Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold50
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: 2541760
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Warning! 26494 characters in sequence are not A, C, G, or T
File 16 of 16
Found at i:2477620 original size:24 final size:24
Alignment explanation
Indices: 2477593--2477719 Score: 85
Period size: 24 Copynumber: 4.9 Consensus size: 24
2477583 GCAAATTCTC
2477593 AATTTAAATAAAATTAAAAAATAA
1 AATTTAAATAAAATTAAAAAATAA
* ** *
2477617 AATTTTAATTTAATTAAATTTAA-AA
1 AATTTAAATAAAATTAAA--AAATAA
* *
2477642 AATTTATATTAAAATCAACATATTAATTAA
1 AATTTA-AATAAAATTAA-A-A--AA-TAA
*
2477672 TAATTTTTAATAAAATTAAAAAATAA
1 -AA-TTTAAATAAAATTAAAAAATAA
*
2477698 AATTTAATTAAAATTAAAAAAT
1 AATTTAAATAAAATTAAAAAAT
2477720 TTATATTGAA
Statistics
Matches: 78, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
24 33 0.42
25 9 0.12
26 13 0.17
27 3 0.04
28 2 0.03
29 1 0.01
30 3 0.04
31 11 0.14
32 3 0.04
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
AATTTAAATAAAATTAAAAAATAA
Found at i:2477708 original size:18 final size:18
Alignment explanation
Indices: 2477685--2477747 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 18
2477675 TTTTTAATAA
2477685 AATTAAAAAATAAAATTT
1 AATTAAAAAATAAAATTT
2477703 AATTAAAATTAA-AAAATTT
1 AATTAAAA--AATAAAATTT
*
2477722 ATATTGAAAAATCAAAATATT
1 A-ATTAAAAAAT-AAAAT-TT
2477743 AATTA
1 AATTA
2477748 TTAAAAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 10 0.27
19 8 0.22
20 16 0.43
21 3 0.08
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
AATTAAAAAATAAAATTT
Found at i:2477720 original size:19 final size:19
Alignment explanation
Indices: 2477623--2477722 Score: 64
Period size: 19 Copynumber: 5.3 Consensus size: 19
2477613 ATAAAATTTT
*
2477623 AATTTAATTAAATTTAAAA
1 AATTTAATTAAAATTAAAA
* *
2477642 AATTTATATTAAAATCAACA
1 AATTTA-ATTAAAATTAAAA
* ***
2477662 TA-TTAATTAATAATT-TTT
1 AATTTAATTAA-AATTAAAA
**
2477680 AATAAAATTAAAA--AATAA
1 AATTTAATTAAAATTAA-AA
2477698 AATTTAATTAAAATTAAAA
1 AATTTAATTAAAATTAAAA
2477717 AATTTA
1 AATTTA
2477723 TATTGAAAAA
Statistics
Matches: 58, Mismatches: 16, Indels: 14
0.66 0.18 0.16
Matches are distributed among these distances:
18 19 0.33
19 26 0.45
20 13 0.22
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTTAATTAAAATTAAAA
Found at i:2477723 original size:75 final size:81
Alignment explanation
Indices: 2477599--2477747 Score: 229
Period size: 81 Copynumber: 1.9 Consensus size: 81
2477589 TCTCAATTTA
*
2477599 AATAAAATTAAAAAATAAAATTTTAATTTAATTAAATTTAAAAAATTTATATT-AAAATCAACAT
1 AATAAAATTAAAAAATAAAATTTTAATTTAA-TAAATTTAAAAAATTTATATTAAAAATCAAAAT
2477663 ATTAATTAATAATTTTT
65 ATTAATTAATAATTTTT
2477680 AATAAAATTAAAAAATAAAA-TTTAA-TT-A-AAA-TTAAAAAATTTATATTGAAAAATCAAAAT
1 AATAAAATTAAAAAATAAAATTTTAATTTAATAAATTTAAAAAATTTATATT-AAAAATCAAAAT
2477740 ATTAATTA
65 ATTAATTA
2477748 TTAAAAAAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
75 16 0.25
76 3 0.05
77 18 0.28
78 1 0.02
79 2 0.03
80 5 0.08
81 20 0.31
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (81 bp):
AATAAAATTAAAAAATAAAATTTTAATTTAATAAATTTAAAAAATTTATATTAAAAATCAAAATA
TTAATTAATAATTTTT
Found at i:2477762 original size:24 final size:24
Alignment explanation
Indices: 2477672--2477763 Score: 73
Period size: 24 Copynumber: 3.9 Consensus size: 24
2477662 TATTAATTAA
* *
2477672 TAATTTTTAATAAAATTAAAAAAT
1 TAATTATTAAAAAAATTAAAAAAT
* * *
2477696 AAAAT-TTAATTAAAATTAAAAAAT
1 TAATTATTAA-AAAAATTAAAAAAT
* * * *
2477720 TTA-TATT-GAAAAATCAAAATAT
1 TAATTATTAAAAAAATTAAAAAAT
2477742 TAATTATTAAAAAAATTAAAAA
1 TAATTATTAAAAAAATTAAAAA
2477764 GTAAGGATCA
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
22 13 0.25
23 9 0.17
24 30 0.58
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (24 bp):
TAATTATTAAAAAAATTAAAAAAT
Found at i:2480975 original size:30 final size:30
Alignment explanation
Indices: 2480941--2481002 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
2480931 TCTTATAATA
*
2480941 CTATCTTTCA-AGGCTAAGATTGAAACCTCT
1 CTATCTTTCACAGGCTAAGATAG-AACCTCT
* *
2480971 CTATCTTTCACGGGTTAAGATAGAACCTCT
1 CTATCTTTCACAGGCTAAGATAGAACCTCT
2481001 CT
1 CT
2481003 CCCTATCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 19 0.68
31 9 0.32
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (30 bp):
CTATCTTTCACAGGCTAAGATAGAACCTCT
Found at i:2481358 original size:20 final size:21
Alignment explanation
Indices: 2481330--2481386 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
2481320 ATTGGGCTCA
*
2481330 ATGTTTCGATACAATGC-ACT
1 ATGTATCGATACAATGCAACT
* *
2481350 ATGTATCGATACAATTCAAGT
1 ATGTATCGATACAATGCAACT
2481371 ATGTATCGATACAATG
1 ATGTATCGATACAATG
2481387 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACAATGCAACT
Found at i:2481389 original size:13 final size:13
Alignment explanation
Indices: 2481371--2481397 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2481361 CAATTCAAGT
2481371 ATGTATCGATACA
1 ATGTATCGATACA
2481384 ATGTATCGATACA
1 ATGTATCGATACA
2481397 A
1 A
2481398 AGTGAGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2481480 original size:13 final size:13
Alignment explanation
Indices: 2481462--2481486 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2481452 TACCAAGAAC
2481462 ATGTATCGATACA
1 ATGTATCGATACA
2481475 ATGTATCGATAC
1 ATGTATCGATAC
2481487 TAAGTAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2481631 original size:22 final size:22
Alignment explanation
Indices: 2481606--2481648 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2481596 ACTTTGAATT
2481606 ATTT-TTACTTGAAAAACATTTG
1 ATTTATTACTT-AAAAACATTTG
*
2481628 ATTTATTGCTTAAAAACATTT
1 ATTTATTACTTAAAAACATTT
2481649 TAAACTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (22 bp):
ATTTATTACTTAAAAACATTTG
Found at i:2483984 original size:39 final size:39
Alignment explanation
Indices: 2483898--2483996 Score: 123
Period size: 39 Copynumber: 2.5 Consensus size: 39
2483888 TTACTCTCAC
*
2483898 TTTTCAAATTCAATAAAAAATTTATATATTAGGTATATA
1 TTTTCAAATTCAATAAAAAATCTATATATTAGGTATATA
* *
2483937 TTTT-AAATTTCAATAAATAATCTATATATTA-TTA-ATA
1 TTTTCAAA-TTCAATAAAAAATCTATATATTAGGTATATA
2483974 TCTTTCAAATTCTAATAAAAAAT
1 T-TTTCAAATTC-AATAAAAAAT
2483997 TCATGCATTA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
37 4 0.08
38 11 0.21
39 37 0.71
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (39 bp):
TTTTCAAATTCAATAAAAAATCTATATATTAGGTATATA
Found at i:2484023 original size:39 final size:39
Alignment explanation
Indices: 2483898--2484023 Score: 100
Period size: 39 Copynumber: 3.3 Consensus size: 39
2483888 TTACTCTCAC
* * **
2483898 TTTTCAAATTC-AATAAAAAATTTATATATTAGGTATAT
1 TTTTCAAATTCTAATAAAAAATTCATACATTAATTATAT
* *
2483936 ATTTT-AAATT-TCAATAAATAA-TCTATATATT-ATTAATAT
1 -TTTTCAAATTCT-AATAAAAAATTC-ATACATTAATT-ATAT
* *
2483975 CTTTCAAATTCTAATAAAAAATTCATGCATTAATTATAT
1 TTTTCAAATTCTAATAAAAAATTCATACATTAATTATAT
*
2484014 TTTTTAAATT
1 TTTTCAAATT
2484024 TCAATTAACC
Statistics
Matches: 69, Mismatches: 10, Indels: 16
0.73 0.11 0.17
Matches are distributed among these distances:
38 10 0.14
39 53 0.77
40 6 0.09
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (39 bp):
TTTTCAAATTCTAATAAAAAATTCATACATTAATTATAT
Found at i:2484935 original size:3 final size:3
Alignment explanation
Indices: 2484927--2484964 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
2484917 TAGCTGGGGG
*
2484927 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2484965 TAAATTGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2485095 original size:19 final size:19
Alignment explanation
Indices: 2485071--2485121 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
2485061 TAAATTTTGA
2485071 TTTATTTATATTTTTATAT
1 TTTATTTATATTTTTATAT
*
2485090 TTTATTTATATTTTTATGT
1 TTTATTTATATTTTTATAT
*
2485109 TAT-TTTATATTTT
1 TTTATTTATATTTT
2485122 AATTATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 10 0.33
19 20 0.67
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTATTTATATTTTTATAT
Found at i:2485102 original size:29 final size:29
Alignment explanation
Indices: 2485075--2485141 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
2485065 TTTTGATTTA
*
2485075 TTTAT-AT-TTTTATATTTTATTTATATT
1 TTTATGATATTTTATATTTTAATTATATT
* *
2485102 TTTATGTTATTTTATATTTTAATTATTTT
1 TTTATGATATTTTATATTTTAATTATATT
2485131 TTTCATGATAT
1 TTT-ATGATAT
2485142 ATATGTGCTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 5 0.15
28 1 0.03
29 21 0.64
30 6 0.18
ACGTcount: A:0.25, C:0.01, G:0.03, T:0.70
Consensus pattern (29 bp):
TTTATGATATTTTATATTTTAATTATATT
Found at i:2485103 original size:35 final size:38
Alignment explanation
Indices: 2485051--2485130 Score: 103
Period size: 35 Copynumber: 2.2 Consensus size: 38
2485041 TATTAATAAT
*
2485051 TTATTTTATATAAATTTTGAT-TTA-TTTATATTTTTA
1 TTATTTTATATAAATTTTGATGTTATTTTATATTTTAA
* * *
2485087 -TATTTTATTTATATTTTTATGTTATTTTATATTTTAA
1 TTATTTTATATAAATTTTGATGTTATTTTATATTTTAA
2485124 TTATTTT
1 TTATTTT
2485131 TTTCATGATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 17 0.46
36 3 0.08
37 11 0.30
38 6 0.16
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (38 bp):
TTATTTTATATAAATTTTGATGTTATTTTATATTTTAA
Found at i:2485132 original size:18 final size:17
Alignment explanation
Indices: 2485075--2485132 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
2485065 TTTTGATTTA
*
2485075 TTTATATTTTTATATTTTA
1 TTTATA-TTTTA-ATTTTT
* *
2485094 TTTATATTTTTATGTTAT
1 TTTATATTTTAAT-TTTT
2485112 TTTATATTTTAATTATTT
1 TTTATATTTTAATT-TTT
2485130 TTT
1 TTT
2485133 TCATGATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 3 0.09
18 23 0.72
19 6 0.19
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTATATTTTAATTTTT
Found at i:2487652 original size:51 final size:51
Alignment explanation
Indices: 2487401--2488097 Score: 231
Period size: 51 Copynumber: 13.7 Consensus size: 51
2487391 CATTATCTTG
* * * *
2487401 TGTGGACTTCGATTTTATAGGGTTTGA-CTTCGCTATATAAGTGCTAGCTAA
1 TGTGGACTTTGAGTTTATAGGGCTTGATCTTC-CTATATAGGTGCTAGCTAA
* * * * * * * *
2487452 TGTGAACTTGGACTTTATATGGCTTGATCTCCCTATATTA-TTGCCAGCTAG
1 TGTGGACTTTGAGTTTATAGGGCTTGATCTTCCTATA-TAGGTGCTAGCTAA
* * * * * *
2487503 TGTGGACTTTGA-CTCATAGGGCTTGATC-TCTTTTTACATGTGCTAGCTAA
1 TGTGGACTTTGAGTTTATAGGGCTTGATCTTC-CTATATAGGTGCTAGCTAA
* * * *
2487553 TGTGGA-TTTGGCGTTTTACAGGGCTTGGCATC--CCTATATAGGTACTAGCTAG
1 TGTGGACTTT-GAG-TTTATAGGGCTT-G-ATCTTCCTATATAGGTGCTAGCTAA
* *
2487605 TGTGGA-TTATGAGTTTATAGGGCTTGATCTTCCTATACAGGTGCTAGCCAA
1 TGTGGACTT-TGAGTTTATAGGGCTTGATCTTCCTATATAGGTGCTAGCTAA
* **
2487656 CTGTGGA-TTTAGATTTTATGAGGG-TTGA-CCACCTTATATA-GTGCTAGCTAA
1 -TGTGGACTTT-GAGTTTAT-AGGGCTTGATCTTCC-TATATAGGTGCTAGCTAA
* * ** * * * * *
2487707 TGTGGACTTAGATTTTATAAAGCTTGA-CCTCTCTATACAAGTGCAAGATAA
1 TGTGGACTTTGAGTTTATAGGGCTTGATCTTC-CTATATAGGTGCTAGCTAA
* ** * ** *
2487758 TTATAAACTTAGA-TTTAATAGAACTTGA-CTTCTCTATACAGGTGCTAGCTAA
1 -TGTGGACTTTGAGTTT-ATAGGGCTTGATCTTC-CTATATAGGTGCTAGCTAA
* * * * * *
2487810 TGTGGA-TTT-AGGTTTTATAGGGCATGACCTCCCTATATAGTTGCCACCTAA
1 TGTGGACTTTGA-G-TTTATAGGGCTTGATCTTCCTATATAGGTGCTAGCTAA
* * * * * * * *
2487861 TGTGGATTTTGACTATT-TATGACTTGACCTT--T-TATCAGGTACTAACTAG
1 TGTGGACTTTGAGT-TTATAGGGCTTGATCTTCCTATAT-AGGTGCTAGCTAA
* * * * * * * * **
2487910 TATGAACTTTGACTTTATAAGACTTGA-CCT-CT-TATCGGGTGCCAATTAA
1 TGTGGACTTTGAGTTTATAGGGCTTGATCTTCCTATAT-AGGTGCTAGCTAA
* * * * * **
2487959 TGTGGATTTTGACTCTATA-GGCTTTGAACTTTCTATACCGGTG-TAAGCTAA
1 TGTGGACTTTGAGTTTATAGGGC-TTGATCTTCCTATATAGGTGCT-AGCTAA
* * * * * **
2488010 TGTGGACTTTGACTTTATAAGGCTTGACCTTCCTATACAAGTTTTAGCTAA
1 TGTGGACTTTGAGTTTATAGGGCTTGATCTTCCTATATAGGTGCTAGCTAA
* * * *
2488061 TGTGGACTTTGACTTTATAAGACTTGATTTTTCCTAT
1 TGTGGACTTTGAGTTTATAGGGCTTGA-TCTTCCTAT
2488098 CAAGTGCCAG
Statistics
Matches: 495, Mismatches: 111, Indels: 79
0.72 0.16 0.12
Matches are distributed among these distances:
48 9 0.02
49 72 0.15
50 62 0.13
51 218 0.44
52 123 0.25
53 8 0.02
54 3 0.01
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (51 bp):
TGTGGACTTTGAGTTTATAGGGCTTGATCTTCCTATATAGGTGCTAGCTAA
Found at i:2488821 original size:42 final size:42
Alignment explanation
Indices: 2488739--2488821 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 42
2488729 GCTTTAGAAG
2488739 TTTTCGATGAAATATCCTAAGAAAGGCTTTGAAAGTTTTTTT
1 TTTTCGATGAAATATCCTAAGAAAGGCTTTGAAAGTTTTTTT
* *
2488781 TTTTTGATGAAATGTCCTCAA-AAGAGGCTTTGAAAGTTTTT
1 TTTTCGATGAAATATCCT-AAGAA-AGGCTTTGAAAGTTTTT
2488822 AATGAAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 18 0.49
43 19 0.51
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (42 bp):
TTTTCGATGAAATATCCTAAGAAAGGCTTTGAAAGTTTTTTT
Found at i:2489115 original size:12 final size:12
Alignment explanation
Indices: 2489098--2489125 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2489088 TGTGAATGCT
2489098 TATGAATACGAA
1 TATGAATACGAA
2489110 TATGAATACGAA
1 TATGAATACGAA
2489122 TATG
1 TATG
2489126 TGGGAGTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (12 bp):
TATGAATACGAA
Found at i:2490654 original size:407 final size:405
Alignment explanation
Indices: 2489721--2491140 Score: 1991
Period size: 407 Copynumber: 3.5 Consensus size: 405
2489711 TACGAATATA
* * * *
2489721 TGACAGCCAATTCTTAAAAATAAAAAATCCGATCGTAATACCATCTATAGAAATATTTTTCAAAA
1 TGACAGCCAATTCTTAAAAATAAAAAATTCGATCGTGATACCATCCATAGAAATAATTTTCAAAA
*
2489786 TTTTTTAAGAAATTATTTAAAAACAAAATTCTTCCTTTACAGATTCATCCTTTTTTTATCT-AAG
66 TTTATTAAGAAATTATTTAAAAACAAAATTCTTCCTTTACAGATTCATCCTTTTTTTATCTGAA-
* * *
2489850 AAAAATTATTTTTTTAATCACGAGCATGGACAGTTATTTATATATGACTGATTAAATTACGAAAA
130 AAAAATTATTTTTTTAATCACGAGCATGCACAATCATTTATATATGACTGATTAAATTACGAAAA
* *
2489915 TATGAAATTCACCTGATGAAAATTGACCTCCATCAGAGTGGCCACTAAATTTTTATTTTCGAATA
195 TATGAAATTCACTTGATGAAAATCGACCTCCATCAGAGTGGCCACTAAATTTTTATTTTCGAATA
* * * *
2489980 TTTACGATTTTCAAGAATACACAG-CCGGAACAGTGTGTCCTCTTTGCCAAGGATTTATATCCTA
260 TTTAAGACTTTCAA-AATAGACAGCCCGGAA-A-TGTGTCCTCTTTGCCAAGGATTTAAATCCTA
*
2490044 ACCTGATCAAATTCTAAGATTCAATCCAACCAAAAAAATCATAAACATGGTCTTTTAAAAT-AAG
322 ACCTGAACAAATTC-AAGATTCAATCCAACC-AAAAAATCATAAACATGGTCTTTTAAAATGAA-
2490108 GTTTTTCAAGTTGGCATAAACT
384 GTTTTTCAAGTTGGCATAAACT
* * *
2490130 TGACAGCCAATTCTTAAAAATAAAAAATTCAATCGTGATACTATCCACAGAAATAATTTTCAAAA
1 TGACAGCCAATTCTTAAAAATAAAAAATTCGATCGTGATACCATCCATAGAAATAATTTTCAAAA
* * *
2490195 TTTATTAAGAAATTATTTGAAAA-AAAATTCTTCCTTTATAGATTCA-CCTTTTTTTTATTTGAA
66 TTTATTAAGAAATTATTTAAAAACAAAATTCTTCCTTTACAGATTCATCC-TTTTTTTATCTGAA
* * * *
2490258 AAAAAATA-TTTTTTAATCACGGGCATGCACAATCATTTATATATGACTAATTAAATTACAAAAA
130 AAAAATTATTTTTTTAATCACGAGCATGCACAATCATTTATATATGACTGATTAAATTACGAAAA
* * *
2490322 TGTGAAATTCACTTGATGAAAGTCGACCTCCATCAGAATGGCCACTAAATTTTTATTTTCGAATA
195 TATGAAATTCACTTGATGAAAATCGACCTCCATCAGAGTGGCCACTAAATTTTTATTTTCGAATA
*
2490387 TTTAAGACTTTCAAATATAGACAGCCCGGATAATGTGTCCTCTTTGCCAAGGATTTAAATCATAA
260 TTTAAGACTTTCAAA-ATAGACAGCCCGGA-AATGTGTCCTCTTTGCCAAGGATTTAAATCCTAA
* * * *
2490452 CGTGAACAAATTCAAGATTCAATCCAACCAAAAAATTATAAACTTGGTTTTTTAAAATGAAGTTT
323 CCTGAACAAATTCAAGATTCAATCCAACCAAAAAATCATAAACATGGTCTTTTAAAATGAAGTTT
2490517 TTCAAGTTGGCATAAACT
388 TTCAAGTTGGCATAAACT
* * * * *
2490535 TGACAGCCAATTTTTAAAAATAAAAAATTCGATTGTGATATCATCCATAAAAACAATTTTCAAAA
1 TGACAGCCAATTCTTAAAAATAAAAAATTCGATCGTGATACCATCCATAGAAATAATTTTCAAAA
* * * *
2490600 TTTATTAAGAAATTATTTAAAAACAACATTCTTCCTTTATAGATTCTTCCTTTTTTTATCTGAGA
66 TTTATTAAGAAATTATTTAAAAACAAAATTCTTCCTTTACAGATTCATCCTTTTTTTATCTGAAA
*
2490665 AAAATTATTTTTTTAATCACGAGCATGGACAATCATTTATATATGACTGATTAAATTACGAAAAT
131 AAAATTATTTTTTTAATCACGAGCATGCACAATCATTTATATATGACTGATTAAATTACGAAAAT
* * * * * * ** * *
2490730 GTAAAATTCACTTGGT-AAAAACTGACTTTCATCAGAGTGATCACTAAATTTTCATTCTCGAATA
196 ATGAAATTCACTTGATGAAAATC-GACCTCCATCAGAGTGGCCACTAAATTTTTATTTTCGAATA
* * * * *
2490794 TTTAAAACTTTCAGGAATAGACAGCCC-GAACAGGGTGTCCTCCTTACCAAGGATTTAAATCCTA
260 TTTAAGACTTTCA-AAATAGACAGCCCGGAA-A-TGTGTCCTCTTTGCCAAGGATTTAAATCCTA
* * * *
2490858 ACCTGAACAAATTCAAGATTCTATCCAACCAAAAAATCATCAACATGATCTTTTAAAATGAAGCT
322 ACCTGAACAAATTCAAGATTCAATCCAACCAAAAAATCATAAACATGGTCTTTTAAAATGAAGTT
* *
2490923 TTTCAAGTTGGCATACATT
387 TTTCAAGTTGGCATAAACT
* *
2490942 TGATAGCCAATTCTTAAAAATAGAAAATTCGATCGTGATACCATCCATAGAAATAATTTTCAAAA
1 TGACAGCCAATTCTTAAAAATAAAAAATTCGATCGTGATACCATCCATAGAAATAATTTTCAAAA
* *
2491007 TTTATTAAGATATTATTTAAAAACAAAATTCTTCCTTTACAGATTCATCCTTTTTTTATCTGAGA
66 TTTATTAAGAAATTATTTAAAAACAAAATTCTTCCTTTACAGATTCATCCTTTTTTTATCTGAAA
* * *
2491072 AAAATTATTTTTTTAATCATGAGCAT----AGTCATTTATATATAACTGATTAAATTACGAAAAT
131 AAAATTATTTTTTTAATCACGAGCATGCACAATCATTTATATATGACTGATTAAATTACGAAAAT
2491133 ATGAAATT
196 ATGAAATT
2491141 TAAAATGAAG
Statistics
Matches: 904, Mismatches: 94, Indels: 32
0.88 0.09 0.03
Matches are distributed among these distances:
403 39 0.04
405 128 0.14
406 66 0.07
407 543 0.60
408 46 0.05
409 82 0.09
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.35
Consensus pattern (405 bp):
TGACAGCCAATTCTTAAAAATAAAAAATTCGATCGTGATACCATCCATAGAAATAATTTTCAAAA
TTTATTAAGAAATTATTTAAAAACAAAATTCTTCCTTTACAGATTCATCCTTTTTTTATCTGAAA
AAAATTATTTTTTTAATCACGAGCATGCACAATCATTTATATATGACTGATTAAATTACGAAAAT
ATGAAATTCACTTGATGAAAATCGACCTCCATCAGAGTGGCCACTAAATTTTTATTTTCGAATAT
TTAAGACTTTCAAAATAGACAGCCCGGAAATGTGTCCTCTTTGCCAAGGATTTAAATCCTAACCT
GAACAAATTCAAGATTCAATCCAACCAAAAAATCATAAACATGGTCTTTTAAAATGAAGTTTTTC
AAGTTGGCATAAACT
Found at i:2491595 original size:635 final size:639
Alignment explanation
Indices: 2490502--2491770 Score: 2010
Period size: 635 Copynumber: 2.0 Consensus size: 639
2490492 AACTTGGTTT
* * *
2490502 TTTAAAATGAAGTTTTTCAAGTTGGCATAAACTTGACAGCCAATTTTTAAAAATAAAAAATTCGA
1 TTTAAAATGAAGTTTTTCAAGTTAGCATAAACTTGACAACCAATTCTTAAAAATAAAAAATTCGA
* * *
2490567 TTGTGATATCATCCATAAAAACAATTTTCAAAATTTATTAAGAAATTATTTAAAAACAACATTCT
66 TCGTGATACCATCCATAAAAACAATTTTCAAAATTTATTAAGAAATTATTTAAAAACAAAATTCT
*
2490632 TCCTTTATAGATTCTTCCTTTTTTTATCTGAGAAAAATTATTTTTTTAATCACGAGCATGGACAA
131 TCCTTTACAGATTCTTCCTTTTTTTATCTGAGAAAAATTATTTTTTTAATCACGAGCATGGACAA
* ** * *
2490697 TCATTTATATATGACTGATTAAATTACGAAAATGTAAAATTCACTTGGTAAAAACTGACTTTCAT
196 TCATTTATATATGACTGATTAAATTACGAAAATATAAAATTCACTTGGTAAAAACCAACCTCCAT
* * *
2490762 CAGAGTGATCACTAAATTTTCATTCTCGAATATTTAAAACTTTCAGGAATAGACAGCCCGAACAG
261 CAGAGTGACCACTAAATTTTCATTCTCGAATATCTAAAACTTTCAAGAATAGACAGCCCGAACAG
* *
2490827 GGTGTCCTCCTTACCAAGGATTTAAATCCTAACCTGAACAAATTCAAGATTCTATCCAACCAAAA
326 GGTGTCCTCATTACCAAGGATTTAAATCCTAACCTGAACAAATTCAAGATTCAATCCAACCAAAA
* * *
2490892 AATCATCAACATGATCTTTTAAAATGAAGCTTTTCAAGTTGGCATACATTTGATAGCCAATTCTT
391 AATCATAAACATGATCTTTTAAAATGAAGCTTTTCAAGTTGGCATAAACTTGATAGCCAATTCTT
*
2490957 AAAAATAGAAAATTCGATCGTGATACCATCCATAGAAATAATTTTCAAAATTTATTAAGATATTA
456 AAAAATAGAAAATTCGATCGTAATACCATCCATAGAAATAATTTTCAAAATTTATTAAGA-ATTA
* *
2491022 TTTAAAAACAAAATTCTTCCTTTACAGATTCATCCTTTTTTTATCTGAGAAAAATTATTTTTTTA
520 TTTAAAAACAAAATTCTTCCTTTACAGATCCATCCTTTTTTTATCTCAGAAAAATTATTTTTTTA
* *
2491087 ATCA-TG-A-GCATAGTCATTTATATATAACTGATTAAATTACGAAAATATGAAA
585 ATCACAGCATGCATAGTCATTTATATATAACCGATTAAATTACGAAAATATGAAA
* *
2491139 TTTAAAATGAAGTTTTTTAAGTTAGCATAAACTTGACAACCAATTCTTAAAAATAGAAAATTCGA
1 TTTAAAATGAAGTTTTTCAAGTTAGCATAAACTTGACAACCAATTCTTAAAAATAAAAAATTCGA
* * *
2491204 TCGTGATACCATCCATAGAAATAATTTTTAAAATTTATTAAGAAATTATTTAAAAACAAAATTCT
66 TCGTGATACCATCCATAAAAACAATTTTCAAAATTTATTAAGAAATTATTTAAAAACAAAATTCT
*
2491269 TTCTTTACAGATTCATT-C-TTTTTTATCTGAGAAAAATTA-TTTTTTAATCACGAGCATGGACA
131 TCCTTTACAGATTC-TTCCTTTTTTTATCTGAGAAAAATTATTTTTTTAATCACGAGCATGGACA
* * * *
2491331 CTCATTTATATATGACTGATTAAATTACGAAAATATGAAATTCACTTGGTGAAAGCCAACCTCCA
195 ATCATTTATATATGACTGATTAAATTACGAAAATATAAAATTCACTTGGTAAAAACCAACCTCCA
* * * *
2491396 TCAGAGTGACCACTAAATTTTCATTCTCGAATATCTAAGATTTTCAAGAATAGACAGTCCGGACA
260 TCAGAGTGACCACTAAATTTTCATTCTCGAATATCTAAAACTTTCAAGAATAGACAGCCCGAACA
* * * * *
2491461 GTGTGTCCTCATTGCCAAGGATTTAAATCCTAACCTGATCAAATTCAAGATTCAATCTAACTAAA
325 GGGTGTCCTCATTACCAAGGATTTAAATCCTAACCTGAACAAATTCAAGATTCAATCCAACCAAA
* * *
2491526 AAATCATAAACATGGTCTTTTAAAATGAAGTTTTTCAAGTTGGTATAAACTTGATAGCCAATTCT
390 AAATCATAAACATGATCTTTTAAAATGAAGCTTTTCAAGTTGGCATAAACTTGATAGCCAATTCT
* *
2491591 TAAAAATAGAAAATTCGATTGTAATACCATCCGTAGAAATAATTTTCAAAATTTATTAAGAATTA
455 TAAAAATAGAAAATTCGATCGTAATACCATCCATAGAAATAATTTTCAAAATTTATTAAGAATTA
*
2491656 TTTAAAAACAAAATTCTTCCTTTACAGATCCATCCTTTTTTTATCTCAGCAAAATTATTTTTTTA
520 TTTAAAAACAAAATTCTTCCTTTACAGATCCATCCTTTTTTTATCTCAGAAAAATTATTTTTTTA
*
2491721 ATCACGAGCATGCATAGTCATTTATATATGACCGATTAAATTACGAAAAT
585 ATCAC-AGCATGCATAGTCATTTATATATAACCGATTAAATTACGAAAAT
2491771 GTAAAATTCA
Statistics
Matches: 576, Mismatches: 51, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
634 70 0.12
635 312 0.54
636 22 0.04
637 133 0.23
638 39 0.07
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.35
Consensus pattern (639 bp):
TTTAAAATGAAGTTTTTCAAGTTAGCATAAACTTGACAACCAATTCTTAAAAATAAAAAATTCGA
TCGTGATACCATCCATAAAAACAATTTTCAAAATTTATTAAGAAATTATTTAAAAACAAAATTCT
TCCTTTACAGATTCTTCCTTTTTTTATCTGAGAAAAATTATTTTTTTAATCACGAGCATGGACAA
TCATTTATATATGACTGATTAAATTACGAAAATATAAAATTCACTTGGTAAAAACCAACCTCCAT
CAGAGTGACCACTAAATTTTCATTCTCGAATATCTAAAACTTTCAAGAATAGACAGCCCGAACAG
GGTGTCCTCATTACCAAGGATTTAAATCCTAACCTGAACAAATTCAAGATTCAATCCAACCAAAA
AATCATAAACATGATCTTTTAAAATGAAGCTTTTCAAGTTGGCATAAACTTGATAGCCAATTCTT
AAAAATAGAAAATTCGATCGTAATACCATCCATAGAAATAATTTTCAAAATTTATTAAGAATTAT
TTAAAAACAAAATTCTTCCTTTACAGATCCATCCTTTTTTTATCTCAGAAAAATTATTTTTTTAA
TCACAGCATGCATAGTCATTTATATATAACCGATTAAATTACGAAAATATGAAA
Found at i:2491890 original size:406 final size:405
Alignment explanation
Indices: 2491139--2491936 Score: 1197
Period size: 406 Copynumber: 2.0 Consensus size: 405
2491129 AAATATGAAA
*
2491139 TTTAAAATGAAGTTTTTTAAGTTAGCATAAACTTGACAACCAATTCTTAAAAATAGAAAATTCGA
1 TTTAAAATGAAGTTTTTCAAGTTAGCATAAACTTGACAACCAATTCTTAAAAATAGAAAATTCGA
* *
2491204 TCGTGATACCATCCATAGAAATAATTTTTAAAATTTATTAAGAAATTATTTAAAAACAAAATTCT
66 TCGTAATACCATCCATAGAAATAATTTTCAAAATTTATTAAGAAATTATTTAAAAACAAAATTCT
* * * * *
2491269 TTCTTTACAGATTCATTCTTTTTTATCTGAGAAAAATTATTTTTTAATCACGAGCATGGACACTC
131 TCCTTTACAGATCCATCCTTTTTTATCTCAGAAAAATTATTTTTTAATCACGAGCATGCACACTC
* * *
2491334 ATTTATATATGACTGATTAAATTACGAAAATATGAAATTCACTTGGTGAAAGCCAACCTCCATCA
196 ATTTATATATGACCGATTAAATTACGAAAATATAAAATTCACATGGTGAAAGCCAACCTCCATCA
* * * * *
2491399 GAGTGACCACTAAATTTTCATTCTCGAATATCTAAGATTTTCAAGAATAGACAGTCCGGACAGTG
261 AAGTGACCACTAAATTTTCATTCTCAAATATCTAAGACTTTCAAAAATAGACAGACCGGACAGTG
* * * *
2491464 TGTCCTCATTGCCAAGGATTTAAATCCTAACCTGATCAAATTCAAGATTCAATCTAACTAAAAAA
326 TGTCCTCATTGCCAAGGATTTAAATCCTAACCTAAACAAATTCAAGATTCAATCCAACCAAAAAA
2491529 TCATAAACATGGTCT
391 TCATAAACATGGTCT
* * * *
2491544 TTTAAAATGAAGTTTTTCAAGTTGGTATAAACTTGATAGCCAATTCTTAAAAATAGAAAATTCGA
1 TTTAAAATGAAGTTTTTCAAGTTAGCATAAACTTGACAACCAATTCTTAAAAATAGAAAATTCGA
* *
2491609 TTGTAATACCATCCGTAGAAATAATTTTCAAAATTTATTAAG-AATTATTTAAAAACAAAATTCT
66 TCGTAATACCATCCATAGAAATAATTTTCAAAATTTATTAAGAAATTATTTAAAAACAAAATTCT
* * *
2491673 TCCTTTACAGATCCATCCTTTTTTTATCTCAGCAAAATTATTTTTTTAATCACGAGCATGCATAG
131 TCCTTTACAGATCCATCC-TTTTTTATCTCAGAAAAATTA-TTTTTTAATCACGAGCATGCACAC
* * *
2491738 TCATTTATATATGACCGATTAAATTACGAAAATGTAAAATTCACCAT-GTGAAAGTCGACCTCCA
194 TCATTTATATATGACCGATTAAATTACGAAAATATAAAATTCA-CATGGTGAAAGCCAACCTCCA
* ** * *
2491802 TTAAAGTGTTCACTAAATTTTCATTCTCAAATATTTAAGACTTTCAAAAATAGACA-ACACGGAG
258 TCAAAGTGACCACTAAATTTTCATTCTCAAATATCTAAGACTTTCAAAAATAGACAGAC-CGGAC
*
2491866 AGTGTGTCCTCCTTGCCAAGGATTTAAATCCTAACCTAAACAAATTCAAGATTCAATCCAACCAA
322 AGTGTGTCCTCATTGCCAAGGATTTAAATCCTAACCTAAACAAATTCAAGATTCAATCCAACCAA
2491931 AAAATC
387 AAAATC
2491937 GATCATGATA
Statistics
Matches: 351, Mismatches: 38, Indels: 7
0.89 0.10 0.02
Matches are distributed among these distances:
404 37 0.11
405 118 0.34
406 194 0.55
407 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.34
Consensus pattern (405 bp):
TTTAAAATGAAGTTTTTCAAGTTAGCATAAACTTGACAACCAATTCTTAAAAATAGAAAATTCGA
TCGTAATACCATCCATAGAAATAATTTTCAAAATTTATTAAGAAATTATTTAAAAACAAAATTCT
TCCTTTACAGATCCATCCTTTTTTATCTCAGAAAAATTATTTTTTAATCACGAGCATGCACACTC
ATTTATATATGACCGATTAAATTACGAAAATATAAAATTCACATGGTGAAAGCCAACCTCCATCA
AAGTGACCACTAAATTTTCATTCTCAAATATCTAAGACTTTCAAAAATAGACAGACCGGACAGTG
TGTCCTCATTGCCAAGGATTTAAATCCTAACCTAAACAAATTCAAGATTCAATCCAACCAAAAAA
TCATAAACATGGTCT
Found at i:2492309 original size:161 final size:160
Alignment explanation
Indices: 2492040--2492333 Score: 464
Period size: 161 Copynumber: 1.8 Consensus size: 160
2492030 TTTATCTGAG
*
2492040 AATTTTTTTTATCACGAGCATGGGCAATCATTTATATATGACTGATTAAATTACGAAAATGTGAA
1 AATTTTTTTAATCACGAGCAT-GGCAATCATTTATATATGACTGATTAAATTACGAAAATGTGAA
* * *
2492105 ATTTACCTGGTGAAAGCCGACTTTCATCAAAGTGACCACTAAATTTTCATTCTCGAATATTTAAG
65 ATTTACCTGGTGAAAGCCGACCTCCATCAAAGGGACCACTAAATTTTCATTCTCGAATATTTAAG
2492170 ACTGATTAAATTTCCATCAGAATGGCCACTA
130 ACTGATTAAATTTCCATCAGAATGGCCACTA
*
2492201 AATTTTTTTAATCACGAGCAT-GCATAGTCATTTATATATGACTTATTAAATTACGAAAATGTGA
1 AATTTTTTTAATCACGAGCATGGCA-A-TCATTTATATATGACTGATTAAATTACGAAAATGTGA
* * * * *
2492265 AATTTACCTGGTGAAAGTCGACCTCCATTAGAGGGGCTACTAAATTTTCATTCTCGAATATTTAA
64 AATTTACCTGGTGAAAGCCGACCTCCATCAAAGGGACCACTAAATTTTCATTCTCGAATATTTAA
2492330 GACT
129 GACT
2492334 TTCAAAAATA
Statistics
Matches: 121, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
159 3 0.02
160 1 0.01
161 117 0.97
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (160 bp):
AATTTTTTTAATCACGAGCATGGCAATCATTTATATATGACTGATTAAATTACGAAAATGTGAAA
TTTACCTGGTGAAAGCCGACCTCCATCAAAGGGACCACTAAATTTTCATTCTCGAATATTTAAGA
CTGATTAAATTTCCATCAGAATGGCCACTA
Found at i:2493767 original size:24 final size:25
Alignment explanation
Indices: 2493735--2493784 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
2493725 AAACAAATTC
*
2493735 TCCTAATCT-TTTACAGCTTATCTA
1 TCCTAATCTATTTACAGCTCATCTA
*
2493759 TCCTAATCTATTTATAGCTCATCTA
1 TCCTAATCTATTTACAGCTCATCTA
2493784 T
1 T
2493785 ACCTCGGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.26, C:0.24, G:0.04, T:0.46
Consensus pattern (25 bp):
TCCTAATCTATTTACAGCTCATCTA
Found at i:2496382 original size:1 final size:1
Alignment explanation
Indices: 2496371--2496405 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
2496361 TGAAGAACAG
* *
2496371 CCCCCCTCCCCCGCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
2496406 AAAAAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.94, G:0.03, T:0.03
Consensus pattern (1 bp):
C
Found at i:2497200 original size:19 final size:20
Alignment explanation
Indices: 2497173--2497211 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
2497163 GTATGCTCTC
*
2497173 AAACTAAAAAA-AAAAAAAA
1 AAACCAAAAAATAAAAAAAA
2497192 AAACCAAAAAATAAAAAAAA
1 AAACCAAAAAATAAAAAAAA
2497212 GAAGTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.87, C:0.08, G:0.00, T:0.05
Consensus pattern (20 bp):
AAACCAAAAAATAAAAAAAA
Found at i:2509040 original size:5 final size:5
Alignment explanation
Indices: 2509026--2509070 Score: 72
Period size: 5 Copynumber: 9.0 Consensus size: 5
2509016 TAGATTGGTC
* *
2509026 GAGAG GAGAG AAGAG GAGAG GAGAG AAGAG GAGAG GAGAG GAGAG
1 GAGAG GAGAG GAGAG GAGAG GAGAG GAGAG GAGAG GAGAG GAGAG
2509071 AAAATTTGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (5 bp):
GAGAG
Found at i:2509046 original size:15 final size:15
Alignment explanation
Indices: 2509026--2509070 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
2509016 TAGATTGGTC
2509026 GAGAGGAGAGAAGAG
1 GAGAGGAGAGAAGAG
2509041 GAGAGGAGAGAAGAG
1 GAGAGGAGAGAAGAG
*
2509056 GAGAGGAGAGGAGAG
1 GAGAGGAGAGAAGAG
2509071 AAAATTTGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (15 bp):
GAGAGGAGAGAAGAG
Found at i:2510868 original size:31 final size:31
Alignment explanation
Indices: 2510833--2510905 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
2510823 TTTCCCTTTC
* * * *
2510833 CATGAGTTGATACTCTTTCCTTTTCCAATTT
1 CATGAATTAATACTCCTCCCTTTTCCAATTT
*
2510864 CATGAATTAATCCTCCTCCCTTTTCCAATTT
1 CATGAATTAATACTCCTCCCTTTTCCAATTT
2510895 CATGAATTAAT
1 CATGAATTAAT
2510906 CCTCTAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.25, C:0.25, G:0.07, T:0.44
Consensus pattern (31 bp):
CATGAATTAATACTCCTCCCTTTTCCAATTT
Found at i:2510906 original size:31 final size:31
Alignment explanation
Indices: 2510851--2510909 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
2510841 GATACTCTTT
2510851 CCTTTTCCAATTTCATGAATTAATCCTCCTC
1 CCTTTTCCAATTTCATGAATTAATCCTCCTC
2510882 CCTTTTCCAATTTCATGAATTAATCCTC
1 CCTTTTCCAATTTCATGAATTAATCCTC
2510910 TAATTTGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.24, C:0.31, G:0.03, T:0.42
Consensus pattern (31 bp):
CCTTTTCCAATTTCATGAATTAATCCTCCTC
Found at i:2513315 original size:3 final size:3
Alignment explanation
Indices: 2513300--2513340 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
2513290 AGCCATCAAA
*
2513300 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
2513341 AGTTGACTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.37, C:0.00, G:0.34, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:2513671 original size:20 final size:20
Alignment explanation
Indices: 2513646--2513683 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2513636 TTTCAAATTT
*
2513646 TTACTATTTGTATCGATACA
1 TTACTAATTGTATCGATACA
2513666 TTACTAATTGTATCGATA
1 TTACTAATTGTATCGATA
2513684 TATTTTGGGT
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:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (20 bp):
TTACTAATTGTATCGATACA
Found at i:2513711 original size:51 final size:51
Alignment explanation
Indices: 2513654--2513769 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
2513644 TTTTACTATT
* *
2513654 TGTATCGATACATTAC-TAATTGTATCGATATATTTTGGGTTTTTACCCAGA
1 TGTATCGATACATT-CTTAATTGTATCGATACATTTTGGGCTTTTACCCAGA
* *
2513705 TGTATCGATACATTCTTCATTGTATCGATACATTTTGGGCTTTTACCTAGA
1 TGTATCGATACATTCTTAATTGTATCGATACATTTTGGGCTTTTACCCAGA
2513756 TGTATCGATACATT
1 TGTATCGATACATT
2513770 GAGTATCATA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 1 0.02
51 59 0.98
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.43
Consensus pattern (51 bp):
TGTATCGATACATTCTTAATTGTATCGATACATTTTGGGCTTTTACCCAGA
Found at i:2516388 original size:13 final size:13
Alignment explanation
Indices: 2516370--2516395 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2516360 TACAGCAAGT
2516370 ATGTATCGATACA
1 ATGTATCGATACA
2516383 ATGTATCGATACA
1 ATGTATCGATACA
2516396 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2521103 original size:51 final size:51
Alignment explanation
Indices: 2521027--2521173 Score: 224
Period size: 51 Copynumber: 2.9 Consensus size: 51
2521017 CGAAATATGA
2521027 AAATTTGCCTGCATGTATCGATACATTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTATAGTGTATCGATACATCTGGGC
* *
2521078 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTTATAGTGTATCGATACATCTGGGC
***
2521130 AAA-TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTTAT-AGTGTATCGATACA
2521174 AATCGTTGAA
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
50 1 0.01
51 59 0.68
52 27 0.31
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTTATAGTGTATCGATACATCTGGGC
Found at i:2522069 original size:56 final size:52
Alignment explanation
Indices: 2521985--2522417 Score: 361
Period size: 49 Copynumber: 8.8 Consensus size: 52
2521975 GAAAAGTGAT
* * * * * *
2521985 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGATGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG--G-A
* * * *
2522040 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
*
2522093 AAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-AT---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * * *
2522140 ----GTGCCAATGTACTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* *
2522186 --AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
2522234 -AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
2522283 -ATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* *
2522325 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
2522375 -AAGATGCCAATATGTTGATTCAAGGCCAGCTATATTGGGCTTA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
2522418 GAAGGGTTGC
Statistics
Matches: 324, Mismatches: 39, Indels: 36
0.81 0.10 0.09
Matches are distributed among these distances:
43 71 0.22
44 3 0.01
45 1 0.00
48 45 0.14
49 120 0.37
50 2 0.01
51 2 0.01
52 33 0.10
53 6 0.02
54 1 0.00
55 4 0.01
56 36 0.11
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
Found at i:2522258 original size:49 final size:49
Alignment explanation
Indices: 2522049--2522417 Score: 467
Period size: 49 Copynumber: 7.7 Consensus size: 49
2522039 AAAAGGATGT
*
2522049 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
2522101 CGATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-AT----GTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
2522144 CAATGTACTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
2522192 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
2522241 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
2522290 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
2522333 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
2522382 CAATATGTTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
2522418 GAAGGGTTGC
Statistics
Matches: 277, Mismatches: 28, Indels: 27
0.83 0.08 0.08
Matches are distributed among these distances:
43 72 0.26
44 2 0.01
45 2 0.01
47 1 0.00
48 44 0.16
49 121 0.44
50 2 0.01
51 2 0.01
52 31 0.11
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:2522364 original size:92 final size:92
Alignment explanation
Indices: 2522040--2522422 Score: 525
Period size: 92 Copynumber: 4.1 Consensus size: 92
2522030 AGATGATGAA
* * * *
2522040 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAAT
2522105 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * * *
2522136 AAATGTGCCAATGTACTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
*
2522200 TGATTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* *
2522227 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
*
2522292 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
2522325 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
*
2522390 TGATTCAAGGCCAGCTATATTGGGCTT
66 TGATTCAAGGCCAGCTATATTGGACTT
2522417 AGAAGG
1 A-AAGG
2522423 GTTGCCACCG
Statistics
Matches: 257, Mismatches: 22, Indels: 19
0.86 0.07 0.06
Matches are distributed among these distances:
91 38 0.15
92 87 0.34
93 4 0.02
94 2 0.01
95 41 0.16
96 4 0.02
97 45 0.18
98 36 0.14
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:2522461 original size:33 final size:34
Alignment explanation
Indices: 2522422--2522486 Score: 123
Period size: 33 Copynumber: 1.9 Consensus size: 34
2522412 GGCTTAGAAG
2522422 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAC
1 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAGAC
2522455 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG
1 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG
2522487 GGAGAAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 26 0.84
34 5 0.16
ACGTcount: A:0.15, C:0.20, G:0.37, T:0.28
Consensus pattern (34 bp):
GGTTGCCACCGACTTGTGTGGGCTTTAGGAAGAC
Found at i:2522546 original size:71 final size:67
Alignment explanation
Indices: 2522471--2523511 Score: 831
Period size: 71 Copynumber: 15.7 Consensus size: 67
2522461 CACCGACTTG
* * * * * *
2522471 TGTGGGCTTTAGGAAGGGAGAAAGATGCCACAGAGTTGTGGACTTAAAAGGGAAAAAAAGTGCCA
1 TGTGGGCTTTA-AAAGAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAA--G-AAAAAAGTGCCA
2522536 CGGAGT
62 CGGAGT
* *
2522542 TGTGGGCTTTAAAAGAAAAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCAC
1 TGTGGGCTTTAAAAG-AGAAAAAGGTGCCACGGAGTTGTGGGCTTAAA-A-GAAAAAAGTGCCAC
*
2522607 AGAGT
63 GGAGT
* * *
2522612 TATGGGC-TT-AAA-AG-----GGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACA
1 TGTGGGCTTTAAAAGAGAAAAAGGTGCCACGGAGTTGTGGGCTTA-AAAGAAAAA-AGTGCCACG
2522669 GAGT
64 GAGT
* * * *
2522673 TGTGGGC-TTAGAAG-GAAAAAGAGTGCTACGGAGTTGTGGGCTT--TA-AAAAGAGTGCCACGG
1 TGTGGGCTTTAAAAGAGAAAAAG-GTGCCACGGAGTTGTGGGCTTAAAAGAAAAAAGTGCCACGG
2522733 AGT
65 AGT
* * * * * * *
2522736 CGTGGGCTTTGAAA-AGAAGAAGGTGCCATGGAGCTGTGGGCTTTAAAAAGAAGAAGGTGCCACG
1 TGTGGGCTTTAAAAGAGAAAAAGGTGCCACGGAGTTGTGGGC-TT-AAAAGAAAAAAGTGCCACG
2522800 GAGT
64 GAGT
* * * *
2522804 TGTGGGCTTT--AA-AG----A-GTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGGTGCCATG
1 TGTGGGCTTTAAAAGAGAAAAAGGTGCCACGGAGTTGTGGGC-TT-AAAAGAAAAAAGTGCCACG
*
2522861 GAGC
64 GAGT
* *
2522865 TGTGGGCTTT-AAACAGAAAAAGGTACCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTTAAAAGAGAAAAAGGTGCCACGGAGTTGTGGGC-TT-AAAA--GAAAAA-AGTGCC
*
2522929 ACAGAGT
61 ACGGAGT
2522936 TGTGGGCTTT-AAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAAGAGTGC
1 TGTGGGCTTTAAAAGAGAAAAAGGTGCCACGGAGTTGTGGGC-TT-AAAA-G--AAAAA-AGTGC
*
2522999 CACAGAGT
60 CACGGAGT
* *
2523007 TGTGGGCTTTAAAAGAAAAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAG-----AGTGCCACGG
1 TGTGGGCTTTAAAAG-AGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAAGTGCCACGG
2523067 AGT
65 AGT
* *
2523070 CGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCA
1 TGTGGGCTTT-AAAAGAGAAAAAG-GTGCCACGGAGTTGTGGGC-TTAAA-AGAAAAAAGTGCCA
2523135 CGGAGT
62 CGGAGT
* *
2523141 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCAC
1 TGTGGGCTTT-AAAAGAGAAAAAG-GTGCCACGGAGTTGTGGGC-TTAAAAGAAAAAAGTGCCAC
2523206 GGAGT
63 GGAGT
* * *
2523211 TGTGGGCTTTGAAAAGGAAAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCA
1 TGTGGGCTTT-AAAA-GAGAAAAAG-GTGCCACGGAGTTGTGGGC-TTAAAAGAAAAAAGTGCCA
2523276 CGGAGT
62 CGGAGT
* *
2523282 TGTGGGCTTTAAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTAAACG-----GGTGCCACGGA
1 TGTGGGCTTTAAAAGAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAAGTGCCACGGA
2523341 GT
66 GT
* * * * *
2523343 TGTGGAC-TT-AAAGATGAAAAAAGTGCCACAGAATTGTGGGCTTTAAAAG-----GGTGCCACG
1 TGTGGGCTTTAAAAGA-GAAAAAGGTGCCACGGAGTTGTGGGC-TTAAAAGAAAAAAGTGCCACG
2523401 GAGT
64 GAGT
* * * *
2523405 TGTGGAC-TT-AAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAG-----GGTGCCACG
1 TGTGGGCTTTAAAAGA-GAAAAAGGTGCCACGGAGTTGTGGGC-TTAAAAGAAAAAAGTGCCACG
2523463 GAGT
64 GAGT
* * *
2523467 TGTGGGCTTT-AAAGA-AAAAA--TGCCACTGAGTCGTGGACTTTAAAA
1 TGTGGGCTTTAAAAGAGAAAAAGGTGCCACGGAGTTGTGGGC-TTAAAA
2523512 AGGTATTTGA
Statistics
Matches: 849, Mismatches: 73, Indels: 108
0.82 0.07 0.10
Matches are distributed among these distances:
59 24 0.03
60 9 0.01
61 140 0.16
62 94 0.11
63 71 0.08
64 40 0.05
65 4 0.00
66 13 0.02
67 21 0.02
68 79 0.09
69 4 0.00
70 103 0.12
71 212 0.25
72 7 0.01
73 2 0.00
74 26 0.03
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (67 bp):
TGTGGGCTTTAAAAGAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAAGTGCCACGGA
GT
Found at i:2522591 original size:34 final size:35
Alignment explanation
Indices: 2522491--2523486 Score: 674
Period size: 34 Copynumber: 30.0 Consensus size: 35
2522481 AGGAAGGGAG
* * * * *
2522491 AAAGATGCCACAGAGTTGTGGACTTAAAAGGGAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAA-GAAAAA
2522527 AAA-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAGAAAAA
* *
2522562 AAAGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAGA-AAAA
* *
2522597 AAA-GTGCCACAGAGTTATGGGC-TT-------AA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAAAA
* *
2522623 AAGGGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTA-AAGAAAAA
* * *
2522658 AGA-GTGCCACAGAGTTGTGGGC-TTAGAAGGAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTA-AAGAAAAA
* *
2522692 AGA-GTGCTACGGAGTTGTGGGCTTT-----AAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAAAA
* * * *
2522721 AGA-GTGCCACGGAGTCGTGGGCTTTGAA-AAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAAAA
* * * *
2522754 GAAGGTGCCATGGAGCTGTGGGCTTTAAA-AAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAAAA
*
2522788 GAAGGTGCCACGGAGTTGTGGGCTTTAAAG-----
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAAAA
* * *
2522818 --A-GTGCCACGGAGTCGTGGGCTTTGAA-AAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAAAA
* * * * *
2522849 GAAGGTGCCATGGAGCTGTGGGCTTTAAA-CAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAAAA
* **
2522883 AAAGGTACCACGGAGTTGTGGGCTTTGAAA-AGGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAGA-AAAA
* *
2522919 AAAGAGTGCCACAGAGTTGTGGGCTTT-AA-AAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAGAAAAA
*
2522953 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT--AAAGAAAAA
*
2522990 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTT-AAAGAAAAA
2523027 AAAGGTGCCACGGAGTTGTGGGCTTTAAAG-----
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAAAA
* *
2523057 --A-GTGCCACGGAGTCGTGGGCTTTGAAA-AGAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAGA-AAAA
* *
2523090 AAAGAGTGCCACGGAGTTGTGGGCTTTAAA-CAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAGAAAAA
**
2523125 AAAGGTGCCACGGAGTTGTGGGCTTTGAAA-AGGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAGA-AAAA
* *
2523161 AAAGAGTGCCACAGAGTTGTGGGCTTTAAA-AGAAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAGAAAAA
*
2523196 AAA-GTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT--AAAGAAAAA
* *
2523232 AAAGAGTGCCACAGAGTTGTGGGCTTT-AA-AAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAGAAAAA
*
2523266 AAAGGTGCCACGGAGTTGTGGGCTTTAAA-AAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAAAA
2523300 AAAGGTGCCACGGAGTTGTGGGC-TTAAACG-----
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAA-GAAAAA
* *
2523330 ---GGTGCCACGGAGTTGTGGAC-TTAAAGATGAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAGA-AAAA
* *
2523362 AAA-GTGCCACAGAATTGTGGGCTTT-------AA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAAAA
* * *
2523389 AAGGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAGA-AAAA
*
2523424 AAA-GTGCCACGGAATTGTGGGCTTT-------AA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAAAA
*
2523451 AAGGGTGCCACGGAGTTGTGGGCTTTAAAGAAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAAAA
2523486 A
1 A
2523487 TGCCACTGAG
Statistics
Matches: 797, Mismatches: 78, Indels: 171
0.76 0.07 0.16
Matches are distributed among these distances:
26 5 0.01
27 97 0.12
28 42 0.05
29 27 0.03
33 73 0.09
34 272 0.34
35 83 0.10
36 74 0.09
37 82 0.10
38 42 0.05
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (35 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAAAA
Found at i:2522632 original size:27 final size:27
Alignment explanation
Indices: 2522600--2522653 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
2522590 GATGAAAAAA
2522600 GTGCCACAGAGTTATGGGCTTAAAAGG
1 GTGCCACAGAGTTATGGGCTTAAAAGG
* * *
2522627 GTGCCACGGAGTTGTGGGCTTAGAAGG
1 GTGCCACAGAGTTATGGGCTTAAAAGG
2522654 AAAAAGAGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.24, C:0.15, G:0.39, T:0.22
Consensus pattern (27 bp):
GTGCCACAGAGTTATGGGCTTAAAAGG
Found at i:2523064 original size:27 final size:26
Alignment explanation
Indices: 2523027--2523079 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
2523017 AAAAGAAAAA
*
2523027 AAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAGGTGCCACGGAGTCGTGGGCTTT
2523053 AAAGAGTGCCACGGAGTCGTGGGCTTT
1 AAAG-GTGCCACGGAGTCGTGGGCTTT
2523080 GAAAAGAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.21, C:0.17, G:0.38, T:0.25
Consensus pattern (26 bp):
AAAGGTGCCACGGAGTCGTGGGCTTT
Found at i:2523166 original size:242 final size:238
Alignment explanation
Indices: 2522491--2523393 Score: 1057
Period size: 242 Copynumber: 3.8 Consensus size: 238
2522481 AGGAAGGGAG
* * * * *
2522491 AAAGATGCCACAGAGTTGTGGAC-TT-AAAAGGGAAAAAA-AGTGCCACGGAGTTGTGGGCTTTA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
* * * **
2522553 AAAGAAAAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACAGAGTTATGGG
66 AAAGAAAAAAAAGGTGCCACGGAGTTGTGGGCTT-----T--AAAGAGTGCCACGGAGTCGTGGG
* *
2522618 C-TT-AAAAG----GGTGCCACGGAGTTGTGGGC-TTAGAA-GGAAAAAGAGTGCCACAGAGTTG
124 CTTTGAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTA-AACAGAAAAAG-GTGCCACGGAGTTG
* * *
2522675 TGGGC-TT-AGAA-GGAAAAAGAGTGCTACGGAGTTGTGGGCTTT--AA-AA
187 TGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAA
* * * ** *
2522721 AGA-GTGCCACGGAGTCGTGGGCTTTGAAAA-G--AAGAAG-GTGCCATGGAGCTGTGGGCTTT-
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
* *
2522780 AAA-AAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTCGTGGGCTTTGAA
66 AAAGAAAAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTCGTGGGCTTTGAA
* * *
2522844 AAGAAGAAGGTGCCATGGAGCTGTGGGCTTTAAACAGAAAAAGGTACCACGGAGTTGTGGGCTTT
131 AAGAA-AAGGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
2522909 GAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAA
195 GAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAA
2522953 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
2523018 AAAGAAAAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTCGTGGGCTTTGAA
66 AAAGAAAAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTCGTGGGCTTTG-A
2523083 AAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGC
130 AA-AG-AAAAG-GTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGC
2523148 TTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAA
192 TTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAA
*
2523195 AAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
*
2523260 AAAG---AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGG
66 AAAGAAAAAAAAGGTGCCACGGAGTTGTGGGCTTT--AAAG----A-GTGCCACGGAGTCGTGGG
* * * * * *
2523322 C-TT-AAACG----GGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACAGAATTGT
124 CTTTGAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGTTGT
2523380 GGGCTTT-AAAAGGG
188 GGGCTTTGAAAAGGG
2523394 TGCCACGGAG
Statistics
Matches: 594, Mismatches: 42, Indels: 69
0.84 0.06 0.10
Matches are distributed among these distances:
219 20 0.03
220 2 0.00
221 6 0.01
226 64 0.11
227 15 0.03
228 27 0.05
229 44 0.07
230 5 0.01
231 6 0.01
232 4 0.01
233 26 0.04
234 1 0.00
235 13 0.02
236 49 0.08
237 20 0.03
238 3 0.01
239 85 0.14
240 3 0.01
241 9 0.02
242 168 0.28
243 3 0.01
245 3 0.01
246 18 0.03
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (238 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
AAAGAAAAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTCGTGGGCTTTGAA
AAGAAAAGGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTG
AAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAA
Found at i:2523399 original size:62 final size:61
Alignment explanation
Indices: 2523123--2523511 Score: 410
Period size: 62 Copynumber: 6.1 Consensus size: 61
2523113 CTTTAAACAG
*
2523123 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTTT-AAAA--GAAAAA-AGTGCCACAGAGTTGTGGGCTTT
*
2523188 AAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAAGAGTGCCACAGAGTTGTG
1 AAAAG-----GGTGCCACGGAGTTGTGGGCTTT-AAAA-G--AAAAA-AGTGCCACAGAGTTGTG
2523253 GGCTTT
56 GGCTTT
* *
2523259 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-
1 AAAAG-----GGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAAGTGCCACAGAGTTGTGGGCT
2523323 TT
60 TT
* * *
2523325 AAACGGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACAGAATTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAAAAAGTGCCACAGAGTTGTGGGCTTT
* * *
2523387 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAAAAAGTGCCACAGAGTTGTGGGCTTT
* * *
2523449 AAAAGGGTGCCACGGAGTTGTGGGCTTT-AAAGAAAAAA-TGCCACTGAGTCGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACAGAGTTGTGGGCTTT
2523508 AAAA
1 AAAA
2523512 AGGTATTTGA
Statistics
Matches: 295, Mismatches: 18, Indels: 28
0.87 0.05 0.08
Matches are distributed among these distances:
59 24 0.08
60 10 0.03
61 43 0.15
62 88 0.30
63 2 0.01
65 4 0.01
66 6 0.02
67 18 0.06
68 5 0.02
69 2 0.01
70 28 0.09
71 65 0.22
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (61 bp):
AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACAGAGTTGTGGGCTTT
Found at i:2524484 original size:11 final size:11
Alignment explanation
Indices: 2524453--2524485 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
2524443 GTTTTTCCCC
*
2524453 TTTTTTTTTAT
1 TTTTTTTTTGT
2524464 TTTTTTTTTGT
1 TTTTTTTTTGT
2524475 TTTTTTTTTGT
1 TTTTTTTTTGT
2524486 GAAGATTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.03, C:0.00, G:0.06, T:0.91
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:2531824 original size:51 final size:51
Alignment explanation
Indices: 2531748--2531894 Score: 224
Period size: 51 Copynumber: 2.9 Consensus size: 51
2531738 CGAAATATGA
2531748 AAATTTGCCTGCATGTATCGATACATTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTATAGTGTATCGATACATCTGGGC
* *
2531799 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTTATAGTGTATCGATACATCTGGGC
***
2531851 AAA-TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTTAT-AGTGTATCGATACA
2531895 AATCATTAAA
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
50 1 0.01
51 59 0.68
52 27 0.31
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTTATAGTGTATCGATACATCTGGGC
Found at i:2532902 original size:21 final size:21
Alignment explanation
Indices: 2532869--2532913 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2532859 TTGCAAGTTG
*
2532869 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2532891 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2532911 AAA
1 AAA
2532914 ATGAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2534754 original size:16 final size:16
Alignment explanation
Indices: 2534718--2534754 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
2534708 GATAAAAATG
2534718 TCCAAAATGAGAAAGC
1 TCCAAAATGAGAAAGC
2534734 T-CAAAATGA-AGAAGC
1 TCCAAAATGAGA-AAGC
2534749 TCCAAA
1 TCCAAA
2534755 CGAAATTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.05
15 13 0.68
16 5 0.26
ACGTcount: A:0.51, C:0.19, G:0.16, T:0.14
Consensus pattern (16 bp):
TCCAAAATGAGAAAGC
Found at i:2537170 original size:24 final size:24
Alignment explanation
Indices: 2537138--2537386 Score: 95
Period size: 24 Copynumber: 10.8 Consensus size: 24
2537128 GTTTAGGTTT
2537138 GGTTTCGGGTGTTCGGGTTCGT-AG
1 GGTTTCGGGTGTTCGGGTT-GTCAG
* *
2537162 GGTTTCGGGAGTTTCGGG-TGTCCG
1 GGTTTCGGGTG-TTCGGGTTGTCAG
2537186 GGTTTCGGGT-TTCGGGTT-TC-G
1 GGTTTCGGGTGTTCGGGTTGTCAG
2537207 GGTTTAGTTCGGGT-TT-GGGTT-TC-G
1 GG--T--TTCGGGTGTTCGGGTTGTCAG
2537231 GGTTTTC-GGTGTTATCGGGATT-TC-G
1 GG-TTTCGGGTG-T-TCGGG-TTGTCAG
2537256 GGTTTCACGGGT-TTCGGGTT-TC-G
1 GGTTT--CGGGTGTTCGGGTTGTCAG
* *
2537279 GGTTCCGGGT-TTCGGGATCGGTTC-G
1 GGTTTCGGGTGTTCGGG-T-TG-TCAG
2537304 GGTTTCGGGT-TTCCGGGTT-TCAG
1 GGTTTCGGGTGTT-CGGGTTGTCAG
*
2537327 GG-TT--GGTGTTCGGGTTTTC-G
1 GGTTTCGGGTGTTCGGGTTGTCAG
2537347 GGTTTCGGGT-TTC-GGTT-TC-G
1 GGTTTCGGGTGTTCGGGTTGTCAG
2537367 GGTTTTCGGGT-TTCAGGGTT
1 GG-TTTCGGGTGTTC-GGGTT
2537387 CGGGTTGGTT
Statistics
Matches: 189, Mismatches: 7, Indels: 59
0.74 0.03 0.23
Matches are distributed among these distances:
20 20 0.11
21 38 0.20
22 17 0.09
23 26 0.14
24 42 0.22
25 38 0.20
26 5 0.03
27 3 0.02
ACGTcount: A:0.04, C:0.14, G:0.42, T:0.41
Consensus pattern (24 bp):
GGTTTCGGGTGTTCGGGTTGTCAG
Found at i:2537338 original size:28 final size:28
Alignment explanation
Indices: 2537326--2540637 Score: 765
Period size: 29 Copynumber: 116.1 Consensus size: 28
2537316 CCGGGTTTCA
2537326 GGGTT-GGTGTTCGGGTTTTCGGGTTTC
1 GGGTTCGGTGTTCGGGTTTTCGGGTTTC
2537353 GGGTTTCGGT-TTCGGGTTTTCGGGTTTC
1 GGG-TTCGGTGTTCGGGTTTTCGGGTTTC
2537381 AGGGTTCGG-GTT--GG-TTTCGGGTTTC
1 -GGGTTCGGTGTTCGGGTTTTCGGGTTTC
*
2537406 GGGTGTC-GT-TAC-GG-TTTCGGGTTTC
1 GGGT-TCGGTGTTCGGGTTTTCGGGTTTC
2537431 -GGTTCGG-GTTC-GG-TTTCGGGTTGTC
1 GGGTTCGGTGTTCGGGTTTTCGGGTT-TC
* * *
2537456 GGG-T--GCG-TCGGGTAGGTTC--GTTACC
1 GGGTTCGGTGTTCGGGT--TTTCGGGTT-TC
*
2537481 GGGGTTC--TGTATCGGG-TTTCGGGTGT-
1 -GGGTTCGGTGT-TCGGGTTTTCGGGTTTC
*
2537507 AGGTTCGG-GTTTCGGG-TTTCAGGGTTTC
1 GGGTTCGGTG-TTCGGGTTTTC-GGGTTTC
* *
2537535 -GGTGCGGTTCGTTCGGGGTTTCGGGTTT-
1 GGGTTCGG-T-GTTCGGGTTTTCGGGTTTC
* * * *
2537563 AGGTTCGGTTTTCGGGTATTC-GG-ATC
1 GGGTTCGGTGTTCGGGTTTTCGGGTTTC
* * *
2537589 GGGTTTATCGG-GTTTAGGGTTTCCGGATTT-
1 GGG--T-TCGGTG-TTCGGGTTTTCGGGTTTC
*
2537619 GGGTATCGG-G-T--GGATTTCAGGG-TTC
1 GGGT-TCGGTGTTCGGGTTTTC-GGGTTTC
*
2537644 GGGTTGTCGG-GTTTCGGGTATTCGGGTTTC
1 GGG-T-TCGGTG-TTCGGGTTTTCGGGTTTC
*
2537674 GGGTTTCAGGT-TTCCGGGTATGGTTCGAG-TTC
1 GGG-TTC-GGTGTT-CGGGT-T--TTCGGGTTTC
** * * *
2537706 GTTTTCCG-GTTCTGGTATTCGGGTTTC
1 GGGTTCGGTGTTCGGGTTTTCGGGTTTC
* * *
2537733 GTGG-ACGG-GTTTCGGGTATT--GG--TA
1 G-GGTTCGGTG-TTCGGGTTTTCGGGTTTC
* * *
2537757 GGGTTTAGGT-TGCGGGTTTACGGGTTTC
1 GGG-TTCGGTGTTCGGGTTTTCGGGTTTC
*
2537785 GGGTTTCGG-GTTCGGG-TTTCGGTTTAGGTC
1 GGG-TTCGGTGTTCGGGTTTTCGGGTT---TC
* *
2537815 GGTTTCGGGTTTTCGGG-TTTCGGGTTTC
1 GGGTTC-GGTGTTCGGGTTTTCGGGTTTC
*
2537843 GGGATTTCGGGTTCTTCGGGTTTTCGGGTTTC
1 GGG--TTC-GG-TGTTCGGGTTTTCGGGTTTC
* ** *
2537875 TGG-T-AAT-TCTCGGGTTGTC-GGTGTTC
1 GGGTTCGGTGT-TCGGGTTTTCGGGT-TTC
* * *
2537901 GGGTGTCAGGGGTTTCGGTGGGTATCGGGTTGTC
1 GGGT-TC-GGTG-TTC-G-GGTTTTCGGGTT-TC
*
2537935 GGGTTTACGG-GTTCGGG-TTTCGTGTTTCC
1 GGG-TT-CGGTGTTCGGGTTTTCGGGTTT-C
*
2537964 GGGTT---T-TTCGGGTTATCGGG-TTC
1 GGGTTCGGTGTTCGGGTTTTCGGGTTTC
* *
2537987 AGGGTTTAGG-GCTTTCGGG-TTTCCGGTTTC
1 -GGG-TTCGGTG--TTCGGGTTTTCGGGTTTC
*
2538017 GAGGGTTCGG-GTTTCGGG-TTGCGGGTTTC
1 --GGGTTCGGTG-TTCGGGTTTTCGGGTTTC
*
2538046 GGGATT---TATTCGGGTTTTCGGGTTTTC
1 GGG-TTCGGTGTTCGGGTTTTCGGG-TTTC
* *
2538073 GGG-T---T-TCCGAGAG-TTTCGGG-TTA
1 GGGTTCGGTGTTCG-G-GTTTTCGGGTTTC
*
2538096 GGGTTTCGG-GTTACGGGTTTTCCTGGTTTC
1 GGG-TTCGGTGTT-CGGGTTTT-CGGGTTTC
*
2538126 GGGTTGCGGGTTTTCGGG-TTTCGGGTTTTC
1 GGGTT-C-GGTGTTCGGGTTTTCGGG-TTTC
* **
2538156 GGGTTCGGGTTTTCGGGTTGCCGGGTTTC
1 GGGTTC-GGTGTTCGGGTTTTCGGGTTTC
*
2538185 GGGTTTGG-GTTTCGGGTTTTCGGG-TTC
1 GGGTTCGGTG-TTCGGGTTTTCGGGTTTC
*
2538212 -GTTTCGG-GTTTCGGG-TTTCGGGTTTC
1 GGGTTCGGTG-TTCGGGTTTTCGGGTTTC
** * * *
2538238 GTTTTCGG-GTTTAGGGTTTGCGGATTTC
1 GGGTTCGGTG-TTCGGGTTTTCGGGTTTC
*
2538266 GGGTTTCGGTTTTCGGG-TTTCGGGTTTC
1 GGG-TTCGGTGTTCGGGTTTTCGGGTTTC
*
2538294 GGAGTTTCAGG-GTTTCGGG-TTTCAGGTTTTC
1 GG-G-TTC-GGTG-TTCGGGTTTTC-GGGTTTC
* *
2538325 GAG---GAT-TTCGGG-TTTC-GGTTTC
1 GGGTTCGGTGTTCGGGTTTTCGGGTTTC
*
2538347 GGGTTAGG-GTTTCGGG-TTTCGGGTTTC
1 GGGTTCGGTG-TTCGGGTTTTCGGGTTTC
2538374 GGGTTTCGG-GTTTCGGGTTTCTCGGGTTTCC
1 GGG-TTCGGTG-TTCGGGTTT-TCGGGTTT-C
*
2538405 AGGGTTTCGG-GTTTCGGGGTTTCGGGTTTAC
1 -GGG-TTCGGTG-TTCGGGTTTTCGGGTTT-C
*
2538436 GGGTTCGGAGTTTCGGG-TTTCGGGATTTC
1 GGGTTCGGTG-TTCGGGTTTTCGGG-TTTC
*
2538465 GGGTT-GCG-GTTCGGG-GTTCGGGTTTC
1 GGGTTCG-GTGTTCGGGTTTTCGGGTTTC
*
2538491 GGGTT-TG-GTTCGGG-TTTCGGGTTTC
1 GGGTTCGGTGTTCGGGTTTTCGGGTTTC
* * *
2538516 GGG-T--AT-TCCGGGGTTTCGGGTTTC
1 GGGTTCGGTGTTCGGGTTTTCGGGTTTC
* *
2538540 GGTTTCGG-GTTTCGGGTTTTCGGGTTGCC
1 GGGTTCGGTG-TTCGGGTTTTCGGGTT-TC
* * * *
2538569 GGTTTTCGGAGTTTCGGGTATTCGGGATT-
1 GG-GTTCGGTG-TTCGGGTTTTCGGGTTTC
* * *
2538598 --ATTCGAGGTATTCGGG-TTTCGGAGTTCC
1 GGGTTC--GGTGTTCGGGTTTTCGG-GTTTC
**
2538626 GGGTAAAATCGG-GTTTCGGGTTGCCGGGTTTC
1 GGGT----TCGGTG-TTCGGGTTTTCGGGTTTC
2538658 GGGTTTCGG-GTTTCGGG-TTTCGGGTTTTCGGGC
1 GGG-TTCGGTG-TTCGGGTTTTCGGG-TTT----C
*
2538691 GGGTTTTCGG-GTTTCGGGTTTCCGGGTTTC
1 GGG--TTCGGTG-TTCGGGTTTTCGGGTTTC
2538721 GGGTTTCGG-GTTTCGGGTTTTCGGGTTTC
1 GGG-TTCGGTG-TTCGGGTTTTCGGGTTTC
*
2538750 GGGTTTCGG-GTTGCGGTTTTCTCGGTGTTTC
1 GGG-TTCGGTGTT-CGGGTTT-TCGG-GTTTC
* * **
2538781 AGGGTTTCGG-GTTTCTGGTAGTTAAGGTTTAC
1 -GGG-TTCGGTG-TTCGGGT-TTTCGGGTTT-C
* *
2538813 GGGTTTTCGGGGTGTC-GGTTATCGGAGATTTC
1 GGG--TTCGGTGT-TCGGGTTTTCGG-G-TTTC
* *
2538845 GGGTTCCGG-GTTTGGGTGTTCGGG-TTC
1 GGGTT-CGGTGTTCGGGTTTTCGGGTTTC
2538872 GGGTTTCGG-GTTGCGGG-TTTC-GGTTTC
1 GGG-TTCGGTGTT-CGGGTTTTCGGGTTTC
2538899 GGGTTTCGGGTGTTACGGGTTTT-GGGTTTC
1 GGG-TTC-GGTGTT-CGGGTTTTCGGGTTTC
*
2538929 GGGAGTTACGG-GTTTCAGCGGGTTTCGGGTTATC
1 -GG-GTT-CGGTG-TTC-G-GGTTTTCGGGTT-TC
** *
2538963 GGG-T---TAATAGGG-TTTCGGGTTTC
1 GGGTTCGGTGTTCGGGTTTTCGGGTTTC
* *
2538986 GGGTTTTCGGGTTTTCGGG-TTTCGGGGTTC
1 GGG--TTC-GGTGTTCGGGTTTTCGGGTTTC
*
2539016 GGGTTTCGAGTTTTCGGG-TTTCGGGTTTC
1 GGG-TTCG-GTGTTCGGGTTTTCGGGTTTC
* * *
2539045 GGTTTGGGT-TTGCGGGTATTCGGGTTTC
1 GGGTTCGGTGTT-CGGGTTTTCGGGTTTC
2539073 GGGTTCGG-GTTTCGTGG-TTTCGGGTTTTC
1 GGGTTCGGTG-TTCG-GGTTTTCGGG-TTTC
*
2539102 GGGGTTCGGT-ATCGGG---TCGGGTTATC
1 -GGGTTCGGTGTTCGGGTTTTCGGGTT-TC
*
2539128 TGGTTTCGG-GTTTACGGGTTTTACGGGTTTC
1 -GGGTTCGGTG-TT-CGGGTTTT-CGGGTTTC
2539159 GGGTTTCGGT-TTCGGG-TTTCGGGTTT-
1 GGG-TTCGGTGTTCGGGTTTTCGGGTTTC
2539185 ---TTCGG-GATTCGGGTTTTTCGGGTTTC
1 GGGTTCGGTG-TTCGGG-TTTTCGGGTTTC
* *
2539211 GGGTGCGG-GTTTCGGATTTATCGGGTTTC
1 GGGTTCGGTG-TTCGGGTTT-TCGGGTTTC
2539240 GGGTTTCGG-GTTTCGGG-TTTCGGGTTTC
1 GGG-TTCGGTG-TTCGGGTTTTCGGGTTTC
*
2539268 GGGGTTTCGGGGGTTC-GGTTTTCGGGTCTTC
1 -GGG-TTC-GGTGTTCGGGTTTTCGGGT-TTC
2539299 GGGTGTCGG-GTTTCGGG-TTTCGGGTTTC
1 GGGT-TCGGTG-TTCGGGTTTTCGGGTTTC
* *
2539327 GGGTT---T-TCCGGGATTTC-GGTTTC
1 GGGTTCGGTGTTCGGGTTTTCGGGTTTC
* *
2539350 GGGTTTCGG-GTTTCGCGTTTCCGGAGTTTC
1 GGG-TTCGGTG-TTCGGGTTTTCGG-GTTTC
*
2539380 GGGTTTTCGGGTGTATCGGG-TTTCGGTATTTCC
1 GGG--TTC-GGTGT-TCGGGTTTTCGG-GTTT-C
2539413 GGG-T---T-TTCGGG-TTTCGAGGTTTC
1 GGGTTCGGTGTTCGGGTTTTCG-GGTTTC
*
2539436 -GGTTCCTGGATATATCGGG-TTTCGGGTTTC
1 GGGTT-C-GG-TGT-TCGGGTTTTCGGGTTTC
2539466 GGGTTCTCGAG-GTTTCGGG-TTTCGGGTTTC
1 GGG-T-TCG-GTG-TTCGGGTTTTCGGGTTTC
2539496 GGGTTTCGG-GTGTCAGGGTTTTCGGG-TTC
1 GGG-TTCGGTGT-TC-GGGTTTTCGGGTTTC
*
2539525 GGGTGTCGGGTTTTCGGG-TTTCGGGTTTC
1 GGGT-TC-GGTGTTCGGGTTTTCGGGTTTC
*
2539554 GGGTTTCGG-GTTTCCGG-TTTC-GGTTTCC
1 GGG-TTCGGTG-TTCGGGTTTTCGGGTTT-C
* *
2539582 GGGTTTCGGAGTTTCGGG-TTTCGGTTTTC
1 GGG-TTCGGTG-TTCGGGTTTTCGGGTTTC
*
2539611 GGAGTATTCGGGTATTCGAGG-TTTCGGGTTATC
1 GG-G--TTC-GGTGTTCG-GGTTTTCGGGTT-TC
*
2539644 GGGTTGCGGAGTTTCGGG--TTCGGGTTTTC
1 GGGTT-CGGTG-TTCGGGTTTTCGGG-TTTC
* * *
2539673 AGGGGTTCGG-GTTCGGG-TGTAGGGGTTC
1 --GGGTTCGGTGTTCGGGTTTTCGGGTTTC
*
2539701 GGGTTTCGGT-TTCGAGGGTTTCAGGGTTTC
1 GGG-TTCGGTGTTCG-GGTTTTC-GGGTTTC
*
2539731 GGCAGTATCCAGGGTTATTCGGG-TTTCGGG-TTC
1 GG--GT-T-C--GG-TGTTCGGGTTTTCGGGTTTC
*
2539764 GGGTTTCGG-GTTTCGGGGTTTCGGGTATTC
1 GGG-TTCGGTG-TTCGGGTTTTCGGGT-TTC
* *
2539794 GGGTTTCAGG-GTGTCGGGTTATCGGGATTTA
1 GGG-TTC-GGTGT-TCGGGTTTTCGGG-TTTC
2539825 GGGTTTCGGT-TTCGGGTTTTCGGGTTTC
1 GGG-TTCGGTGTTCGGGTTTTCGGGTTTC
* *
2539853 GGGTGTCGGGTTTTCGGGTTTACGGGTTTC
1 GGGT-TC-GGTGTTCGGGTTTTCGGGTTTC
2539883 GGGTTTCCGGT-TTCGGG-TTTCGGGTTTC
1 GGG-TT-CGGTGTTCGGGTTTTCGGGTTTC
*
2539911 GGGTTTTCGGAT-TTCGGATTTTCGGGTTTC
1 GGG--TTCGG-TGTTCGGGTTTTCGGGTTTC
2539941 ----TCGGT-TTCGGG-TTTCGGAAGTTTC
1 GGGTTCGGTGTTCGGGTTTTCGG--GTTTC
2539965 GGGTTTTCGG-GTTTCGGGTTTTCGGGGTTTC
1 GGG--TTCGGTG-TTCGGGTTTTC-GGGTTTC
* *
2539996 GGGTTTCGG-GTTTCAGGG-TTCCTGGTTTC
1 GGG-TTCGGTG-TTC-GGGTTTTCGGGTTTC
2540025 GGGTATTTTCGG-GTTTCGGG-TTTCGGGTTTC
1 GGG----TTCGGTG-TTCGGGTTTTCGGGTTTC
* *
2540056 GGGTTTCGG-GTGCGGGGTTTCGAGGTTTC
1 GGG-TTCGGTGTTCGGGTTTTCG-GGTTTC
*
2540085 GGGTTTTCGG-GTTTCGGGTTTTCTGGTTTTC
1 GGG--TTCGGTG-TTCGGGTTTTC-GGGTTTC
*
2540116 GGTTTTCAGG-GTTTCGGGTTCGGGTTCGGGTTTCC
1 GG-GTTC-GGTG-TTCGGGTT----TTCGGGTTT-C
2540151 GGGTTCGG-GTTTCGGG-TTTCGGAGTTTC
1 GGGTTCGGTG-TTCGGGTTTTCGG-GTTTC
* *
2540179 GGGTTCGGAGTTATCGAGGATTTCGGGTGTTTC
1 GGGTTCGGTG-T-TCG-GGTTTTC-GG-GTTTC
*
2540212 GGTTTC-G-GTTCGGG-TTTCGGGTTTTC
1 GGGTTCGGTGTTCGGGTTTTCGGG-TTTC
*
2540238 GGGTTTCGG-GTTTGGGTTTTCGGGTTTC
1 GGG-TTCGGTGTTCGGGTTTTCGGGTTTC
*
2540266 GGGTTTCGG-GTTTCGTGG-TTTCGGGTTCC
1 GGG-TTCGGTG-TTCG-GGTTTTCGGGTTTC
**
2540295 GGGTTTCGGT-TTC-GG-TGGCGGGTTTC
1 GGG-TTCGGTGTTCGGGTTTTCGGGTTTC
* * **
2540321 GAGGTTTGGGTTTTTC-GG--TTCGGGTGCC
1 G-GG-TTCGG-TGTTCGGGTTTTCGGGTTTC
*
2540349 GGGTTTCGG-GCTTTCGAGG-TTTCGGGTTAC
1 GGG-TTCGGTG--TTCG-GGTTTTCGGGTTTC
2540379 GGGTTATCGG-GTGTCGGG-TTTCGGGTTTC
1 GGG-T-TCGGTGT-TCGGGTTTTCGGGTTTC
2540408 GGGTTTCGG-GTTTC--G-TTTCGAGGGTTTAC
1 GGG-TTCGGTG-TTCGGGTTTTC--GGGTTT-C
*
2540437 GGGTTTTCGGAGTTTCGAGG-TTTCGGGTTTC
1 GGG--TTCGGTG-TTCG-GGTTTTCGGGTTTC
*
2540468 GGCTTTCGG-GTTGCGGGTTTTC-GGTTTC
1 GG-GTTCGGTGTT-CGGGTTTTCGGGTTTC
* * *
2540496 GGTTTCGGTTTTCAGGG-GTTCGGGTTTC
1 GGGTTCGGTGTTC-GGGTTTTCGGGTTTC
*
2540524 GGGTTTCGGT-TTCGGGTTTACGGGTTTC
1 GGG-TTCGGTGTTCGGGTTTTCGGGTTTC
* *
2540552 -CG---GGT-TTCGGGTTTCACAGGGTTTC
1 GGGTTCGGTGTTCGGGTTT-TC-GGGTTTC
* *
2540577 GGGTTTCAGGGTTTTCGGG-TTTCAGGTTTC
1 GGG-TTC--GGTGTTCGGGTTTTCGGGTTTC
2540607 GGGTTTCGG-GTTCGGG-TTTCGGGTTTC
1 GGG-TTCGGTGTTCGGGTTTTCGGGTTTC
2540634 GGGT
1 GGGT
2540638 GGTAGGCGGT
Statistics
Matches: 2608, Mismatches: 264, Indels: 827
0.71 0.07 0.22
Matches are distributed among these distances:
22 20 0.01
23 63 0.02
24 119 0.05
25 129 0.05
26 155 0.06
27 224 0.09
28 409 0.16
29 496 0.19
30 413 0.16
31 251 0.10
32 167 0.06
33 87 0.03
34 48 0.02
35 20 0.01
36 3 0.00
37 4 0.00
ACGTcount: A:0.05, C:0.14, G:0.41, T:0.41
Consensus pattern (28 bp):
GGGTTCGGTGTTCGGGTTTTCGGGTTTC
Found at i:2537398 original size:18 final size:18
Alignment explanation
Indices: 2537136--2537459 Score: 101
Period size: 18 Copynumber: 18.1 Consensus size: 18
2537126 GTGTTTAGGT
2537136 TTGGTTTCGGGTGTTCGGG
1 TTGGTTTCGGGT-TTCGGG
* *
2537155 TTCG--TAGGGTTTCGGG
1 TTGGTTTCGGGTTTCGGG
* *
2537171 --AGTTTCGGGTGTCCGGG
1 TTGGTTTCGGGT-TTCGGG
2537188 TTTCGGGTTTCGGGTTTCGGG
1 -TT--GGTTTCGGGTTTCGGG
*
2537209 TTTAG-TTCGGGTTT---G
1 -TTGGTTTCGGGTTTCGGG
2537224 --GGTTTCGGGTTTTC-GG
1 TTGGTTTCGGG-TTTCGGG
2537240 -T-GTTATCGGGATTTCGGG
1 TTGGTT-TCGGG-TTTCGGG
**
2537258 TT--TCACGGGTTTCGGG
1 TTGGTTTCGGGTTTCGGG
*
2537274 TTTCGGGTTCCGGGTTTCGGG
1 -TT--GGTTTCGGGTTTCGGG
*
2537295 ATCGG-TTCGGGTTTCGGG
1 -TTGGTTTCGGGTTTCGGG
*
2537313 -T--TTCCGGGTTTCAGGG
1 TTGGTTTCGGGTTTC-GGG
2537329 TTGGTGTTCGGGTTTTCGGG
1 TTGGT-TTCGGG-TTTCGGG
2537349 TTTCGGGTTTC-GGTTTCGGG
1 -TT--GGTTTCGGGTTTCGGG
2537369 TTTTCGGGTTTCAGGG-TTCGGG
1 --TT--GGTTTC-GGGTTTCGGG
2537391 TTGGTTTCGGGTTTCGGG
1 TTGGTTTCGGGTTTCGGG
* *
2537409 TGTCGTTAC-GGTTTC--G
1 T-TGGTTTCGGGTTTCGGG
2537425 --GGTTTC-GG-TTCGGG
1 TTGGTTTCGGGTTTCGGG
2537439 TTCGGTTTCGGGTTGTCGGG
1 TT-GGTTTCGGGTT-TCGGG
2537459 T
1 T
2537460 GCGTCGGGTA
Statistics
Matches: 237, Mismatches: 24, Indels: 87
0.68 0.07 0.25
Matches are distributed among these distances:
12 4 0.02
13 12 0.05
14 5 0.02
15 10 0.04
16 26 0.11
17 35 0.15
18 45 0.19
19 14 0.06
20 23 0.10
21 40 0.17
22 18 0.08
23 5 0.02
ACGTcount: A:0.03, C:0.14, G:0.42, T:0.41
Consensus pattern (18 bp):
TTGGTTTCGGGTTTCGGG
Found at i:2537570 original size:20 final size:20
Alignment explanation
Indices: 2537545--2537606 Score: 72
Period size: 19 Copynumber: 3.0 Consensus size: 20
2537535 GGTGCGGTTC
*
2537545 GTTCGGGGTTTCGGGTTTAG
1 GTTCGGGTTTTCGGGTTTAG
*
2537565 GTTC-GGTTTTCGGGTATTCG
1 GTTCGGGTTTTCGGGT-TTAG
*
2537585 GATCGGGTTTATCGGGTTTAG
1 GTTCGGGTTT-TCGGGTTTAG
2537606 G
1 G
2537607 GTTTCCGGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 10 0.29
20 10 0.29
21 9 0.26
22 6 0.17
ACGTcount: A:0.08, C:0.11, G:0.40, T:0.40
Consensus pattern (20 bp):
GTTCGGGTTTTCGGGTTTAG
Found at i:2537800 original size:6 final size:7
Alignment explanation
Indices: 2536094--2541081 Score: 3510
Period size: 7 Copynumber: 687.7 Consensus size: 7
2536084 ACAAAATATG
*
2536094 GGGTTTG
1 GGGTTTC
*
2536101 GGGTTTG
1 GGGTTTC
*
2536108 GGGTTTG
1 GGGTTTC
2536115 GGGTTT-
1 GGGTTTC
* *
2536121 GGGGTTG
1 GGGTTTC
*
2536128 GGGTTTG
1 GGGTTTC
*
2536135 GGGTTTG
1 GGGTTTC
*
2536142 GGGTTTG
1 GGGTTTC
*
2536149 GGGTTTG
1 GGGTTTC
*
2536156 GGGTTTG
1 GGGTTTC
*
2536163 GGGTTTG
1 GGGTTTC
*
2536170 GGGTTTG
1 GGGTTTC
*
2536177 GGGTTTG
1 GGGTTTC
*
2536184 GGGTTTG
1 GGGTTTC
*
2536191 GGGTTTG
1 GGGTTTC
*
2536198 GGGTTTG
1 GGGTTTC
*
2536205 GGGTTTG
1 GGGTTTC
*
2536212 GGGTTTG
1 GGGTTTC
*
2536219 GGGTTTG
1 GGGTTTC
*
2536226 GGGTTTG
1 GGGTTTC
*
2536233 GGGTTTG
1 GGGTTTC
*
2536240 GGGTTTG
1 GGGTTTC
*
2536247 GGGTTTG
1 GGGTTTC
*
2536254 GGGTTTA
1 GGGTTTC
*
2536261 GGGTTTA
1 GGGTTTC
*
2536268 GGGTTTA
1 GGGTTTC
*
2536275 GGGTTTA
1 GGGTTTC
*
2536282 GGGTTTA
1 GGGTTTC
*
2536289 GGGTTTA
1 GGGTTTC
*
2536296 GGGTTTA
1 GGGTTTC
*
2536303 GGGTTTA
1 GGGTTTC
*
2536310 GGGTTTA
1 GGGTTTC
*
2536317 GGGTTTA
1 GGGTTTC
*
2536324 GGGTTTA
1 GGGTTTC
*
2536331 GGGTTTA
1 GGGTTTC
*
2536338 GGGTTTA
1 GGGTTTC
*
2536345 GGGTTTA
1 GGGTTTC
*
2536352 GGGTTTA
1 GGGTTTC
*
2536359 GGGTTTA
1 GGGTTTC
*
2536366 GGGTTTA
1 GGGTTTC
2536373 GGGTTTC
1 GGGTTTC
*
2536380 GGGTTTA
1 GGGTTTC
*
2536387 GGGTTTA
1 GGGTTTC
2536394 GGGTTTC
1 GGGTTTC
2536401 GGGTTTC
1 GGGTTTC
2536408 GGGTTTC
1 GGGTTTC
2536415 GGGTTTC
1 GGGTTTC
2536422 GGGTTTC
1 GGGTTTC
2536429 GGGTTTC
1 GGGTTTC
2536436 GGGTTTC
1 GGGTTTC
2536443 GGGTTTC
1 GGGTTTC
2536450 GGGTTTC
1 GGGTTTC
2536457 GGGTTTC
1 GGGTTTC
2536464 GGGTTTC
1 GGGTTTC
2536471 GGGTTTC
1 GGGTTTC
2536478 GGGTTTC
1 GGGTTTC
2536485 GGGTTTC
1 GGGTTTC
2536492 GGGTTTC
1 GGGTTTC
2536499 GGGTTTC
1 GGGTTTC
*
2536506 GGGTTTA
1 GGGTTTC
*
2536513 GGGTTTA
1 GGGTTTC
*
2536520 GGG-TTA
1 GGGTTTC
*
2536526 GGG-TTA
1 GGGTTTC
*
2536532 GGGTTTAG
1 GGGTTT-C
*
2536540 GGGTTTAG
1 GGGTTT-C
*
2536548 GGGTTTA
1 GGGTTTC
*
2536555 GGGTTTA
1 GGGTTTC
*
2536562 GGGTTTTG
1 GGG-TTTC
*
2536570 GGGTTTG
1 GGGTTTC
*
2536577 GGGTTTG
1 GGGTTTC
*
2536584 GGGTTTG
1 GGGTTTC
*
2536591 GGGTTTG
1 GGGTTTC
*
2536598 GGGTTTG
1 GGGTTTC
*
2536605 GGGTTTG
1 GGGTTTC
*
2536612 GGGTTTG
1 GGGTTTC
2536619 GGGTTT-
1 GGGTTTC
* *
2536625 GGGGTTG
1 GGGTTTC
*
2536632 GGGTTTTG
1 GGG-TTTC
*
2536640 GGGTTTG
1 GGGTTTC
2536647 GGGTTT-
1 GGGTTTC
*
2536653 GGG-TTG
1 GGGTTTC
*
2536659 GGGTTTG
1 GGGTTTC
*
2536666 GGGTTTG
1 GGGTTTC
*
2536673 GGGTTTG
1 GGGTTTC
2536680 GGGTTT-
1 GGGTTTC
*
2536686 GGGTTTG
1 GGGTTTC
*
2536693 GGGTTTG
1 GGGTTTC
*
2536700 GGGTTTG
1 GGGTTTC
*
2536707 GGGTTTG
1 GGGTTTC
*
2536714 GGGTTTG
1 GGGTTTC
2536721 GGGTTT-
1 GGGTTTC
*
2536727 GGGTTTG
1 GGGTTTC
*
2536734 GGGTTTG
1 GGGTTTC
*
2536741 GGGTTTG
1 GGGTTTC
2536748 GGGTTT-
1 GGGTTTC
* *
2536754 GGGGTTG
1 GGGTTTC
*
2536761 GGGTTTG
1 GGGTTTC
2536768 GGGTTT-
1 GGGTTTC
*
2536774 GGGTTTG
1 GGGTTTC
*
2536781 GGGTTTG
1 GGGTTTC
*
2536788 GGGTTTG
1 GGGTTTC
*
2536795 GGGTTTG
1 GGGTTTC
*
2536802 GGGTTTG
1 GGGTTTC
*
2536809 GGGTTTG
1 GGGTTTC
*
2536816 GGGTTTG
1 GGGTTTC
*
2536823 GGGTTTG
1 GGGTTTC
*
2536830 GGGTTTG
1 GGGTTTC
2536837 GGGTTT-
1 GGGTTTC
2536843 GGGTTT-
1 GGGTTTC
* *
2536849 GGGGTTG
1 GGGTTTC
*
2536856 GGGTTTTG
1 GGG-TTTC
*
2536864 GGGTTTG
1 GGGTTTC
*
2536871 GGGTTTG
1 GGGTTTC
*
2536878 GGGTTTG
1 GGGTTTC
2536885 GGGTTT-
1 GGGTTTC
*
2536891 GGGTTTT
1 GGGTTTC
2536898 GGGTTT-
1 GGGTTTC
* *
2536904 GGGGTTG
1 GGGTTTC
*
2536911 GGGTTTG
1 GGGTTTC
*
2536918 GGGTTTG
1 GGGTTTC
*
2536925 GGGTTTT
1 GGGTTTC
*
2536932 GGGTTTG
1 GGGTTTC
*
2536939 GGGTTTG
1 GGGTTTC
*
2536946 GGGTTTG
1 GGGTTTC
*
2536953 GGGTTTG
1 GGGTTTC
*
2536960 GGGTTTG
1 GGGTTTC
*
2536967 GGGTTTG
1 GGGTTTC
*
2536974 GGGTTTG
1 GGGTTTC
2536981 GGGTTGT-
1 GGGTT-TC
2536988 GGGTTT-
1 GGGTTTC
** *
2536994 ATGTTTG
1 GGGTTTC
2537001 GGGTTT-
1 GGGTTTC
*
2537007 -GG-TTG
1 GGGTTTC
2537012 GGGTTT-
1 GGGTTTC
*
2537018 -GGTTTG
1 GGGTTTC
*
2537024 GGGTTTG
1 GGGTTTC
*
2537031 GGGTTTG
1 GGGTTTC
2537038 GGGTTT-
1 GGGTTTC
* *
2537044 GGGGTTG
1 GGGTTTC
*
2537051 GGGTTTG
1 GGGTTTC
*
2537058 GGGTTTG
1 GGGTTTC
*
2537065 GGGTTTG
1 GGGTTTC
2537072 GGGTTT-
1 GGGTTTC
* *
2537078 GGGGTTG
1 GGGTTTC
*
2537085 GGGTTTG
1 GGGTTTC
*
2537092 GGGTATTGG
1 GGGT-TT-C
*
2537101 GGGTTTTG
1 GGG-TTTC
**
2537109 GGGTTGA
1 GGGTTTC
*
2537116 GGGTTTAA
1 GGGTTT-C
*
2537124 GGGTGTTT
1 GGGT-TTC
*
2537132 AGGTTT-
1 GGGTTTC
2537138 -GGTTTC
1 GGGTTTC
2537144 GGGTGTTC
1 GGGT-TTC
*
2537152 GGGTTCGTA
1 GGGTT--TC
2537161 GGGTTTC
1 GGGTTTC
2537168 GGGAGTTTC
1 -GG-GTTTC
*
2537177 GGGTGTCC
1 GGGT-TTC
2537185 GGGTTTC
1 GGGTTTC
2537192 GGGTTTC
1 GGGTTTC
2537199 GGGTTTC
1 GGGTTTC
2537206 GGGTTT-
1 GGGTTTC
*
2537212 -AG-TTC
1 GGGTTTC
2537217 GGGTTT-
1 GGGTTTC
2537223 GGGTTTC
1 GGGTTTC
2537230 GGGTTTTC
1 GGG-TTTC
2537238 GGTGTTATC
1 GG-GTT-TC
2537247 GGGATTTC
1 GGG-TTTC
2537255 GGGTTTCAC
1 GGGTTT--C
2537264 GGGTTTC
1 GGGTTTC
2537271 GGGTTTC
1 GGGTTTC
*
2537278 GGGTTCC
1 GGGTTTC
2537285 GGGTTTC
1 GGGTTTC
*
2537292 GGG-ATC
1 GGGTTTC
2537298 -GG-TTC
1 GGGTTTC
2537303 GGGTTTC
1 GGGTTTC
2537310 GGGTTTCC
1 GGGTTT-C
2537318 GGGTTTC
1 GGGTTTC
2537325 AGGG-TT-
1 -GGGTTTC
2537331 -GGTGTTC
1 GGGT-TTC
2537338 GGGTTTTC
1 GGG-TTTC
2537346 GGGTTTC
1 GGGTTTC
2537353 GGGTTTC
1 GGGTTTC
2537360 -GGTTTC
1 GGGTTTC
2537366 GGGTTTTC
1 GGG-TTTC
2537374 GGGTTTC
1 GGGTTTC
2537381 AGGG-TTC
1 -GGGTTTC
2537388 GGG-TT-
1 GGGTTTC
2537393 -GGTTTC
1 GGGTTTC
2537399 GGGTTTC
1 GGGTTTC
*
2537406 GGGTGTC
1 GGGTTTC
*
2537413 --GTTAC
1 GGGTTTC
2537418 -GGTTTC
1 GGGTTTC
2537424 GGGTTTC
1 GGGTTTC
2537431 -GG-TTC
1 GGGTTTC
2537436 GGG-TTC
1 GGGTTTC
2537442 -GGTTTC
1 GGGTTTC
2537448 GGGTTGTC
1 GGGTT-TC
*
2537456 GGGTGCGTC
1 GGGT--TTC
2537465 GGGTAGGTTC
1 GGGT---TTC
*
2537475 --GTTACC
1 GGGTT-TC
*
2537481 GGGGTTC
1 GGGTTTC
* *
2537488 -TGTATC
1 GGGTTTC
2537494 GGGTTTC
1 GGGTTTC
*
2537501 GGGTGT-
1 GGGTTTC
*
2537507 AGG-TTC
1 GGGTTTC
2537513 GGGTTTC
1 GGGTTTC
2537520 GGGTTTC
1 GGGTTTC
2537527 AGGGTTTC
1 -GGGTTTC
*
2537535 -GG-TGC
1 GGGTTTC
*
2537540 GGTTCGTTC
1 GGGT--TTC
2537549 GGGGTTTC
1 -GGGTTTC
2537557 GGGTTT-
1 GGGTTTC
*
2537563 AGG-TTC
1 GGGTTTC
*
2537569 GGTTTTC
1 GGGTTTC
2537576 GGGTATTC
1 GGGT-TTC
*
2537584 -GG-ATC
1 GGGTTTC
2537589 GGGTTTATC
1 GGG-TT-TC
*
2537598 GGGTTTA
1 GGGTTTC
2537605 GGGTTTCC
1 GGGTTT-C
*
2537613 GGATTT-
1 GGGTTTC
*
2537619 GGGTATC
1 GGGTTTC
2537626 GGG--T-
1 GGGTTTC
*
2537630 GGATTTC
1 GGGTTTC
2537637 AGGG-TTC
1 -GGGTTTC
2537644 GGGTTGTC
1 GGGTT-TC
2537652 GGGTTTC
1 GGGTTTC
2537659 GGGTATTC
1 GGGT-TTC
2537667 GGGTTTC
1 GGGTTTC
2537674 GGGTTTC
1 GGGTTTC
*
2537681 AGGTTTCC
1 GGGTTT-C
*
2537689 GGGTAT-
1 GGGTTTC
2537695 -GG-TTC
1 GGGTTTC
*
2537700 GAG-TTC
1 GGGTTTC
*
2537706 -GTTTTC
1 GGGTTTC
*
2537712 CGG-TTC
1 GGGTTTC
*
2537718 TGGTATTC
1 GGGT-TTC
2537726 GGGTTTC
1 GGGTTTC
*
2537733 GTGG--AC
1 G-GGTTTC
2537739 GGGTTTC
1 GGGTTTC
*
2537746 GGGTATTGGTA
1 GGG--TT--TC
2537757 GGGTTT-
1 GGGTTTC
* *
2537763 AGGTTGC
1 GGGTTTC
2537770 GGGTTTAC
1 GGGTTT-C
2537778 GGGTTTC
1 GGGTTTC
2537785 GGGTTTC
1 GGGTTTC
2537792 GGG-TTC
1 GGGTTTC
2537798 GGGTTTC
1 GGGTTTC
*
2537805 -GGTTTAG
1 GGGTTT-C
2537812 GTCGGTTTC
1 G--GGTTTC
2537821 GGGTTTTC
1 GGG-TTTC
2537829 GGGTTTC
1 GGGTTTC
2537836 GGGTTTC
1 GGGTTTC
2537843 GGGATTTC
1 GGG-TTTC
2537851 GGGTTCTTC
1 GGG-T-TTC
2537860 GGGTTTTC
1 GGG-TTTC
2537868 GGGTTTC
1 GGGTTTC
*
2537875 TGGTAATTCTC
1 -GG--GTT-TC
2537886 GGGTTGTC
1 GGGTT-TC
2537894 -GGTGTTC
1 GGGT-TTC
*
2537901 GGGTGTC
1 GGGTTTC
2537908 AGGGGTTTC
1 --GGGTTTC
*
2537917 GGTGGGTATC
1 ---GGGTTTC
2537927 GGGTTGTC
1 GGGTT-TC
2537935 GGGTTTAC
1 GGGTTT-C
2537943 GGG-TTC
1 GGGTTTC
2537949 GGGTTTC
1 GGGTTTC
*
2537956 GTGTTTCC
1 GGGTTT-C
2537964 GGGTTTTTC
1 GGG--TTTC
2537973 GGGTTATC
1 GGGTT-TC
2537981 GGG-TTC
1 GGGTTTC
*
2537987 AGGGTTTA
1 -GGGTTTC
2537995 GGGCTTTC
1 GGG-TTTC
2538003 GGGTTTC
1 GGGTTTC
*
2538010 CGGTTTC
1 GGGTTTC
*
2538017 GAGGGTTC
1 G-GGTTTC
2538025 GGGTTTC
1 GGGTTTC
*
2538032 GGGTTGC
1 GGGTTTC
2538039 GGGTTTC
1 GGGTTTC
2538046 GGGATTTATTC
1 GGG---T-TTC
2538057 GGGTTTTC
1 GGG-TTTC
2538065 GGGTTTTC
1 GGG-TTTC
2538073 GGGTTTCC
1 GGGTTT-C
2538081 GAGAGTTTC
1 G-G-GTTTC
*
2538090 GGG-TTA
1 GGGTTTC
2538096 GGGTTTC
1 GGGTTTC
*
2538103 GGGTTAC
1 GGGTTTC
2538110 GGGTTTTCC
1 GGG-TTT-C
*
2538119 TGGTTTC
1 GGGTTTC
*
2538126 GGGTTGC
1 GGGTTTC
2538133 GGGTTTTC
1 GGG-TTTC
2538141 GGGTTTC
1 GGGTTTC
2538148 GGGTTTTC
1 GGG-TTTC
2538156 GGG-TTC
1 GGGTTTC
2538162 GGGTTTTC
1 GGG-TTTC
*
2538170 GGGTTGCC
1 GGGTT-TC
2538178 GGGTTTC
1 GGGTTTC
2538185 GGGTTT-
1 GGGTTTC
2538191 GGGTTTC
1 GGGTTTC
2538198 GGGTTTTC
1 GGG-TTTC
2538206 GGG-TTC
1 GGGTTTC
2538212 --GTTTC
1 GGGTTTC
2538217 GGGTTTC
1 GGGTTTC
2538224 GGGTTTC
1 GGGTTTC
2538231 GGGTTTC
1 GGGTTTC
*
2538238 -GTTTTC
1 GGGTTTC
*
2538244 GGGTTTA
1 GGGTTTC
2538251 GGGTTTGC
1 GGGTTT-C
*
2538259 GGATTTC
1 GGGTTTC
2538266 GGGTTTC
1 GGGTTTC
*
2538273 GGTTTTC
1 GGGTTTC
2538280 GGGTTTC
1 GGGTTTC
2538287 GGGTTTC
1 GGGTTTC
2538294 GGAGTTTC
1 GG-GTTTC
2538302 AGGGTTTC
1 -GGGTTTC
2538310 GGGTTTC
1 GGGTTTC
*
2538317 AGGTTTTC
1 -GGGTTTC
2538325 GAGGATTTC
1 G-GG-TTTC
2538334 GGGTTTC
1 GGGTTTC
2538341 -GGTTTC
1 GGGTTTC
*
2538347 GGG-TTA
1 GGGTTTC
2538353 GGGTTTC
1 GGGTTTC
2538360 GGGTTTC
1 GGGTTTC
2538367 GGGTTTC
1 GGGTTTC
2538374 GGGTTTC
1 GGGTTTC
2538381 GGGTTTC
1 GGGTTTC
2538388 GGGTTTCTC
1 GGG-TT-TC
2538397 GGGTTTCC
1 GGGTTT-C
2538405 AGGGTTTC
1 -GGGTTTC
2538413 GGGTTTC
1 GGGTTTC
2538420 GGGGTTTC
1 -GGGTTTC
2538428 GGGTTTAC
1 GGGTTT-C
2538436 GGG-TTC
1 GGGTTTC
2538442 GGAGTTTC
1 GG-GTTTC
2538450 GGGTTTC
1 GGGTTTC
2538457 GGGATTTC
1 GGG-TTTC
*
2538465 GGGTTGC
1 GGGTTTC
2538472 -GG-TTC
1 GGGTTTC
*
2538477 GGGGTTC
1 GGGTTTC
2538484 GGGTTTC
1 GGGTTTC
2538491 GGGTTT-
1 GGGTTTC
2538497 -GG-TTC
1 GGGTTTC
2538502 GGGTTTC
1 GGGTTTC
2538509 GGGTTTC
1 GGGTTTC
2538516 GGGTATTCC
1 GGGT-TT-C
2538525 GGGGTTTC
1 -GGGTTTC
2538533 GGGTTTC
1 GGGTTTC
2538540 -GGTTTC
1 GGGTTTC
2538546 GGGTTTC
1 GGGTTTC
2538553 GGGTTTTC
1 GGG-TTTC
*
2538561 GGGTTGCC
1 GGGTT-TC
*
2538569 GGTTTTC
1 GGGTTTC
2538576 GGAGTTTC
1 GG-GTTTC
2538584 GGGTATTC
1 GGGT-TTC
2538592 GGGATTATTC
1 GGG--T-TTC
2538602 GAGGTATTC
1 G-GGT-TTC
2538611 GGGTTTC
1 GGGTTTC
*
2538618 GGAGTTCC
1 GG-GTTTC
*
2538626 GGGTAAAATC
1 GGGT---TTC
2538636 GGGTTTC
1 GGGTTTC
*
2538643 GGGTTGCC
1 GGGTT-TC
2538651 GGGTTTC
1 GGGTTTC
2538658 GGGTTTC
1 GGGTTTC
2538665 GGGTTTC
1 GGGTTTC
2538672 GGGTTTC
1 GGGTTTC
2538679 GGGTTTTC
1 GGG-TTTC
2538687 GGG---C
1 GGGTTTC
2538691 GGGTTTTC
1 GGG-TTTC
2538699 GGGTTTC
1 GGGTTTC
2538706 GGGTTTCC
1 GGGTTT-C
2538714 GGGTTTC
1 GGGTTTC
2538721 GGGTTTC
1 GGGTTTC
2538728 GGGTTTC
1 GGGTTTC
2538735 GGGTTTTC
1 GGG-TTTC
2538743 GGGTTTC
1 GGGTTTC
2538750 GGGTTTC
1 GGGTTTC
*
2538757 GGGTTGC
1 GGGTTTC
*
2538764 GGTTTTCTC
1 GG-GTT-TC
2538773 GGTGTTTC
1 GG-GTTTC
2538781 AGGGTTTC
1 -GGGTTTC
2538789 GGGTTTC
1 GGGTTTC
* *
2538796 TGGTAGTTA
1 GGGT--TTC
*
2538805 AGGTTTAC
1 GGGTTT-C
2538813 GGGTTTTC
1 GGG-TTTC
*
2538821 GGGGTGTC
1 -GGGTTTC
2538829 -GGTTATC
1 GGGTT-TC
2538836 GGAGATTTC
1 GG-G-TTTC
*
2538845 GGGTTCC
1 GGGTTTC
2538852 GGGTTT-
1 GGGTTTC
2538858 GGGTGTTC
1 GGGT-TTC
2538866 GGG-TTC
1 GGGTTTC
2538872 GGGTTTC
1 GGGTTTC
*
2538879 GGGTTGC
1 GGGTTTC
2538886 GGGTTTC
1 GGGTTTC
2538893 -GGTTTC
1 GGGTTTC
2538899 GGGTTTC
1 GGGTTTC
2538906 GGGTGTTAC
1 GGGT-TT-C
*
2538915 GGGTTTT
1 GGGTTTC
2538922 GGGTTTC
1 GGGTTTC
*
2538929 GGGAGTTAC
1 -GG-GTTTC
2538938 GGGTTTCAGC
1 GGGTTT---C
2538948 GGGTTTC
1 GGGTTTC
2538955 GGGTTATC
1 GGGTT-TC
*
2538963 GGGTTAATA
1 GGGTT--TC
2538972 GGGTTTC
1 GGGTTTC
2538979 GGGTTTC
1 GGGTTTC
2538986 GGGTTTTC
1 GGG-TTTC
2538994 GGGTTTTC
1 GGG-TTTC
2539002 GGGTTTC
1 GGGTTTC
*
2539009 GGGGTTC
1 GGGTTTC
2539016 GGGTTTC
1 GGGTTTC
*
2539023 GAGTTTTC
1 G-GGTTTC
2539031 GGGTTTC
1 GGGTTTC
2539038 GGGTTTC
1 GGGTTTC
2539045 -GGTTT-
1 GGGTTTC
2539050 GGGTTTGC
1 GGGTTT-C
2539058 GGGTATTC
1 GGGT-TTC
2539066 GGGTTTC
1 GGGTTTC
2539073 GGG-TTC
1 GGGTTTC
2539079 GGGTTTC
1 GGGTTTC
2539086 GTGGTTTC
1 G-GGTTTC
2539094 GGGTTTTC
1 GGG-TTTC
*
2539102 GGGGTTC
1 GGGTTTC
*
2539109 -GGTATC
1 GGGTTTC
2539115 GGG--TC
1 GGGTTTC
2539120 GGGTTATC
1 GGGTT-TC
*
2539128 TGGTTTC
1 GGGTTTC
2539135 GGGTTTAC
1 GGGTTT-C
2539143 GGGTTTTAC
1 GGG-TTT-C
2539152 GGGTTTC
1 GGGTTTC
2539159 GGGTTTC
1 GGGTTTC
2539166 -GGTTTC
1 GGGTTTC
2539172 GGGTTTC
1 GGGTTTC
2539179 GGGTTTTTC
1 GGG--TTTC
*
2539188 GGGATTC
1 GGGTTTC
2539195 GGGTTTTTC
1 GGG--TTTC
2539204 GGGTTTC
1 GGGTTTC
*
2539211 GGG-TGC
1 GGGTTTC
2539217 GGGTTTC
1 GGGTTTC
*
2539224 GGATTTATC
1 GG-GTT-TC
2539233 GGGTTTC
1 GGGTTTC
2539240 GGGTTTC
1 GGGTTTC
2539247 GGGTTTC
1 GGGTTTC
2539254 GGGTTTC
1 GGGTTTC
2539261 GGGTTTC
1 GGGTTTC
2539268 GGGGTTTC
1 -GGGTTTC
*
2539276 GGGGGTTC
1 -GGGTTTC
*
2539284 GGTTTTC
1 GGGTTTC
2539291 GGGTCTTC
1 GGGT-TTC
*
2539299 GGGTGTC
1 GGGTTTC
2539306 GGGTTTC
1 GGGTTTC
2539313 GGGTTTC
1 GGGTTTC
2539320 GGGTTTC
1 GGGTTTC
2539327 GGGTTTTCC
1 GGG-TTT-C
2539336 GGGATTTC
1 GGG-TTTC
2539344 -GGTTTC
1 GGGTTTC
2539350 GGGTTTC
1 GGGTTTC
2539357 GGGTTTC
1 GGGTTTC
*
2539364 GCGTTTCC
1 GGGTTT-C
2539372 GGAGTTTC
1 GG-GTTTC
2539380 GGGTTTTC
1 GGG-TTTC
2539388 GGGTGTATC
1 GGGT-T-TC
2539397 GGGTTTC
1 GGGTTTC
*
2539404 GGTATTTCC
1 GG-GTTT-C
2539413 GGGTTTTC
1 GGG-TTTC
2539421 GGGTTTC
1 GGGTTTC
2539428 GAGGTTTC
1 G-GGTTTC
*
2539436 -GGTTCC
1 GGGTTTC
*
2539442 TGGATATATC
1 -GGGT-T-TC
2539452 GGGTTTC
1 GGGTTTC
2539459 GGGTTTC
1 GGGTTTC
2539466 GGGTTCTC
1 GGGTT-TC
2539474 GAGGTTTC
1 G-GGTTTC
2539482 GGGTTTC
1 GGGTTTC
2539489 GGGTTTC
1 GGGTTTC
2539496 GGGTTTC
1 GGGTTTC
*
2539503 GGGTGTC
1 GGGTTTC
2539510 AGGGTTTTC
1 -GGG-TTTC
2539519 GGG-TTC
1 GGGTTTC
*
2539525 GGGTGTC
1 GGGTTTC
2539532 GGGTTTTC
1 GGG-TTTC
2539540 GGGTTTC
1 GGGTTTC
2539547 GGGTTTC
1 GGGTTTC
2539554 GGGTTTC
1 GGGTTTC
2539561 GGGTTTC
1 GGGTTTC
*
2539568 CGGTTTC
1 GGGTTTC
2539575 -GGTTTCC
1 GGGTTT-C
2539582 GGGTTTC
1 GGGTTTC
2539589 GGAGTTTC
1 GG-GTTTC
2539597 GGGTTTC
1 GGGTTTC
*
2539604 GGTTTTC
1 GGGTTTC
2539611 GGAGTATTC
1 GG-GT-TTC
2539620 GGGTATTC
1 GGGT-TTC
2539628 GAGGTTTC
1 G-GGTTTC
2539636 GGGTTATC
1 GGGTT-TC
*
2539644 GGGTTGC
1 GGGTTTC
2539651 GGAGTTTC
1 GG-GTTTC
2539659 GGG-TTC
1 GGGTTTC
2539665 GGGTTTTC
1 GGG-TTTC
*
2539673 AGGGGTTC
1 -GGGTTTC
2539681 GGG-TTC
1 GGGTTTC
* *
2539687 GGGTGTA
1 GGGTTTC
*
2539694 GGGGTTC
1 GGGTTTC
2539701 GGGTTTC
1 GGGTTTC
2539708 -GGTTTC
1 GGGTTTC
2539714 GAGGGTTTC
1 --GGGTTTC
2539723 AGGGTTTC
1 -GGGTTTC
*
2539731 GGCAGTATCC
1 GG--GT-TTC
2539741 AGGGTTATTC
1 -GGG-T-TTC
2539751 GGGTTTC
1 GGGTTTC
2539758 GGG-TTC
1 GGGTTTC
2539764 GGGTTTC
1 GGGTTTC
2539771 GGGTTTC
1 GGGTTTC
2539778 GGGGTTTC
1 -GGGTTTC
2539786 GGGTATTC
1 GGGT-TTC
2539794 GGGTTTC
1 GGGTTTC
*
2539801 AGGGTGTC
1 -GGGTTTC
2539809 GGGTTATC
1 GGGTT-TC
*
2539817 GGGATTTA
1 GGG-TTTC
2539825 GGGTTTC
1 GGGTTTC
2539832 -GGTTTC
1 GGGTTTC
2539838 GGGTTTTC
1 GGG-TTTC
2539846 GGGTTTC
1 GGGTTTC
*
2539853 GGGTGTC
1 GGGTTTC
2539860 GGGTTTTC
1 GGG-TTTC
2539868 GGGTTTAC
1 GGGTTT-C
2539876 GGGTTTC
1 GGGTTTC
2539883 GGGTTTC
1 GGGTTTC
*
2539890 CGGTTTC
1 GGGTTTC
2539897 GGGTTTC
1 GGGTTTC
2539904 GGGTTTC
1 GGGTTTC
2539911 GGGTTTTC
1 GGG-TTTC
*
2539919 GGATTTC
1 GGGTTTC
*
2539926 GGATTTTC
1 GG-GTTTC
2539934 GGGTTTC
1 GGGTTTC
*
2539941 TCGGTTTC
1 -GGGTTTC
2539949 GGGTTTC
1 GGGTTTC
2539956 GGAAGTTTC
1 GG--GTTTC
2539965 GGGTTTTC
1 GGG-TTTC
2539973 GGGTTTC
1 GGGTTTC
2539980 GGGTTTTC
1 GGG-TTTC
2539988 GGGGTTTC
1 -GGGTTTC
2539996 GGGTTTC
1 GGGTTTC
2540003 GGGTTTC
1 GGGTTTC
*
2540010 AGGGTTCC
1 -GGGTTTC
*
2540018 TGGTTTC
1 GGGTTTC
2540025 GGGTATTTTC
1 GGG---TTTC
2540035 GGGTTTC
1 GGGTTTC
2540042 GGGTTTC
1 GGGTTTC
2540049 GGGTTTC
1 GGGTTTC
2540056 GGGTTTC
1 GGGTTTC
*
2540063 GGG-TGC
1 GGGTTTC
2540069 GGGGTTTC
1 -GGGTTTC
2540077 GAGGTTTC
1 G-GGTTTC
2540085 GGGTTTTC
1 GGG-TTTC
2540093 GGGTTTC
1 GGGTTTC
2540100 GGGTTTTC
1 GGG-TTTC
*
2540108 TGGTTTTC
1 -GGGTTTC
*
2540116 GGTTTTC
1 GGGTTTC
2540123 AGGGTTTC
1 -GGGTTTC
2540131 GGG-TTC
1 GGGTTTC
2540137 GGG-TTC
1 GGGTTTC
2540143 GGGTTTCC
1 GGGTTT-C
2540151 GGG-TTC
1 GGGTTTC
2540157 GGGTTTC
1 GGGTTTC
2540164 GGGTTTC
1 GGGTTTC
2540171 GGAGTTTC
1 GG-GTTTC
2540179 GGG-TTC
1 GGGTTTC
2540185 GGAGTTATC
1 GG-GTT-TC
2540194 GAGGATTTC
1 G-GG-TTTC
2540203 GGGTGTTTC
1 -GG-GTTTC
2540212 -GGTTTC
1 GGGTTTC
2540218 -GG-TTC
1 GGGTTTC
2540223 GGGTTTC
1 GGGTTTC
2540230 GGGTTTTC
1 GGG-TTTC
2540238 GGGTTTC
1 GGGTTTC
2540245 GGGTTT-
1 GGGTTTC
2540251 GGGTTTTC
1 GGG-TTTC
2540259 GGGTTTC
1 GGGTTTC
2540266 GGGTTTC
1 GGGTTTC
2540273 GGGTTTC
1 GGGTTTC
2540280 GTGGTTTC
1 G-GGTTTC
*
2540288 GGGTTCC
1 GGGTTTC
2540295 GGGTTTC
1 GGGTTTC
2540302 -GGTTTC
1 GGGTTTC
**
2540308 -GGTGGC
1 GGGTTTC
2540314 GGGTTTC
1 GGGTTTC
2540321 GAGGTTT-
1 G-GGTTTC
2540328 GGGTTTTTC
1 GGG--TTTC
2540337 -GG-TTC
1 GGGTTTC
**
2540342 GGGTGCC
1 GGGTTTC
2540349 GGGTTTC
1 GGGTTTC
2540356 GGGCTTTC
1 GGG-TTTC
2540364 GAGGTTTC
1 G-GGTTTC
*
2540372 GGGTTAC
1 GGGTTTC
2540379 GGGTTATC
1 GGGTT-TC
*
2540387 GGGTGTC
1 GGGTTTC
2540394 GGGTTTC
1 GGGTTTC
2540401 GGGTTTC
1 GGGTTTC
2540408 GGGTTTC
1 GGGTTTC
2540415 GGGTTTC
1 GGGTTTC
2540422 --GTTTC
1 GGGTTTC
2540427 GAGGGTTTAC
1 --GGGTTT-C
2540437 GGGTTTTC
1 GGG-TTTC
2540445 GGAGTTTC
1 GG-GTTTC
2540453 GAGGTTTC
1 G-GGTTTC
2540461 GGGTTTC
1 GGGTTTC
*
2540468 GGCTTTC
1 GGGTTTC
*
2540475 GGGTTGC
1 GGGTTTC
2540482 GGGTTTTC
1 GGG-TTTC
2540490 -GGTTTC
1 GGGTTTC
2540496 -GGTTTC
1 GGGTTTC
*
2540502 GGTTTTC
1 GGGTTTC
*
2540509 AGGGGTTC
1 -GGGTTTC
2540517 GGGTTTC
1 GGGTTTC
2540524 GGGTTTC
1 GGGTTTC
2540531 -GGTTTC
1 GGGTTTC
2540537 GGGTTTAC
1 GGGTTT-C
2540545 GGGTTTCC
1 GGGTTT-C
2540553 GGGTTTC
1 GGGTTTC
2540560 GGGTTTCAC
1 GGGTTT--C
2540569 AGGGTTTC
1 -GGGTTTC
2540577 GGGTTTC
1 GGGTTTC
2540584 AGGGTTTTC
1 -GGG-TTTC
2540593 GGGTTTC
1 GGGTTTC
*
2540600 AGGTTTC
1 GGGTTTC
2540607 GGGTTTC
1 GGGTTTC
2540614 GGG-TTC
1 GGGTTTC
2540620 GGGTTTC
1 GGGTTTC
2540627 GGGTTTC
1 GGGTTTC
**
2540634 GGGTGGTAG
1 GGGT--TTC
*
2540643 GCGGTGT-
1 G-GGTTTC
2540650 GGGTATT-
1 GGGT-TTC
***
2540657 GTGAGGAGC
1 G-G-GTTTC
**
2540666 GGGGGT-
1 GGGTTTC
*
2540672 -GATTTCAC
1 GGGTTT--C
2540680 AGGGTCTTATGAGC
1 -GGG--TT-T---C
2540694 GGGTTTC
1 GGGTTTC
2540701 GGGGTTTC
1 -GGGTTTC
2540709 GGGTTTC
1 GGGTTTC
2540716 GGGTTTC
1 GGGTTTC
*
2540723 GGGATTC
1 GGGTTTC
2540730 GGGTTT-
1 GGGTTTC
** *
2540736 -TATATC
1 GGGTTTC
*
2540742 -GGTGTAC
1 GGGT-TTC
2540749 GAGGTTTC
1 G-GGTTTC
*
2540757 AGGGCATT-
1 -GGG-TTTC
* *
2540765 -AGTTCC
1 GGGTTTC
2540771 GGG-TTC
1 GGGTTTC
* *
2540777 -TGTCTC
1 GGGTTTC
2540783 GGGTTTC
1 GGGTTTC
2540790 GGAGTTTC
1 GG-GTTTC
**
2540798 ATGTTATC
1 GGGTT-TC
2540806 GAGGTGTTTC
1 --GG-GTTTC
* *
2540816 GTCGTTGC
1 G-GGTTTC
2540824 -GGTTTC
1 GGGTTTC
2540830 GGG-TTC
1 GGGTTTC
2540836 GCGGTTTC
1 G-GGTTTC
2540844 GGGTTTC
1 GGGTTTC
*
2540851 GGGTGTC
1 GGGTTTC
2540858 GGGTTTC
1 GGGTTTC
2540865 GGGTTCTC
1 GGGTT-TC
2540873 GGGTTTC
1 GGGTTTC
*
2540880 GGATTTGC
1 GGGTTT-C
*
2540888 GGGCTTTG
1 GGG-TTTC
2540896 GGGTTTC
1 GGGTTTC
2540903 GGGTTTGC
1 GGGTTT-C
2540911 GGGTTTC
1 GGGTTTC
2540918 GGGATTTC
1 GGG-TTTC
2540926 GGGTTTTTC
1 GGG--TTTC
2540935 GGGTTTC
1 GGGTTTC
2540942 GGGTTTC
1 GGGTTTC
2540949 GGGTTTC
1 GGGTTTC
*
2540956 GGGGTTGC
1 -GGGTTTC
2540964 GGGTTTTTC
1 GGG--TTTC
2540973 GCGGTTTC
1 G-GGTTTC
2540981 GGGTTTCCAC
1 GGGTTT---C
2540991 GGGTTTTC
1 GGG-TTTC
2540999 GGGTTTC
1 GGGTTTC
2541006 GGGTTTC
1 GGGTTTC
2541013 AGGGTGTTC
1 -GGGT-TTC
*
2541022 AAAGGGTTGC
1 ---GGGTTTC
2541032 GGGGTTTTAC
1 -GGG-TTT-C
2541042 GGGTTT-
1 GGGTTTC
2541048 GGGTTTTC
1 GGG-TTTC
2541056 GGGTTTC
1 GGGTTTC
2541063 GGGTTTC
1 GGGTTTC
*
2541070 GGTTTTC
1 GGGTTTC
2541077 GGGTT
1 GGGTT
2541082 GTTCCGGGTT
Statistics
Matches: 4220, Mismatches: 326, Indels: 870
0.78 0.06 0.16
Matches are distributed among these distances:
4 18 0.00
5 71 0.02
6 429 0.10
7 2335 0.55
8 933 0.22
9 302 0.07
10 96 0.02
11 29 0.01
12 2 0.00
13 4 0.00
14 1 0.00
ACGTcount: A:0.04, C:0.12, G:0.43, T:0.41
Consensus pattern (7 bp):
GGGTTTC
Found at i:2537831 original size:31 final size:30
Alignment explanation
Indices: 2537769--2540637 Score: 1282
Period size: 29 Copynumber: 96.9 Consensus size: 30
2537759 GTTTAGGTTG
*
2537769 CGGGTTTACGGGTTT-CGGGTTTCGGG--TT
1 CGGGTTT-CGGGTTTAGGGGTTTCGGGTTTT
2537797 CGGGTTTC-GGTTTAGGTCGGTTTCGGGTTTT
1 CGGGTTTCGGGTTTAGG--GGTTTCGGGTTTT
* *
2537828 CGGGTTTCGGGTTTCGGGATTTCGGGTTCTT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTT-TT
* ** *
2537859 CGGGTTTTCGGGTTTCTGGTAATTCTCGGGTTGT
1 CGGG-TTTCGGGTTT-AGG-GGTT-TCGGGTTTT
* * *
2537893 C-GGTGTTCGGGTGTCAGGGGTTTCGGTGGGTAT
1 CGGGT-TTCGGGT-TTAGGGGTTTC-G-GGTTTT
*
2537926 CGGGTTGTCGGGTTTACGGG-TTCGGG-TTT
1 CGGGTT-TCGGGTTTAGGGGTTTCGGGTTTT
* *
2537955 CGTGTTTCCGGG-TT-----TTTCGGGTTAT
1 CGGGTTT-CGGGTTTAGGGGTTTCGGGTTTT
*
2537980 CGGG-TTCAGGGTTTAGGGCTTTCGGG-TTT
1 CGGGTTTC-GGGTTTAGGGGTTTCGGGTTTT
* * * *
2538009 CCGGTTTCGAGGGTT-CGGGTTTCGGG-TTG
1 CGGGTTTCG-GGTTTAGGGGTTTCGGGTTTT
2538038 CGGGTTTCGGGATTTA-----TTCGGGTTTT
1 CGGGTTTCGGG-TTTAGGGGTTTCGGGTTTT
* *
2538064 CGGGTTTTCGGGTTTCCGAGAGTTTCGGG--TT
1 CGGG-TTTCGGGTTT-AG-GGGTTTCGGGTTTT
* * *
2538095 AGGGTTTCGGG-TTACGGGTTTTCCTGG-TTT
1 CGGGTTTCGGGTTTA-GGGGTTT-CGGGTTTT
* **
2538125 CGGGTTGCGGGTTTTCGGGTTTCGGGTTTT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
** *
2538155 CGGG-TTCGGGTTTTCGGGTTGCCGGG-TTT
1 CGGGTTTCGGGTTTAGGGGTT-TCGGGTTTT
* *
2538184 CGGGTTT-GGGTTTCGGGTTTTCGGGTTCGTTT
1 CGGGTTTCGGGTTTAGGGGTTTCGGG-T--TTT
*
2538216 CGGGTTTCGGGTTTCGGGTTTCGTTTTCGGG-TTT
1 CGGGTTTCGGGTTTAGGG----G-TTTCGGGTTTT
* * *
2538250 AGGGTTTGCGGATTT-CGGGTTTC-GGTTTT
1 CGGGTTT-CGGGTTTAGGGGTTTCGGGTTTT
* *
2538279 CGGGTTTCGGGTTTCGGAGTTTCAGGG-TTT
1 CGGGTTTCGGGTTTAGGGGTTTC-GGGTTTT
* * *
2538309 CGGGTTTCAGGTTTTCGAGGATTTCGGG-TTT
1 CGGGTTTC-GGGTTTAG-GGGTTTCGGGTTTT
2538340 C-GGTTTCGGG-TTA-GGGTTTCGGG-TTT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
*
2538366 CGGGTTTCGGGTTT-CGGGTTTCGGGTTTCT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTT-T
* *
2538396 CGGGTTTCCAGGGTTT-CGGGTTTCGGGGTTT
1 CGGGTTT-C-GGGTTTAGGGGTTTCGGGTTTT
* *
2538427 CGGGTTTACGGG-TTCGGAGTTTCGGG-TTT
1 CGGGTTT-CGGGTTTAGGGGTTTCGGGTTTT
* *
2538456 CGGGATTTCGGG-TT-GCGG-TTCGGG-GTT
1 CGGG-TTTCGGGTTTAGGGGTTTCGGGTTTT
2538483 CGGGTTTCGGGTTT---GG-TTCGGG-TTT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
*
2538508 CGGGTTTCGGGTATTCCGGGGTTTCGGG-TTT
1 CGGGTTTCGGGT-TT-AGGGGTTTCGGGTTTT
* * **
2538539 C-GGTTTCGGGTTTCGGGTTTTCGGGTTGC
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
* *
2538568 CGGTTTTCGGAGTTT-CGGGTATTCGGGATTATT
1 CGGGTTTCGG-GTTTAGGGGT-TTCGGG-TT-TT
* * * **
2538601 CGAGGTATTCGGGTTTCGGAGTTCCGGGTAAAAT
1 CG-GGT-TTCGGGTTTAGGGGTTTCGGGT--TTT
***
2538635 CGGGTTTCGGGTTGCCGGGTTTCGGG-TTT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
* *
2538664 CGGGTTTCGGGTTTCGGGTTTTCGGGCGGGTTTT
1 CGGGTTTCGGGTTTAGGGGTTT----CGGGTTTT
**
2538698 CGGGTTTCGGGTTTCCGGGTTTCGGG-TTT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
**
2538727 CGGGTTTCGGGTTTTCGGGTTTCGGG-TTT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
* * * *
2538756 CGGGTTGCGGTTTTCTCGGTGTTTCAGGG-TTT
1 CGGGTTTCGG-GTT-TAGGGGTTTC-GGGTTTT
* *
2538788 CGGGTTTCTGGTAGTTA-AGGTTTACGGGTTTT
1 CGGGTTTCGGGT--TTAGGGGTTT-CGGGTTTT
* * * *
2538820 CGGGGTGTC-GGTTATCGGAGATTTCGGG-TTC
1 C-GGGTTTCGGGTT-TAGG-GGTTTCGGGTTTT
*
2538851 CGGGTTT-GGGTGTT-CGGG-TTCGGG-TTT
1 CGGGTTTCGGGT-TTAGGGGTTTCGGGTTTT
* *
2538878 CGGGTTGCGGGTTT--CGGTTTCGGG-TTT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
* * *
2538905 CGGGTGTTACGGGTTT-TGGGTTTCGGGAGTTA
1 CGGGT-TT-CGGGTTTAGGGGTTTCGGG-TTTT
* *
2538937 CGGGTTTCAGCGGGTTT-CGGGTTATCGGGTTAAT
1 CGGGTTT---CGGGTTTAGGGGTT-TCGGGTT-TT
* * *
2538971 AGGGTTTCGGGTTTCGGGTTTTCGGGTTTT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
* * *
2539001 CGGGTTTCGGGGTT-CGGGTTTCGAGTTTT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
* *
2539030 CGGGTTTCGGGTTT--CGGTTT-GGGTTTG
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
*
2539057 CGGGTATTCGGGTTT-CGGG-TTCGGG-TTT
1 CGGGT-TTCGGGTTTAGGGGTTTCGGGTTTT
* *
2539085 CGTGGTTTCGGGTTTTCGGGG-TTC-GG-TAT
1 CG-GGTTTCGGG-TTTAGGGGTTTCGGGTTTT
** *
2539114 CGGG--TCGGG-TTATCTGGTTTCGGGTTTA
1 CGGGTTTCGGGTTTA-GGGGTTTCGGGTTTT
*
2539142 CGGGTTTTACGGGTTT-CGGGTTTC-GG-TTT
1 CGGG-TTT-CGGGTTTAGGGGTTTCGGGTTTT
** *
2539171 CGGGTTTCGGGTTTTTCGGGATTCGGGTTTTT
1 CGGGTTTCGGG-TTTAGGGGTTTCGGG-TTTT
*
2539203 CGGGTTTCGGG--T-GCGGGTTTCGGATTTAT
1 CGGGTTTCGGGTTTAG-GGGTTTCGGGTTT-T
*
2539232 CGGGTTTCGGGTTT-CGGGTTTCGGG-TTT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
* *
2539260 CGGGTTTCGGGGTTTCGGGGGTTC-GGTTTT
1 CGGGTTTC-GGGTTTAGGGGTTTCGGGTTTT
* *
2539290 CGGGTCTTCGGGTGT-CGGGTTTCGGG-TTT
1 CGGGT-TTCGGGTTTAGGGGTTTCGGGTTTT
* *
2539319 CGGGTTTCGGGTTTTCCGGGATTTC-GG-TTT
1 CGGGTTTCGGG-TTT-AGGGGTTTCGGGTTTT
* *
2539349 CGGGTTTCGGGTTT-CGCGTTTCCGGAG-TTT
1 CGGGTTTCGGGTTTAGGGGTTT-CGG-GTTTT
* *
2539379 CGGGTTTTCGGGTGTATCGGGTTTC-GGTATTT
1 CGGG-TTTCGGGTTTA-GGGGTTTCGGGT-TTT
* * *
2539411 CCGGGTTTTCGGGTTTCGAGGTTTC-GG-TTC
1 -CGGG-TTTCGGGTTTAGGGGTTTCGGGTTTT
* * *
2539441 CTGGATATATCGGGTTT-CGGGTTTCGGGTTCT
1 C-GGGT-T-TCGGGTTTAGGGGTTTCGGGTTTT
*
2539473 CGAGGTTTCGGGTTT-CGGGTTTCGGG-TTT
1 CG-GGTTTCGGGTTTAGGGGTTTCGGGTTTT
* ** *
2539502 CGGGTGTCAGGGTTTTCGGG-TTCGGG-TGT
1 CGGGTTTC-GGGTTTAGGGGTTTCGGGTTTT
*
2539531 CGGGTTTTCGGGTTT-CGGGTTTCGGG-TTT
1 CGGG-TTTCGGGTTTAGGGGTTTCGGGTTTT
* *
2539560 CGGGTTTCCGGTTT--CGGTTTCCGGG-TTT
1 CGGGTTTCGGGTTTAGGGGTTT-CGGGTTTT
* * *
2539588 CGGAGTTTCGGGTTT-CGGTTTTCGGAGTATT
1 CGG-GTTTCGGGTTTAGGGGTTTCGG-GTTTT
* *
2539619 CGGGTATTCGAGGTTT-CGGGTTATCGGG-TTG
1 CGGGT-TTCG-GGTTTAGGGGTT-TCGGGTTTT
* * *
2539650 CGGAGTTTCGGG-TTCGGGTTTTCAGGG-GTT
1 CGG-GTTTCGGGTTTAGGGGTTTC-GGGTTTT
*
2539680 CGGG-TTCGGGTGTAGGGG-TTCGGG-TTT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
2539707 C-GGTTTC--G---A-GGGTTTCAGGG-TTT
1 CGGGTTTCGGGTTTAGGGGTTTC-GGGTTTT
* **
2539730 CGGCAGTATCCAGGGTTATTCGGGTTTCGGG--TT
1 CGG--GT-TTC-GGGTT-TAGGGGTTTCGGGTTTT
* *
2539763 CGGGTTTCGGGTTTCGGGGTTTCGGGTATT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
* * *
2539793 CGGGTTTCAGGGTGT-CGGGTTATCGGGATTT
1 CGGGTTTC-GGGTTTAGGGGTT-TCGGGTTTT
* * *
2539824 AGGGTTTC-GGTTTCGGGTTTTCGGG-TTT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
* **
2539852 CGGGTGTCGGGTTTTCGGGTTTACGGG-TTT
1 CGGGTTTCGGGTTTAGGGGTTT-CGGGTTTT
* *
2539882 CGGGTTTCCGGTTT-CGGGTTTCGGG-TTT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
* * **
2539910 CGGGTTTTCGGATTTCGGATTTTCGGGTTTCT
1 CGGG-TTTCGGGTTTAGGGGTTTCGGGTTT-T
* *
2539942 C-GGTTTCGGGTTTCGGAAGTTTCGGGTTTT
1 CGGGTTTCGGGTTTAGG-GGTTTCGGGTTTT
*
2539972 CGGGTTTCGGGTTTTCGGGGTTTCGGG-TTT
1 CGGGTTTCGGG-TTTAGGGGTTTCGGGTTTT
***
2540002 CGGGTTTCAGGG-TTCCTGGTTTCGGGTATTTT
1 CGGGTTTC-GGGTTTAGGGGTTTCGGG--TTTT
*
2540034 CGGGTTTCGGGTTT-CGGGTTTCGGG-TTT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
* * *
2540062 CGGG-TGCGGGGTTTCGAGGTTTCGGGTTTT
1 CGGGTTTC-GGGTTTAGGGGTTTCGGGTTTT
** *
2540092 CGGGTTTCGGGTTTTCTGGTTTTC-GGTTTT
1 CGGGTTTCGGG-TTTAGGGGTTTCGGGTTTT
* *
2540122 CAGGGTTTCGGG-TT-CGGG-TTCGGGTTTC
1 C-GGGTTTCGGGTTTAGGGGTTTCGGGTTTT
*
2540150 CGGG-TTCGGGTTT-CGGGTTTCGGAG-TTT
1 CGGGTTTCGGGTTTAGGGGTTTCGG-GTTTT
* *
2540178 CGGG-TTCGGAGTTATCGAGGATTTCGGGTGTTT
1 CGGGTTTCGG-GTT-TAG-GGGTTTCGGGT-TTT
*
2540211 C-GGTTTC-GG-TT-CGGGTTTCGGGTTTT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
*
2540237 CGGGTTTCGGGTTT-GGGTTTTCGGG-TTT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
* * *
2540265 CGGGTTTCGGGTTTCGTGGTTTCGGG-TTC
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
*
2540294 CGGGTTTC-GGTTTCGGTGG---CGGG-TTT
1 CGGGTTTCGGGTTTAGG-GGTTTCGGGTTTT
*** **
2540320 CGAGGTTT-GGGTTTTTCGG-TTCGGG-TGC
1 CG-GGTTTCGGGTTTAGGGGTTTCGGGTTTT
* * *
2540348 CGGGTTTCGGGCTTTCGAGGTTTCGGG-TTA
1 CGGGTTTCGGG-TTTAGGGGTTTCGGGTTTT
* *
2540378 CGGGTTATCGGGTGT-CGGGTTTCGGG-TTT
1 CGGGTT-TCGGGTTTAGGGGTTTCGGGTTTT
* *
2540407 CGGGTTTCGGGTTT---CGTTTCGAGGGTTTA
1 CGGGTTTCGGGTTTAGGGGTTTC--GGGTTTT
* *
2540436 CGGGTTTTCGGAGTTTCGAGGTTTCGGG-TTT
1 CGGG-TTTCGG-GTTTAGGGGTTTCGGGTTTT
* ** *
2540467 CGGCTTTCGGGTTGCGGGTTTTC-GG-TTT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
*
2540495 C-GGTTTCGGTTTTCAGGGG-TTCGGG-TTT
1 CGGGTTTCGGGTTT-AGGGGTTTCGGGTTTT
* *
2540523 CGGGTTTC-GGTTT-CGGGTTTACGGGTTTC
1 CGGGTTTCGGGTTTAGGGGTTT-CGGGTTTT
*
2540552 CGGGTTTCGGGTTTCACAGGGTTTCGGG-TTT
1 CGGGTTTCGGGTTT-A-GGGGTTTCGGGTTTT
2540583 CAGGGTTTTCGGGTTTCA--GGTTTCGGG-TTT
1 C-GGG-TTTCGGGTTT-AGGGGTTTCGGGTTTT
*
2540613 CGGG-TTCGGGTTT-CGGGTTTCGGGT
1 CGGGTTTCGGGTTTAGGGGTTTCGGGT
2540638 GGTAGGCGGT
Statistics
Matches: 2285, Mismatches: 285, Indels: 542
0.73 0.09 0.17
Matches are distributed among these distances:
21 3 0.00
22 4 0.00
23 8 0.00
24 14 0.01
25 38 0.02
26 78 0.03
27 175 0.08
28 293 0.13
29 524 0.23
30 423 0.19
31 274 0.12
32 204 0.09
33 130 0.06
34 82 0.04
35 28 0.01
38 7 0.00
ACGTcount: A:0.04, C:0.14, G:0.41, T:0.41
Consensus pattern (30 bp):
CGGGTTTCGGGTTTAGGGGTTTCGGGTTTT
Found at i:2540914 original size:38 final size:37
Alignment explanation
Indices: 2540824--2541078 Score: 193
Period size: 38 Copynumber: 6.6 Consensus size: 37
2540814 TCGTCGTTGC
* *
2540824 GGTTTCGGG-TTCGCGGTTTCGGGTTTCGGG--TGTCG
1 GGTTTCGGGTTTCG-GGTTTCGGATTTCGGGTTTTTCG
* *
2540859 GGTTTCGGGTTCTCGGGTTTCGGATTTGCGGG-CTTTGG
1 GGTTTCGGGTT-TCGGGTTTCGGATTT-CGGGTTTTTCG
2540897 GGTTTCGGGTTTGCGGGTTTCGGGATTTCGGGTTTTTCG
1 GGTTTCGGGTTT-CGGGTTTC-GGATTTCGGGTTTTTCG
* *
2540936 GGTTTCGGGTTTCGGGTTTCGGGGTTGCGGGTTTTTCG
1 GGTTTCGGGTTTCGGGTTTC-GGATTTCGGGTTTTTCG
*
2540974 CGGTTTCGGGTTTCCACGGGTTTTCGGGTTTCGGG--TTTCAG
1 -GGTTTCGGGTTT---CGGG-TTTCGGATTTCGGGTTTTTC-G
* *
2541015 GGTGTTCAAAGGGTTGCGGGGTTTTACGGGTTT-GGG-TTTTCG
1 GGT-TTC---GGGTTTC-GGG-TTT-CGGATTTCGGGTTTTTCG
*
2541057 GGTTTCGGGTTTCGGTTTTCGG
1 GGTTTCGGGTTTCGGGTTTCGG
2541079 GTTGTTCCGG
Statistics
Matches: 189, Mismatches: 11, Indels: 40
0.79 0.05 0.17
Matches are distributed among these distances:
35 12 0.06
36 15 0.08
37 10 0.05
38 56 0.30
39 34 0.18
40 7 0.04
41 8 0.04
42 27 0.14
43 15 0.08
44 5 0.03
ACGTcount: A:0.03, C:0.15, G:0.42, T:0.40
Consensus pattern (37 bp):
GGTTTCGGGTTTCGGGTTTCGGATTTCGGGTTTTTCG
Found at i:2540978 original size:17 final size:17
Alignment explanation
Indices: 2540952--2540986 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2540942 GGGTTTCGGG
*
2540952 TTTCGGGGTTGCGGGTT
1 TTTCGCGGTTGCGGGTT
*
2540969 TTTCGCGGTTTCGGGTT
1 TTTCGCGGTTGCGGGTT
2540986 T
1 T
2540987 CCACGGGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.14, G:0.40, T:0.46
Consensus pattern (17 bp):
TTTCGCGGTTGCGGGTT
Found at i:2540983 original size:25 final size:24
Alignment explanation
Indices: 2540955--2541017 Score: 58
Period size: 25 Copynumber: 2.6 Consensus size: 24
2540945 TTTCGGGTTT
*
2540955 CGGGGTT-GCGGGTTTTTCGCGGTTT
1 CGGGGTTCACGGG-TTTTCG-GGTTT
*
2540980 CGGGTTTCCACGGGTTTTCGGGTTT
1 CGGGGTT-CACGGGTTTTCGGGTTT
*
2541005 CGGGTTTCA-GGGT
1 CGGGGTTCACGGGT
2541018 GTTCAAAGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 4 0.12
24 2 0.06
25 18 0.53
26 6 0.18
27 4 0.12
ACGTcount: A:0.03, C:0.17, G:0.41, T:0.38
Consensus pattern (24 bp):
CGGGGTTCACGGGTTTTCGGGTTT
Found at i:2541163 original size:17 final size:17
Alignment explanation
Indices: 2541135--2541207 Score: 85
Period size: 18 Copynumber: 4.2 Consensus size: 17
2541125 TCTCACAGGG
2541135 TTTCCGGGTTT-CGGGT
1 TTTCCGGGTTTCCGGGT
2541151 TTTCCGAGGTTTCCGGGT
1 TTTCCG-GGTTTCCGGGT
*
2541169 TTTCGGGGTTTCCGGGGT
1 TTTCCGGGTTTCC-GGGT
* *
2541187 TTTCGGGTGTTTCAGGGT
1 TTTCCGG-GTTTCCGGGT
2541205 TTT
1 TTT
2541208 AACGGAGGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
16 6 0.12
17 12 0.24
18 28 0.55
19 5 0.10
ACGTcount: A:0.03, C:0.16, G:0.37, T:0.44
Consensus pattern (17 bp):
TTTCCGGGTTTCCGGGT
Found at i:2541165 original size:9 final size:8
Alignment explanation
Indices: 2541132--2541194 Score: 65
Period size: 9 Copynumber: 7.5 Consensus size: 8
2541122 GTCTCTCACA
2541132 GGGTTTCC
1 GGGTTTCC
2541140 GGGTTT-C
1 GGGTTTCC
2541147 GGGTTTTCC
1 GGG-TTTCC
2541156 GAGGTTTCC
1 G-GGTTTCC
*
2541165 GGGTTTTCG
1 GGG-TTTCC
2541174 GGGTTTCC
1 GGGTTTCC
*
2541182 GGGGTTTTC
1 -GGGTTTCC
2541191 GGGT
1 GGGT
2541195 GTTTCAGGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
7 4 0.09
8 19 0.40
9 22 0.47
10 2 0.04
ACGTcount: A:0.02, C:0.17, G:0.41, T:0.40
Consensus pattern (8 bp):
GGGTTTCC
Found at i:2541198 original size:10 final size:9
Alignment explanation
Indices: 2541143--2541207 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 9
2541133 GGTTTCCGGG
2541143 TTTC-GGGT
1 TTTCGGGGT
*
2541151 TTTCCGAGG-
1 TTT-CGGGGT
*
2541160 TTTCCGGGT
1 TTTCGGGGT
2541169 TTTCGGGGT
1 TTTCGGGGT
*
2541178 TTCCGGGGT
1 TTTCGGGGT
2541187 TTTC-GGGT
1 TTTCGGGGT
*
2541195 GTTTCAGGGT
1 -TTTCGGGGT
2541205 TTT
1 TTT
2541208 AACGGAGGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
8 10 0.22
9 30 0.65
10 6 0.13
ACGTcount: A:0.03, C:0.15, G:0.37, T:0.45
Consensus pattern (9 bp):
TTTCGGGGT
Found at i:2541206 original size:8 final size:8
Alignment explanation
Indices: 2540838--2541194 Score: 108
Period size: 7 Copynumber: 43.4 Consensus size: 8
2540828 TCGGGTTCGC
2540838 GGTTT-CG
1 GGTTTCCG
2540845 GGTTT-CG
1 GGTTTCCG
*
2540852 GGTGT-CG
1 GGTTTCCG
2540859 GGTTT-CG
1 GGTTTCCG
2540866 GG-TTCTCG
1 GGTTTC-CG
2540874 GGTTT-CG
1 GGTTTCCG
* *
2540881 GATTTGCG
1 GGTTTCCG
*
2540889 GGCTTT-GG
1 GG-TTTCCG
2540897 GGTTT-CG
1 GGTTTCCG
*
2540904 GGTTTGCG
1 GGTTTCCG
2540912 GGTTT-CG
1 GGTTTCCG
2540919 GGATTT-CG
1 GG-TTTCCG
*
2540927 GGTTTTTCG
1 GG-TTTCCG
2540936 GGTTT-CG
1 GGTTTCCG
2540943 GGTTT-CG
1 GGTTTCCG
2540950 GGTTT-CG
1 GGTTTCCG
* *
2540957 GGGTTGCG
1 GGTTTCCG
*
2540965 GGTTTTTCG
1 GG-TTTCCG
2540974 CGGTTT-CG
1 -GGTTTCCG
2540982 GGTTTCCACG
1 GGTTT-C-CG
*
2540992 GGTTTTCG
1 GGTTTCCG
2541000 GGTTT-CG
1 GGTTTCCG
*
2541007 GGTTTCAG
1 GGTTTCCG
*
2541015 GGTGTTCAAAG
1 GGT-TTC--CG
* *
2541026 GGTTGCGG
1 GGTTTCCG
*
2541034 GGTTTTACG
1 GG-TTTCCG
2541043 GGTTT--G
1 GGTTTCCG
*
2541049 GGTTTTCG
1 GGTTTCCG
2541057 GGTTT-CG
1 GGTTTCCG
2541064 GGTTT-C-
1 GGTTTCCG
*
2541070 GGTTTTCG
1 GGTTTCCG
2541078 GGTTGTTCCG
1 GG-T-TTCCG
2541088 GGTTAAGTCCGCG
1 GGTT---T-C-CG
2541101 GGTTTTTCACG
1 GG--TTTC-CG
*
2541112 GGTTTCAG
1 GGTTTCCG
2541120 GAGTCTCTCACAG
1 G-GT-T-TC-C-G
2541133 GGTTTCCG
1 GGTTTCCG
2541141 GGTTT-CG
1 GGTTTCCG
2541148 GGTTTTCCG
1 GG-TTTCCG
2541157 AGGTTTCCG
1 -GGTTTCCG
*
2541166 GGTTTTCGG
1 GG-TTTCCG
2541175 GGTTTCCGG
1 GGTTTCC-G
*
2541184 GGTTTTCG
1 GGTTTCCG
2541192 GGT
1 GGT
2541195 GTTTCAGGGT
Statistics
Matches: 284, Mismatches: 24, Indels: 83
0.73 0.06 0.21
Matches are distributed among these distances:
6 13 0.05
7 85 0.30
8 83 0.29
9 55 0.19
10 22 0.08
11 14 0.05
12 4 0.01
13 6 0.02
15 2 0.01
ACGTcount: A:0.04, C:0.16, G:0.40, T:0.39
Consensus pattern (8 bp):
GGTTTCCG
Found at i:2541258 original size:30 final size:30
Alignment explanation
Indices: 2541220--2541292 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
2541210 CGGAGGTTCG
** *
2541220 GGTTTCGGGTTTTTCGGG-TT-CGGGTTGTT
1 GGTTTCGGGTTTCCCGGGTTTACGGGTT-TC
2541249 GGTTATCGGGTTTCCCGGGTTTACGGGTTTC
1 GGTT-TCGGGTTTCCCGGGTTTACGGGTTTC
2541280 GGTTTCGGGTTTC
1 GGTTTCGGGTTTC
2541293 GGGTGTTTGG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 4 0.11
30 21 0.55
31 7 0.18
32 6 0.16
ACGTcount: A:0.03, C:0.15, G:0.38, T:0.44
Consensus pattern (30 bp):
GGTTTCGGGTTTCCCGGGTTTACGGGTTTC
Found at i:2541403 original size:16 final size:16
Alignment explanation
Indices: 2541382--2541412 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2541372 GTGGAGGATT
2541382 GGGGTTTGGGGTTTTA
1 GGGGTTTGGGGTTTTA
2541398 GGGGTTTGGGGTTTT
1 GGGGTTTGGGGTTTT
2541413 CTTGGAGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.03, C:0.00, G:0.52, T:0.45
Consensus pattern (16 bp):
GGGGTTTGGGGTTTTA
Done.