Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 102 of 228
Found at i:29606149 original size:21 final size:21
Alignment explanation
Indices: 29606107--29606149 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
29606097 CACTACTCTG
**
29606107 TTTCTAGTTGTACGACTGCAT
1 TTTCTAGTTGTACGACCACAT
29606128 TTTCTAGTTGGTA-GACCACAT
1 TTTCTAGTT-GTACGACCACAT
29606149 T
1 T
29606150 ATTGGTGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (21 bp):
TTTCTAGTTGTACGACCACAT
Found at i:29606539 original size:4 final size:4
Alignment explanation
Indices: 29606530--29606560 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
29606520 TGGAACTTTG
29606530 GTTT GTTT GTTT GTTT GTTT GTTT -TTT GTTT
1 GTTT GTTT GTTT GTTT GTTT GTTT GTTT GTTT
29606561 TGAGACTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
GTTT
Found at i:29611774 original size:32 final size:32
Alignment explanation
Indices: 29611707--29611783 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
29611697 GTATAATCGG
* *
29611707 TGGTGGTGTAAGGTGGTGGCCATAGTGGTGAT
1 TGGTGGTGTAAGGTGGTGGCCACAGCGGTGAT
* * * *
29611739 TGGTAGTGCAAGGTGGTGGCCACGGCGGTGGT
1 TGGTGGTGTAAGGTGGTGGCCACAGCGGTGAT
29611771 TGGTGGTGTAAGG
1 TGGTGGTGTAAGG
29611784 GTCGACGTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.14, C:0.09, G:0.49, T:0.27
Consensus pattern (32 bp):
TGGTGGTGTAAGGTGGTGGCCACAGCGGTGAT
Found at i:29614414 original size:32 final size:32
Alignment explanation
Indices: 29614359--29614529 Score: 127
Period size: 32 Copynumber: 5.4 Consensus size: 32
29614349 GAATGACTAT
* *
29614359 AAGCCATAAGT-ACATTAATATGATTCGCACA
1 AAGCCATCAGTAACAGTAATATGATTCGCACA
** *
29614390 AAGCCATCAGTAGTAGTGATATGA-TCGACACA
1 AAGCCATCAGTAACAGTAATATGATTCG-CACA
* *
29614422 CAA-CCATCAGTAACGGTAATATGATAT-ACACA
1 -AAGCCATCAGTAACAGTAATATGAT-TCGCACA
* * *
29614454 AAGGCATGAGTAACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATTCGCACA
** ** *
29614486 AAGATATCAGTAATGGTAATATGA-TCGGTACA
1 AAGCCATCAGTAACAGTAATATGATTC-GCACA
*
29614518 AATCCATCAGTA
1 AAGCCATCAGTA
29614530 GCATCGCAGT
Statistics
Matches: 108, Mismatches: 24, Indels: 15
0.73 0.16 0.10
Matches are distributed among these distances:
31 17 0.16
32 88 0.81
33 2 0.02
34 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATTCGCACA
Found at i:29614601 original size:27 final size:28
Alignment explanation
Indices: 29614565--29614619 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
29614555 AGTATCGCAG
* *
29614565 CAAAGCTACCCGTAATAGT-ATATGTGGC
1 CAAAGCTACCAGTAACAGTGAT-TGTGGC
29614593 CAAA-CTACCAGTAACAGTGATTGTGGC
1 CAAAGCTACCAGTAACAGTGATTGTGGC
29614620 AGAGCCACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (28 bp):
CAAAGCTACCAGTAACAGTGATTGTGGC
Found at i:29614728 original size:24 final size:24
Alignment explanation
Indices: 29614701--29614782 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
29614691 CCATGCTCAG
29614701 AATCAATCATACAAATCACAGACA
1 AATCAATCATACAAATCACAGACA
* * *
29614725 AATCAGTTATACCAATCACAGACA
1 AATCAATCATACAAATCACAGACA
* ** *
29614749 AATCAGTCATTTAAATCACAGAAA
1 AATCAATCATACAAATCACAGACA
29614773 AATCAATCAT
1 AATCAATCAT
29614783 TTGCATCACG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (24 bp):
AATCAATCATACAAATCACAGACA
Found at i:29614783 original size:24 final size:24
Alignment explanation
Indices: 29614701--29614809 Score: 94
Period size: 24 Copynumber: 4.5 Consensus size: 24
29614691 CCATGCTCAG
** *
29614701 AATCAATCATACAAATCACAGACA
1 AATCAATCATTTAAATCACAGAAA
* * *** *
29614725 AATCAGTTATACCAATCACAGACA
1 AATCAATCATTTAAATCACAGAAA
*
29614749 AATCAGTCATTTAAATCACAGAAA
1 AATCAATCATTTAAATCACAGAAA
**
29614773 AATCAATCATTTGCATCAC-GAACA
1 AATCAATCATTTAAATCACAGAA-A
29614797 AATCAATCATTTA
1 AATCAATCATTTA
29614810 CACTCGAGGG
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
23 3 0.04
24 69 0.96
ACGTcount: A:0.48, C:0.22, G:0.06, T:0.24
Consensus pattern (24 bp):
AATCAATCATTTAAATCACAGAAA
Found at i:29614885 original size:27 final size:27
Alignment explanation
Indices: 29614855--29615118 Score: 200
Period size: 27 Copynumber: 9.9 Consensus size: 27
29614845 GGCATTACGA
*
29614855 TCATTTTA-CCTTACAAGGGTATTTTGG
1 TCATTTTACCCTT-CGAGGGTATTTTGG
* * **
29614882 TCATTTAACCCTAT-GGGGGTATTAAGG
1 TCATTTTACCCT-TCGAGGGTATTTTGG
* *
29614909 TCATTTTA-CCTTATG-GGGT-TTTTAG
1 TCATTTTACCCTT-CGAGGGTATTTTGG
* * *
29614934 TTATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTTGG
* * *
29614961 TCATTTTACCCTTCAAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTTGG
* *
29614988 TTATTTTACCCTTCG-GGAATATTTTGG
1 TCATTTTACCCTTCGAGG-GTATTTTGG
*
29615015 TCATTTTACCCTTCGAGGGTATTTTAG
1 TCATTTTACCCTTCGAGGGTATTTTGG
* * * *
29615042 TAAATTTT-CCCTTCTAGGGTATTTCGA
1 T-CATTTTACCCTTCGAGGGTATTTTGG
* * *
29615069 TAATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTTGG
* * *
29615096 TAATTTTACCCTTTGGGGGTATT
1 TCATTTTACCCTTCGAGGGTATT
29615119 ACTATCATTT
Statistics
Matches: 194, Mismatches: 32, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
25 12 0.06
26 23 0.12
27 148 0.76
28 10 0.05
29 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTTGG
Found at i:29615128 original size:27 final size:27
Alignment explanation
Indices: 29614936--29615130 Score: 216
Period size: 27 Copynumber: 7.2 Consensus size: 27
29614926 GTTTTTAGTT
29614936 ATTTTACCCTTCGAGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCGATC
* *
29614963 ATTTTACCCTTCAAGGGTATTTCGATT
1 ATTTTACCCTTCGAGGGTATTTCGATC
* * *
29614990 ATTTTACCCTTCG-GGAATATTTTGGTC
1 ATTTTACCCTTCGAGG-GTATTTCGATC
* *
29615017 ATTTTACCCTTCGAGGGTATTT-TAGTAA
1 ATTTTACCCTTCGAGGGTATTTCGA-T-C
* *
29615045 ATTTT-CCCTTCTAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATC
*
29615071 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATC
* * * *
29615098 ATTTTACCCTTTGGGGGTATTACTATC
1 ATTTTACCCTTCGAGGGTATTTCGATC
29615125 ATTTTA
1 ATTTTA
29615131 GAAATATTGG
Statistics
Matches: 143, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
26 8 0.06
27 127 0.89
28 8 0.06
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATC
Found at i:29617232 original size:15 final size:16
Alignment explanation
Indices: 29617214--29617244 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
29617204 TTATATCATC
29617214 TCATAATCT-AAGTTT
1 TCATAATCTAAAGTTT
29617229 TCATAATCTAAAGTTT
1 TCATAATCTAAAGTTT
29617245 CAAGAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (16 bp):
TCATAATCTAAAGTTT
Found at i:29620105 original size:13 final size:13
Alignment explanation
Indices: 29620087--29620118 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
29620077 CGTGTGTAAC
29620087 ACATGGCCAGGCG
1 ACATGGCCAGGCG
*
29620100 ACATGGCTAGGCG
1 ACATGGCCAGGCG
29620113 ACATGG
1 ACATGG
29620119 TCTTGTGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.25, G:0.38, T:0.12
Consensus pattern (13 bp):
ACATGGCCAGGCG
Found at i:29622275 original size:16 final size:16
Alignment explanation
Indices: 29622254--29622284 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
29622244 TTCTTTGTGT
29622254 TTTTCTATTTTCTTTA
1 TTTTCTATTTTCTTTA
29622270 TTTTCTATTTTCTTT
1 TTTTCTATTTTCTTT
29622285 TCCTTCTTTT
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:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTCTATTTTCTTTA
Found at i:29628801 original size:14 final size:14
Alignment explanation
Indices: 29628782--29628809 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29628772 TAAAGTTATA
29628782 TTTAATAATTCATT
1 TTTAATAATTCATT
29628796 TTTAATAATTCATT
1 TTTAATAATTCATT
29628810 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:29634624 original size:3 final size:3
Alignment explanation
Indices: 29634612--29634689 Score: 65
Period size: 3 Copynumber: 27.3 Consensus size: 3
29634602 CTTTTTCAGC
* * * * *
29634612 TAT T-T TAT TAT TAT TAT T-T TTT TAG TGT TAT TAT TAT AAT TA- TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
29634657 TA- TAC TAT CAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
29634690 TCTATATTCA
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
2 7 0.12
3 52 0.88
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:29634749 original size:29 final size:28
Alignment explanation
Indices: 29634713--29634790 Score: 99
Period size: 27 Copynumber: 2.8 Consensus size: 28
29634703 ACATGCATTA
29634713 TTTTTATATAATATATATATGCACT-TT
1 TTTTTATATAATATATATATGCACTGTT
* *
29634740 CTTTTT-TAT-ATAGTATATACGCGCTGTT
1 -TTTTTATATAATA-TATATATGCACTGTT
29634768 TTTTTATATAATATATATATGCA
1 TTTTTATATAATATATATATGCA
29634791 TTTTTAGTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 3 0.07
27 18 0.43
28 18 0.43
29 3 0.07
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.53
Consensus pattern (28 bp):
TTTTTATATAATATATATATGCACTGTT
Found at i:29634795 original size:26 final size:26
Alignment explanation
Indices: 29634705--29634795 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 26
29634695 ATTCATTCAC
*
29634705 ATGCATTATTTTTATATAATATATAT
1 ATGCATTTTTTTTATATAATATATAT
29634731 ATGCACTTTCTTTTT-TAT-ATAGTATAT
1 ATGCA-TTT-TTTTTATATAATA-TATAT
* *
29634758 ACGCGCTGTTTTTTTATATAATATATAT
1 ATGC-AT-TTTTTTTATATAATATATAT
29634786 ATGCATTTTT
1 ATGCATTTTT
29634796 AGTACCCGTC
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
26 12 0.23
27 20 0.38
28 18 0.34
29 3 0.06
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.54
Consensus pattern (26 bp):
ATGCATTTTTTTTATATAATATATAT
Found at i:29642289 original size:18 final size:18
Alignment explanation
Indices: 29642266--29642314 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
29642256 AATCGTGTCG
29642266 TTCATTTTCAAAACATTA
1 TTCATTTTCAAAACATTA
* * *
29642284 TTCATTTACAAATCGTTA
1 TTCATTTTCAAAACATTA
*
29642302 TTCAATTTCAAAA
1 TTCATTTTCAAAA
29642315 AGTTTTTTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (18 bp):
TTCATTTTCAAAACATTA
Found at i:29651993 original size:85 final size:84
Alignment explanation
Indices: 29651791--29652049 Score: 286
Period size: 85 Copynumber: 3.0 Consensus size: 84
29651781 TAAAAGTAAA
* * * * * * *
29651791 TAAAATCCATTTCGGGATTAATTCCCGCCGTTCAATGGATTTTAATCCATTATTTTGATTTTATT
1 TAAAATTCGTTTCGAGATTTATTCCCACCGTTCAACGGATTTTAATCTATTATTTTGATTTTATT
*
29651856 GCCAAGAGGGAAATTAAAGG
66 TCCAA-AGGGAAATTAAAGG
*
29651876 TAAAATTCGTTTCGAGATTTATTCCCACCGTTCAACGGATTGTAATCTATTATTTTGATTTTATT
1 TAAAATTCGTTTCGAGATTTATTCCCACCGTTCAACGGATTTTAATCTATTATTTTGATTTTATT
29651941 TCCAAATGGGAAATTAAAGG
66 TCCAAA-GGGAAATTAAAGG
* ***** ** * *
29651961 TAAAA-TCTGTTTCGGGATTTATTTTTGTCGTTCAACAAATTTTATTCTATTATTTTTATTTTAT
1 TAAAATTC-GTTTCGAGATTTATTCCCACCGTTCAACGGATTTTAATCTATTATTTTGATTTTAT
* *
29652025 TTCCAAACAGGAAAGTAAAGG
65 TTCCAAA-GGGAAATTAAAGG
29652046 TAAA
1 TAAA
29652050 TAAAATCCAT
Statistics
Matches: 149, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
84 3 0.02
85 146 0.98
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (84 bp):
TAAAATTCGTTTCGAGATTTATTCCCACCGTTCAACGGATTTTAATCTATTATTTTGATTTTATT
TCCAAAGGGAAATTAAAGG
Found at i:29652279 original size:78 final size:77
Alignment explanation
Indices: 29652045--29652279 Score: 269
Period size: 78 Copynumber: 3.0 Consensus size: 77
29652035 GAAAGTAAAG
* ** ** *
29652045 GTAAATAAAATCCATTTTGTCATTGATTCCTACCATTCAACGATTTTATTCCAA-TTT-TTTTAT
1 GTAAATAAAATCCGTTTTGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAATTTTGTTTTAT
* *
29652108 TTCCAAAAGCAA
66 TTCCAAAAACGA
* ** * *
29652120 GTAAAATAAAATCTGTTTCAGGATTGATTCCCGCCGTTCAA-TATTTTTATTTCAAATTTTGTTT
1 GT-AAATAAAATCCGTTTTGGGATTGATTCCCGCCGTTCAACGA-TTTTA-TTCCAATTTTGTTT
*
29652184 TATTTCCAAAAATGA
63 TATTTCCAAAAACGA
*
29652199 GTAAATAAAATCCGTTTTGGGATTGATTCCCGTCGTTCAACGATTTTATTCCAATTTTGATTTTA
1 GTAAATAAAATCCGTTTTGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAATTTTG-TTTTA
*
29652264 TTTCCAAAACCGA
65 TTTCCAAAAACGA
29652277 GTA
1 GTA
29652280 TTAAAAATAA
Statistics
Matches: 131, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
75 3 0.02
76 34 0.26
77 15 0.11
78 61 0.47
79 18 0.14
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (77 bp):
GTAAATAAAATCCGTTTTGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAATTTTGTTTTAT
TTCCAAAAACGA
Found at i:29652459 original size:84 final size:84
Alignment explanation
Indices: 29652287--29652592 Score: 324
Period size: 84 Copynumber: 3.7 Consensus size: 84
29652277 GTATTAAAAA
* * * **
29652287 TAAATTAAAATCTATTACGAGATTTATTCTCGTCGTTCAAC-AGA-TTTATTACATTTTGATTTT
1 TAAA-TAAAATCTATTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTATTTGATTTTG-TTTT
*
29652350 GTTGCTAAA--A-AATGAGAAAT
64 GTTTCTAAATTAGAAT-AG-AAT
* * *
29652370 TAAATAAAATCTGTTTCAAGATTTATTCTCGCCATTTAACAAGATTTTATTTGATTTTGTTTTGT
1 TAAATAAAATCTATTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTATTTGATTTTGTTTTGT
29652435 TTCTAAATTAGAATAGAAT
66 TTCTAAATTAGAATAGAAT
* * * *
29652454 TAAATAAAATTTGTTTCGGGATTTATT-TCCGCCGTTTAACAAGATTTTATTTGATTTTATTTTG
1 TAAATAAAATCTATTTCGAGATTTATTCT-CGCCGTTTAACAAGATTTTATTTGATTTTGTTTTG
* *
29652518 TTTCCAAATTCGAATTA-AAT
65 TTTCTAAATTAGAA-TAGAAT
* * * *
29652538 TAAATAAAATCTATTTCGAGATTTATTCCCACCGTTTAA-TAGATTTT-TTTTATTT
1 TAAATAAAATCTATTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTATTTGATTT
29652593 AATGATATAA
Statistics
Matches: 192, Mismatches: 23, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
82 37 0.19
83 27 0.14
84 120 0.62
85 5 0.03
86 3 0.02
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (84 bp):
TAAATAAAATCTATTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTATTTGATTTTGTTTTGT
TTCTAAATTAGAATAGAAT
Found at i:29665492 original size:328 final size:327
Alignment explanation
Indices: 29664892--29665527 Score: 930
Period size: 328 Copynumber: 1.9 Consensus size: 327
29664882 GTTATAGTTT
*
29664892 AACTAAACTTACATTACATATTTAAATAAATAATTTATGACATTATTTTTATCAAATAAAATATT
1 AACTAAACTTACATTACATATTTAAATAAATAATTTATGACAATATTTTTATCAAATAAAATATT
* *
29664957 GAATTATAAAATATATAAAAAAATTATAAATTGTTTAAATTTATTTATGAAATCAATTATCAAAT
66 GAATTACAAAATATATAAAAAAATTATAAATTATTTAAATTTATTTATGAAATCAATTATCAAAT
* ** *
29665022 TTAATTTATACAAAAAATTAAAATAATTATAAAATATTTTAATTGATATATACAATTTAAACTTG
131 TTAATTTATACAAAAAATTAAAATAATTATAAAATATTTTAATTAATATATACAATCCAAAC-TA
*
29665087 TAAAACAAGTAAAAAATAAAATAAAAATCTTTGGTTAAACTGGAAAACCAAGAAAAAGAATAACA
195 TAAAACAAGTAAAAAATAAAATAAAAATCTTTGGTCAAACTGGAAAACCAAGAAAAAGAATAACA
* * * *
29665152 TATGTTTTGATAGAAAGCTTACGTGAGGCATGACGTTTAGTTGGACAATTATGCCGTGGTATGTG
260 CATGTCTTGATAGAAAGCTTACGTCAGCCATGACGTTTAGTTGGACAATTATGCCGTGGTATGTG
29665217 TTC
325 TTC
*
29665220 AACTAAACTTACATTACATATTTAAATAAATAATTTATGATAATATTTTTATCAAATAAAATATT
1 AACTAAACTTACATTACATATTTAAATAAATAATTTATGACAATATTTTTATCAAATAAAATATT
* * *
29665285 GAATTACAAGATATA-AAAAAAGTTATAAATTATTTAAATTTATTTAT-AATATGAATTATCAAA
66 GAATTACAAAATATATAAAAAAATTATAAATTATTTAAATTTATTTATGAA-ATCAATTATCAAA
*
29665348 TTTATTTTATAC-AAAAATTAAAATAATTATAAAATATTTTAATTAATATATACAA-CCAAA-TA
130 TTTAATTTATACAAAAAATTAAAATAATTATAAAATATTTTAATTAATATATACAATCCAAACTA
* * *
29665410 TACATATTGCCGAA-T-AAAAATATAA-AAAAATCTGCTTGGTCAAATTGGAAAACCAAGAAAAA
195 TA-A-A---AC-AAGTAAAAAATAAAATAAAAATCT--TTGGTCAAACTGGAAAACCAAGAAAAA
29665472 GAAT-ACTACATGTCTTGATAGAAAGCTTACGTCAGCCATGACGTTTAGTTGGACAA
252 GAATAAC-ACATGTCTTGATAGAAAGCTTACGTCAGCCATGACGTTTAGTTGGACAA
29665528 CTATAATGTG
Statistics
Matches: 278, Mismatches: 20, Indels: 20
0.87 0.06 0.06
Matches are distributed among these distances:
323 3 0.01
324 1 0.00
325 4 0.01
326 52 0.19
327 64 0.23
328 152 0.55
329 2 0.01
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.35
Consensus pattern (327 bp):
AACTAAACTTACATTACATATTTAAATAAATAATTTATGACAATATTTTTATCAAATAAAATATT
GAATTACAAAATATATAAAAAAATTATAAATTATTTAAATTTATTTATGAAATCAATTATCAAAT
TTAATTTATACAAAAAATTAAAATAATTATAAAATATTTTAATTAATATATACAATCCAAACTAT
AAAACAAGTAAAAAATAAAATAAAAATCTTTGGTCAAACTGGAAAACCAAGAAAAAGAATAACAC
ATGTCTTGATAGAAAGCTTACGTCAGCCATGACGTTTAGTTGGACAATTATGCCGTGGTATGTGT
TC
Found at i:29670741 original size:24 final size:24
Alignment explanation
Indices: 29670683--29670743 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
29670673 CATATGAACG
*
29670683 AGTAA-AAAAATGAAAACGTGAATAA
1 AGTAATAAAAAT--AAACGTGAACAA
*
29670708 A-TAATCAAAATAAACGTGAACAA
1 AGTAATAAAAATAAACGTGAACAA
29670731 AGTAATAAAAATA
1 AGTAATAAAAATA
29670744 TAAAAACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 12 0.39
24 13 0.42
25 6 0.19
ACGTcount: A:0.64, C:0.07, G:0.11, T:0.18
Consensus pattern (24 bp):
AGTAATAAAAATAAACGTGAACAA
Found at i:29672758 original size:132 final size:132
Alignment explanation
Indices: 29672598--29673090 Score: 754
Period size: 132 Copynumber: 3.7 Consensus size: 132
29672588 CTATACTACA
* * *
29672598 TTGGGAAGATAAGATTCATCATCTTCGATCTGCTCCACTACTACTCAGGGAGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAA
* *
29672663 T-TTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACT
66 TCTTT-GACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
29672727 ATC
130 ATC
* * * * *
29672730 TTGGGAAGATAAGCTTCACCATTTTCGATCTGCTCCACTATTGCTTAGGGAGATAGAATCTACAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAA
* * *
29672795 TCTTTGACCTATTCCACTACTGCTTATGGAGATAGGACTAATGGCTTAAATATGCTTCTCCACTA
66 TCTTTGACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTA
29672860 TC
131 TC
* * *
29672862 TTGGGAAGATAAGATTCACCATCCTCGATCTGCTCCACTATTGCTTAGGGAGACAGAATCTGTAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAA
* * * *
29672927 TCTTTGACTTATTCCACTATTGCTTAGGGAGATAGGACTAATGGCTTAAATCTTCTTCTCCACTA
66 TCTTTGACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTA
29672992 TC
131 TC
* * *
29672994 TTGGGAAGATAAGATTCACCATCTTTGATCTGCTCTACTACTGCTTAGGGAAACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAA
*
29673059 TCTTTGACCTACTCCACTATTGCTTAGGGAGA
66 TCTTTGACCTACTCCACTACTGCTTAGGGAGA
29673091 CAGAATCTGC
Statistics
Matches: 328, Mismatches: 32, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
132 325 0.99
133 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (132 bp):
TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAA
TCTTTGACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTA
TC
Found at i:29672811 original size:44 final size:44
Alignment explanation
Indices: 29672762--29673137 Score: 179
Period size: 44 Copynumber: 8.5 Consensus size: 44
29672752 TTTCGATCTG
29672762 CTCCACTATTGCTTAGGGAGATAGAATCTACAATCTTTGACCTA
1 CTCCACTATTGCTTAGGGAGATAGAATCTACAATCTTTGACCTA
* * * * * *
29672806 TTCCACTACTGCTTATGGAGATAGGA-CT--AATGGCTTAAAT-ATGCTT
1 CTCCACTATTGCTTAGGGAGATAGAATCTACAAT--CTT---TGA-CCTA
* * * * * *
29672852 CTCCACTA-T-CTT-GGGAAGATAAGATTC-ACCATCCTCGATCTG
1 CTCCACTATTGCTTAGGG-AGAT-AGAATCTACAATCTTTGACCTA
* ** *
29672894 CTCCACTATTGCTTAGGGAGACAGAATCTGTAATCTTTGACTTA
1 CTCCACTATTGCTTAGGGAGATAGAATCTACAATCTTTGACCTA
* * ** *
29672938 TTCCACTATTGCTTAGGGAGATAGGA-CT--AATGGCTTAAATCTTCTT
1 CTCCACTATTGCTTAGGGAGATAGAATCTACAAT--CTTTGA-C--CTA
* * * *
29672984 CTCCACTA-T-CTT-GGGAAGATAAGATTC-ACCATCTTTGATCTG
1 CTCCACTATTGCTTAGGG-AGAT-AGAATCTACAATCTTTGACCTA
* * * * *
29673026 CTCTACTACTGCTTAGGGAAACAGAATCTGCAATCTTTGACCTA
1 CTCCACTATTGCTTAGGGAGATAGAATCTACAATCTTTGACCTA
* * **
29673070 CTCCACTATTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTA
1 CTCCACTATTGCTTAGGGAGATAGAATCTACAATCTTTGACCTA
* * *
29673114 CTCCGCTACTACTTAGGGAGATAG
1 CTCCACTATTGCTTAGGGAGATAG
29673138 GATTGGTTTC
Statistics
Matches: 245, Mismatches: 57, Indels: 60
0.68 0.16 0.17
Matches are distributed among these distances:
41 6 0.02
42 19 0.08
43 29 0.12
44 148 0.60
45 19 0.08
46 20 0.08
47 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (44 bp):
CTCCACTATTGCTTAGGGAGATAGAATCTACAATCTTTGACCTA
Found at i:29673238 original size:51 final size:51
Alignment explanation
Indices: 29673179--29673357 Score: 166
Period size: 51 Copynumber: 3.5 Consensus size: 51
29673169 GTTGGGGAAG
* *
29673179 TAAGATTCGTCATCGTAGCTTCAATCTATTCCACTATACCACCAAGGAAAA
1 TAAGATTCGCCATCGTAGCCTCAATCTATTCCACTATACCACCAAGGAAAA
* * * * * * * * * *
29673230 TAAGATTCGCCATCGTGGCCTCAATCT-TT-TAGTTTGCAATGTC-GGGGAAG
1 TAAGATTCGCCATCGTAGCCTCAATCTATTCCACTATACCA--CCAAGGAAAA
* * * *
29673280 TGAGATTCGCCGTCATAGCTTCAATCTATTCCACTATACCACCAAGGAAAA
1 TAAGATTCGCCATCGTAGCCTCAATCTATTCCACTATACCACCAAGGAAAA
*
29673331 TAAGATTCGCCATCGTGGCCTCAATCT
1 TAAGATTCGCCATCGTAGCCTCAATCT
29673358 TTTAGTTTGC
Statistics
Matches: 92, Mismatches: 31, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
49 5 0.05
50 29 0.32
51 53 0.58
52 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (51 bp):
TAAGATTCGCCATCGTAGCCTCAATCTATTCCACTATACCACCAAGGAAAA
Found at i:29673304 original size:50 final size:50
Alignment explanation
Indices: 29673232--29673407 Score: 149
Period size: 50 Copynumber: 3.5 Consensus size: 50
29673222 AAGGAAAATA
* *
29673232 AGATTCGCCATCGTGGCCTCAATCTTTTAGTTTGCAATGTCGGGGAAGTG
1 AGATTCGCCATCGTAGCCTCAATCTTTTAGTTTGCAATGTCAGGGAAGTG
* * * * * * * * * * * *
29673282 AGATTCGCCGTCATAGCTTCAATCTATTCCACTATACCA--CCAAGGAAAATA
1 AGATTCGCCATCGTAGCCTCAATCT-TT-TAGTTTGCAATGTC-AGGGAAGTG
*
29673333 AGATTCGCCATCGTGGCCTCAATCTTTTAGTTTGCAATGTCAGGGAAGTG
1 AGATTCGCCATCGTAGCCTCAATCTTTTAGTTTGCAATGTCAGGGAAGTG
* * *
29673383 AGATTCACCGTCGTAGCTTCAATCT
1 AGATTCGCCATCGTAGCCTCAATCT
29673408 GTTCCACTGC
Statistics
Matches: 90, Mismatches: 31, Indels: 10
0.69 0.24 0.08
Matches are distributed among these distances:
49 5 0.06
50 51 0.57
51 29 0.32
52 5 0.06
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (50 bp):
AGATTCGCCATCGTAGCCTCAATCTTTTAGTTTGCAATGTCAGGGAAGTG
Found at i:29673599 original size:99 final size:99
Alignment explanation
Indices: 29673230--29674397 Score: 1493
Period size: 99 Copynumber: 11.8 Consensus size: 99
29673220 CCAAGGAAAA
* * ** * * *
29673230 TAAGATTCGCCATCGTGGCCTCAATCTTTTAGTTTGCAATGTCGGGGAAG-TGAGATTCGCCGTC
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAG-GATTCACCGTT
* * * ** * * * *
29673294 ATAGCTTCAATCTATTCCACTATACCACCAAGGAAAA
65 GTAGCTTCAATCTGTTCCGCTGCATCGCC-TGG-AAG
* * ** * * *
29673331 TAAGATTCGCCATCGTGGCCTCAATCTTTTAGTTTGCAATGTCAGGGAAG-TGAGATTCACCGTC
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAG-GATTCACCGTT
* * *
29673395 GTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAC
65 GTAGCTTCAATCTGTTCCGCTGCATCGCCT-GGAAG
* * * *
29673431 TAAGATTCACCGTTGTGGCTTCGATCTTTTAATTTGCAATGTCGGGGAAGCAGG-TTCGA-CGTT
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTC-ACCGTT
* *
29673494 GTAGCTTCAATCTGTTCTGCTGCATCACCTGGAAG
65 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
*
29673529 TAAGATTTGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCACCGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCACCGTTG
29673594 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* * * * *
29673628 TAAGATTCACCGTTGTGGCCACAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCATTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCACCGTTG
29673693 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* * * *
29673727 TAAGATTTGTCGTTGTGGCCTCAATCTTTTAAATTGCAACGTTGGGGAAGCAGGATTCACCGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCACCGTTG
*
29673792 TAGCTTTAATCTGTTCCGCTGCATCGCCTGGAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
*
29673826 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTACAATGTCGGGGAAGCAGGATTCACCGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCACCGTTG
* * * *
29673891 TAGCTTCAATTTGTTTCACTGCAAT-GCCTGAAAG
66 TAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGAAG
* * * * *
29673925 TAAAATTCACCGTTGTGGCCTCAATATTTTAAATTGCAATATCGGCGAAGCAGGATTCACCGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCACCGTTG
* * *
29673990 TAGCTTCAACCTGTTCTGCTGCATCACCTGGAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* * * *
29674024 TAAGATTCACCGTTGTGGCCTTAATCTTTTAAATTGCAATGTC-GGGAAGTAGGATTCGCCGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCACCGTTG
* * * *
29674088 TAGCTTCAATTTGTTCCGCTGTATAGCCTGAAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* * *
29674122 TAAGATTCGTCGTTGTGGCCTCAATCTTTTAAATTGCAATATCGGGGAAGCAGGATTCGCCGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCACCGTTG
* *
29674187 TAGCTTCAATCTGTTCCGCTGTATCGCCTGAAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* * *
29674221 TAAGATTCGTCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCATGATTCGCCGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCACCGTTG
*
29674286 TAGCTTCAATCTGTTCCGCTGCATTGCCTGGAATG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAA-G
* * * * ** *
29674321 TAAGATTTGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTTGCCATTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCACCGTTG
*
29674386 TGGCTTCAATCT
66 TAGCTTCAATCT
29674398 ATTCGACTGC
Statistics
Matches: 955, Mismatches: 103, Indels: 19
0.89 0.10 0.02
Matches are distributed among these distances:
98 140 0.15
99 607 0.64
100 119 0.12
101 89 0.09
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (99 bp):
TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCACCGTTG
TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
Found at i:29674419 original size:50 final size:49
Alignment explanation
Indices: 29673398--29674431 Score: 218
Period size: 50 Copynumber: 20.9 Consensus size: 49
29673388 CACCGTCGTA
* * ** **
29673398 GCTTCAATCTGTTCCACTGCACCGCCTGGGAA-CTAAGATTCACCGTTGTG
1 GCTTCAATCTATTCGACTGCAATGCC-GGGAAGC-AAGATTTGCCGTTGTG
* ** * * * * * *
29673448 GCTTCGATCT-TTTAATTTGCAATGTCGGGGAAGC-AGGTTCGACGTTGTA
1 GCTTCAATCTATTCGA-CTGCAATG-CCGGGAAGCAAGATTTGCCGTTGTG
* * * *
29673497 GCTTCAATCTGTTCTG-CTGC-ATCACCTGGAAGTAAGATTTGCCGTTGTG
1 GCTTCAATCTATTC-GACTGCAAT-GCCGGGAAGCAAGATTTGCCGTTGTG
* * ** * * * ** *
29673546 GCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCACCGTTGTA
1 GCTTCAATCTATTCGACTGCAATG-CCGGGAAGCAAGATTTGCCGTTGTG
* * * **
29673596 GCTTCAATCTGTTCCG-CTGC-ATCGCCTGGAAGTAAGATTCACCGTTGTG
1 GCTTCAATCTATT-CGACTGCAAT-GCCGGGAAGCAAGATTTGCCGTTGTG
** * ** * * * * *
29673645 GCCACAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCATTGTA
1 GCTTCAATCTATTCGACTGCAATG-CCGGGAAGCAAGATTTGCCGTTGTG
* * * *
29673695 GCTTCAATCTGTTCCG-CTGC-ATCGCCTGGAAGTAAGATTTGTCGTTGTG
1 GCTTCAATCTATT-CGACTGCAAT-GCCGGGAAGCAAGATTTGCCGTTGTG
* * ** * * ** * ** *
29673744 GCCTCAATCTTTTAAATTGCAACGTTGGGGAAGCAGGATTCACCGTTGTA
1 GCTTCAATCTATTCGACTGCAATG-CCGGGAAGCAAGATTTGCCGTTGTG
* * * * *
29673794 GCTTTAATCTGTTCCG-CTGC-ATCGCCTGGAAGTAAGATTCGCCGTTGTG
1 GCTTCAATCTATT-CGACTGCAAT-GCCGGGAAGCAAGATTTGCCGTTGTG
* * ** * * * * ** *
29673843 GCCTCAATCTTTTAAATTACAATGTCGGGGAAGCAGGATTCACCGTTGTA
1 GCTTCAATCTATTCGACTGCAATG-CCGGGAAGCAAGATTTGCCGTTGTG
* * * * * * **
29673893 GCTTCAATTTGTTTC-ACTGCAATGCCTGAAAGTAAAATTCACCGTTGTG
1 GCTTCAATCT-ATTCGACTGCAATGCCGGGAAGCAAGATTTGCCGTTGTG
* * * ** * ** * ** *
29673942 GCCTCAATATTTTAAATTGCAATATCGGCGAAGCAGGATTCACCGTTGTA
1 GCTTCAATCTATTCGACTGCAATGCCGG-GAAGCAAGATTTGCCGTTGTG
* * * * * **
29673992 GCTTCAACCTGTTCTG-CTGC-ATCACCTGGAAGTAAGATTCACCGTTGTG
1 GCTTCAATCTATTC-GACTGCAAT-GCCGGGAAGCAAGATTTGCCGTTGTG
* ** * * * * * *
29674041 GCCTT-AATCTTTTAAATTGCAATGTCGGGAAGTAGGATTCGCCGTTGTA
1 G-CTTCAATCTATTCGACTGCAATGCCGGGAAGCAAGATTTGCCGTTGTG
* * * * * * * *
29674090 GCTTCAATTTGTTCCG-CTG-TATAGCCTGAAAGTAAGATTCGTCGTTGTG
1 GCTTCAATCTATT-CGACTGCAAT-GCCGGGAAGCAAGATTTGCCGTTGTG
* * ** * * * * * *
29674139 GCCTCAATCTTTTAAATTGCAATATCGGGGAAGCAGGATTCGCCGTTGTA
1 GCTTCAATCTATTCGACTGCAAT-GCCGGGAAGCAAGATTTGCCGTTGTG
* * * * * * *
29674189 GCTTCAATCTGTTCCG-CTG-TATCGCCTGAAAGTAAGATTCGTCGTTGTG
1 GCTTCAATCTATT-CGACTGCAAT-GCCGGGAAGCAAGATTTGCCGTTGTG
* * ** * * * * *
29674238 GCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCATGATTCGCCGTTGTA
1 GCTTCAATCTATTCGACTGCAATG-CCGGGAAGCAAGATTTGCCGTTGTG
* * * *
29674288 GCTTCAATCTGTTCCG-CTGCATTGCCTGGAATGTAAGATTTGCCGTTGTG
1 GCTTCAATCTATT-CGACTGCAATGCCGGGAA-GCAAGATTTGCCGTTGTG
* ** * * *
29674338 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTTGCCATTGTG
1 GCTTCAATCTATTCGACTGCAATG-CCGGGAAGCAAGATTTGCCGTTGTG
* *
29674388 GCTTCAATCTATTCGACTGCACTGCCAGGGAAAGTAAGATTTGC
1 GCTTCAATCTATTCGACTGCAATGCC-GGG-AAGCAAGATTTGC
29674432 TGTCTTTGAT
Statistics
Matches: 693, Mismatches: 243, Indels: 95
0.67 0.24 0.09
Matches are distributed among these distances:
48 16 0.02
49 320 0.46
50 335 0.48
51 22 0.03
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (49 bp):
GCTTCAATCTATTCGACTGCAATGCCGGGAAGCAAGATTTGCCGTTGTG
Found at i:29674579 original size:88 final size:88
Alignment explanation
Indices: 29674427--29675009 Score: 888
Period size: 88 Copynumber: 6.6 Consensus size: 88
29674417 GAAAGTAAGA
* *
29674427 TTTGCTGTCTTTGATCTGC-TCTGCTGTCAA--CAGGAAGGCAAGATCTGTTGTCTTCAACTAGC
1 TTTG-TGTCTTCGATCTGCTTC-GCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGC
* *
29674489 TCCACTATAACCGAGAGAGGTAAGG
64 TCCACTACAACCGAGAGAGGCAAGG
* *
29674514 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATTTGTTGTCTTCAACTAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
29674579 CACTACAACCGAGAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
* *
29674602 TTTGTGTCTTCGATCTGCTTCACTGTCAAGGCAGTAAGGCAAGATCTGTTGTCTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
29674667 CACTACAACCGAGAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
* *
29674690 TTTGTGTCTTCGATCTGCTTCGCTGT-AAGGTAGGAAGGCAAGATCTGTTGTTTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
*
29674754 CACTACAACCGAGAGAGGCCAGG
66 CACTACAACCGAGAGAGGCAAGG
*
29674777 TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
*
29674842 CACTACAACCGAAAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
* * * * *
29674865 TTTGTGTCTTCGATCTACTTCGCTGTCAATGTAAGAAGGCAAGATTTGTTGTCTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
*
29674930 CACTACAACTGAGAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
* * * * *
29674953 TTTGTG-CATTCGATCTTCTTTGCTGTCAAGGCAGGAAAGCAAGATTTGATGTCTTCA
1 TTTGTGTC-TTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCA
29675010 TTGATCTGTT
Statistics
Matches: 460, Mismatches: 31, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
86 21 0.05
87 90 0.20
88 349 0.76
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (88 bp):
TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
CACTACAACCGAGAGAGGCAAGG
Found at i:29674925 original size:263 final size:264
Alignment explanation
Indices: 29674439--29675009 Score: 884
Period size: 263 Copynumber: 2.2 Consensus size: 264
29674429 TGCTGTCTTT
* *
29674439 GATCTGC-TCTGCTGTCAA--CAGGAAGGCAAGATCTGTTGTCTTCAACTAGCTCCACTATAACC
1 GATCTGCTTC-GCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACC
* *
29674501 GAGAGAGGTAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATTTGTTGT
65 GAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGT
* * *
29674566 CTTCAACTAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAA
130 CTTCAACCAGCTCCACTACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTACTTCACTGTCAA
*
29674631 GGCAGTAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
195 GGAAGTAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
29674696 TC-TTC
260 -CATTC
* *
29674701 GATCTGCTTCGCTGT-AAGGTAGGAAGGCAAGATCTGTTGTTTTCAACCAGCTCCACTACAACCG
1 GATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCG
* *
29674765 AGAGAGGCCAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTC
66 AGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTC
*
29674830 TTCAACCAGCTCCACTACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTACTTCGCTGTCAAT
131 TTCAACCAGCTCCACTACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTACTTCACTGTCAA-
* * *
29674895 GTAAG-AAGGCAAGATTTGTTGTCTTCAACCAGCTCCACTACAACTGAGAGAGGCAAGGTTTGTG
195 GGAAGTAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTG
29674959 CATTC
260 CATTC
* * * * *
29674964 GATCTTCTTTGCTGTCAAGGCAGGAAAGCAAGATTTGATGTCTTCA
1 GATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCA
29675010 TTGATCTGTT
Statistics
Matches: 280, Mismatches: 23, Indels: 10
0.89 0.07 0.03
Matches are distributed among these distances:
261 2 0.01
262 13 0.05
263 237 0.85
264 28 0.10
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (264 bp):
GATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCG
AGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTC
TTCAACCAGCTCCACTACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTACTTCACTGTCAAG
GAAGTAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGC
ATTC
Found at i:29676157 original size:42 final size:42
Alignment explanation
Indices: 29676086--29676205 Score: 150
Period size: 42 Copynumber: 2.8 Consensus size: 42
29676076 GGTATAGTAA
* * * *
29676086 GATCACCACATGCCCCAGTTTGATCAAAATTTGAGCTGCTCT
1 GATCACCTCATACCCCAATCTGATCAAAATTTGAGCTGCTCT
*
29676128 GATTACCTCATACCCCAATCTGATCAAAATTTGAGCTGCTCT
1 GATCACCTCATACCCCAATCTGATCAAAATTTGAGCTGCTCT
* * * *
29676170 GGTCGCCTCATGCCCCAATTTGATCCAAAATTTGAG
1 GATCACCTCATACCCCAATCTGAT-CAAAATTTGAG
29676206 TCGCCCTTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 56 0.84
43 11 0.16
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (42 bp):
GATCACCTCATACCCCAATCTGATCAAAATTTGAGCTGCTCT
Found at i:29676308 original size:15 final size:14
Alignment explanation
Indices: 29676281--29676317 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
29676271 TTAGCCTCTC
*
29676281 CATTTTTACTTTTT
1 CATTTTTTCTTTTT
29676295 CATTTTTTCATTTTT
1 CATTTTTTC-TTTTT
29676310 CATTTTTT
1 CATTTTTT
29676318 TTCATTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (14 bp):
CATTTTTTCTTTTT
Found at i:29680616 original size:23 final size:24
Alignment explanation
Indices: 29680590--29680637 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
29680580 AAAATAATGA
* *
29680590 AAACGTGAATAAA-TAATCAAAAT
1 AAACGTGAACAAAGTAATAAAAAT
29680613 AAACGTGAACAAAGTAATAAAAAT
1 AAACGTGAACAAAGTAATAAAAAT
29680637 A
1 A
29680638 TAAAAACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (24 bp):
AAACGTGAACAAAGTAATAAAAAT
Found at i:29680782 original size:10 final size:10
Alignment explanation
Indices: 29680767--29680796 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
29680757 TAAAAATGCG
29680767 TATAGATGTA
1 TATAGATGTA
29680777 TATAGATGTA
1 TATAGATGTA
29680787 TATAGATGTA
1 TATAGATGTA
29680797 GTCACATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (10 bp):
TATAGATGTA
Found at i:29685195 original size:24 final size:22
Alignment explanation
Indices: 29685154--29685232 Score: 78
Period size: 21 Copynumber: 3.7 Consensus size: 22
29685144 ATTCTTCAAG
29685154 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
29685173 GATATGCAATCTTAG-ATATGAT
1 GATATGCAATCTTAGAAGAT-AT
29685195 -ATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
29685216 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
29685233 GATTTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
19 13 0.26
21 19 0.38
22 6 0.12
23 12 0.24
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:29685200 original size:21 final size:19
Alignment explanation
Indices: 29685154--29685209 Score: 94
Period size: 19 Copynumber: 2.8 Consensus size: 19
29685144 ATTCTTCAAG
29685154 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
29685173 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
29685192 GATATATGCAATCTTAGA
1 G--ATATGCAATCTTAGA
29685210 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 20 0.57
21 15 0.43
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:29685231 original size:23 final size:24
Alignment explanation
Indices: 29685155--29685232 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 24
29685145 TTCTTCAAGG
29685155 ATATGCAATCTT---AGATATG--
1 ATATGCAATCTTAGAAGATATGAT
29685174 ATATGCAATCTTAG---ATATGAT
1 ATATGCAATCTTAGAAGATATGAT
29685195 ATATGCAATCTTAGAAGATATGAT
1 ATATGCAATCTTAGAAGATATGAT
* *
29685219 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
29685233 GATTTAATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
19 17 0.34
21 14 0.28
23 12 0.24
24 7 0.14
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (24 bp):
ATATGCAATCTTAGAAGATATGAT
Found at i:29685814 original size:42 final size:39
Alignment explanation
Indices: 29685768--29685857 Score: 92
Period size: 40 Copynumber: 2.2 Consensus size: 39
29685758 ATACGTACAC
*
29685768 ATTTTTTAATTTTT-ATAAATATATATATACACATACTTTTAT
1 ATTTTTTAATTTTTCAT-AAT-TATATAT--ACATACTTATAT
* *
29685810 ATTTTTTCTATTTTTCATAATTCTATATACATACTTATAT
1 ATTTTTT-AATTTTTCATAATTATATATACATACTTATAT
*
29685850 ATATTTTA
1 ATTTTTTA
29685858 CATATTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
40 17 0.41
42 13 0.32
43 9 0.22
44 2 0.05
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (39 bp):
ATTTTTTAATTTTTCATAATTATATATACATACTTATAT
Found at i:29685948 original size:23 final size:22
Alignment explanation
Indices: 29685919--29685962 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
29685909 ATAATTCACA
*
29685919 TACATATATATTTTTCTTATATG
1 TACATATATATATTT-TTATATG
29685942 TACATATATATATTTTTATAT
1 TACATATATATATTTTTATAT
29685963 TTTATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
TACATATATATATTTTTATATG
Found at i:29700525 original size:30 final size:30
Alignment explanation
Indices: 29700491--29700559 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
29700481 ATTATAAAAA
*
29700491 AATTAAATGATGTGGATGTGAAACTTGAAT
1 AATTAAATGACGTGGATGTGAAACTTGAAT
29700521 AATTAAATGACGTGGATGTGAAACTTGAAT
1 AATTAAATGACGTGGATGTGAAACTTGAAT
29700551 AATTAAATG
1 AATTAAATG
29700560 GAGTTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (30 bp):
AATTAAATGACGTGGATGTGAAACTTGAAT
Found at i:29700662 original size:23 final size:26
Alignment explanation
Indices: 29700599--29700660 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
29700589 ATAAAAGATA
*
29700599 ATCAAAATATTATAATTTTTTTATTT
1 ATCAAAATATTATAATTTTTTTATCT
29700625 ATCAAAATATTATAATTTTTTTATCT
1 ATCAAAATATTATAATTTTTTTATCT
*
29700651 ACCAAAATAT
1 ATCAAAATAT
29700661 AAAAAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (26 bp):
ATCAAAATATTATAATTTTTTTATCT
Found at i:29701126 original size:19 final size:18
Alignment explanation
Indices: 29701079--29701126 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
29701069 GTTTTATGAT
*
29701079 TATTTTAATTAAATAAAC
1 TATTTTAATTTAATAAAC
* * *
29701097 TATTCTCATTTAATAACTC
1 TATTTTAATTTAATAA-AC
29701116 TATTTTAATTT
1 TATTTTAATTT
29701127 TAAAAAAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (18 bp):
TATTTTAATTTAATAAAC
Found at i:29701231 original size:19 final size:19
Alignment explanation
Indices: 29701207--29701265 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
29701197 TCTAATTAAG
29701207 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
29701226 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
29701244 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
29701263 TAA
1 TAA
29701266 AAAAATTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:29701293 original size:18 final size:18
Alignment explanation
Indices: 29701270--29701331 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
29701260 ATTTAAAAAA
29701270 ATTAAATGAGAATAGTTT
1 ATTAAATGAGAATAGTTT
* * *
29701288 ATTAAATTAAAATAGAGTT
1 ATTAAATGAGAATAG-TTT
29701307 ATTAAATGAGAATAGTTT
1 ATTAAATGAGAATAGTTT
29701325 ATTAAAT
1 ATTAAAT
29701332 TAAAATAGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
18 22 0.59
19 15 0.41
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (18 bp):
ATTAAATGAGAATAGTTT
Found at i:29701320 original size:37 final size:37
Alignment explanation
Indices: 29701270--29701347 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
29701260 ATTTAAAAAA
29701270 ATTAAATGAGAATAGTTTATTAAATTAAAATAGAGTT
1 ATTAAATGAGAATAGTTTATTAAATTAAAATAGAGTT
29701307 ATTAAATGAGAATAGTTTATTAAATTAAAATAGAGTT
1 ATTAAATGAGAATAGTTTATTAAATTAAAATAGAGTT
29701344 ATTA
1 ATTA
29701348 CTTAATTAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (37 bp):
ATTAAATGAGAATAGTTTATTAAATTAAAATAGAGTT
Found at i:29701338 original size:18 final size:18
Alignment explanation
Indices: 29701270--29701339 Score: 86
Period size: 18 Copynumber: 3.8 Consensus size: 18
29701260 ATTTAAAAAA
*
29701270 ATTAAATGAGAATAGTTT
1 ATTAAATGAAAATAGTTT
* *
29701288 ATTAAATTAAAATAGAGTT
1 ATTAAATGAAAATAG-TTT
*
29701307 ATTAAATGAGAATAGTTT
1 ATTAAATGAAAATAGTTT
*
29701325 ATTAAATTAAAATAG
1 ATTAAATGAAAATAG
29701340 AGTTATTACT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
18 28 0.65
19 15 0.35
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (18 bp):
ATTAAATGAAAATAGTTT
Found at i:29701352 original size:18 final size:19
Alignment explanation
Indices: 29701286--29701347 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
29701276 TGAGAATAGT
29701286 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
29701305 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
29701323 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
29701342 TTATTA
1 TTATTA
29701348 CTTAATTAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
18 15 0.42
19 21 0.58
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.40
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:29701926 original size:27 final size:27
Alignment explanation
Indices: 29701896--29701959 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
29701886 TTTTTTTTGT
*
29701896 ATATTTTAGTAAATAAAAAAATTTATA
1 ATATTTTAGTAAATAAAAAAAATTATA
*
29701923 ATATTTTGGTAAATAAAAAAAATTATA
1 ATATTTTAGTAAATAAAAAAAATTATA
29701950 ATATTTTAGT
1 ATATTTTAGT
29701960 CATTTTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (27 bp):
ATATTTTAGTAAATAAAAAAAATTATA
Found at i:29702567 original size:17 final size:18
Alignment explanation
Indices: 29702547--29702585 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
29702537 GTTTTAGTTT
29702547 TTTTGGTATTTTTAAT-A
1 TTTTGGTATTTTTAATAA
**
29702564 TTTTTTTATTTTTAATAA
1 TTTTGGTATTTTTAATAA
29702582 TTTT
1 TTTT
29702586 TTAAATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTTGGTATTTTTAATAA
Found at i:29702586 original size:17 final size:17
Alignment explanation
Indices: 29702553--29702588 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
29702543 GTTTTTTTGG
*
29702553 TATTTTTAATATTTTTT
1 TATTTTTAATAATTTTT
29702570 TATTTTTAATAATTTTT
1 TATTTTTAATAATTTTT
29702587 TA
1 TA
29702589 AATTTTGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TATTTTTAATAATTTTT
Found at i:29708861 original size:34 final size:34
Alignment explanation
Indices: 29708818--29708882 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
29708808 CTATATTTCG
29708818 TCTGATTTCTTTCATTACATCCTCACACCAACTA
1 TCTGATTTCTTTCATTACATCCTCACACCAACTA
*
29708852 TCTGATTTCTTTCATTACATCCTTACACCAA
1 TCTGATTTCTTTCATTACATCCTCACACCAA
29708883 GTATGGTAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.26, C:0.31, G:0.03, T:0.40
Consensus pattern (34 bp):
TCTGATTTCTTTCATTACATCCTCACACCAACTA
Found at i:29709623 original size:18 final size:17
Alignment explanation
Indices: 29709600--29709657 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
29709590 GCTGTCATTT
*
29709600 TTCCTCACTTGTATCTTC
1 TTCCTCA-TTGCATCTTC
*
29709618 TTCCTCAGTCGCATCTTC
1 TTCCTCA-TTGCATCTTC
*
29709636 TTCTTCATCTGCATCTTC
1 TTCCTCAT-TGCATCTTC
29709654 TTCC
1 TTCC
29709658 GTGGCCATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 1 0.03
18 32 0.97
ACGTcount: A:0.10, C:0.36, G:0.07, T:0.47
Consensus pattern (17 bp):
TTCCTCATTGCATCTTC
Found at i:29712528 original size:31 final size:31
Alignment explanation
Indices: 29712493--29712592 Score: 101
Period size: 31 Copynumber: 3.2 Consensus size: 31
29712483 ACTGAATTCT
29712493 TGAAAAGGTTATATCCAAAACGAATATCAAA
1 TGAAAAGGTTATATCCAAAACGAATATCAAA
* * * ** * *
29712524 TGAAAAGGTTGTTACCCTAAAAAGGTTAACATA
1 TGAAAAGGTT-ATATCC-AAAACGAATATCAAA
* *
29712557 TGAAAAGGTTATATCGAAAACGAATATCTAA
1 TGAAAAGGTTATATCCAAAACGAATATCAAA
29712588 TGAAA
1 TGAAA
29712593 TGTTGTTACC
Statistics
Matches: 51, Mismatches: 16, Indels: 4
0.72 0.23 0.06
Matches are distributed among these distances:
31 24 0.47
32 7 0.14
33 20 0.39
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (31 bp):
TGAAAAGGTTATATCCAAAACGAATATCAAA
Found at i:29712565 original size:33 final size:33
Alignment explanation
Indices: 29712523--29712626 Score: 90
Period size: 33 Copynumber: 3.2 Consensus size: 33
29712513 CGAATATCAA
29712523 ATGAAAAGGTTGTTACCCTAAAAAGGTTAACAT
1 ATGAAAAGGTTGTTACCCTAAAAAGGTTAACAT
* * * * ** *
29712556 ATGAAAAGGTT-ATA-TCGAAAACGAATATC-T
1 ATGAAAAGGTTGTTACCCTAAAAAGGTTAACAT
* *
29712586 AATG-AAATGTTGTTACCCTAAAAGGGTTAACAT
1 -ATGAAAAGGTTGTTACCCTAAAAAGGTTAACAT
29712619 ATGAAAAG
1 ATGAAAAG
29712627 TTTTATTGAA
Statistics
Matches: 50, Mismatches: 16, Indels: 10
0.66 0.21 0.13
Matches are distributed among these distances:
30 7 0.14
31 14 0.28
32 14 0.28
33 15 0.30
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.27
Consensus pattern (33 bp):
ATGAAAAGGTTGTTACCCTAAAAAGGTTAACAT
Found at i:29719576 original size:15 final size:15
Alignment explanation
Indices: 29719544--29719577 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
29719534 AAAAAACCCC
*
29719544 TAAACCTAAAAACCT
1 TAAACCTAAAAACAT
*
29719559 TAAACCTAAAAATAT
1 TAAACCTAAAAACAT
29719574 TAAA
1 TAAA
29719578 AACCTTAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.18, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAACCTAAAAACAT
Found at i:29719582 original size:24 final size:24
Alignment explanation
Indices: 29719550--29719605 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
29719540 CCCCTAAACC
* *
29719550 TAAAAACCTTAAACCTAAAAATAT
1 TAAAAACCTTAAACCTAAAAAAAA
*
29719574 TAAAAACCTTAAACTTAAAAAAAA
1 TAAAAACCTTAAACCTAAAAAAAA
29719598 TAAAAACC
1 TAAAAACC
29719606 CTAACCTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.62, C:0.16, G:0.00, T:0.21
Consensus pattern (24 bp):
TAAAAACCTTAAACCTAAAAAAAA
Found at i:29750405 original size:15 final size:15
Alignment explanation
Indices: 29750385--29750418 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
29750375 TAAATAATGC
29750385 TTACATTATATTCTA
1 TTACATTATATTCTA
*
29750400 TTACATTATATTTTA
1 TTACATTATATTCTA
29750415 TTAC
1 TTAC
29750419 TCAAAGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (15 bp):
TTACATTATATTCTA
Found at i:29751267 original size:84 final size:82
Alignment explanation
Indices: 29751171--29751336 Score: 208
Period size: 82 Copynumber: 2.0 Consensus size: 82
29751161 CGTTACAAAA
* * *
29751171 TGATTAGCTAAGAAATTTTTTTTATGGTTGGGGTAATTTAGG-TAACATATTATAATTTAAGTAT
1 TGATTAGCTAAGAAA--TTTTTTATGGTTAGGATAATTT-GGATAACAGATTATAATTTAAGTAT
* * *
29751235 TACTTTGGGTAACATAATAT
63 TACTTTAGATAACAAAATAT
* * * *
29751255 TGATTAGTTAAGAGATTTTTTATGGTTAGGATAATTTGGATAACAGATTGTAATTTAGGTATTAC
1 TGATTAGCTAAGAAATTTTTTATGGTTAGGATAATTTGGATAACAGATTATAATTTAAGTATTAC
29751320 TTTAGATAACAAAATAT
66 TTTAGATAACAAAATAT
29751337 GGTTTAAGTA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
81 2 0.03
82 56 0.79
84 13 0.18
ACGTcount: A:0.35, C:0.04, G:0.18, T:0.43
Consensus pattern (82 bp):
TGATTAGCTAAGAAATTTTTTATGGTTAGGATAATTTGGATAACAGATTATAATTTAAGTATTAC
TTTAGATAACAAAATAT
Found at i:29753171 original size:25 final size:24
Alignment explanation
Indices: 29753142--29753190 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
29753132 ATTTTTTTCT
*
29753142 AAAATTTAATAAAATTAATATTTTA
1 AAAATATAATAAAATTAAT-TTTTA
* *
29753167 AAAATATAATTAATTTAATTTTTA
1 AAAATATAATAAAATTAATTTTTA
29753191 TTATAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
AAAATATAATAAAATTAATTTTTA
Found at i:29757596 original size:19 final size:19
Alignment explanation
Indices: 29757572--29757609 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
29757562 TTGGCCACGT
*
29757572 TGGGCTGAAATGGG-TCGTG
1 TGGGCTCAAA-GGGCTCGTG
29757591 TGGGCTCAAAGGGCTCGTG
1 TGGGCTCAAAGGGCTCGTG
29757610 GGCCTCACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.16, C:0.16, G:0.45, T:0.24
Consensus pattern (19 bp):
TGGGCTCAAAGGGCTCGTG
Found at i:29757861 original size:26 final size:26
Alignment explanation
Indices: 29757832--29757885 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
29757822 ATGACTGTAA
* *
29757832 TGCCCCTGGAGGGTAAATGACTATTT
1 TGCCCCTCGAGGGTAAATGACTAATT
29757858 TGCCCCTCGAGGGTAAATGACTAATT
1 TGCCCCTCGAGGGTAAATGACTAATT
29757884 TG
1 TG
29757886 TGCTATGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (26 bp):
TGCCCCTCGAGGGTAAATGACTAATT
Found at i:29759583 original size:27 final size:27
Alignment explanation
Indices: 29759557--29759870 Score: 420
Period size: 27 Copynumber: 11.7 Consensus size: 27
29759547 GATTGAAATA
*
29759557 CCCCTGTAGGGTAAAATGACCGTAATA
1 CCCCTGTAGGGTAAAATGACCGTAATG
* * * *
29759584 CTCATTTAGGGTAAAATAACCGTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
* * *
29759611 CCCCTGTAGGGTAAAATAACTGTAATA
1 CCCCTGTAGGGTAAAATGACCGTAATG
*
29759638 CCCCTATAGGGTAAAATGACCGTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
* *
29759665 CCCCTGTAGGGTAAAATAATCGTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
* *
29759692 CCCCTGTAGGCTAAAATGATCGTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
* *
29759719 CCCATATAGGGTAAAATGACCGTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
* *
29759746 CCCCTATAGGGTAAAATGACTGTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
29759773 CCCCTGTAGGGTAAAATGACCGTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
* *
29759800 -CCCTGTAGGGTAAAATAATCGTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
29759826 CCCCTGTAGGGTAAAATGACCGTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
29759853 -CCCTGGT-GGGT-AAATGAC
1 CCCCT-GTAGGGTAAAATGAC
29759871 TATTTTTGCC
Statistics
Matches: 254, Mismatches: 31, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
25 7 0.03
26 32 0.13
27 215 0.85
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (27 bp):
CCCCTGTAGGGTAAAATGACCGTAATG
Found at i:29759948 original size:24 final size:24
Alignment explanation
Indices: 29759892--29759973 Score: 87
Period size: 24 Copynumber: 3.5 Consensus size: 24
29759882 CTTGAGGTCA
* * * *
29759892 AATGATTGTTTTATCTGTG-GTTA
1 AATGACTGATTTATCTGTGATTTG
*
29759915 AATGACTGATTTGTCTGTG-TTTGG
1 AATGACTGATTTATCTGTGATTT-G
*
29759939 TATGACTGATTTATCTGTGATTTG
1 AATGACTGATTTATCTGTGATTTG
29759963 AATGACTGATT
1 AATGACTGATT
29759974 CTGAGCATGA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
23 18 0.37
24 28 0.57
25 3 0.06
ACGTcount: A:0.22, C:0.07, G:0.23, T:0.48
Consensus pattern (24 bp):
AATGACTGATTTATCTGTGATTTG
Found at i:29760085 original size:27 final size:26
Alignment explanation
Indices: 29760047--29760107 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
29760037 TACTATAGTA
*
29760047 GTGGCTCTGCCACA-ATCACTGTTACTG
1 GTGGCT-TGCCACATAT-ACTATTACTG
29760074 GTGGCTTGGCCACATATACTATTACTG
1 GTGGCTT-GCCACATATACTATTACTG
*
29760101 GTAGCTT
1 GTGGCTT
29760108 TGCTGTGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 1 0.03
27 27 0.90
28 2 0.07
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.33
Consensus pattern (26 bp):
GTGGCTTGCCACATATACTATTACTG
Found at i:29760147 original size:26 final size:26
Alignment explanation
Indices: 29760089--29760149 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
29760079 TTGGCCACAT
* **
29760089 ATACTATTACTGGTAGCTTTGCTGTG
1 ATACTATTGCTGGTAGCTTTGCTACG
29760115 ATACTATTGCTGGTAGCTTTGCTACG
1 ATACTATTGCTGGTAGCTTTGCTACG
*
29760141 ATGCTATTG
1 ATACTATTG
29760150 ATGGCTTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (26 bp):
ATACTATTGCTGGTAGCTTTGCTACG
Found at i:29760189 original size:32 final size:32
Alignment explanation
Indices: 29760148--29760385 Score: 155
Period size: 32 Copynumber: 7.4 Consensus size: 32
29760138 ACGATGCTAT
* *
29760148 TGATGGCTTTGTACCGGTCATAGTACCATTAC
1 TGATGGCTTTGTACCGATCATAGTACCGTTAC
**
29760180 TGATGGCTTTGTGTCGATCATAGTACCGTTAC
1 TGATGGCTTTGTACCGATCATAGTACCGTTAC
* * *
29760212 TGATGTCTTTGTTCCGATCATATTACCGTTA-
1 TGATGGCTTTGTACCGATCATAGTACCGTTAC
* ** * *
29760243 TCGATGGCTGTGTGTCGATCAT-TTCACTGTTAC
1 T-GATGGCTTTGTACCGATCATAGT-ACCGTTAC
* * * *
29760276 TGATGG-TTGTGTGCCTATCATA-TCACTGCTAC
1 TGATGGCTT-TGTACCGATCATAGT-ACCGTTAC
* ** *
29760308 TGATGCCTTTGTGTCGATCAT-GTTACCATTAC
1 TGATGGCTTTGTACCGATCATAG-TACCGTTAC
* * *
29760340 TGATGGCGTTGTGTGCCGATCATA-TCACTGCTAC
1 TGATGGC-TT-TGTACCGATCATAGT-ACCGTTAC
29760374 TGATGGCTTTGT
1 TGATGGCTTTGT
29760386 GCCAATCACA
Statistics
Matches: 166, Mismatches: 28, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
31 4 0.02
32 130 0.78
33 9 0.05
34 23 0.14
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.39
Consensus pattern (32 bp):
TGATGGCTTTGTACCGATCATAGTACCGTTAC
Found at i:29760249 original size:64 final size:63
Alignment explanation
Indices: 29760148--29760386 Score: 241
Period size: 64 Copynumber: 3.7 Consensus size: 63
29760138 ACGATGCTAT
* * **
29760148 TGATGGCTTTGTACCGGTCATAGT-ACCATTACTGATGGCTTTGTGTCGATCATAGTACCGTTAC
1 TGATGGCTTTGTGCCGATCATA-TCACCGCTACTGATGGCTTTGTGTCGATCAT-GTACCGTTAC
* * * * * * *
29760212 TGATGTCTTTGTTCCGATCATATTACCGTTA-TCGATGGCTGTGTGTCGATCATTTCACTGTTAC
1 TGATGGCTTTGTGCCGATCATATCACCGCTACT-GATGGCTTTGTGTCGATCATGT-ACCGTTAC
* * * *
29760276 TGATGG-TTGTGTGCCTATCATATCACTGCTACTGATGCCTTTGTGTCGATCATGTTACCATTAC
1 TGATGGCTT-TGTGCCGATCATATCACCGCTACTGATGGCTTTGTGTCGATCATG-TACCGTTAC
*
29760340 TGATGGCGTTGTGTGCCGATCATATCACTGCTACTGATGGCTTTGTG
1 TGATGGC-TT-TGTGCCGATCATATCACCGCTACTGATGGCTTTGTG
29760387 CCAATCACAT
Statistics
Matches: 147, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
63 5 0.03
64 103 0.70
65 2 0.01
66 37 0.25
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (63 bp):
TGATGGCTTTGTGCCGATCATATCACCGCTACTGATGGCTTTGTGTCGATCATGTACCGTTAC
Found at i:29763971 original size:50 final size:49
Alignment explanation
Indices: 29763841--29763974 Score: 178
Period size: 49 Copynumber: 2.7 Consensus size: 49
29763831 GGTGGAAGTA
* *
29763841 AGTGGCAGTTTATCTGCAAATTAGTGGTGGCTTGTCCATAAAGTGTTTC
1 AGTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTTC
* ** * * *
29763890 AGTGGGAGCATATTTGCATATCAATGGTGGCTTGTCCACAAAGTGTTATC
1 AGTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTT-TC
*
29763940 AGTGGCAATTTATCTGCAAATCAGTGGTGGCTTGT
1 AGTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGT
29763975 TTTGGATAAA
Statistics
Matches: 69, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
49 39 0.57
50 30 0.43
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (49 bp):
AGTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTTC
Found at i:29768134 original size:27 final size:27
Alignment explanation
Indices: 29768104--29768166 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
29768094 GTCAGATTTT
*
29768104 GCCACAAAGACTA-TCTATATAGAGTAA
1 GCCACAAAGACGATTC-ATATAGAGTAA
* *
29768131 GCCACAAAGGCGATTCATATAGAGTAC
1 GCCACAAAGACGATTCATATAGAGTAA
*
29768158 GCTACAAAG
1 GCCACAAAG
29768167 GATGATGGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 29 0.94
28 2 0.06
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (27 bp):
GCCACAAAGACGATTCATATAGAGTAA
Found at i:29771902 original size:49 final size:49
Alignment explanation
Indices: 29771842--29772132 Score: 228
Period size: 50 Copynumber: 5.8 Consensus size: 49
29771832 GATAATAACA
* * *
29771842 TGCCAAAGCCATATCCCAGACATGGTCTTACATGGGATGTT-TCCTGTAC-
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CG
*
29771891 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATATC-G
* * * ** ** *
29771941 TGCCCATGCCATGTCCCATACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATATC-G
* * ** *
29771991 TGCCAACGCCATGTCCCAGA-ATGGTCTTACATGGGACCTCTCATCTCCG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATAT-CG
* ** * * **
29772040 TGCCAACGCCATGCCCCATAAATGGTCTTACATGGGACCTCTCATAATCTCAATG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TC---G
*
29772095 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 -TGCCAATGCCATATCCCAGACATGGTCTTACATGGGA
29772133 TCTCTTTACC
Statistics
Matches: 205, Mismatches: 25, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
48 4 0.02
49 82 0.40
50 83 0.40
52 1 0.00
53 1 0.00
55 1 0.00
56 33 0.16
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (49 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
Found at i:29771966 original size:50 final size:50
Alignment explanation
Indices: 29771842--29772137 Score: 283
Period size: 49 Copynumber: 5.8 Consensus size: 50
29771832 GATAATAACA
* * ** * * *
29771842 TGCCAAAGCCATATCCCAGACATGGTCTTACATGGGATGTTTCCTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * **
29771891 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** *
29771941 TGCCCATGCCATGTCCCATACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
29771991 TGCCAACGCCATGTCCCAGA-ATGGTCTTACATGGGACCTCTCATCTCCG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * * *
29772040 TGCCAACGCCATGCCCCATAAATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
29772096 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
29772138 TTACCCAAAT
Statistics
Matches: 206, Mismatches: 32, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.00
49 84 0.41
50 82 0.40
53 2 0.01
56 37 0.18
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:29772020 original size:99 final size:102
Alignment explanation
Indices: 29771891--29772137 Score: 302
Period size: 99 Copynumber: 2.4 Consensus size: 102
29771881 TTTCCTGTAC
* * ** * * * *
29771891 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCCGTGCCAACGCCATGCC
* * *
29771956 CCATACATGGTCTTACGGGGGACCTCTC-ATCTC-GG
66 CCATAAATGGTCTTACAGGGGACCTCTCAATCTCAGA
* *
29771991 TGCCAACGCCATGTCCCAGA-ATGGTCTTACATGGGACCTCTCATCTCCGTGCCAACGCCATGCC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCCGTGCCAACGCCATGCC
*
29772055 CCATAAATGGTCTTACATGGGACCTCTCATAATCTCAATGA
66 CCATAAATGGTCTTACAGGGGACCTCTC--AATCTC-A-GA
*
29772096 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
29772138 TTACCCAAAT
Statistics
Matches: 125, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
99 62 0.50
100 18 0.14
102 5 0.04
105 20 0.16
106 20 0.16
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (102 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCCGTGCCAACGCCATGCC
CCATAAATGGTCTTACAGGGGACCTCTCAATCTCAGA
Found at i:29773149 original size:19 final size:19
Alignment explanation
Indices: 29773125--29773197 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
29773115 AATCTTCAAG
29773125 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
29773144 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
29773163 GATATGTAATCTTAAATAT
1 GATATGCAATCTTAGATAT
29773182 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
29773198 AGATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:29773449 original size:23 final size:23
Alignment explanation
Indices: 29773405--29773449 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
29773395 TCTTATTTTG
* *
29773405 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
29773428 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
29773450 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:29775295 original size:45 final size:44
Alignment explanation
Indices: 29775174--29775505 Score: 175
Period size: 44 Copynumber: 7.6 Consensus size: 44
29775164 GATCGCATCT
* *
29775174 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGGAAGCA
* * *
29775218 AGCCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAGGATGGCGA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAGGA-AGC-A
* *
29775264 A-TCTTATCTCCCTGAAGTCGCAGTGGAGCAGA-TTA--AAGCCAA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGGAAG-C-A
* * ** * * *
29775306 TAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGA-TTA-AAATCA
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGGAAGCA
* * * * * *
29775349 CAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCATCG
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGGAAGCA
* * * * ** * *
29775391 GGTCTTATCTCCCTGAAATTACAGTGGAGTAGACCCAAGAAAGCG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAGGAAGCA
* * * *
29775436 AGTCTTACCTCCCTGAAGTTGCAGTGGAGCAGACTCATGAAATCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA-GGAAGCA
* *
29775481 AGTCTTATCCCCCTGAAATTGCAGT
1 AGTCTTATCTCCCTGAAGTTGCAGT
29775506 AGGTCAGACT
Statistics
Matches: 221, Mismatches: 49, Indels: 35
0.72 0.16 0.11
Matches are distributed among these distances:
40 19 0.09
41 8 0.04
42 6 0.03
43 12 0.05
44 86 0.39
45 85 0.38
46 5 0.02
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGGAAGCA
Found at i:29775514 original size:45 final size:44
Alignment explanation
Indices: 29775392--29775515 Score: 117
Period size: 45 Copynumber: 2.8 Consensus size: 44
29775382 ATCGCATCGG
* * * *
29775392 GTCTTATCTCCCTGAAATTACAGTGGAGT-AGACCCAAGAAAGCGA
1 GTCTTATCCCCCTGAAATTGCAGT-G-GTCAGACTCAAGAAAGCAA
* * * *
29775437 GTCTTA-CCTCCCTGAAGTTGCAGTGGAGCAGACTCATGAAATCAA
1 GTCTTATCC-CCCTGAAATTGCAGTGG-TCAGACTCAAGAAAGCAA
29775482 GTCTTATCCCCCTGAAATTGCAGTAGGTCAGACT
1 GTCTTATCCCCCTGAAATTGCAGT-GGTCAGACT
29775516 AAATAAACAA
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.02
44 2 0.03
45 57 0.89
46 4 0.06
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (44 bp):
GTCTTATCCCCCTGAAATTGCAGTGGTCAGACTCAAGAAAGCAA
Found at i:29776092 original size:19 final size:19
Alignment explanation
Indices: 29776068--29776159 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
29776058 AATCTTCAAA
29776068 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
29776087 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
29776106 GATATGCAATCTTAGATAC
1 GATATGCAATCTTAGATAT
*
29776125 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
29776144 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
29776160 AGATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:29776112 original size:38 final size:38
Alignment explanation
Indices: 29776068--29776182 Score: 176
Period size: 38 Copynumber: 2.9 Consensus size: 38
29776058 AATCTTCAAA
29776068 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
*
29776106 GATATGCAATCTTAGATACGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
*
29776144 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT---AGATATGA-TATGTAATCTTAGA
29776183 GATTTAATTT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 50 0.71
41 7 0.10
42 13 0.19
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.38
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:29776181 original size:23 final size:22
Alignment explanation
Indices: 29776068--29776182 Score: 92
Period size: 19 Copynumber: 5.7 Consensus size: 22
29776058 AATCTTCAAA
29776068 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
29776087 GATATGTAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
29776106 GATATGCAATCTT---AGATAC
1 GATATGCAATCTTAGAAGATAT
*
29776125 GATATGTAATCTTAG---ATAT
1 GATATGCAATCTTAGAAGATAT
29776144 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
29776166 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
29776183 GATTTAATTT
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
19 64 0.78
22 6 0.07
23 12 0.15
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:29776411 original size:23 final size:23
Alignment explanation
Indices: 29776367--29776411 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
29776357 TCTTATTTTG
* *
29776367 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
29776390 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
29776412 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:29776632 original size:3 final size:3
Alignment explanation
Indices: 29776624--29776650 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
29776614 ATTAATCTTG
29776624 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
29776651 ATTCATGCGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:29776941 original size:16 final size:14
Alignment explanation
Indices: 29776920--29776953 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
29776910 TTCTCAACAC
29776920 ATATGTTATATTATAT
1 ATATG-TATATT-TAT
29776936 ATATGTATATTTAT
1 ATATGTATATTTAT
29776950 ATAT
1 ATAT
29776954 TTTTCTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 6 0.33
16 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (14 bp):
ATATGTATATTTAT
Found at i:29781112 original size:8 final size:8
Alignment explanation
Indices: 29781099--29781124 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
29781089 GATTTTTGAT
29781099 GAATTTTG
1 GAATTTTG
29781107 GAATTTTG
1 GAATTTTG
29781115 GAATTTTG
1 GAATTTTG
29781123 GA
1 GA
29781125 CTAATTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (8 bp):
GAATTTTG
Found at i:29787344 original size:50 final size:50
Alignment explanation
Indices: 29787220--29787403 Score: 178
Period size: 50 Copynumber: 3.7 Consensus size: 50
29787210 GATAATAACA
* * *
29787220 TGCCAAAGACATGTCCCAAACATGGTCTTACATGGGATGTTTCTTGTA-C--
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA-G-TTCTTATATCGG
* * *
29787269 TACCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTTATATCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGAGTTCTTATATCGG
* * * ** * *
29787319 TGCCCATGCCATGTCCCAGACATGGTCTTATGA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTA-CATGGGAGTTCTTATATCGG
* *
29787369 TGCCAACGCCATGTCCCAGACATGGTCTTACATGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGG
29787404 AACCTTTCAT
Statistics
Matches: 111, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
47 7 0.06
48 2 0.02
49 33 0.30
50 68 0.61
51 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGAGTTCTTATATCGG
Found at i:29795364 original size:27 final size:27
Alignment explanation
Indices: 29795322--29795459 Score: 186
Period size: 27 Copynumber: 5.1 Consensus size: 27
29795312 AAGATGTTAG
* *
29795322 GAAAGAAAAGCTTTTGTTGCGAACTCT
1 GAAAGAAAAGCCTTTGTGGCGAACTCT
* *
29795349 GAAAGAAAAGCCTTTGTGGCAAACCCT
1 GAAAGAAAAGCCTTTGTGGCGAACTCT
* * *
29795376 GAAAGAAAAGCCTTTATGGTGAGCTCT
1 GAAAGAAAAGCCTTTGTGGCGAACTCT
* *
29795403 GAAAGAAAAGCCTTTGTGGTGAGCTCT
1 GAAAGAAAAGCCTTTGTGGCGAACTCT
*
29795430 GAAAGAAAATCCTTTGTGGCGAACTCT
1 GAAAGAAAAGCCTTTGTGGCGAACTCT
29795457 GAA
1 GAA
29795460 TAAACTTTCC
Statistics
Matches: 98, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTGGCGAACTCT
Found at i:29798858 original size:44 final size:44
Alignment explanation
Indices: 29798795--29799059 Score: 327
Period size: 44 Copynumber: 6.0 Consensus size: 44
29798785 AAGGGTGATT
*
29798795 AGGTGATTACATCAAAGGCATTGCCAACCACAACGTTTGAAAGA
1 AGGTGGTTACATCAAAGGCATTGCCAACCACAACGTTTGAAAGA
* ** **
29798839 AGGTGGTTACATCAAAGGCATTACCAACCACAAAATTTG-GTGA
1 AGGTGGTTACATCAAAGGCATTGCCAACCACAACGTTTGAAAGA
* * * *
29798882 TTAGGTGATTACATCAAAGGTATTTCCAACCACAATGTTTGAAAGA
1 --AGGTGGTTACATCAAAGGCATTGCCAACCACAACGTTTGAAAGA
* * *
29798928 GGGTGTTTACATCAAAGGCATTGCCAACCACAACGTTT-AAAAA
1 AGGTGGTTACATCAAAGGCATTGCCAACCACAACGTTTGAAAGA
**
29798971 AGGGTGGTTACATCAAAGGCATCACCAACCACAACGTTTGAAAGA
1 A-GGTGGTTACATCAAAGGCATTGCCAACCACAACGTTTGAAAGA
* * *
29799016 GGGTGGTTACATCAAAGGCATTGACAACCACAATGTTTGAAAGA
1 AGGTGGTTACATCAAAGGCATTGCCAACCACAACGTTTGAAAGA
29799060 CTAGTATACA
Statistics
Matches: 187, Mismatches: 29, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
43 6 0.03
44 141 0.75
45 38 0.20
46 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (44 bp):
AGGTGGTTACATCAAAGGCATTGCCAACCACAACGTTTGAAAGA
Found at i:29799016 original size:88 final size:88
Alignment explanation
Indices: 29798795--29799057 Score: 348
Period size: 89 Copynumber: 3.0 Consensus size: 88
29798785 AAGGGTGATT
* *
29798795 AGGTGATTACATCAAAGGCATTGCCAACCACAACGTTTGAAAGAAGGTGGTTACATCAAAGGCAT
1 AGGTGATTACATCAAAGGCATTACCAACCACAACGTTTGAAAGAGGGTGGTTACATCAAAGGCAT
* * ** **
29798860 TACCAACCACAAAATTTGGTGATT
66 TGCCAACCACAAAGTTT-GAAAAA
* * * *
29798884 AGGTGATTACATCAAAGGTATTTCCAACCACAATGTTTGAAAGAGGGTGTTTACATCAAAGGCAT
1 AGGTGATTACATCAAAGGCATTACCAACCACAACGTTTGAAAGAGGGTGGTTACATCAAAGGCAT
*
29798949 TGCCAACCACAACGTTT-AAAAA
66 TGCCAACCACAAAGTTTGAAAAA
* *
29798971 AGGGTGGTTACATCAAAGGCATCACCAACCACAACGTTTGAAAGAGGGTGGTTACATCAAAGGCA
1 A-GGTGATTACATCAAAGGCATTACCAACCACAACGTTTGAAAGAGGGTGGTTACATCAAAGGCA
* *
29799036 TTGACAACCACAATGTTTGAAA
65 TTGCCAACCACAAAGTTTGAAA
29799058 GACTAGTATA
Statistics
Matches: 152, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
87 2 0.01
88 73 0.48
89 77 0.51
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (88 bp):
AGGTGATTACATCAAAGGCATTACCAACCACAACGTTTGAAAGAGGGTGGTTACATCAAAGGCAT
TGCCAACCACAAAGTTTGAAAAA
Found at i:29801064 original size:11 final size:11
Alignment explanation
Indices: 29801048--29801072 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
29801038 CACATCTAAT
29801048 CATACCAAAAA
1 CATACCAAAAA
29801059 CATACCAAAAA
1 CATACCAAAAA
29801070 CAT
1 CAT
29801073 GCAACCTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (11 bp):
CATACCAAAAA
Found at i:29802387 original size:20 final size:19
Alignment explanation
Indices: 29802362--29802428 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
29802352 GACGTGTAAC
* *
29802362 AGAGGCAACGAAGTGTAGAT
1 AGAGGCAACAAAGTG-AAAT
*
29802382 AGAGGCAA-AAATGTGCAAT
1 AGAGGCAACAAA-GTGAAAT
29802401 CAGAGGCAACAAAGTGAAAAT
1 -AGAGGCAACAAAGTG-AAAT
29802422 AGAGGCA
1 AGAGGCA
29802429 CCGAAGTGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 4 0.10
20 29 0.74
21 6 0.15
ACGTcount: A:0.46, C:0.12, G:0.30, T:0.12
Consensus pattern (19 bp):
AGAGGCAACAAAGTGAAAT
Found at i:29802710 original size:16 final size:16
Alignment explanation
Indices: 29802688--29802725 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
29802678 ATTTTGATAT
29802688 CATAATTAAAACCAAAA
1 CATAATT-AAACCAAAA
*
29802705 -ATAATTTAACCAAAA
1 CATAATTAAACCAAAA
29802720 CATAAT
1 CATAAT
29802726 ATCACAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.61, C:0.16, G:0.00, T:0.24
Consensus pattern (16 bp):
CATAATTAAACCAAAA
Found at i:29802893 original size:18 final size:19
Alignment explanation
Indices: 29802856--29802893 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
29802846 GATTCGTTTC
29802856 TTGATCTCAATATAATAAT
1 TTGATCTCAATATAATAAT
29802875 TTGAT-TCAAT-TAATCAAT
1 TTGATCTCAATATAAT-AAT
29802893 T
1 T
29802894 CATATATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 9 0.50
19 5 0.28
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (19 bp):
TTGATCTCAATATAATAAT
Found at i:29805060 original size:24 final size:25
Alignment explanation
Indices: 29805023--29805069 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
29805013 ACTGGTCATA
29805023 GAGAGAATTTAGGAG-GAATATTTG
1 GAGAGAATTTAGGAGAGAATATTTG
29805047 GAGA-AATTTGAGGAGAGAATATT
1 GAGAGAATTT-AGGAGAGAATATT
29805070 GGGATTTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 9 0.43
25 7 0.33
ACGTcount: A:0.40, C:0.00, G:0.32, T:0.28
Consensus pattern (25 bp):
GAGAGAATTTAGGAGAGAATATTTG
Found at i:29805296 original size:120 final size:120
Alignment explanation
Indices: 29805049--29805287 Score: 453
Period size: 120 Copynumber: 2.0 Consensus size: 120
29805039 AATATTTGGA
29805049 GAAATTTGAGGAGAGAATATTGGGATTTGGGGAGGTTGTTGTTGTGGAGAGATAATAGTAGAAAA
1 GAAATTTGAGGAGAGAATATTGGGATTTGGGGAGGTTGTTGTTGTGGAGAGATAATAGTAGAAAA
29805114 TTAAGGGGATAGAAAGTGGATGGAGAGTGTGTAGCCGAATTGGAGGACGGATTTT
66 TTAAGGGGATAGAAAGTGGATGGAGAGTGTGTAGCCGAATTGGAGGACGGATTTT
29805169 GAAATTTGAGGAGAGAATATTGGGATTTGGGGAGGTTGTTGTTGTGGAGAGATAATAGTAGAAAA
1 GAAATTTGAGGAGAGAATATTGGGATTTGGGGAGGTTGTTGTTGTGGAGAGATAATAGTAGAAAA
* *
29805234 TTAA-GGGATAGGAAGTGGATGGAGAGTGTGTAGCCGAATTGGAGGAGGGATTTT
66 TTAAGGGGATAGAAAGTGGATGGAGAGTGTGTAGCCGAATTGGAGGACGGATTTT
29805288 TGGGATTTGG
Statistics
Matches: 117, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
119 48 0.41
120 69 0.59
ACGTcount: A:0.31, C:0.02, G:0.39, T:0.28
Consensus pattern (120 bp):
GAAATTTGAGGAGAGAATATTGGGATTTGGGGAGGTTGTTGTTGTGGAGAGATAATAGTAGAAAA
TTAAGGGGATAGAAAGTGGATGGAGAGTGTGTAGCCGAATTGGAGGACGGATTTT
Found at i:29806259 original size:27 final size:27
Alignment explanation
Indices: 29806229--29806837 Score: 615
Period size: 27 Copynumber: 22.6 Consensus size: 27
29806219 AGACCCCAAA
* * * **
29806229 ATAGGGTAAAATAACTGGAATACCCTT
1 ATAGGGTAAAATGACCGAAATACCCCC
* *
29806256 ATAGGATAAAATGACCGAAATACCCTC
1 ATAGGGTAAAATGACCGAAATACCCCC
*
29806283 AAAGGGTAAAATGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
*
29806310 ATAGGGTAAAATGATCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * *
29806337 ATAGGGTAAAATAACCAAAATACCTCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * **
29806364 ATAGGGTAGAACGACAAAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * * *
29806391 ATTGGATAGAATGATCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * *
29806418 ATAGGGTAGAATGATCGAAATACCCTC
1 ATAGGGTAAAATGACCGAAATACCCCC
* *
29806445 ATAGGGTAAAACGACCGAAATACCCCT
1 ATAGGGTAAAATGACCGAAATACCCCC
* * *
29806472 ATAGGGTAGAATGAACGAAATACCCTC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * *
29806499 ATAAGATAAAATGACCAAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* ** * * *
29806526 ATAGGTTAGTATGATCTAAATACACCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* *
29806553 ATAGGGTAGAATGACCGGAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* *
29806580 ATAGGGTAGAATGACTGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * ** **
29806607 AGAAGGTAAAATGACTAAAATACCCTT
1 ATAGGGTAAAATGACCGAAATACCCCC
* * *
29806634 AGAGGGTAAAATGACCAAAATACCCCT
1 ATAGGGTAAAATGACCGAAATACCCCC
* **
29806661 AGAGGGTAAAATGAATGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* *
29806688 ATAGGGTAAAATGATCGAAATAACCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * **
29806715 ACAAGGTAAAATGATTGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * *
29806742 ACAAGGTAAAATGACTGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
*
29806769 ATAGGGTAAAATGATCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * *
29806796 ACAGAGTAATATGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
*
29806823 ATAAGGTAAAATGAC
1 ATAGGGTAAAATGAC
29806838 TATTATGGCC
Statistics
Matches: 489, Mismatches: 93, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 489 1.00
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.18
Consensus pattern (27 bp):
ATAGGGTAAAATGACCGAAATACCCCC
Found at i:29823560 original size:13 final size:13
Alignment explanation
Indices: 29823542--29823580 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
29823532 ATTAAAGTCC
29823542 AAATATAAAAAAT
1 AAATATAAAAAAT
*
29823555 ATATATAAAAAAT
1 AAATATAAAAAAT
29823568 AAATATAATAAAA
1 AAATATAA-AAAA
29823581 GCCCAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATATAAAAAAT
Found at i:29824715 original size:22 final size:21
Alignment explanation
Indices: 29824622--29824736 Score: 74
Period size: 22 Copynumber: 5.3 Consensus size: 21
29824612 TAGTATACTT
29824622 TTATTTTAAA-TTATCATAAATA
1 TTATTTTAAACTTATCAT--ATA
29824644 TTA-TTTAAACTTATCATATA
1 TTATTTTAAACTTATCATATA
* * * * *
29824664 TCCTAATTAAAATTTATCATGTGC
1 T--TATTTTAAACTTATCATAT-A
*
29824688 TAATTTTAAACTTATCATATTA
1 TTATTTTAAACTTATCATA-TA
* * *
29824710 TTA-TTTAGATTTATTATATA
1 TTATTTTAAACTTATCATATA
29824730 TTATTTT
1 TTATTTT
29824737 TATATATATA
Statistics
Matches: 72, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
20 9 0.12
21 21 0.29
22 27 0.38
23 14 0.19
24 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (21 bp):
TTATTTTAAACTTATCATATA
Found at i:29824739 original size:13 final size:12
Alignment explanation
Indices: 29824704--29824755 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 12
29824694 TAAACTTATC
* *
29824704 ATATTATTATTT
1 ATATTTTTATAT
*
29824716 AGATTTATTATAT
1 ATATTT-TTATAT
29824729 ATTATTTTTATAT
1 A-TATTTTTATAT
29824742 ATATATTTTATAT
1 ATAT-TTTTATAT
29824755 A
1 A
29824756 AGCTTAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
12 7 0.21
13 22 0.67
14 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (12 bp):
ATATTTTTATAT
Found at i:29827399 original size:17 final size:15
Alignment explanation
Indices: 29827371--29827404 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
29827361 AGTGGAAAAG
29827371 TTTTTTTTAAAATAA
1 TTTTTTTTAAAATAA
29827386 TTTTTTTATAAAAATAA
1 TTTTTTT-T-AAAATAA
29827403 TT
1 TT
29827405 ATATTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 1 0.06
17 9 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTTTTTAAAATAA
Found at i:29828186 original size:185 final size:185
Alignment explanation
Indices: 29827874--29828428 Score: 948
Period size: 185 Copynumber: 3.0 Consensus size: 185
29827864 CTGCTAACCC
* * *
29827874 TTTTTTTTGCCAAATCAATTATTTATCCAAGAAAAATAATTCCAAATCGTAACATTTTGAATTTA
1 TTTTTTTTTCCAAATCAATTATTTAACCAAGAAAAATAATTCCAAGTCGTAACATTTTGAATTTA
29827939 TGAATTCTAACATGCTAGCATTTGAAATCTCAAAAATTTTAAAATTCTTCGTCCGAACACTCTTA
66 TGAATTCTAACATGCTAGCATTTGAAATCTCAAAAATTTTAAAATTCTTCGTCCGAACACTCTTA
29828004 GGGAATTGTTGTTAGTTATAATTTGTGATTTTTTGCTATTTTTTGTTAAAAGTGG
131 GGGAATTGTTGTTAGTTATAATTTGTGATTTTTTGCTATTTTTTGTTAAAAGTGG
*
29828059 TTTTTTTTTCCAAATCAATTATTTACCCAAGAAAAATAATTCCAAGTCGTAACATTTTGAATTTA
1 TTTTTTTTTCCAAATCAATTATTTAACCAAGAAAAATAATTCCAAGTCGTAACATTTTGAATTTA
29828124 TGAATTCTAACATGCTAGCATTTGAAATCTCAAAAATTTTAAAATTCTTCGTCCGAACACTCTTA
66 TGAATTCTAACATGCTAGCATTTGAAATCTCAAAAATTTTAAAATTCTTCGTCCGAACACTCTTA
29828189 GGGAATTGTTGTTAGTTATAATTTGTGATTTTTTGCTATTTTTTGTTAAAAGTGG
131 GGGAATTGTTGTTAGTTATAATTTGTGATTTTTTGCTATTTTTTGTTAAAAGTGG
29828244 TTTTTTTTTCCAAATCAATTATTTAACCAAGAAAAATAATTCCAAGTCGTAACATTTTGAATTTA
1 TTTTTTTTTCCAAATCAATTATTTAACCAAGAAAAATAATTCCAAGTCGTAACATTTTGAATTTA
* * * **
29828309 TAAATTCTAACATGTTAGCATTTTAAATCTCTGAAATTTTAAAATTCTTCGTCCGAACACACTCT
66 TGAATTCTAACATGCTAGCATTTGAAATCTCAAAAATTTTAAAATTCTTCGTCCG-A-ACACTCT
* * * * * *
29828374 TAAGGAATTATTATTAGCTATAATTTGTGATTTTTTGTTTTTTTTTTGTTAAAAG
129 TAGGGAATTGTTGTTAGTTATAATTTGTGATTTTTTG-CTATTTTTTGTTAAAAG
29828429 ACAATTTCTC
Statistics
Matches: 352, Mismatches: 15, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
185 296 0.84
186 1 0.00
187 40 0.11
188 15 0.04
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (185 bp):
TTTTTTTTTCCAAATCAATTATTTAACCAAGAAAAATAATTCCAAGTCGTAACATTTTGAATTTA
TGAATTCTAACATGCTAGCATTTGAAATCTCAAAAATTTTAAAATTCTTCGTCCGAACACTCTTA
GGGAATTGTTGTTAGTTATAATTTGTGATTTTTTGCTATTTTTTGTTAAAAGTGG
Found at i:29830030 original size:18 final size:19
Alignment explanation
Indices: 29829997--29830041 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
29829987 AAATTGTTTC
**
29829997 AAATTTTAGATTTTTA-GA
1 AAATTTTAGAACTTTATGA
29830015 AAATTTTAGAACTTTATGA
1 AAATTTTAGAACTTTATGA
*
29830034 ACATTTTA
1 AAATTTTA
29830042 AATAATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (19 bp):
AAATTTTAGAACTTTATGA
Found at i:29830075 original size:18 final size:18
Alignment explanation
Indices: 29830044--29830103 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
29830034 ACATTTTAAA
29830044 TAATTTTATG-TTTTTTT
1 TAATTTTATGATTTTTTT
29830061 TAATTTTA-GAATTTTTTT
1 TAATTTTATG-ATTTTTTT
* *
29830079 TATTTTTATGATTTTTTA
1 TAATTTTATGATTTTTTT
29830097 TAATTTT
1 TAATTTT
29830104 TCAGGAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.03
17 8 0.22
18 27 0.73
19 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (18 bp):
TAATTTTATGATTTTTTT
Found at i:29836146 original size:72 final size:73
Alignment explanation
Indices: 29835997--29836148 Score: 209
Period size: 72 Copynumber: 2.1 Consensus size: 73
29835987 CAGTAATTGG
* * * * *
29835997 CTTTGTGGCATACTCTGTAAGTGCCTTTGTGGTACATTTTGTAAGTGCCCTTTGTGGTGTACTCT
1 CTTTGTGGCATACTCTGTAAGTGCCTTTGTGGCACACTTTGCAACTGCCCTTTGTGGTATACTCT
29836062 ATAAGTGT
66 ATAAGTGT
* * * *
29836070 -TTTGTGGCATATTCTGTTAGTGCCTTTGTGGCATACTTTGCAACTG-CCTTTGTGGTATATTCT
1 CTTTGTGGCATACTCTGTAAGTGCCTTTGTGGCACACTTTGCAACTGCCCTTTGTGGTATACTCT
29836133 ATAAGTGT
66 ATAAGTGT
29836141 CTTTGTGG
1 CTTTGTGG
29836149 TGTATTATGT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
71 23 0.33
72 46 0.67
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (73 bp):
CTTTGTGGCATACTCTGTAAGTGCCTTTGTGGCACACTTTGCAACTGCCCTTTGTGGTATACTCT
ATAAGTGT
Found at i:29836149 original size:24 final size:24
Alignment explanation
Indices: 29835997--29836179 Score: 154
Period size: 24 Copynumber: 7.6 Consensus size: 24
29835987 CAGTAATTGG
* *
29835997 CTTTGTGGCATACTCTGTAAGTGC
1 CTTTGTGGTATATTCTGTAAGTGC
* *
29836021 CTTTGTGGTACATTTTGTAAGTGCC
1 CTTTGTGGTATATTCTGTAAGTG-C
* * *
29836046 CTTTGTGGTGTACTCTATAAGTG-
1 CTTTGTGGTATATTCTGTAAGTGC
* * *
29836069 TTTTGTGGCATATTCTGTTAGTGC
1 CTTTGTGGTATATTCTGTAAGTGC
* * *
29836093 CTTTGTGGCATACTT-TGCAACTGC
1 CTTTGTGGTATA-TTCTGTAAGTGC
* *
29836117 CTTTGTGGTATATTCTATAAGTGT
1 CTTTGTGGTATATTCTGTAAGTGC
* * * *
29836141 CTTTGTGGTGTATTATGTAAATGT
1 CTTTGTGGTATATTCTGTAAGTGC
*
29836165 CTTTGTGGTGTATTC
1 CTTTGTGGTATATTC
29836180 AAGGGTGCCT
Statistics
Matches: 126, Mismatches: 29, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
23 19 0.15
24 86 0.68
25 21 0.17
ACGTcount: A:0.16, C:0.14, G:0.24, T:0.45
Consensus pattern (24 bp):
CTTTGTGGTATATTCTGTAAGTGC
Found at i:29839268 original size:25 final size:24
Alignment explanation
Indices: 29839227--29839277 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
29839217 TAAATTTATT
* *
29839227 TTAAAATATGACTTATTT-GACCAA
1 TTAAAAAATGACATATTTAGA-CAA
29839251 TTAAAAAATCGACATATTTAGACAA
1 TTAAAAAAT-GACATATTTAGACAA
29839276 TT
1 TT
29839278 TAGTCAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 8 0.35
25 13 0.57
26 2 0.09
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (24 bp):
TTAAAAAATGACATATTTAGACAA
Found at i:29839849 original size:88 final size:88
Alignment explanation
Indices: 29839691--29839923 Score: 315
Period size: 88 Copynumber: 2.6 Consensus size: 88
29839681 TAAAAAGCTT
*** ** *
29839691 TCAAACTTTTTCAACAAAAAGCAATTAAGATTTTTTTTTTTTTTGCACTCAATTGGGTACTTGAA
1 TCAAACTTTTTCAA-AAAAAGCAATTAAG-CCCTTGCTTTTTTTGCACTCAATTGGGTACTTAAA
*
29839756 TTTTCAAAATACATCAAAAAGACCC
64 CTTTCAAAATACATCAAAAAGACCC
* *
29839781 TCAAACTTTTTCAAAAAAAGCAATTAAGCCCTTGCTTTTTTTACACTCAATTGGGTAGTTAAACT
1 TCAAACTTTTTCAAAAAAAGCAATTAAGCCCTTGCTTTTTTTGCACTCAATTGGGTACTTAAACT
* *
29839846 TTCAAAGTGCATCAAAAAGACCC
66 TTCAAAATACATCAAAAAGACCC
* * *
29839869 TCAAA-ATTTTCAAAAATACCAATTAAGCCCTTGCTTTTTTTGCACTCAATTGGGT
1 TCAAACTTTTTCAAAAAAAGCAATTAAGCCCTTGCTTTTTTTGCACTCAATTGGGT
29839924 GCTTGAACCA
Statistics
Matches: 128, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
87 46 0.36
88 54 0.42
89 14 0.11
90 14 0.11
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (88 bp):
TCAAACTTTTTCAAAAAAAGCAATTAAGCCCTTGCTTTTTTTGCACTCAATTGGGTACTTAAACT
TTCAAAATACATCAAAAAGACCC
Found at i:29840049 original size:29 final size:28
Alignment explanation
Indices: 29840017--29840091 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 28
29840007 AATATAAATC
29840017 AATAAAAGTTATAAAAAT-TATTAAATTTT
1 AATAAAA-TTATAAAAATAT-TTAAATTTT
**
29840046 AATAAAAAAATATAAAATATTTAAATTTT
1 AATAAAATTATA-AAAATATTTAAATTTT
* *
29840075 ATTAAAAATTAGAAAAA
1 AAT-AAAATTATAAAAA
29840092 AAATTAGAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
28 3 0.08
29 27 0.73
30 7 0.19
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (28 bp):
AATAAAATTATAAAAATATTTAAATTTT
Found at i:29840063 original size:21 final size:22
Alignment explanation
Indices: 29840029--29840069 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
29840019 TAAAAGTTAT
* *
29840029 AAAAATTATTAAAT-TTTAATA
1 AAAAAATATAAAATATTTAATA
29840050 AAAAAATATAAAATATTTAA
1 AAAAAATATAAAATATTTAA
29840070 ATTTTATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAAAATATAAAATATTTAATA
Found at i:29840093 original size:12 final size:12
Alignment explanation
Indices: 29840078--29840103 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29840068 AAATTTTATT
29840078 AAAAATTAGAAA
1 AAAAATTAGAAA
29840090 AAAAATTAGAAA
1 AAAAATTAGAAA
29840102 AA
1 AA
29840104 TCCTAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (12 bp):
AAAAATTAGAAA
Found at i:29840254 original size:11 final size:11
Alignment explanation
Indices: 29840240--29840271 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
29840230 ATAAGCATTT
29840240 TATAATTTTTC
1 TATAATTTTTC
29840251 TATAATTTTTC
1 TATAATTTTTC
29840262 TATAACTTTT
1 TATAA-TTTT
29840272 ATTGATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.62
Consensus pattern (11 bp):
TATAATTTTTC
Found at i:29840436 original size:22 final size:22
Alignment explanation
Indices: 29840411--29840458 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
29840401 TTCATATGCA
29840411 TTTTACAATTTTT-TATAATTTCT
1 TTTTACAATTTTTATA-AATTT-T
*
29840434 TTTTACGATTTTTATAAATTTT
1 TTTTACAATTTTTATAAATTTT
29840456 TTT
1 TTT
29840459 CTAATTGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 17 0.74
24 2 0.09
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTACAATTTTTATAAATTTT
Found at i:29840444 original size:23 final size:21
Alignment explanation
Indices: 29840411--29840477 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 21
29840401 TTCATATGCA
*
29840411 TTTTACAATTTTTTATAATTTCT
1 TTTTACAA-TTTTTATAAATT-T
*
29840434 TTTTACGATTTTTATAAATTT
1 TTTTACAATTTTTATAAATTT
*
29840455 TTTT-CTAATTGTTAATAAATTT
1 TTTTAC-AATT-TTTATAAATTT
29840477 T
1 T
29840478 AAATTCTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
20 1 0.03
21 8 0.21
22 22 0.58
23 7 0.18
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (21 bp):
TTTTACAATTTTTATAAATTT
Found at i:29840856 original size:94 final size:87
Alignment explanation
Indices: 29840647--29840884 Score: 248
Period size: 94 Copynumber: 2.6 Consensus size: 87
29840637 ATCAAATGGA
* * *
29840647 CCTTTTGATGCACTTTGATAGTTCAAGTACTCAATTAAGTGAAAAAAATCAAGGGCTTAATTGTT
1 CCTTTTGATGCA-TTTGAAAGTTCAAGTACTCAATTAAGTAAAAAAAATCAAGAGCTTAATTGTT
*
29840712 TTTTTTTTAAAAATGCTTGAGGGT
65 TTTTTTTTAAAAAT-CTTGAGAGT
* * *
29840736 CCTTTTTATGCATTTGAAAGCTCAAGTACTCAATTGAGTTCAAAAAAAAGT-AAGAGCTTAATTT
1 CCTTTTGATGCATTTGAAAGTTCAAGTACTCAATTAAG-T-AAAAAAAA-TCAAGAGCTTAA-TT
*
29840800 ATTTTATTTTTTTGAAAAAAT-TTGAGAGT
62 -GTTT-TTTTTTT--AAAAATCTTGAGAGT
* *
29840829 CCTTTTGAGGCATTTTGAAAGTTCAAGTACCCAATTAAGCATAAAAAAAAT-AAGAG
1 CCTTTTGATGCA-TTTGAAAGTTCAAGTACTCAATTAAG--TAAAAAAAATCAAGAG
29840885 TTCAATTACT
Statistics
Matches: 125, Mismatches: 14, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
88 23 0.18
89 12 0.10
90 16 0.13
91 3 0.02
92 3 0.02
93 30 0.24
94 31 0.25
95 7 0.06
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (87 bp):
CCTTTTGATGCATTTGAAAGTTCAAGTACTCAATTAAGTAAAAAAAATCAAGAGCTTAATTGTTT
TTTTTTTAAAAATCTTGAGAGT
Found at i:29851685 original size:25 final size:25
Alignment explanation
Indices: 29851605--29851701 Score: 72
Period size: 25 Copynumber: 3.9 Consensus size: 25
29851595 GACACACCAC
*
29851605 AGCTCTCTTGAGTTTCTCGATATTT
1 AGCTCTCTTGAGCTTCTCGATATTT
* * **
29851630 GGCTCTCATGAGCTT-TCTGAT-TAAC
1 AGCTCTCTTGAGCTTCTC-GATAT-TT
* *
29851655 AACTCTCTTTAGCTTCTCGATATTT
1 AGCTCTCTTGAGCTTCTCGATATTT
** *
29851680 AGCTCTCAAGAGCTTCCCGATA
1 AGCTCTCTTGAGCTTCTCGATA
29851702 AACAACTCAC
Statistics
Matches: 52, Mismatches: 16, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
24 3 0.06
25 46 0.88
26 3 0.06
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (25 bp):
AGCTCTCTTGAGCTTCTCGATATTT
Found at i:29851685 original size:50 final size:50
Alignment explanation
Indices: 29851607--29851720 Score: 147
Period size: 50 Copynumber: 2.3 Consensus size: 50
29851597 CACACCACAG
* * * * * *
29851607 CTCTCTTGAGTTTCTCGATATTTGGCTCTCATGAGCTTTCTGATTAACAA
1 CTCTCTTGAGCTTCTCGATATTTAGCTCTCAAGAGCTTCCCGATAAACAA
*
29851657 CTCTCTTTAGCTTCTCGATATTTAGCTCTCAAGAGCTTCCCGATAAACAA
1 CTCTCTTGAGCTTCTCGATATTTAGCTCTCAAGAGCTTCCCGATAAACAA
* *
29851707 CTCACATGAGCTTC
1 CTCTCTTGAGCTTC
29851721 CTGTTTACAT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (50 bp):
CTCTCTTGAGCTTCTCGATATTTAGCTCTCAAGAGCTTCCCGATAAACAA
Found at i:29860701 original size:26 final size:26
Alignment explanation
Indices: 29860663--29860712 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
29860653 CAGGCCGGCC
** * *
29860663 TATTTTTTTAATAAACACTAAAAATT
1 TATTTTTAAAATAAAAAATAAAAATT
29860689 TATTTTTAAAATAAAAAATAAAAA
1 TATTTTTAAAATAAAAAATAAAAA
29860713 AAGTATTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (26 bp):
TATTTTTAAAATAAAAAATAAAAATT
Found at i:29862628 original size:25 final size:25
Alignment explanation
Indices: 29862586--29862648 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
29862576 TTAAGTGTTT
* *
29862586 TCAGTATAGT-CTATCTATAGTAGTC
1 TCAGTATA-TACTACCTATAGCAGTC
*
29862611 TCAGTATATACTACCTATAGCAGTT
1 TCAGTATATACTACCTATAGCAGTC
*
29862636 TCAGGATATACTA
1 TCAGTATATACTA
29862649 TCAAAGACTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (25 bp):
TCAGTATATACTACCTATAGCAGTC
Found at i:29865611 original size:208 final size:208
Alignment explanation
Indices: 29865250--29865662 Score: 738
Period size: 208 Copynumber: 2.0 Consensus size: 208
29865240 CTTTCCTAAT
*
29865250 TAAAATGCAGACCTTGCCTATCTCAAAATTCCAATAAAATTAGAATTCCATCATCTTTTTATATT
1 TAAAATGCAGACCTTGCCTATCTCAAAATTCCAATAAAATTAGAATTCCATCACCTTTTTATATT
*
29865315 CTTTTCCTAATTAGATTTTCATATTGCTCCTTTTCAAATCCTAATAGAATCTGCTCTCCATCTTT
66 CTTTCCCTAATTAGATTTTCATATTGCTCCTTTTCAAATCCTAATAGAATCTGCTCTCCATCTTT
*
29865380 CTATTTATTTTATTTTCTATTTTCTTTCTCTTTTCTTTACACCATATTTTTATCCTAATT-GTTG
131 CTATTTATTTTATTTTCTATTTTCTTTATCTTTTCTTTACACCATATTTTTATCCTAATTAGTTG
29865444 ATAATTATTTTGAA
196 -TAATTATTTTGAA
* *
29865458 TAAAATGCATACCTTGCCTATCTCAAAATTCCAATAGAATTAGAATTCCATCACCTTTTTATATT
1 TAAAATGCAGACCTTGCCTATCTCAAAATTCCAATAAAATTAGAATTCCATCACCTTTTTATATT
*
29865523 CTTTCCCTAATTAGATTTTCATATTGCTCCTTTTCAAATCCTAATAGAATCTGCTCTCTATCTTT
66 CTTTCCCTAATTAGATTTTCATATTGCTCCTTTTCAAATCCTAATAGAATCTGCTCTCCATCTTT
* *
29865588 CTATTTATTTTATTTTTTATTTTCTTTATCTTTTCTTTACACCATATTTTTATCCTAATTATTTG
131 CTATTTATTTTATTTTCTATTTTCTTTATCTTTTCTTTACACCATATTTTTATCCTAATTAGTTG
29865653 TAATTATTTT
196 TAATTATTTT
29865663 TTTTCGAATA
Statistics
Matches: 196, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
208 193 0.98
209 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.05, T:0.49
Consensus pattern (208 bp):
TAAAATGCAGACCTTGCCTATCTCAAAATTCCAATAAAATTAGAATTCCATCACCTTTTTATATT
CTTTCCCTAATTAGATTTTCATATTGCTCCTTTTCAAATCCTAATAGAATCTGCTCTCCATCTTT
CTATTTATTTTATTTTCTATTTTCTTTATCTTTTCTTTACACCATATTTTTATCCTAATTAGTTG
TAATTATTTTGAA
Found at i:29866733 original size:22 final size:21
Alignment explanation
Indices: 29866708--29866758 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
29866698 GTTGAATGAC
29866708 TTATCCACACCGTTTGAGTAGT
1 TTATCCACACCG-TTGAGTAGT
*** *
29866730 TTATCTGTATCGTTGAGTAGT
1 TTATCCACACCGTTGAGTAGT
29866751 TTATCCAC
1 TTATCCAC
29866759 TGTGTTAATC
Statistics
Matches: 22, Mismatches: 7, Indels: 1
0.73 0.23 0.03
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.41
Consensus pattern (21 bp):
TTATCCACACCGTTGAGTAGT
Found at i:29867358 original size:18 final size:18
Alignment explanation
Indices: 29867337--29867401 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
29867327 CTAGTGTTTT
29867337 ATCCACAACGAGTGGTAC
1 ATCCACAACGAGTGGTAC
* **
29867355 ATCCACAATGATGAGTGGTTT
1 ATCCAC-A--ACGAGTGGTAC
29867376 ATCCACAACGAGTGGTAC
1 ATCCACAACGAGTGGTAC
*
29867394 ATACACAA
1 ATCCACAA
29867402 TGATGAGTGG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
18 21 0.57
19 1 0.03
20 1 0.03
21 14 0.38
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (18 bp):
ATCCACAACGAGTGGTAC
Found at i:29867372 original size:21 final size:21
Alignment explanation
Indices: 29867346--29867421 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 21
29867336 TATCCACAAC
29867346 GAGTGGTACATCCACAATGAT
1 GAGTGGTACATCCACAATGAT
** *
29867367 GAGTGGTTTATCCAC-A--AC
1 GAGTGGTACATCCACAATGAT
*
29867385 GAGTGGTACATACACAATGAT
1 GAGTGGTACATCCACAATGAT
**
29867406 GAGTGGTTTATCCACA
1 GAGTGGTACATCCACA
29867422 GCGTGGTGTG
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
18 13 0.31
19 1 0.02
20 1 0.02
21 27 0.64
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (21 bp):
GAGTGGTACATCCACAATGAT
Done.