTAGTTGACTACTTGTAGGCTATTAAT
TTGATTACTACACT
Found at i:8423848 original size:18 final size:18
Alignment explanation
Indices: 8423825--8423861 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
8423815 ACTTTTAGTC
8423825 CTACTCTTAAAAAATTAT
1 CTACTCTTAAAAAATTAT
8423843 CTACTCTTAAAAAATTAT
1 CTACTCTTAAAAAATTAT
8423861 C
1 C
8423862 CTAAATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (18 bp):
CTACTCTTAAAAAATTAT
Found at i:8424065 original size:14 final size:14
Alignment explanation
Indices: 8424020--8424074 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
8424010 GGATGTGTCG
8424020 GGCCTAACATATCT
1 GGCCTAACATATCT
** *
8424034 GGCGGATA-AT-TTT
1 GGCCTA-ACATATCT
8424047 GGCCTAACATATCT
1 GGCCTAACATATCT
8424061 GGCCTAACATATCT
1 GGCCTAACATATCT
8424075 TTGTGGGTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
12 1 0.03
13 8 0.25
14 22 0.69
15 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (14 bp):
GGCCTAACATATCT
Found at i:8434258 original size:20 final size:20
Alignment explanation
Indices: 8434233--8434296 Score: 101
Period size: 20 Copynumber: 3.1 Consensus size: 20
8434223 ATGCGACTAC
*
8434233 AATAATACCAATTTTATAAT
1 AATAATATCAATTTTATAAT
8434253 AATAATATCAATTTTATAAT
1 AATAATATCAATTTTATAAT
*
8434273 AATAATATCGATTTTAATAAT
1 AATAATATCAATTTT-ATAAT
8434294 AAT
1 AAT
8434297 GGTATTAATC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 33 0.80
21 8 0.20
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (20 bp):
AATAATATCAATTTTATAAT
Found at i:8434494 original size:6 final size:6
Alignment explanation
Indices: 8434483--8434548 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
8434473 GAGTACTATA
* * *
8434483 ATAATG ATAATG -TAATT ATAATG ATAATG ATAATA ATAA-G ATTAATA
1 ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG A-TAATG
*
8434530 ATCACATC ATAATG ATAAT
1 AT-A-ATG ATAATG ATAAT
8434549 AAAATAAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
5 5 0.10
6 36 0.75
7 3 0.06
8 4 0.08
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.35
Consensus pattern (6 bp):
ATAATG
Found at i:8434505 original size:17 final size:18
Alignment explanation
Indices: 8434480--8434548 Score: 70
Period size: 17 Copynumber: 3.8 Consensus size: 18
8434470 AAGGAGTACT
8434480 ATAATAATGATAATG-TA
1 ATAATAATGATAATGATA
*
8434497 ATTATAATGATAATGATA
1 ATAATAATGATAATGATA
*
8434515 ATAATAA-GATTAATAATCA
1 ATAATAATGA-TAATGAT-A
*
8434534 CATCATAATGATAAT
1 -ATAATAATGATAAT
8434549 AAAATAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
17 16 0.37
18 14 0.33
19 1 0.02
20 10 0.23
21 2 0.05
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (18 bp):
ATAATAATGATAATGATA
Found at i:8434652 original size:20 final size:20
Alignment explanation
Indices: 8434627--8434669 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
8434617 AAAGTGCTAA
8434627 AAAATAATAAA-AGCAATAAT
1 AAAATAATAAAGA-CAATAAT
*
8434647 AAAATAATAATGACAATAAT
1 AAAATAATAAAGACAATAAT
8434667 AAA
1 AAA
8434670 TGAACAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAATAATAAAGACAATAAT
Found at i:8442113 original size:8 final size:8
Alignment explanation
Indices: 8442100--8442126 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
8442090 TAATGAAGAC
8442100 AAAGAAAT
1 AAAGAAAT
8442108 AAAGAAAT
1 AAAGAAAT
8442116 AAAGAAAT
1 AAAGAAAT
8442124 AAA
1 AAA
8442127 TATGTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAGAAAT
Found at i:8442292 original size:13 final size:14
Alignment explanation
Indices: 8442234--8442293 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
8442224 ATACATAAAC
8442234 AAATAGTAATAATAA
1 AAATAGTAA-AATAA
*
8442249 TAGATA-TAATAATAA
1 -AAATAGTAA-AATAA
* *
8442264 ATATAGTAAAAGAA
1 AAATAGTAAAATAA
8442278 AAATAG-AAAATAA
1 AAATAGTAAAATAA
8442291 AAA
1 AAA
8442294 AACAAAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
13 9 0.24
14 13 0.34
15 12 0.32
16 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.23
Consensus pattern (14 bp):
AAATAGTAAAATAA
Found at i:8442325 original size:18 final size:18
Alignment explanation
Indices: 8442304--8442338 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
8442294 AACAAAAAAA
8442304 TATAAATATAAATAAATG
1 TATAAATATAAATAAATG
8442322 TATAAATATAAATAAAT
1 TATAAATATAAATAAAT
8442339 AAATACAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
TATAAATATAAATAAATG
Found at i:8443764 original size:44 final size:43
Alignment explanation
Indices: 8443650--8443804 Score: 163
Period size: 44 Copynumber: 3.6 Consensus size: 43
8443640 CTTCAATCTA
* * * *
8443650 CTCTACTGCAACTTCAGAGAGATGAGATTTGTAATTTCAACCTA
1 CTCTACTGCAACTTCAGAGAGATAAGGTTTGT-ATTTCAACTTG
* *
8443694 CT-TCACTGCAACTTCAGGGAGATAAGGCTTGTAGTTTCAACTTG
1 CTCT-ACTGCAACTTCAGAGAGATAAGGTTTGTA-TTTCAACTTG
* * * *
8443738 CTCTACTGCAACTTCAAAGAGATAAGGTTTG-ATAT-GATTTG
1 CTCTACTGCAACTTCAGAGAGATAAGGTTTGTATTTCAACTTG
*
8443779 CTCTACTACAACTTCAGAGAGATAAG
1 CTCTACTGCAACTTCAGAGAGATAAG
8443805 ATCTGTAATT
Statistics
Matches: 94, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
41 28 0.30
42 2 0.02
43 3 0.03
44 60 0.64
45 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (43 bp):
CTCTACTGCAACTTCAGAGAGATAAGGTTTGTATTTCAACTTG
Found at i:8443798 original size:129 final size:136
Alignment explanation
Indices: 8443650--8443901 Score: 322
Period size: 137 Copynumber: 1.9 Consensus size: 136
8443640 CTTCAATCTA
* * *
8443650 CTCTACTGCAACTTCAGAGAGATGAGATTTGTAATTTCA-A-C-CT-A-C-TT-CACTGCAACTT
1 CTCTACTACAACTTCAGAGAGATAAGATCTGTAATTT-ATAGCTCTAATCGTTCCACTGCAACTT
* * * * *
8443708 CAGGGAGATAAGGCTT-GTAGTTTCAACTTGCTCTACTGCAACTTCAAAGAGATAAGGTTTGATA
65 CAGGGAAATAAGACTTGGTAATTTCAACCTGCTCCACTGCAACTTCAAAGAGATAAGGTTTGATA
8443772 TGATTTG
130 TGATTTG
* *
8443779 CTCTACTACAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTTAATCTGTTCCACTGCAGCTT
1 CTCTACTACAACTTCAGAGAGATAAGATCTGTAATTTATAGCTCTAATC-GTTCCACTGCAACTT
* *
8443844 CAGGGAAATAAGATTTGGTAATTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGG
65 CAGGGAAATAAGACTTGGTAATTTCAACCTGCTCCACTGCAACTTCAAAGAGATAAGG
8443902 ATTGTGGCTT
Statistics
Matches: 102, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
128 1 0.01
129 35 0.34
130 1 0.01
131 1 0.01
132 1 0.01
133 1 0.01
135 2 0.02
136 23 0.23
137 37 0.36
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (136 bp):
CTCTACTACAACTTCAGAGAGATAAGATCTGTAATTTATAGCTCTAATCGTTCCACTGCAACTTC
AGGGAAATAAGACTTGGTAATTTCAACCTGCTCCACTGCAACTTCAAAGAGATAAGGTTTGATAT
GATTTG
Found at i:8455478 original size:8 final size:8
Alignment explanation
Indices: 8455465--8455491 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
8455455 TAATGAAGAC
8455465 AAAGAAAT
1 AAAGAAAT
8455473 AAAGAAAT
1 AAAGAAAT
8455481 AAAGAAAT
1 AAAGAAAT
8455489 AAA
1 AAA
8455492 TATGTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAGAAAT
Found at i:8455686 original size:18 final size:18
Alignment explanation
Indices: 8455660--8455694 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8455650 AAACAAAAAA
8455660 TATAAATATAAATAAATT
1 TATAAATATAAATAAATT
*
8455678 TATATATATAAATAAAT
1 TATAAATATAAATAAAT
8455695 ACAAAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TATAAATATAAATAAATT
Found at i:8458055 original size:80 final size:80
Alignment explanation
Indices: 8457948--8458422 Score: 923
Period size: 80 Copynumber: 5.9 Consensus size: 80
8457938 TACTGGATTC
* * *
8457948 AATCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGA
1 AATCCGCTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGA
8458013 GAGATAAGATCCTTT
66 GAGATAAGATCCTTT
8458028 AATCCGCTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGA
1 AATCCGCTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGA
8458093 GAGATAAGATCCTTT
66 GAGATAAGATCCTTT
8458108 AATCCGCTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGA
1 AATCCGCTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGA
8458173 GAGATAAGATCCTTT
66 GAGATAAGATCCTTT
8458188 AATCCGCTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGA
1 AATCCGCTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGA
8458253 GAGATAAGATCCTTT
66 GAGATAAGATCCTTT
8458268 AATCCGCTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGA
1 AATCCGCTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGA
8458333 GAGATAAGATCCTTT
66 GAGATAAGATCCTTT
8458348 AATCCGCTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGA
1 AATCCGCTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGA
8458413 GAGATAAGAT
66 GAGATAAGAT
8458423 TTGAAATTCT
Statistics
Matches: 392, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 392 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (80 bp):
AATCCGCTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGA
GAGATAAGATCCTTT
Found at i:8464124 original size:37 final size:37
Alignment explanation
Indices: 8464083--8464158 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
8464073 TACCAATTTC
* *
8464083 AACTTCTGGTGTAATGATGAAGGCACCGCTCCTGCTG
1 AACTTCTGGTGCAATGATGAAGGCACCGCCCCTGCTG
*
8464120 AACTTCTGGTGCAATGATGAAGGCGCCGCCCCTGCTG
1 AACTTCTGGTGCAATGATGAAGGCACCGCCCCTGCTG
8464157 AA
1 AA
8464159 TGAATCCAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (37 bp):
AACTTCTGGTGCAATGATGAAGGCACCGCCCCTGCTG
Found at i:8481365 original size:63 final size:62
Alignment explanation
Indices: 8481296--8481471 Score: 198
Period size: 60 Copynumber: 2.8 Consensus size: 62
8481286 ATAACAGCTT
* * *
8481296 ATAGAACTCAAAACATACATTCGGCTGACATATATATATAATTTATAAAATTTCTTTCAACTC
1 ATAGAACTCAAAACATACATTCGGCTAACATAT-TATATAATTCATAAAATTACTTTCAACTC
* * * *
8481359 ATAGAACTCAAAACATACACT-GGCTAACATATT-TATAATTCATACAATTAGTTTCAACTT
1 ATAGAACTCAAAACATACATTCGGCTAACATATTATATAATTCATAAAATTACTTTCAACTC
* * *
8481419 ATCA-AACTTAAAACATACATTTC-GCTAACACATTTATATCATTCATAAAATTA
1 AT-AGAACTCAAAACATACA-TTCGGCTAACATA-TTATATAATTCATAAAATTA
8481472 AATTCATATT
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
60 38 0.40
61 11 0.11
62 12 0.12
63 35 0.36
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (62 bp):
ATAGAACTCAAAACATACATTCGGCTAACATATTATATAATTCATAAAATTACTTTCAACTC
Found at i:8489516 original size:63 final size:60
Alignment explanation
Indices: 8489364--8489521 Score: 187
Period size: 59 Copynumber: 2.6 Consensus size: 60
8489354 AGATAAGATA
*
8489364 TATATAATTCATACAATTAAATTCAGCTTATAGAACTCAAAACATACACTGGTAACATAT
1 TATATAATTCATACAATTAAATTCAGCTTATAGAACTCAAAACACACACTGGTAACATAT
** * * *
8489424 T-TATAATTCATACAATTAGTTTC-GACTTATCA-AATTTAAAACACACATTTGGCTAACATATT
1 TATATAATTCATACAATTAAATTCAG-CTTAT-AGAACTCAAAACACACA-CTGG-TAACATA-T
*
8489486 TATATAATTCATAAAATTAAATTCAGCTTATAGAAC
1 TATATAATTCATACAATTAAATTCAGCTTATAGAAC
8489522 ATATATATAT
Statistics
Matches: 80, Mismatches: 10, Indels: 13
0.78 0.10 0.13
Matches are distributed among these distances:
58 1 0.01
59 37 0.46
60 5 0.06
61 7 0.09
62 3 0.04
63 26 0.32
64 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.35
Consensus pattern (60 bp):
TATATAATTCATACAATTAAATTCAGCTTATAGAACTCAAAACACACACTGGTAACATAT
Found at i:8491421 original size:28 final size:29
Alignment explanation
Indices: 8491380--8491439 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
8491370 ACAAAACTCC
*
8491380 TCTCGTCAAAATTACTTCTTCAGAACCCA
1 TCTCGTCAAAATTACTTCTTAAGAACCCA
* *
8491409 TCTC-TCAAAATTATTTTTTAAGAACCCA
1 TCTCGTCAAAATTACTTCTTAAGAACCCA
8491437 TCT
1 TCT
8491440 TGTACAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.37
Consensus pattern (29 bp):
TCTCGTCAAAATTACTTCTTAAGAACCCA
Found at i:8491534 original size:31 final size:33
Alignment explanation
Indices: 8491485--8491546 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
8491475 TAATTAATAA
8491485 ACTTAAAAATAAATAAAACCCTAAA-CCTAAAC
1 ACTTAAAAATAAATAAAACCCTAAATCCTAAAC
* * *
8491517 ACTTAAAATTTAA-AAAACCTTAAATCCTAA
1 ACTTAAAAATAAATAAAACCCTAAATCCTAA
8491547 CCCTAATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 10 0.38
32 16 0.62
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.24
Consensus pattern (33 bp):
ACTTAAAAATAAATAAAACCCTAAATCCTAAAC
Found at i:8494844 original size:16 final size:18
Alignment explanation
Indices: 8494813--8494855 Score: 63
Period size: 16 Copynumber: 2.4 Consensus size: 18
8494803 ATTTGATAAA
8494813 AAATATAAATTAAAAAATT
1 AAATA-AAATTAAAAAATT
8494832 AAA-AAAATT-AAAAATT
1 AAATAAAATTAAAAAATT
8494848 AAATAAAA
1 AAATAAAA
8494856 GACTAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 10 0.43
17 9 0.39
18 1 0.04
19 3 0.13
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAAAATTAAAAAATT
Found at i:8497132 original size:16 final size:15
Alignment explanation
Indices: 8497111--8497140 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8497101 AATTAAATAC
8497111 AACAACATTTATTAAT
1 AACAACATTT-TTAAT
8497127 AACAACATTTTTAA
1 AACAACATTTTTAA
8497141 GTTGAAACAT
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:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
AACAACATTTTTAAT
Found at i:8500465 original size:16 final size:17
Alignment explanation
Indices: 8500434--8500466 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
8500424 ACACACACAG
8500434 AAACAACAGCAAATAGAA
1 AAACAACAGC-AATAGAA
8500452 AAACAACAGC-ATAGA
1 AAACAACAGCAATAGA
8500467 GTAGACCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
18 10 0.67
ACGTcount: A:0.64, C:0.18, G:0.12, T:0.06
Consensus pattern (17 bp):
AAACAACAGCAATAGAA
Found at i:8500863 original size:16 final size:16
Alignment explanation
Indices: 8500842--8500883 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
8500832 AATAATTTGA
*
8500842 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
8500858 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
8500874 TAGTTTTAAT
1 TAATTTTAAT
8500884 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:8500867 original size:22 final size:23
Alignment explanation
Indices: 8500857--8500918 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
8500847 TTACTAACAA
* * *
8500857 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
8500879 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
8500902 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
8500919 CGGGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:8503413 original size:10 final size:10
Alignment explanation
Indices: 8503382--8503472 Score: 61
Period size: 9 Copynumber: 9.6 Consensus size: 10
8503372 TTTTTACAAA
*
8503382 TTTTATATTT
1 TTTTATATAT
*
8503392 CTTTTCTATAT
1 -TTTTATATAT
*
8503403 TTCTATATA-
1 TTTTATATAT
8503412 TTTTATA-AT
1 TTTTATATAT
8503421 TTTTA-ATAT
1 TTTTATATAT
8503430 TTTTA-ATA-
1 TTTTATATAT
* *
8503438 TTTTATTAAAA
1 TTTTA-TATAT
*
8503449 TTTAATA-AT
1 TTTTATATAT
8503458 TTTTATA-AT
1 TTTTATATAT
8503467 TTTTAT
1 TTTTAT
8503473 TGAATTTTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
8 7 0.11
9 36 0.55
10 11 0.17
11 12 0.18
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTATATAT
Found at i:8503431 original size:27 final size:28
Alignment explanation
Indices: 8503399--8503469 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
8503389 TTTCTTTTCT
* **
8503399 ATATTTCTATATATTTTA-TAATTTTTA
1 ATATTTTTATATATTTTATTAAAATTTA
8503426 ATATTTTTA-ATATTTTATTAAAATTTA
1 ATATTTTTATATATTTTATTAAAATTTA
8503453 ATAATTTTTATA-ATTTT
1 AT-ATTTTTATATATTTT
8503470 TATTGAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
26 8 0.21
27 17 0.45
28 12 0.32
29 1 0.03
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (28 bp):
ATATTTTTATATATTTTATTAAAATTTA
Found at i:8503478 original size:28 final size:27
Alignment explanation
Indices: 8503421--8503496 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 27
8503411 ATTTTATAAT
8503421 TTTTAATATTTT-TAATATTTTATTAAAA
1 TTTTAAT-TTTTATAAT-TTTTATTAAAA
*
8503449 TTTAATAATTTTTATAATTTTTATT-GAA
1 TTT--TAATTTTTATAATTTTTATTAAAA
* *
8503477 TTTTATTTTTTACAATTTTT
1 TTTTAATTTTTATAATTTTT
8503497 TTCCATATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
26 15 0.36
28 8 0.19
29 11 0.26
30 8 0.19
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTTAATTTTTATAATTTTTATTAAAA
Found at i:8504390 original size:20 final size:19
Alignment explanation
Indices: 8504354--8504401 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
8504344 TATGTTATAA
*
8504354 AAAAAAAAAAGTAAAGAAC
1 AAAAAAGAAAGTAAAGAAC
* *
8504373 AAAAAAGAAATTACAAGAGC
1 AAAAAAGAAAGTA-AAGAAC
*
8504393 AAAAGAGAA
1 AAAAAAGAA
8504402 CGCATTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.73, C:0.06, G:0.15, T:0.06
Consensus pattern (19 bp):
AAAAAAGAAAGTAAAGAAC
Found at i:8508586 original size:3 final size:3
Alignment explanation
Indices: 8508578--8508608 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
8508568 TATAGAAAAT
*
8508578 ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8508609 ATGGGGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8508930 original size:31 final size:31
Alignment explanation
Indices: 8508894--8508967 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
8508884 TTCGGGCCAA
*
8508894 AACGCGGGGATCCTCCCCTCCGGGTCGGGTC
1 AACGCGCGGATCCTCCCCTCCGGGTCGGGTC
* *
8508925 GACGCGCCGATCCTCCCCTCCGGGTCGGGTC
1 AACGCGCGGATCCTCCCCTCCGGGTCGGGTC
8508956 AACGCGCGGATC
1 AACGCGCGGATC
8508968 TCGCCCTTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.11, C:0.41, G:0.34, T:0.15
Consensus pattern (31 bp):
AACGCGCGGATCCTCCCCTCCGGGTCGGGTC
Found at i:8509237 original size:24 final size:25
Alignment explanation
Indices: 8509205--8509256 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 25
8509195 TTTATATTTT
8509205 AAATGAAAAATA-AATA-AATAAAATA
1 AAATGAAAAA-AGAATAGAA-AAAATA
8509230 AAAT-AAAAAAGAATAGAAAAAATA
1 AAATGAAAAAAGAATAGAAAAAATA
8509254 AAA
1 AAA
8509257 AAAGACACGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 1 0.04
24 18 0.72
25 6 0.24
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (25 bp):
AAATGAAAAAAGAATAGAAAAAATA
Found at i:8509244 original size:20 final size:19
Alignment explanation
Indices: 8509221--8509258 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
8509211 AAAATAAATA
8509221 AATAAAATAAAATAAAAAAG
1 AATAAAA-AAAATAAAAAAG
*
8509241 AATAGAAAAAATAAAAAA
1 AATAAAAAAAATAAAAAA
8509259 AGACACGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (19 bp):
AATAAAAAAAATAAAAAAG
Found at i:8509800 original size:45 final size:45
Alignment explanation
Indices: 8509736--8509829 Score: 179
Period size: 45 Copynumber: 2.1 Consensus size: 45
8509726 AAAGATACAG
*
8509736 GCAAACAAACAATCTAGTTTCATAATTAACCTCCAACCTTGTTTT
1 GCAAACAAACAATCCAGTTTCATAATTAACCTCCAACCTTGTTTT
8509781 GCAAACAAACAATCCAGTTTCATAATTAACCTCCAACCTTGTTTT
1 GCAAACAAACAATCCAGTTTCATAATTAACCTCCAACCTTGTTTT
8509826 GCAA
1 GCAA
8509830 GCAACACTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (45 bp):
GCAAACAAACAATCCAGTTTCATAATTAACCTCCAACCTTGTTTT
Found at i:8509967 original size:32 final size:32
Alignment explanation
Indices: 8509926--8509989 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
8509916 TGAATTCCCT
8509926 TTCCTATTTTAGAATTTCTCCACTAAAATTTA
1 TTCCTATTTTAGAATTTCTCCACTAAAATTTA
8509958 TTCCTATTTTAGAATTTCTCCACTAAAATTTA
1 TTCCTATTTTAGAATTTCTCCACTAAAATTTA
8509990 CTAATAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.03, T:0.47
Consensus pattern (32 bp):
TTCCTATTTTAGAATTTCTCCACTAAAATTTA
Found at i:8517941 original size:14 final size:14
Alignment explanation
Indices: 8517913--8517955 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
8517903 CATTATAATA
8517913 TTATTTTCATTTTTC
1 TTATTTTC-TTTTTC
8517928 TTATTTTCTTTTTC
1 TTATTTTCTTTTTC
* *
8517942 TAATTAT-TTTTTC
1 TTATTTTCTTTTTC
8517955 T
1 T
8517956 AATAATATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 7 0.27
14 11 0.42
15 8 0.31
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTTCTTTTTC
Found at i:8520432 original size:563 final size:563
Alignment explanation
Indices: 8519366--8520494 Score: 2150
Period size: 563 Copynumber: 2.0 Consensus size: 563
8519356 AATCAAATTA
8519366 ATGTGCGCACAAAATATGAGAAACATCAAACTTAACATAGTTTCTTTATTATCGTTCTTACAACA
1 ATGTGCGCACAAAATATGAGAAACATCAAACTTAACATAGTTTCTTTATTATCGTTCTTACAACA
8519431 AAAATTTACAAGGTGGGAAAAAGTCCCATAGTGCCAACATGATCCTTAAATTTGTGTGTCTGGCA
66 AAAATTTACAAGGTGGGAAAAAGTCCCATAGTGCCAACATGATCCTTAAATTTGTGTGTCTGGCA
* *
8519496 TGCCTTTAGTCAAAGGATCAGCTAACATCTACTTAGTGTTAATGTGCTTAATGACCACTTTCTTT
131 TGCCTTTAGTCAAACGATCAGCTAACATCTACTCAGTGTTAATGTGCTTAATGACCACTTTCTTT
*
8519561 TCTTTAACACGTTCCCTTATGGCTAGATACTTAATGTCGATATGTTTACTTCGAATTCTAATTTT
196 TCTTTAACACGTTCCCTTATGGCTAGATACTTAATGTCGATATGTTTACTTCGAATTCGAATTTT
**
8519626 GTTATTTTTAGCCATAAAGACAGCAGTTGAATTGTCACAATATATCATCAACGGTTGATGTGTCA
261 GTTATTTTTAGCCATAAAGACAGCAGTTGAATTGTCACAATATATCATCAACGGTTGAACTGTCA
*
8519691 TAATACAGTGTAGCATATTTAACTAGTTTTCGTACTTTAGGAGCTTGAATACAAGCATTTTTCTT
326 TAATACAGTGTAGCATATTTAACTAGTTTTCGTACTTTAGGAGCTTGAATACAAGCATTTTTATT
8519756 ATGTTTTAGTTTAATTTTTCCATATTTGTTTTGAATTCAATAAAAAGTGTATTTTGAGTCTTTTT
391 ATGTTTTAGTTTAATTTTTCCATATTTGTTTTGAATTCAATAAAAAGTGTATTTTGAGTCTTTTT
*
8519821 ATGACCTTAGGGGTCGAATGGGGCCTAAGGGTAAGCTAACATACTTAGTGAGTGTGCAAGACACC
456 ATAACCTTAGGGGTCGAATGGGGCCTAAGGGTAAGCTAACATACTTAGTGAGTGTGCAAGACACC
8519886 ATTCCAAGGCATAAGAACTCATGGCTGGTCGTTGTGTTGCAAC
521 ATTCCAAGGCATAAGAACTCATGGCTGGTCGTTGTGTTGCAAC
8519929 ATGTGCGCACAAAATATGAGAAACATCAAACTTAACATAGTTTCTTTATTATCGTTCTTACAACA
1 ATGTGCGCACAAAATATGAGAAACATCAAACTTAACATAGTTTCTTTATTATCGTTCTTACAACA
*
8519994 AAAATTTACAAGGTGGGAACAAGTCCCATAGTGCCAACATGATCCTTAAATTTGTGTGTCTGGCA
66 AAAATTTACAAGGTGGGAAAAAGTCCCATAGTGCCAACATGATCCTTAAATTTGTGTGTCTGGCA
*
8520059 TGCCTTTAGTCAAACGATCAGCTAACATCTACTCGGTGTTAATGTGCTTAATGACCACTTTCTTT
131 TGCCTTTAGTCAAACGATCAGCTAACATCTACTCAGTGTTAATGTGCTTAATGACCACTTTCTTT
*
8520124 TCTTTAACACGTTCCCTTATGGCTAGATACTTAATGTCGATATGTTTACTTCGAATTCGACTTTT
196 TCTTTAACACGTTCCCTTATGGCTAGATACTTAATGTCGATATGTTTACTTCGAATTCGAATTTT
8520189 GTTATTTTTAGCCATAAAGACAGCAGTTGAATTGTCACAATATATCATCAACGGTTGAACTGTCA
261 GTTATTTTTAGCCATAAAGACAGCAGTTGAATTGTCACAATATATCATCAACGGTTGAACTGTCA
*
8520254 TAATACAGTGTAGCATATTTAACTAGTTTTCGTACTTTAGTAGCTTGAATACAAGCATTTTTATT
326 TAATACAGTGTAGCATATTTAACTAGTTTTCGTACTTTAGGAGCTTGAATACAAGCATTTTTATT
8520319 ATGTTTTAGTTTAATTTTTCCATATTTGTTTTGAATTCAATAAAAAGTGTATTTTGAGTCTTTTT
391 ATGTTTTAGTTTAATTTTTCCATATTTGTTTTGAATTCAATAAAAAGTGTATTTTGAGTCTTTTT
8520384 ATAACCTTAGGGGTCGAATGGGGCCTAAGGGTAAGCTAACATACTTAGTGAGTGTGCAAGACACC
456 ATAACCTTAGGGGTCGAATGGGGCCTAAGGGTAAGCTAACATACTTAGTGAGTGTGCAAGACACC
*
8520449 ATTTCAAGGCATAAGAACTCATGGCTGGTCGTTGTGTTGCAAC
521 ATTCCAAGGCATAAGAACTCATGGCTGGTCGTTGTGTTGCAAC
8520492 ATG
1 ATG
8520495 GGAAGCTTAA
Statistics
Matches: 554, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
563 554 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (563 bp):
ATGTGCGCACAAAATATGAGAAACATCAAACTTAACATAGTTTCTTTATTATCGTTCTTACAACA
AAAATTTACAAGGTGGGAAAAAGTCCCATAGTGCCAACATGATCCTTAAATTTGTGTGTCTGGCA
TGCCTTTAGTCAAACGATCAGCTAACATCTACTCAGTGTTAATGTGCTTAATGACCACTTTCTTT
TCTTTAACACGTTCCCTTATGGCTAGATACTTAATGTCGATATGTTTACTTCGAATTCGAATTTT
GTTATTTTTAGCCATAAAGACAGCAGTTGAATTGTCACAATATATCATCAACGGTTGAACTGTCA
TAATACAGTGTAGCATATTTAACTAGTTTTCGTACTTTAGGAGCTTGAATACAAGCATTTTTATT
ATGTTTTAGTTTAATTTTTCCATATTTGTTTTGAATTCAATAAAAAGTGTATTTTGAGTCTTTTT
ATAACCTTAGGGGTCGAATGGGGCCTAAGGGTAAGCTAACATACTTAGTGAGTGTGCAAGACACC
ATTCCAAGGCATAAGAACTCATGGCTGGTCGTTGTGTTGCAAC
Found at i:8526214 original size:39 final size:39
Alignment explanation
Indices: 8526159--8526236 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
8526149 TATTATACAC
*
8526159 ATTAACTAATTAAACTAATTAGTCTACAATTACGAATAA
1 ATTAACTAATTAAACTAATTAGTCTACAATTAAGAATAA
*
8526198 ATTAACTAATTGAACTAATTAGTCTACAATTAAGAATAA
1 ATTAACTAATTAAACTAATTAGTCTACAATTAAGAATAA
8526237 GAAATTATCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (39 bp):
ATTAACTAATTAAACTAATTAGTCTACAATTAAGAATAA
Found at i:8528382 original size:16 final size:16
Alignment explanation
Indices: 8528353--8528386 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8528343 AAAAATACTA
* *
8528353 TATAACTAATTAAATT
1 TATAAATAAATAAATT
8528369 TATAAATAAATAAATT
1 TATAAATAAATAAATT
8528385 TA
1 TA
8528387 AAAACTTTTA
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:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAAATAAATAAATT
Found at i:8528648 original size:14 final size:13
Alignment explanation
Indices: 8528622--8528655 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8528612 TCATTTTGAT
8528622 TTTCTAAACAAAA
1 TTTCTAAACAAAA
*
8528635 TTTCTGAACAAAA
1 TTTCTAAACAAAA
*
8528648 ATTCTAAA
1 TTTCTAAA
8528656 AAATTAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.32
Consensus pattern (13 bp):
TTTCTAAACAAAA
Found at i:8530318 original size:20 final size:19
Alignment explanation
Indices: 8530295--8530333 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
8530285 AAATAACTCA
*
8530295 TATTATTTACAATTAAAAAT
1 TATTAATTACAA-TAAAAAT
*
8530315 TATTAATTAGAATAAAAAT
1 TATTAATTACAATAAAAAT
8530334 AATTTATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (19 bp):
TATTAATTACAATAAAAAT
Found at i:8531008 original size:16 final size:16
Alignment explanation
Indices: 8530987--8531048 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
8530977 GGTAAGACGA
8530987 AAATTTAAATTTTTTT
1 AAATTTAAATTTTTTT
* ** *
8531003 AAATTTCAATAATGTT
1 AAATTTAAATTTTTTT
8531019 AAATTTAAA-TTTTTT
1 AAATTTAAATTTTTTT
8531034 -AATTTGAAATTTTTT
1 AAATTT-AAATTTTTT
8531049 ATTATGTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
14 5 0.14
15 6 0.17
16 25 0.69
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (16 bp):
AAATTTAAATTTTTTT
Found at i:8531046 original size:14 final size:14
Alignment explanation
Indices: 8530988--8531049 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
8530978 GTAAGACGAA
8530988 AATTTAAATTTTTTT
1 AATTTAAA-TTTTTT
* * *
8531003 AAATTTCAATAATGTTA
1 -AATTT-AA-ATTTTTT
8531020 AATTTAAATTTTTT
1 AATTTAAATTTTTT
8531034 AATTTGAAATTTTTT
1 AATTT-AAATTTTTT
8531049 A
1 A
8531050 TTATGTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
14 9 0.24
15 12 0.32
16 10 0.27
17 5 0.14
18 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (14 bp):
AATTTAAATTTTTT
Found at i:8536514 original size:6 final size:6
Alignment explanation
Indices: 8536503--8536528 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8536493 AAAAACCATA
8536503 AACCCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AA
8536529 TAAAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCCT
Done.