Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 160 of 216
Found at i:50311017 original size:15 final size:15
Alignment explanation
Indices: 50310996--50311033 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
50310986 TTTAAGGTTA
50310996 ATTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
* *
50311011 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTAGAG
50311026 ATTTAGGG
1 ATTTAGGG
50311034 TTTCAACGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (15 bp):
ATTTAGGGGTTAGAG
Found at i:50311036 original size:14 final size:14
Alignment explanation
Indices: 50310969--50311036 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
50310959 TACGTGGTAT
*
50310969 AGATTTAAGGTTTG
1 AGATTTAGGGTTTG
* *
50310983 GGATTTAAGG-TT-
1 AGATTTAGGGTTTG
*
50310995 A-ATTTAGGGGTTAG
1 AGATTTA-GGGTTTG
*
50311009 AGGTTTAGGGGTTTG
1 AGATTTA-GGGTTTG
50311024 AGATTTAGGGTTT
1 AGATTTAGGGTTT
50311037 CAACGGTCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 5 0.12
12 2 0.05
13 3 0.07
14 16 0.37
15 17 0.40
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (14 bp):
AGATTTAGGGTTTG
Found at i:50320033 original size:27 final size:25
Alignment explanation
Indices: 50320002--50320060 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 25
50319992 AATTGTTTAA
50320002 ATTTTTTTGTTATATTTTAGTTGTTAT
1 ATTTTTTTG-TATATTTTAGTTG-TAT
*
50320029 ATTTTAGTTGTATATTTTAGTTGTAT
1 ATTTT-TTTGTATATTTTAGTTGTAT
50320055 ATTTTT
1 ATTTTT
50320061 GTTTTAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 8 0.28
27 18 0.62
28 3 0.10
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (25 bp):
ATTTTTTTGTATATTTTAGTTGTAT
Found at i:50320044 original size:13 final size:13
Alignment explanation
Indices: 50320012--50320059 Score: 87
Period size: 13 Copynumber: 3.6 Consensus size: 13
50320002 ATTTTTTTGT
50320012 TATATTTTAGTTG
1 TATATTTTAGTTG
50320025 TTATATTTTAGTTG
1 -TATATTTTAGTTG
50320039 TATATTTTAGTTG
1 TATATTTTAGTTG
50320052 TATATTTT
1 TATATTTT
50320060 TGTTTTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 21 0.62
14 13 0.38
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (13 bp):
TATATTTTAGTTG
Found at i:50320569 original size:21 final size:21
Alignment explanation
Indices: 50320540--50320592 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
50320530 ACATCTTTGA
* *
50320540 TATATATATTTATATACAGTTT
1 TATATATATTTAT-TAAAATTT
50320562 TA-ATATATTTATTAAAATTT
1 TATATATATTTATTAAAATTT
50320582 TATATATATTT
1 TATATATATTT
50320593 GAAAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 8 0.29
21 18 0.64
22 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TATATATATTTATTAAAATTT
Found at i:50320716 original size:49 final size:49
Alignment explanation
Indices: 50320632--50320725 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
50320622 CATACATAAA
* *
50320632 ATATATAAATTTTTATATAAACTTACACAACACATAACTTACATAAGTT
1 ATATATAAACTTATATATAAACTTACACAACACATAACTTACATAAGTT
* *
50320681 ATATATAAACTTATATAT-AACTTACATACATACATAACTTACATA
1 ATATATAAACTTATATATAAACTTACACA-ACACATAACTTACATA
50320726 CATAATACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 9 0.22
49 31 0.77
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (49 bp):
ATATATAAACTTATATATAAACTTACACAACACATAACTTACATAAGTT
Found at i:50324062 original size:21 final size:21
Alignment explanation
Indices: 50324000--50324068 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
50323990 CAATAACTTA
* * * *
50324000 AAGCAGATGCGGCAGTAAGGG
1 AAGCAGAGGCCGCAGCAAGAG
** * *
50324021 AAGCAGAGGCTACAACGAGAG
1 AAGCAGAGGCCGCAGCAAGAG
50324042 AAGCAGAGGCCGCAGCAAGAG
1 AAGCAGAGGCCGCAGCAAGAG
50324063 AAGCAG
1 AAGCAG
50324069 CGATAGAAGT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.39, C:0.19, G:0.38, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCAAGAG
Found at i:50324548 original size:43 final size:42
Alignment explanation
Indices: 50324501--50324592 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
50324491 ATCAAATAGT
* *
50324501 GGCGTTTGTGAAATAAGCGCCGCTA-AAGAACACTACTTTTAGC
1 GGCGTTTGTG-AACAAGCACCGCTACAA-AACACTACTTTTAGC
* * *
50324544 GGCGTTTTTGACCAAGCACCGCTACAAAACATTACTTTTAGC
1 GGCGTTTGTGAACAAGCACCGCTACAAAACACTACTTTTAGC
50324586 GGCGTTT
1 GGCGTTT
50324593 TATTTCTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 32 0.74
43 11 0.26
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (42 bp):
GGCGTTTGTGAACAAGCACCGCTACAAAACACTACTTTTAGC
Found at i:50324632 original size:43 final size:42
Alignment explanation
Indices: 50324514--50324762 Score: 231
Period size: 43 Copynumber: 5.9 Consensus size: 42
50324504 GTTTGTGAAA
*
50324514 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTT-TTGAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTATT-TC
* * *
50324556 CAAGCACCGCTACAA-AACATTA-CTTTTAGCGGCGTTTTATTTC
1 TAAGCGCCGCTA-AAGAACATGATC-TTTAGCGGCG-TTTATTTC
* * *
50324599 TAAACGCCGTTAAATAACATGATCTTTAGCGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTT-C
* *
50324642 TTAGCGCTGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTC
* * * *
50324683 ATAAGCGCCGCCAAAGAATAGGATCTTTAGCGGCATTTATTTTC
1 -TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTA-TTTC
* * *
50324727 TTAGTGCCGCTAAAGAATATGATCTTTAGCGGCGTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTT
50324763 AAAAAGCGCC
Statistics
Matches: 173, Mismatches: 24, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
41 2 0.01
42 70 0.40
43 94 0.54
44 7 0.04
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTC
Found at i:50325195 original size:30 final size:30
Alignment explanation
Indices: 50325161--50325223 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
50325151 ACTTATTTTA
50325161 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
50325191 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
50325221 TTG
1 TTG
50325224 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:50327357 original size:41 final size:41
Alignment explanation
Indices: 50327312--50327526 Score: 315
Period size: 41 Copynumber: 5.2 Consensus size: 41
50327302 ACTGGCACTT
*
50327312 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
* *
50327353 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCAGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
* * *
50327394 AGCCTGCTAGACTTAAAGTCTAAAATGTTTCATCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
50327435 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGA-CA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGC-ATCA
** * **
50327476 AGCCTGCTAGACTTAAAGTCTGAAACATATCACTAGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
50327517 AGCCTGCTAG
1 AGCCTGCTAG
50327527 GCACCGAGCC
Statistics
Matches: 158, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 1 0.01
41 157 0.99
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
Found at i:50331649 original size:33 final size:33
Alignment explanation
Indices: 50331612--50331745 Score: 172
Period size: 33 Copynumber: 4.2 Consensus size: 33
50331602 CTGCTTTATT
*
50331612 TTTCTCTATTTTCTATTTCTGTACCATGTTTTG
1 TTTCTCTATTTTCTGTTTCTGTACCATGTTTTG
50331645 TTTCTCTATTTTCTGTTTCTGTACCATGTTTTG
1 TTTCTCTATTTTCTGTTTCTGTACCATGTTTTG
* * *
50331678 TTCCTCTATTTTCTGTAGT-GGT----T-TTTTG
1 TTTCTCTATTTTCTGT-TTCTGTACCATGTTTTG
50331706 TTTCTCTATTTTCTGTTTCTGTACCATGTTTTG
1 TTTCTCTATTTTCTGTTTCTGTACCATGTTTTG
*
50331739 TTCCTCT
1 TTTCTCT
50331746 TGCCATTTTT
Statistics
Matches: 86, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
27 1 0.01
28 22 0.26
29 1 0.01
32 1 0.01
33 60 0.70
34 1 0.01
ACGTcount: A:0.09, C:0.19, G:0.12, T:0.60
Consensus pattern (33 bp):
TTTCTCTATTTTCTGTTTCTGTACCATGTTTTG
Found at i:50332842 original size:21 final size:22
Alignment explanation
Indices: 50332816--50332872 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
50332806 TAGTTTCCCC
50332816 TGTTTGCAGTGGCTATACAA-T
1 TGTTTGCAGTGGCTATACAATT
* *
50332837 TGTTTGGAGTGGCTATATAATT
1 TGTTTGCAGTGGCTATACAATT
*
50332859 TATTTGCAGTGGCT
1 TGTTTGCAGTGGCT
50332873 CCATCTGCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.21, C:0.11, G:0.26, T:0.42
Consensus pattern (22 bp):
TGTTTGCAGTGGCTATACAATT
Found at i:50337940 original size:18 final size:17
Alignment explanation
Indices: 50337912--50337946 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50337902 ATTATTAAGA
*
50337912 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
50337929 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
50337947 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:50337967 original size:120 final size:120
Alignment explanation
Indices: 50337821--50338203 Score: 757
Period size: 120 Copynumber: 3.2 Consensus size: 120
50337811 TTTTCAAGTT
50337821 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
50337886 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
50337941 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
50338006 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
50338061 ATATATTTAATAATAATTTTGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
50338126 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
50338181 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
50338204 TAAATATGAT
Statistics
Matches: 261, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 261 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:50338060 original size:18 final size:17
Alignment explanation
Indices: 50338032--50338066 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50338022 ATTATTAAGA
*
50338032 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
50338049 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
50338067 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:50338180 original size:18 final size:17
Alignment explanation
Indices: 50338152--50338186 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50338142 ATTATTAAGA
*
50338152 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
50338169 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
50338187 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:50338431 original size:45 final size:44
Alignment explanation
Indices: 50338351--50338441 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 44
50338341 ACCTCTATTC
* *
50338351 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTAATCCAATA
***
50338395 CATTCAACCAAACAGTTGATTTACTATTACAG-CTCTAATCCAATA
1 CATTCAACCAAACACAAGA-TTACTATTAC-GCCTCTAATCCAATA
50338440 CA
1 CA
50338442 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
44 16 0.40
45 23 0.57
46 1 0.03
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.30
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTAATCCAATA
Found at i:50338446 original size:16 final size:16
Alignment explanation
Indices: 50338422--50338457 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
50338412 GATTTACTAT
*
50338422 TACAGCTCTAATCCAA
1 TACACCTCTAATCCAA
50338438 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
50338454 TACA
1 TACA
50338458 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.03, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:50341202 original size:23 final size:23
Alignment explanation
Indices: 50341175--50341223 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
50341165 TTGAACTCCT
50341175 TAAATGTTATTGTATGATTTAAA
1 TAAATGTTATTGTATGATTTAAA
*
50341198 TAAATGTTATTGTATGATTTAGA
1 TAAATGTTATTGTATGATTTAAA
50341221 TAA
1 TAA
50341224 TATTGATGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (23 bp):
TAAATGTTATTGTATGATTTAAA
Found at i:50341326 original size:21 final size:21
Alignment explanation
Indices: 50341301--50341344 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
50341291 CAAATATAAG
50341301 TATTGTAG-TAACCAAATCATT
1 TATTG-AGATAACCAAATCATT
50341322 TATTGAGTATAACCAAATCATT
1 TATTGAG-ATAACCAAATCATT
50341344 T
1 T
50341345 TCATATGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 2 0.10
21 5 0.24
22 14 0.67
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
TATTGAGATAACCAAATCATT
Found at i:50341749 original size:24 final size:23
Alignment explanation
Indices: 50341688--50341749 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
50341678 TATATATTCT
50341688 AATTAA-ATTTTATAAATAATTAA
1 AATTAATA-TTTATAAATAATTAA
* * *
50341711 TATTAATTACTTATAAATATTTAA
1 AATTAA-TATTTATAAATAATTAA
50341735 AATTAATATTATATA
1 AATTAATATT-TATA
50341750 TTAAAATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 8 0.26
24 22 0.71
25 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
AATTAATATTTATAAATAATTAA
Found at i:50341950 original size:13 final size:13
Alignment explanation
Indices: 50341934--50341958 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50341924 AAATTTCTAA
50341934 AAAGCACTTCTCT
1 AAAGCACTTCTCT
50341947 AAAGCACTTCTC
1 AAAGCACTTCTC
50341959 AAAACCAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.28
Consensus pattern (13 bp):
AAAGCACTTCTCT
Found at i:50342992 original size:126 final size:125
Alignment explanation
Indices: 50342758--50343324 Score: 752
Period size: 126 Copynumber: 4.5 Consensus size: 125
50342748 GATAAAATCA
* * * * * * * *
50342758 AAGCAGGATGATTTATCAAAAGGATTT-TTACAATCGCGCCCACGTGTACGGGCTTTT-CTACAG
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGA-AATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* *
50342821 TAGGTCCTAGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
65 TAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
50342882 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGTCCTCGTGGATGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * *
50342947 TGGTCTTGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * * **
50343008 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATTGCGCCCACGTGGACGCGCTTTTTCTGTAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* *
50343073 AGGT-CTTGAACAAATAATTTCGAGTTGACGTTTCTGAGTAAATAGTATAAAACAACGCTGT-
66 AGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCT-TC
* *
50343134 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCTCTCATGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * *
50343198 TAGGTCCTGGAAAAATACTTTCGACTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTC
65 TAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
50343258 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATTGCGCCCAT-GTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCC-TCGTGGACGCGCTTTTGCTACAG
50343322 TAG
65 TAG
50343325 CATGTTTGGG
Statistics
Matches: 389, Mismatches: 44, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
123 3 0.01
124 107 0.28
125 63 0.16
126 208 0.53
127 8 0.02
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:50346559 original size:22 final size:22
Alignment explanation
Indices: 50346494--50346615 Score: 85
Period size: 21 Copynumber: 5.7 Consensus size: 22
50346484 TCAAATTATA
* **
50346494 TTTAAGTTAAGGGTTA-GGGTT
1 TTTAATTTAAGGGTTATGATTT
* * * *
50346515 TTTAAGTTAAGTGTTAGGGTTT
1 TTTAATTTAAGGGTTATGATTT
50346537 TTT-ATTTAAGGGTTATGA-TT
1 TTTAATTTAAGGGTTATGATTT
*
50346557 TTTAAGTTAAGGGTT-T-AGTGTT
1 TTTAATTTAAGGGTTATGA-T-TT
*
50346579 TTTAATTTAAGGGTTACGA-TT
1 TTTAATTTAAGGGTTATGATTT
* *
50346600 TTAAAGTTAAGGGTTA
1 TTTAATTTAAGGGTTA
50346616 AGGTTTTTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.01
20 6 0.07
21 52 0.63
22 23 0.28
24 1 0.01
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.48
Consensus pattern (22 bp):
TTTAATTTAAGGGTTATGATTT
Found at i:50346594 original size:43 final size:43
Alignment explanation
Indices: 50346494--50347131 Score: 628
Period size: 43 Copynumber: 15.0 Consensus size: 43
50346484 TCAAATTATA
* *
50346494 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGTG-TTAGGGTT
1 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
50346536 TTTTATTTAAGGGTTATGATTTTTAAGTTAAGGGTTTAGTGTT
1 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
50346579 TTTAATTTAAGGGTTACGATTTTAAAGTTAAGGG-TTAAGGTT
1 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
50346621 TTTAAGTTAAGTGTTTAGGGTTTTTAATTTAAAGGTTTAGGG--
1 TTTAATTTAAG-GGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
50346663 -----TTTAAGGGTTTAAGGTTTTGAAGTTAAGGGTTTA--GTT
1 TTTAATTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
50346700 TTTTAGTTAAGTGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
50346743 TTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTTACGGTT
1 TTTAATTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
50346787 TTTAAGTTAAGGGTTTAGGG-TTTTAATTTTAAGGG-TTAGGGTT
1 TTTAATTTAAGGG-TTAGGGTTTTTAA-GTTAAGGGTTTAGGGTT
* * * **
50346830 TTTAAGTTAAGGGTTTAAGGTTTTAAAGTTAAATG-TTAGGGTT
1 TTTAATTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
** * * *
50346873 TTTAAGCTAAGGGTTTAGTGTTTTTAATTTAAGGGTTTAGAGTT
1 TTTAATTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
50346917 TTTAATTTAAGAGTTTAGAGTTTTTAAGTTAAGGGTTTATGGTT
1 TTTAATTTAAG-GGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
50346961 TTT-ATGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAT-TTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
50347005 TTT-ATGTTAAGGGTTTAGGGTTTTTAAGTTAAAGG-TTAGGATT
1 TTTAAT-TTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
** * **
50347048 TTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTTATAGTT
1 TTTAATTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
50347092 TTTAATTTAAGGGTTAAGGTTTTTAATTTAAGGG-TTAGGG
1 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
50347132 CTAGGGTTTT
Statistics
Matches: 499, Mismatches: 75, Indels: 44
0.81 0.12 0.07
Matches are distributed among these distances:
35 1 0.00
36 1 0.00
37 26 0.05
41 23 0.05
42 55 0.11
43 200 0.40
44 192 0.38
45 1 0.00
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (43 bp):
TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
Found at i:50346642 original size:22 final size:22
Alignment explanation
Indices: 50346494--50347162 Score: 649
Period size: 22 Copynumber: 30.0 Consensus size: 22
50346484 TCAAATTATA
50346494 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
50346515 TTTAAGTTAAGTG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * * *
50346536 TTTTATTTAAGGG-TTATGATT
1 TTTAAGTTAAGGGTTTAGGGTT
*
50346557 TTTAAGTTAAGGGTTTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
50346579 TTTAATTTAAGGG-TTACGATT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
50346600 TTAAAGTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
50346621 TTTAAGTTAAGTGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
50346643 TTTAATTTAAAGGTTTAGGGTTT
1 TTTAAGTTAAGGGTTTAGGG-TT
** * *
50346666 AAGGGTTTAAGGTTTTGAAGTTAAGGGTT
1 -----TTTAA-GTTAAG-GGTTTAGGGTT
* *
50346695 TAGTTTTTTAGTTAAGTG-TTAGGGTT
1 T-----TTAAGTTAAGGGTTTAGGGTT
50346721 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
50346743 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
50346765 TTTAAGTTAAGGGGTTACGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
50346787 TTTAAGTTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
*
50346808 TTTAATTTTAAGGG-TTAGGGTT
1 TTTAA-GTTAAGGGTTTAGGGTT
*
50346830 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* **
50346852 TTAAAGTTAAATG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
50346873 TTTAAGCTAAGGGTTTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
50346895 TTTAATTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
50346917 TTTAATTTAAGAGTTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
50346939 TTTAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
50346961 TTTATGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
50346983 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
50347005 TTTATGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
50347027 TTTAAGTTAAAGG-TTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
50347048 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
**
50347070 TTTAAGTTAAGGGTTTATAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
50347092 TTTAATTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
50347113 TTTAATTTAAGGGTTAGGGCTAGGGTT
1 TTTAAGTTAAGGGTT-----TAGGGTT
* *
50347140 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
50347162 T
1 T
50347163 GTCAATTAAA
Statistics
Matches: 537, Mismatches: 84, Indels: 53
0.80 0.12 0.08
Matches are distributed among these distances:
21 162 0.30
22 321 0.60
23 2 0.00
24 1 0.00
26 8 0.01
27 20 0.04
28 9 0.02
29 7 0.01
30 7 0.01
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.47
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:50346815 original size:65 final size:64
Alignment explanation
Indices: 50346494--50347131 Score: 610
Period size: 65 Copynumber: 10.0 Consensus size: 64
50346484 TCAAATTATA
* * * **
50346494 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAA-GTGTTAGGGTTTTTTATTTAAGGG-TTATGAT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTTA-GGTTTTTAAGTTAAGGGTTTA-GGG
50346556 T
64 T
* * * * * *
50346557 TTTAAGTTAAGGGTTTAGTGTTTTTAATTTAA-GGGTTACGATTTTAAAGTTAAGGGTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTTA-GGTTTTTAAGTTAAGGGTTTAGGGT
* * * * * *
50346621 TTTAAGTTAAGTGTTTAGGGTTTTTAATTTAAAGGTTTAGG---GT---TTAAGGGTTTAAGGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTTAGGTTTTTAAGTTAAGGGTTTAGGGT
* *
50346679 TTTGAAGTTAAGGGTTTA--GTTTTTTAGTTAA-GTGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
1 TTT-AAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTTA-GGTTTTTAAGTTAAGGGTTTAGGG
50346741 TT
64 -T
*
50346743 TTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTTACGGTTTTTAAGTTAAGGGTTTAGGGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTTA-GGTTTTTAAGTTAAGGGTTTAGGGT
* * * **
50346808 TTTAATTTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTAAAGTTAAATG-TTAGGG
1 TTTAA-GTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTT-AGGTTTTTAAGTTAAGGGTTTAGGG
50346871 TT
64 -T
* * * * * * *
50346873 TTTAAGCTAAGGGTTTAGTGTTTTTAATTTAAGGGTTTAGAGTTTTTAATTTAAGAGTTTAGAGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTTAG-GTTTTTAAGTTAAGGGTTTAG-GG
50346938 T
64 T
* * *
50346939 TTTAAGTTAAGGGTTTATGGTTTTTATGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTTA-GGTTTTTAAGTTAAGGGTTTAGGG-
50347004 T
64 T
* * * *
50347005 TTTATGTTAAGGGTTTAGGGTTTTTAAGTTAA-AGGTTAGGATTTTTAGGTTAAGGGTTTATGGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTTAGG-TTTTTAAGTTAAGGGTTTA-GGG
50347069 T
64 T
** * *
50347070 TTTAAGTTAAGGGTTTATAGTTTTTAATTTAA-GGGTTAAGGTTTTTAATTTAAGGG-TTAGGG
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTT-AGGTTTTTAAGTTAAGGGTTTAGGG
50347132 CTAGGGTTTT
Statistics
Matches: 482, Mismatches: 66, Indels: 54
0.80 0.11 0.09
Matches are distributed among these distances:
56 4 0.01
57 13 0.03
58 15 0.03
59 13 0.03
60 1 0.00
63 41 0.09
64 91 0.19
65 171 0.35
66 131 0.27
67 2 0.00
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (64 bp):
TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTTAGGTTTTTAAGTTAAGGGTTTAGGGT
Found at i:50348614 original size:20 final size:20
Alignment explanation
Indices: 50348577--50348614 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
50348567 TTTATTTTTA
*
50348577 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
50348597 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
50348615 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:50349654 original size:20 final size:20
Alignment explanation
Indices: 50349617--50349654 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
50349607 TTTATTTTTA
*
50349617 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
50349637 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
50349655 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:50350636 original size:22 final size:22
Alignment explanation
Indices: 50350610--50350652 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
50350600 GAGAAATTTA
* *
50350610 AGAGGAACTTGGGAGCAAATTC
1 AGAGGAAATTGAGAGCAAATTC
*
50350632 AGAGGAAATTGAGAGGAAATT
1 AGAGGAAATTGAGAGCAAATT
50350653 TGAGAGAGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.07, G:0.33, T:0.19
Consensus pattern (22 bp):
AGAGGAAATTGAGAGCAAATTC
Found at i:50350657 original size:12 final size:11
Alignment explanation
Indices: 50350610--50350658 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
50350600 GAGAAATTTA
*
50350610 AGAGGAACTTG
1 AGAGGAAATTG
* * *
50350621 GGAGCAAATTC
1 AGAGGAAATTG
50350632 AGAGGAAATTG
1 AGAGGAAATTG
50350643 AGAGGAAATTTG
1 AGAGGAAA-TTG
50350655 AGAG
1 AGAG
50350659 AGGATTAGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
11 23 0.77
12 7 0.23
ACGTcount: A:0.41, C:0.06, G:0.35, T:0.18
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:50351912 original size:93 final size:93
Alignment explanation
Indices: 50351807--50352056 Score: 385
Period size: 93 Copynumber: 2.7 Consensus size: 93
50351797 TATACATCAG
* * * * *
50351807 AAATTGAGCAGCATGTATATACCAATTTGGACAGCACTTATACACAAAATTTGACAACATTTATA
1 AAATTGGGCAGCATATATATAGCAATTTGGACAGCACTTATACACAAAATTGGACAGCATTTATA
*
50351872 TACAAAAGTGGACAGCATTTATTCACCA
66 TACAAAAGTGGACAACATTTATTCACCA
* * *
50351900 AAATTGGGCAGCATATATGTAGCAATTTGGACAGCAGTTATACACAAAATTGGACAGCATGTATA
1 AAATTGGGCAGCATATATATAGCAATTTGGACAGCACTTATACACAAAATTGGACAGCATTTATA
* *
50351965 TACAAAATTGGACAACATTTATTCCCCA
66 TACAAAAGTGGACAACATTTATTCACCA
50351993 AAATTGGGCAGCATATA-AGTAGCAATTTGGACAGCACTTATACACAAAATTGGACAGCATTTAT
1 AAATTGGGCAGCATATATA-TAGCAATTTGGACAGCACTTATACACAAAATTGGACAGCATTTAT
50352057 TCACCAAAAT
Statistics
Matches: 142, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
93 142 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (93 bp):
AAATTGGGCAGCATATATATAGCAATTTGGACAGCACTTATACACAAAATTGGACAGCATTTATA
TACAAAAGTGGACAACATTTATTCACCA
Found at i:50351954 original size:70 final size:69
Alignment explanation
Indices: 50351833--50352887 Score: 708
Period size: 70 Copynumber: 15.2 Consensus size: 69
50351823 ATATACCAAT
* * * *
50351833 TTGGACAGCACTTA-TACACAAAATTTGACAACATTTATATA-CAAAAGTGGACAGCATTTATTC
1 TTGGACAGCATTTATTAC-CAAAATTGGACAGCA-TTATATAGCAAAATTGGACAGCATTTATTC
50351896 ACCAAAA
64 A-CAAAA
* * * * * *
50351903 TTGGGCAGCATATATGTAGC-AATTTGGACAGCAGTTATACA-CAAAATTGGACAGCATGTATAT
1 TTGGACAGCATTTAT-TACCAAAATTGGACAGCA-TTATATAGCAAAATTGGACAGCATTTAT-T
50351966 -ACAAAA
63 CACAAAA
* * * * * *
50351972 TTGGACAACATTTATTCCCCAAAATTGGGCAGCA-TATAAGTAGC-AATTTGGACAGCACTTATA
1 TTGGACAGCATTTATT-ACCAAAATTGGACAGCATTAT-A-TAGCAAAATTGGACAGCATTTATT
50352035 CACAAAA
63 CACAAAA
* * * * *
50352042 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTAGC-AATTTGGACAGCACTTATAC
1 TTGGACAGCATTTATT-ACCAAAATTGGACAGCAT-TATATAGCAAAATTGGACAGCATTTATTC
50352106 ACAAAA
64 ACAAAA
* * *
50352112 TTGG--A-CATGTATATA-CAAAATTGGACAGCATT-TATTCACCAAAATTGCG-CAGCATATAT
1 TTGGACAGCATTTAT-TACCAAAATTGGACAGCATTATA-T-AGCAAAATTG-GACAGCATTTAT
** *
50352171 GTGGC-AAT
62 -TCACAAAA
*
50352179 TTGGACAGCACTTA-TACACAAAATTGGACAGCATGTATATA-CAAAATTGGACAGCATTTATTC
1 TTGGACAGCATTTATTAC-CAAAATTGGACAGCAT-TATATAGCAAAATTGGACAGCATTTATTC
50352242 ACCAAAA
64 A-CAAAA
* * * * * *
50352249 TTGGGCAGCATATATGTAGC-AATTTGGACAGCACTTATACA-CAAAATTGGACAGCATGTATAT
1 TTGGACAGCATTTAT-TACCAAAATTGGACAGCA-TTATATAGCAAAATTGGACAGCATTTAT-T
50352312 -ACAAAA
63 CACAAAA
* * * * * *
50352318 TTGGACAACATTTATTCACCAAAATTGGGCAGCATATATGTAGC-AATTTGGACAGCACTTATAC
1 TTGGACAGCATTTATT-ACCAAAATTGGACAGCAT-TATATAGCAAAATTGGACAGCATTTATTC
*
50352382 AAAAAA
64 ACAAAA
* * * * * *
50352388 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTAGC-AATTTGGAAAGCACTTATTG
1 TTGGACAGCATTTATT-ACCAAAATTGGACAGCAT-TATATAGCAAAATTGGACAGCATTTATTC
50352452 ACAAAA
64 ACAAAA
* * * * * *
50352458 TTTGACAGCATGTATATA-CAAAATTGGACAACATTCAT-TCACCAAAATTGGGCAGCATATATG
1 TTGGACAGCATTTAT-TACCAAAATTGGACAGCATT-ATAT-AGCAAAATTGGACAGCATTTAT-
*
50352521 T-AGC-AAT
62 TCA-CAAAA
*
50352528 TTGGACAGCACTTA-TACACAAAATTGGACAGCATGTATATA-CAAAATTGGACAGCATTTATTC
1 TTGGACAGCATTTATTAC-CAAAATTGGACAGCAT-TATATAGCAAAATTGGACAGCATTTATTC
50352591 ACCAAAA
64 A-CAAAA
* * * * * * *
50352598 TTGGGCAGCATATATGTAGC-AATTTGGACAGCACTTATACA-CAAAATTTGACAGCATGTATAT
1 TTGGACAGCATTTAT-TACCAAAATTGGACAGCA-TTATATAGCAAAATTGGACAGCATTTAT-T
50352661 -ACAAAA
63 CACAAAA
* * * * * * *
50352667 TTGGACAACATTTATTCACCAGAATTGGGCAGCATATATGTAGC-AATTTGGACAGCACTTATAC
1 TTGGACAGCATTTATT-ACCAAAATTGGACAGCAT-TATATAGCAAAATTGGACAGCATTTATTC
50352731 ACAAAA
64 ACAAAA
* * * * * * *
50352737 TTTGACAGCATGTATAAACAAAATTGGACAGCATT-TATTCACCAAAATTGGGCAGCATATATGT
1 TTGGACAGCATTTATTACCAAAATTGGACAGCATTATA-T-AGCAAAATTGGACAGCATTTAT-T
*
50352801 -AGC-AAT
63 CA-CAAAA
* * *
50352807 TTGGACAGCACTTA-TACAAAAAATTGGACAGCATGTATATA-CAAAATTGGATAGCATTTATTC
1 TTGGACAGCATTTATTAC-CAAAATTGGACAGCAT-TATATAGCAAAATTGGACAGCATTTATTC
50352870 ACCAAAA
64 A-CAAAA
*
50352877 TTGGGCAGCAT
1 TTGGACAGCAT
50352888 ATATGTAGCA
Statistics
Matches: 781, Mismatches: 137, Indels: 134
0.74 0.13 0.13
Matches are distributed among these distances:
64 1 0.00
65 2 0.00
66 17 0.02
67 27 0.03
68 22 0.03
69 153 0.20
70 525 0.67
71 21 0.03
72 13 0.02
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (69 bp):
TTGGACAGCATTTATTACCAAAATTGGACAGCATTATATAGCAAAATTGGACAGCATTTATTCAC
AAAA
Found at i:50352098 original size:93 final size:93
Alignment explanation
Indices: 50352019--50352422 Score: 672
Period size: 93 Copynumber: 4.4 Consensus size: 93
50352009 AAGTAGCAAT
50352019 TTGGACAGCACT-TATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGT
1 TTGGACAGCA-TGTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGT
50352083 AGCAATTTGGACAGCACTTATACACAAAA
65 AGCAATTTGGACAGCACTTATACACAAAA
* * *
50352112 TTGG--A-CATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGCGCAGCATATATGTG
1 TTGGACAGCATGTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTA
50352174 GCAATTTGGACAGCACTTATACACAAAA
66 GCAATTTGGACAGCACTTATACACAAAA
*
50352202 TTGGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTA
1 TTGGACAGCATGTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTA
50352267 GCAATTTGGACAGCACTTATACACAAAA
66 GCAATTTGGACAGCACTTATACACAAAA
* *
50352295 TTGGACAGCATGTATATACAAAATTGGACAACATTTATTCACCAAAATTGGGCAGCATATATGTA
1 TTGGACAGCATGTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTA
*
50352360 GCAATTTGGACAGCACTTATACAAAAAA
66 GCAATTTGGACAGCACTTATACACAAAA
* * *
50352388 TTGGACAGCATTTATTCACCAAAATTGGGCAGCAT
1 TTGGACAGCATGTATACA-CAAAATTGGACAGCAT
50352423 ATATGTAGCA
Statistics
Matches: 294, Mismatches: 12, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
89 1 0.00
90 84 0.29
91 1 0.00
92 1 0.00
93 193 0.66
94 14 0.05
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (93 bp):
TTGGACAGCATGTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTA
GCAATTTGGACAGCACTTATACACAAAA
Found at i:50352129 original size:20 final size:20
Alignment explanation
Indices: 50352101--50352138 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
50352091 GGACAGCACT
50352101 TATACACAAAATTGGACATG
1 TATACACAAAATTGGACATG
*
50352121 TATATACAAAATTGGACA
1 TATACACAAAATTGGACA
50352139 GCATTTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (20 bp):
TATACACAAAATTGGACATG
Found at i:50352372 original size:163 final size:163
Alignment explanation
Indices: 50352202--50352584 Score: 646
Period size: 163 Copynumber: 2.4 Consensus size: 163
50352192 ATACACAAAA
*
50352202 TTGGACAGCA-TGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGT
1 TTGGACAGCACT-TATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGT
* *
50352266 AGCAATTTGGACAGCACTTATACACAAAATTGGACAGCATGTATATACAAAATTGGACAACATTT
65 AGCAATTTGGAAAGCACTTATACACAAAATTGGACAGCATGTATATACAAAATTGGACAACATTC
50352331 ATTCACCAAAATTGGGCAGCATATATGTAGCAAT
130 ATTCACCAAAATTGGGCAGCATATATGTAGCAAT
*
50352365 TTGGACAGCACTTATACAAAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTA
1 TTGGACAGCACTTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTA
** *
50352430 GCAATTTGGAAAGCACTTATTGACAAAATTTGACAGCATGTATATACAAAATTGGACAACATTCA
66 GCAATTTGGAAAGCACTTATACACAAAATTGGACAGCATGTATATACAAAATTGGACAACATTCA
50352495 TTCACCAAAATTGGGCAGCATATATGTAGCAAT
131 TTCACCAAAATTGGGCAGCATATATGTAGCAAT
* *
50352528 TTGGACAGCACTTATACACAAAATTGGACAGCATGTATAT-A-CAAAATTGGACAGCAT
1 TTGGACAGCACTTATACACAAAATTGGACAGCATTTAT-TCACCAAAATTGGGCAGCAT
50352585 TTATTCACCA
Statistics
Matches: 208, Mismatches: 10, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
162 15 0.07
163 191 0.92
164 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (163 bp):
TTGGACAGCACTTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTA
GCAATTTGGAAAGCACTTATACACAAAATTGGACAGCATGTATATACAAAATTGGACAACATTCA
TTCACCAAAATTGGGCAGCATATATGTAGCAAT
Found at i:50352465 original size:93 final size:93
Alignment explanation
Indices: 50352362--50352901 Score: 929
Period size: 93 Copynumber: 5.8 Consensus size: 93
50352352 TATATGTAGC
* *
50352362 AATTTGGACAGCACT-TATACAAAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATA
1 AATTT-GACAGCA-TGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATA
* **
50352426 TGTAGCAATTTGGAAAGCACTTATTGACAA
64 TGTAGCAATTTGGACAGCACTTATACACAA
* *
50352456 AATTTGACAGCATGTATATACAAAATTGGACAACATTCATTCACCAAAATTGGGCAGCATATATG
1 AATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATG
50352521 TAGCAATTTGGACAGCACTTATACACAA
66 TAGCAATTTGGACAGCACTTATACACAA
*
50352549 AATTGGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATG
1 AATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATG
50352614 TAGCAATTTGGACAGCACTTATACACAA
66 TAGCAATTTGGACAGCACTTATACACAA
* *
50352642 AATTTGACAGCATGTATATACAAAATTGGACAACATTTATTCACCAGAATTGGGCAGCATATATG
1 AATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATG
50352707 TAGCAATTTGGACAGCACTTATACACAA
66 TAGCAATTTGGACAGCACTTATACACAA
*
50352735 AATTTGACAGCATGTATAAACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATG
1 AATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATG
*
50352800 TAGCAATTTGGACAGCACTTATACAAAA
66 TAGCAATTTGGACAGCACTTATACACAA
* *
50352828 AATTGGACAGCATGTATATACAAAATTGGATAGCATTTATTCACCAAAATTGGGCAGCATATATG
1 AATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATG
50352893 TAGCAATTT
66 TAGCAATTT
50352902 TTGACCATTA
Statistics
Matches: 425, Mismatches: 20, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
92 1 0.00
93 419 0.99
94 5 0.01
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.28
Consensus pattern (93 bp):
AATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATG
TAGCAATTTGGACAGCACTTATACACAA
Found at i:50352467 original size:186 final size:186
Alignment explanation
Indices: 50352176--50352894 Score: 842
Period size: 186 Copynumber: 3.9 Consensus size: 186
50352166 TATATGTGGC
* * * *
50352176 AATTTGGACAGCACT-TATACACAAAATTGGACAGCATGTATAT-A-CAAAATTGGACAGCATTT
1 AATTTGGACAGCA-TGTATACAAAAAATTGGACAGCATTTAT-TCACCAAAATTGGGCAGCATAT
* * * ** *
50352238 AT-TCACCAAAATTGGGCAGCA-TATATGTAGC--AATTTGGACAGCACT-TATACACAAAATTG
64 ATGT-AGC-AATTTGGACAGCACT-TATACA-CAAAATTT-GACAGCA-TGTATATACAAAATTG
* * * * **
50352298 GACAGCATGTATAT-A-CAAAATTGGACAACATTTAT-TCACCAAAATTGGGCAGCA-TATATGT
123 GACAACATGTAT-TCACCAAAATTGGACAGCATATATGT-ACC-AAATTGGACAGCACT-TATAC
50352359 AGC-
184 A-CA
50352362 AATTTGGACAGCACT-TATACAAAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATA
1 AATTTGGACAGCA-TGTATACAAAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATA
* **
50352426 TGTAGCAATTTGGAAAGCACTTATTGACAAAATTTGACAGCATGTATATACAAAATTGGACAACA
65 TGTAGCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAACA
* * *
50352491 T-TCATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGGACAGCACTTATACACA
130 TGT-ATTCACCAAAATTGGACAGCATATATGTACCAAATTGGACAGCACTTATACACA
* * *
50352548 AAATTGGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
1 AATTTGGACAGCATGTATACAAAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
50352613 GTAGCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAACAT
66 GTAGCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAACAT
* * * * *
50352678 TTATTCACCAGAATTGGGCAGCATATATGTAGCAATTTGGACAGCACTTATACACAA
131 GTATTCACCAAAATTGGACAGCATATATGTACCAAATTGGACAGCACTTATACAC-A
50352735 AATTT-GACAGCATGTATA-AACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATA
1 AATTTGGACAGCATGTATACAA-AAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATA
* * * *
50352798 TGTAGCAATTTGGACAGCACTTATACAAAAAATTGGACAGCATGTATATACAAAATTGGATAGCA
65 TGTAGCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAACA
* *
50352863 TTTATTCACCAAAATTGGGCAGCATATATGTA
130 TGTATTCACCAAAATTGGACAGCATATATGTA
50352895 GCAATTTTTG
Statistics
Matches: 482, Mismatches: 34, Indels: 34
0.88 0.06 0.06
Matches are distributed among these distances:
185 8 0.02
186 420 0.87
187 52 0.11
188 2 0.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (186 bp):
AATTTGGACAGCATGTATACAAAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
GTAGCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAACAT
GTATTCACCAAAATTGGACAGCATATATGTACCAAATTGGACAGCACTTATACACA
Found at i:50352630 original size:163 final size:163
Alignment explanation
Indices: 50352202--50352650 Score: 612
Period size: 163 Copynumber: 2.8 Consensus size: 163
50352192 ATACACAAAA
*
50352202 TTGGACAGCA-TGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGT
1 TTGGACAGCACT-TATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGT
* *
50352266 AGCAATTTGGACAGCACTTA-TACACAAAATTGGACAGCATGTATATACAAAATTGGACAACATT
65 AGCAATTTGGACAGCACTTATTA-GCAAATTTGGACAGCATGTATATACAAAATTGGACAACATT
*
50352330 TATTCACCAAAATTGGGCAGCATATATGTAGCAAT
129 CATTCACCAAAATTGGGCAGCATATATGTAGCAAT
*
50352365 TTGGACAGCACTTATACAAAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTA
1 TTGGACAGCACTTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTA
*
50352430 GCAATTTGGAAAGCACTTATT-GACAAAATTT-GACAGCATGTATATACAAAATTGGACAACATT
66 GCAATTTGGACAGCACTTATTAG-C-AAATTTGGACAGCATGTATATACAAAATTGGACAACATT
50352493 CATTCACCAAAATTGGGCAGCATATATGTAGCAAT
129 CATTCACCAAAATTGGGCAGCATATATGTAGCAAT
* * *
50352528 TTGGACAGCACTTATACACAAAATTGGACAGCATGTATAT-A-CAAAATTGGACAGCATTTAT-T
1 TTGGACAGCACTTATACACAAAATTGGACAGCATTTAT-TCACCAAAATTGGGCAGCATATATGT
* * * * *
50352590 CACCAAAATTGGGCAGCA-TATATGTAGC-AATTTGGACAGCACT-TATACACAAAATTTGACA
65 -AGC-AATTTGGACAGCACT-TAT-TAGCAAATTTGGACAGCA-TGTATATACAAAATTGGACA
50352651 GCATGTATAT
Statistics
Matches: 258, Mismatches: 16, Indels: 24
0.87 0.05 0.08
Matches are distributed among these distances:
161 1 0.00
162 26 0.10
163 219 0.85
164 11 0.04
165 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (163 bp):
TTGGACAGCACTTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTA
GCAATTTGGACAGCACTTATTAGCAAATTTGGACAGCATGTATATACAAAATTGGACAACATTCA
TTCACCAAAATTGGGCAGCATATATGTAGCAAT
Found at i:50353651 original size:28 final size:28
Alignment explanation
Indices: 50353592--50353689 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
50353582 TTTAATAAGT
* * * *
50353592 TCGCACACTTAGTG-TTCAATAATCAAAT
1 TCGCACACTTAGTGCTT-TACAATTAAAC
* *
50353620 TCGCACACTTAGTGCTTTGCCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
50353648 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
50353676 TCGCACACTTAGTG
1 TCGCACACTTAGTG
50353690 TCGAAAGTCA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
28 59 0.97
29 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:50360093 original size:93 final size:93
Alignment explanation
Indices: 50360011--50360829 Score: 999
Period size: 93 Copynumber: 8.8 Consensus size: 93
50360001 TGTATATACC
* * *
50360011 AATTTGGACAGCACT-TATACACAAAATTTGACAACATTTATAT-A-CAAAATTGGACAGCATTT
1 AATTTGGACAGCA-TGTATACACAAAATTTGACAGCATTTAT-TCACCAAAATTGGGCAGCATAT
* **
50360073 AT-TCACCAAAATTTGG-CAGCA-TATATGTAGC-
64 ATGT-AGC--AATTTGGACAGCACT-TATACA-CA
* * * * *
50360104 AATTTGGACAGCA-GTTATACACAAAATTGGACAGCATGTATAT-A-CAAAATTGGACAACATTT
1 AATTTGGACAGCATG-TATACACAAAATTTGACAGCATTTAT-TCACCAAAATTGGGCAGCATAT
** * * **
50360166 AT-TCCCCAAAATTGGGCAGCA-TATATGTAGC-
64 ATGT-AGC-AATTTGGACAGCACT-TATACA-CA
* *
50360197 AATTTGGACAGCACT-TATACACAAAATTGGACAGCATTTATTCACCAAAATAGGGCAGCATATA
1 AATTTGGACAGCA-TGTATACACAAAATTTGACAGCATTTATTCACCAAAATTGGGCAGCATATA
*
50360261 TGTAGCAATTTGGACAGCACTTATACAGA
65 TGTAGCAATTTGGACAGCACTTATACACA
* *
50360290 AAATTGGACAGCATGTATATACAAAA-TTGAACAGCATTTATTCACCAAAATTGGGCAGCATATA
1 AATTTGGACAGCATGTATACACAAAATTTG-ACAGCATTTATTCACCAAAATTGGGCAGCATATA
50360354 TGTAGCAATTTGGACAGCACTTATACACA
65 TGTAGCAATTTGGACAGCACTTATACACA
* * *
50360383 AAATTGGACAGCATGTATATACAAAATTTGACGGCATTTATTCACCAAAATTGGGCAGCATATAT
1 AATTTGGACAGCATGTATACACAAAATTTGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
50360448 GTAGCAATTTGGACAGCACTTATACACAA
66 GTAGCAATTTGGACAGCACTTATACAC-A
* *
50360477 AATTT-GACAGCATGTATATACAAAATTTGACAGCATTTATTTACCAAAATTGGGCAGCATATAT
1 AATTTGGACAGCATGTATACACAAAATTTGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
50360541 GTAGCAATTTGGACAGCACTTATACACAA
66 GTAGCAATTTGGACAGCACTTATACAC-A
* * *
50360570 AATTT-GACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAACATATAT
1 AATTTGGACAGCATGTATACACAAAATTTGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
50360634 GTAGCAATTTGGACAGCACTTATACACAA
66 GTAGCAATTTGGACAGCACTTATACAC-A
* *
50360663 AATTT-GACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
1 AATTTGGACAGCATGTATACACAAAATTTGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
* *
50360727 TTAGCAATTTGGACAGCACTTATACAAA
66 GTAGCAATTTGGACAGCACTTATACACA
* * * * *
50360755 AAATTGGACAGCATGTATATACAAAATTGGATAGCATTTATTCACCAAAATTGGGTAGCATATAT
1 AATTTGGACAGCATGTATACACAAAATTTGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
50360820 GTAGCAATTT
66 GTAGCAATTT
50360830 TTGACCATTA
Statistics
Matches: 674, Mismatches: 37, Indels: 30
0.91 0.05 0.04
Matches are distributed among these distances:
92 16 0.02
93 631 0.94
94 26 0.04
95 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (93 bp):
AATTTGGACAGCATGTATACACAAAATTTGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
GTAGCAATTTGGACAGCACTTATACACA
Found at i:50360236 original size:163 final size:163
Alignment explanation
Indices: 50360035--50360412 Score: 627
Period size: 163 Copynumber: 2.3 Consensus size: 163
50360025 TTATACACAA
* * *
50360035 AATTT-GACAACATTTATATACAAAATTGGACAGCATTTATTCACCAAAATTTGGCAGCATATAT
1 AATTTGGACAGCACTTATACACAAAATTGGACAGCATTTATTCACCAAAATTTGGCAGCATATAT
* *
50360099 GTAGCAATTTGGACAGCAGTTATACACAAAATTGGACAGCATGTATATACAAAATTGGACAACAT
66 GTAGCAATTTGGACAGCACTTATACACAAAATTGGACAGCATGTATATACAAAATTGAACAACAT
*
50360164 TTATTCCCCAAAATTGGGCAGCATATATGTAGC
131 TTATTCACCAAAATTGGGCAGCATATATGTAGC
**
50360197 AATTTGGACAGCACTTATACACAAAATTGGACAGCATTTATTCACCAAAATAGGGCAGCATATAT
1 AATTTGGACAGCACTTATACACAAAATTGGACAGCATTTATTCACCAAAATTTGGCAGCATATAT
* *
50360262 GTAGCAATTTGGACAGCACTTATACAGAAAATTGGACAGCATGTATATACAAAATTGAACAGCAT
66 GTAGCAATTTGGACAGCACTTATACACAAAATTGGACAGCATGTATATACAAAATTGAACAACAT
50360327 TTATTCACCAAAATTGGGCAGCATATATGTAGC
131 TTATTCACCAAAATTGGGCAGCATATATGTAGC
*
50360360 AATTTGGACAGCACTTATACACAAAATTGGACAGCATGTATAT-A-CAAAATTTG
1 AATTTGGACAGCACTTATACACAAAATTGGACAGCATTTAT-TCACCAAAATTTG
50360413 ACGGCATTTA
Statistics
Matches: 201, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
162 12 0.06
163 188 0.94
164 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (163 bp):
AATTTGGACAGCACTTATACACAAAATTGGACAGCATTTATTCACCAAAATTTGGCAGCATATAT
GTAGCAATTTGGACAGCACTTATACACAAAATTGGACAGCATGTATATACAAAATTGAACAACAT
TTATTCACCAAAATTGGGCAGCATATATGTAGC
Found at i:50360489 original size:163 final size:163
Alignment explanation
Indices: 50360035--50360727 Score: 558
Period size: 163 Copynumber: 4.3 Consensus size: 163
50360025 TTATACACAA
* * * * *
50360035 AATTT-GACAACATTTATATACAAAATTGGACAGCATTTATTCACCAAAATTTGG-CAGCATATA
1 AATTTGGACAGCACTTATACACAAAATTGGACAGCATGTATTCACCAAAA-TAGGACAGCATATA
* * * * * *
50360098 TGTAGCAATTTGGACAGCAGTTATACACAAAATTGGACAGCATGTATATACAAAATTGGACAACA
65 TGTACCAAATTGGACAGCACTTATACAGAAAATTGGACAGCATGTATATACAAAATTTGACAGCA
*
50360163 TTTATTCCCCAAAATTGGGCAGCATATATGTAGC
130 TTTATTCACCAAAATTGGGCAGCATATATGTAGC
* *
50360197 AATTTGGACAGCACTTATACACAAAATTGGACAGCATTTATTCACCAAAATAGGGCAGCATATAT
1 AATTTGGACAGCACTTATACACAAAATTGGACAGCATGTATTCACCAAAATAGGACAGCATATAT
* *
50360262 GTAGCAATTTGGACAGCACTTATACAGAAAATTGGACAGCATGTATATACAAAA-TTGAACAGCA
66 GTACCAAATTGGACAGCACTTATACAGAAAATTGGACAGCATGTATATACAAAATTTG-ACAGCA
50360326 TTTATTCACCAAAATTGGGCAGCATATATGTAGC
130 TTTATTCACCAAAATTGGGCAGCATATATGTAGC
** * *
50360360 AATTTGGACAGCACTTATACACAAAATTGGACAGCATGTATAT-A-CAAAATTTGACGGCATTTA
1 AATTTGGACAGCACTTATACACAAAATTGGACAGCATGTAT-TCACCAAAATAGGACAGCATATA
* ** * * *
50360423 T-TCACCAAAATTGGGCAGCA-TATATGTAGCAATTTGGACAGCACT-TATACACAAAATTTGAC
65 TGT-ACC-AAATTGGACAGCACT-TATACAGAAAATTGGACAGCA-TGTATATACAAAATTTGAC
* * * * * *
50360485 AGCATGTATAT-A-CAAAATTTGACAGCATTTATTTACC
126 AGCATTTAT-TCACCAAAATTGGGCAGCATATATGTAGC
* * ** * * **
50360522 AAAATTGGGCAGCA-TATATGTAGC-AATTTGGACAGCACT-TATACA-CAAAATTTGACAGCAT
1 -AATTTGGACAGCACT-TATACA-CAAAATTGGACAGCA-TGTATTCACCAAAATAGGACAGCAT
* * * * * * * * * *
50360583 GTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAACATATATGTAGC--AATTTGG
62 ATATGTACCAAATTGGACAGCACTTATACA-GAAAATTGGACAGCATGTATATA-CAAAATTT-G
* * * * * *
50360646 ACAGCACTTATACA-CAAAATTTGACAGCATGTATATA-C
124 ACAGCATTTATTCACCAAAATTGGGCAGCATATATGTAGC
* * * * *
50360684 AAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATT
1 -AATTTGGACAGCACTTATACA-CAAAATTGGACAGCATGTATT
50360728 TAGCAATTTG
Statistics
Matches: 446, Mismatches: 60, Indels: 49
0.80 0.11 0.09
Matches are distributed among these distances:
161 1 0.00
162 91 0.20
163 344 0.77
164 10 0.02
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (163 bp):
AATTTGGACAGCACTTATACACAAAATTGGACAGCATGTATTCACCAAAATAGGACAGCATATAT
GTACCAAATTGGACAGCACTTATACAGAAAATTGGACAGCATGTATATACAAAATTTGACAGCAT
TTATTCACCAAAATTGGGCAGCATATATGTAGC
Found at i:50361579 original size:28 final size:28
Alignment explanation
Indices: 50361520--50361645 Score: 164
Period size: 28 Copynumber: 4.5 Consensus size: 28
50361510 TTTAATAAGT
* * * *
50361520 TCGCACACTTAGTG-TTCAATAATCAAAG
1 TCGCACACTTAGTGCTT-TACAATTAAAC
* *
50361548 TCGCACACTTAGTGCTTTGCCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
50361576 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
50361604 TCGCACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
50361632 TCGCACACGTAGTG
1 TCGCACACTTAGTG
50361646 TCGAAAGTCA
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
28 85 0.98
29 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:50363142 original size:38 final size:38
Alignment explanation
Indices: 50363100--50363330 Score: 170
Period size: 38 Copynumber: 5.8 Consensus size: 38
50363090 AGAAGGAGAG
50363100 GGAAAGAAGAAGAAAGAAAGAAAGAAAAGGAAAGAAAA
1 GGAAAGAAGAAGAAAGAAAGAAAGAAAAGGAAAGAAAA
* * *
50363138 GGAAAGGAGAGGAAAGAAAGAAA-AAGAAGGAAAGGAAA
1 GGAAAGAAGAAGAAAGAAAGAAAGAA-AAGGAAAGAAAA
50363176 GGAAATGAGAGGAGAGGAAAGAAAGAAA-AAGAAGGAAAGAAAA
1 GGAAA-GA-A-GA-A-GAAAGAAAGAAAGAA-AAGGAAAGAAAA
*
50363219 GGAAAGGAGAAGAAGAAA-AAAGAAAGAAAAAGCAGGAAAG-ATA
1 GG-AA--AGAAGAAGAAAGAAAGAAAG--AAA--AGGAAAGAAAA
* * * *
50363262 GGAAAGGAGAAGAGAA-AAAAAAAG-AAAGAAGAAGAAGAG
1 GGAAAGAAGAAGA-AAGAAAGAAAGAAAAGGA-AAGAA-AA
*
50363301 GGAAGGAAGGAA-AAAGAAAGAAAGAAAAGG
1 GGAAAGAA-GAAGAAAGAAAGAAAGAAAAGG
50363331 TAATTTTTTT
Statistics
Matches: 156, Mismatches: 16, Indels: 40
0.74 0.08 0.19
Matches are distributed among these distances:
36 3 0.02
37 5 0.03
38 42 0.27
39 15 0.10
40 23 0.15
41 15 0.10
42 4 0.03
43 36 0.23
44 10 0.06
45 2 0.01
46 1 0.01
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.01
Consensus pattern (38 bp):
GGAAAGAAGAAGAAAGAAAGAAAGAAAAGGAAAGAAAA
Found at i:50363189 original size:43 final size:43
Alignment explanation
Indices: 50363092--50363308 Score: 217
Period size: 43 Copynumber: 5.0 Consensus size: 43
50363082 GGGGGAAGAG
* * * *
50363092 AAGGAGAGGGAAAGAAGAAGAAAGAAAGA-AAGAAAAGGAAAGAA
1 AAGGAGA-GGAGAGAA-AAGAAAGAAAAAGAAGGAAAGGAAAGGA
* *
50363136 AAGGAAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGGAAAGGA
1 AAGGAGAGGAGAGAAAAGAAAGAAAAAGAAGGAAAGGAAAGGA
* * *
50363179 AATGAGAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGA
1 AAGGAGAGGAGAGAAAAGAAAGAAAAAGAAGGAAAGGAAAGGA
* * * *
50363222 AAGGAGAAGAAGAAAAAAGAAAGAAAAAGCAGGAAA-GATAGGA
1 AAGGAG-AGGAGAGAAAAGAAAGAAAAAGAAGGAAAGGAAAGGA
* * *
50363265 AAGGAGAAGAGA-AAAAAAAAGAAAGAAGAA-GAAGAGGGAAGGA
1 AAGGAGAGGAGAGAAAAGAAAGAAA-AAGAAGGAA-AGGAAAGGA
50363308 A
1 A
50363309 GGAAAAAGAA
Statistics
Matches: 146, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
41 14 0.10
42 20 0.14
43 81 0.55
44 31 0.21
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (43 bp):
AAGGAGAGGAGAGAAAAGAAAGAAAAAGAAGGAAAGGAAAGGA
Found at i:50363294 original size:48 final size:47
Alignment explanation
Indices: 50363109--50363232 Score: 67
Period size: 48 Copynumber: 2.6 Consensus size: 47
50363099 GGGAAAGAAG
* *
50363109 AAGAAAGAAAGAAAGAA-AAGGAAAGAAAAGGAAAGGAGAGGAAAGAAAG
1 AAGAAAG-AAGAAA-AAGAAGGAAAGAAAAGGAAAGGAGAAGAAA-AAAA
* * * * *
50363158 AA-AAAGAAGGAAAGGAAAGGAAATG-AGAGGAGAGGA-AAGAAAGAAA
1 AAGAAAGAAGAAAAAG-AAGGAAA-GAAAAGGAAAGGAGAAGAAAAAAA
* *
50363204 AAGAAGGAAAGAAAAGGAAAGGAGAAGAA
1 AAGAAAG-AAGAAAAAG-AAGGA-AAGAA
50363233 GAAAAAAGAA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
46 5 0.08
47 13 0.22
48 35 0.59
49 6 0.10
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (47 bp):
AAGAAAGAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAA
Found at i:50363323 original size:10 final size:10
Alignment explanation
Indices: 50363101--50363323 Score: 73
Period size: 10 Copynumber: 21.8 Consensus size: 10
50363091 GAAGGAGAGG
*
50363101 GAAAGAAGAA
1 GAAAGAAAAA
50363111 GAAAG--AAA
1 GAAAGAAAAA
*
50363119 GAAAGAAAAG
1 GAAAGAAAAA
*
50363129 GAAAGAAAAG
1 GAAAGAAAAA
50363139 GAAAGGAGAGGAAA
1 GAAA-GA-A--AAA
50363153 GAAAGAAAAA
1 GAAAGAAAAA
* *
50363163 G-AAGGAAAG
1 GAAAGAAAAA
* *
50363172 GAAAGGAAAT
1 GAAAGAAAAA
* * * *
50363182 GAGAGGAGAG
1 GAAAGAAAAA
50363192 GAAAG--AAA
1 GAAAGAAAAA
*
50363200 GAAA-AAGAAG
1 GAAAGAA-AAA
*
50363210 GAAAGAAAAG
1 GAAAGAAAAA
* *
50363220 GAAAGGAGAA
1 GAAAGAAAAA
50363230 G-AAGAAAAAA
1 GAAAG-AAAAA
50363240 GAAAGAAAAA
1 GAAAGAAAAA
* *
50363250 GCAGGAAAGATA
1 GAAAGAAA-A-A
*
50363262 GGAAAGGAGAAGA
1 -GAAA-GA-AAAA
*
50363275 GAAAAAAAAA
1 GAAAGAAAAA
*
50363285 GAAAGAAGAA
1 GAAAGAAAAA
** *
50363295 GAAGAGGGAAG
1 GAA-AGAAAAA
*
50363306 GAAGGAAAAA
1 GAAAGAAAAA
50363316 GAAAGAAA
1 GAAAGAAA
50363324 GAAAAGGTAA
Statistics
Matches: 158, Mismatches: 36, Indels: 38
0.68 0.16 0.16
Matches are distributed among these distances:
8 12 0.08
9 10 0.06
10 99 0.63
11 15 0.09
12 7 0.04
13 5 0.03
14 8 0.05
15 2 0.01
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (10 bp):
GAAAGAAAAA
Found at i:50363841 original size:158 final size:152
Alignment explanation
Indices: 50363659--50364421 Score: 704
Period size: 158 Copynumber: 4.9 Consensus size: 152
50363649 TATTTAATAA
50363659 ATTTCAAACATAATGCACTGAAATAATGTAAAACTATAAAATTAGAAATTATGATATTTTTTAAA
1 ATTTCAAACATAATGCACTGAAATAATGTAAAA-TATAAAATTAGAAATTATGATATTTTTTAAA
* * *
50363724 ATAATAAAATGCGGAGAAAAAAATACGAATAAATGGCCGAAGTAAGAGTGTTTTACTAAATTTTT
65 GTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTTTTTTACTAAATTTTT
*
50363789 TAAAAATTCAGAAATAATTAAGACAAAT
130 TAAAAA-ACA-AAATAATT-A-A-AAAT
* * * * *
50363817 ATTTCAAACAAAATGTACTAAAATAATATAAAATAATAAAA-TATGAAAATAAT-ATATTTTTAT
1 ATTTCAAACATAATGCACTGAAATAATGTAAAAT-ATAAAATTA-G-AAATTATGATA-TTTT-T
* * * * * *
50363880 TGAAAGTAATAAAATTCGG-GAAAATAATACGAGCAAAGGGCAGGAA-TAAGGGCTTTTTTACAC
61 T-AAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGC-CGAAGTAAGAG-TTTTTT--AC
* * * *
50363943 TAAATTAATTTAAAAAACACATTAAATTAATAA-
121 TAAATT-TTTTAAAAAACAAAAT-AATTAAAAAT
* *
50363976 ATTTCAAACATAATGCACTGAAATAAAGTAAAATTATAAAATTATAAATTATGATATTTTTTAAA
1 ATTTCAAACATAATGCACTGAAATAATGTAAAA-TATAAAATTAGAAATTATGATATTTTTTAAA
* * ** *
50364041 ATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGGAGTAAGAGCGTTTTACTAAAGTTTT
65 GTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTTTTTTACTAAATTTTT
*
50364106 TAAAAATTCAGAAATAATTAATACAAAT
130 TAAAAA-ACA-AAATAATT-A-A-AAAT
* * * * *
50364134 ATTTCAAATAAAATGTACTGAAATAATATAAAATAATAAAA-TACGAAAATAAT-ATATTTTTAG
1 ATTTCAAACATAATGCACTGAAATAATGTAAAAT-ATAAAATTA-G-AAATTATGATATTTTT--
* * * * * * *
50364197 TGAAAGTAATAAAATTC-GAGAAAATAATATGAGCAAAGGGCAGGAA-TAAGGGTTTTTTTTACA
61 T-AAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGC-CGAAGTAAGAG--TTTTTT--A
* ** *
50364260 CTAAATTAATTTAAAAAACACTA-AATTAATAAT
120 CTAAATT-TTTTAAAAAACAAAATAATTAAAAAT
50364293 -TTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTAAA
1 ATTTCAAACATAATGCACTGAAATAATGTAAAA-TATAAAATTAGAAATTATGATATTTTTTAAA
* *
50364357 GTAATAAAATGCGGAG-AAAAAATACGAACAAATAGCCGAAGTAAGAGTTTTTTACTAACTTTTT
65 GTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTTTTTTACTAAATTTTT
50364421 T
130 T
50364422 TCAACTTGCA
Statistics
Matches: 484, Mismatches: 81, Indels: 88
0.74 0.12 0.13
Matches are distributed among these distances:
150 3 0.01
151 7 0.01
153 14 0.03
154 16 0.03
155 37 0.08
156 26 0.05
157 40 0.08
158 134 0.28
159 59 0.12
160 57 0.12
161 40 0.08
162 11 0.02
163 15 0.03
164 17 0.04
165 8 0.02
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.31
Consensus pattern (152 bp):
ATTTCAAACATAATGCACTGAAATAATGTAAAATATAAAATTAGAAATTATGATATTTTTTAAAG
TAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTTTTTTACTAAATTTTTT
AAAAAACAAAATAATTAAAAAT
Found at i:50363867 original size:16 final size:15
Alignment explanation
Indices: 50363841--50363870 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
50363831 GTACTAAAAT
50363841 AATATAAAATAATAA
1 AATATAAAATAATAA
50363856 AATATGAAAATAATA
1 AATAT-AAAATAATA
50363871 TATTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AATATAAAATAATAA
Found at i:50364233 original size:317 final size:316
Alignment explanation
Indices: 50363652--50364414 Score: 1323
Period size: 317 Copynumber: 2.4 Consensus size: 316
50363642 AATGGTATAT
*
50363652 TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAACTATAAAATTAGAAATTATGATATT
1 TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATT
*
50363717 TTTTAAAATAATAAAATGCGGAGAAAAAAATACGAATAAATGGCCGAAGTAAGAGTGTTTTACTA
66 TTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTA
*
50363782 AATTTTTTAAAAATTCAGAAATAATTAAGACAAATATTTCAAACAAAATGTACTAAAATAATATA
131 AAGTTTTTAAAAATTCAGAAATAATTAAGACAAATATTTCAAACAAAATGTACTAAAATAATATA
* * *
50363847 AAATAATAAAATATGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATACGA
196 AAATAATAAAATACGAAAATAATATATTTTTAGTGAAAGTAATAAAATTCGAGAAAATAATACGA
50363912 GCAAAGGGCAGGAATAAGGG-CTTTTTTACACTAAATTAATTTAAAAAACACATTAAA
261 GCAAAGGGCAGGAATAAGGGTCTTTTTTACACTAAATTAATTTAAAAAACAC--TAAA
* *
50363969 TTAATAAATTTCAAACATAATGCACTGAAATAAAGTAAAATTATAAAATTATAAATTATGATATT
1 TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATT
* *
50364034 TTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGGAGTAAGAGCGTTTTACTA
66 TTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTA
* * *
50364099 AAGTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAATAAAATGTACTGAAATAATATA
131 AAGTTTTTAAAAATTCAGAAATAATTAAGACAAATATTTCAAACAAAATGTACTAAAATAATATA
*
50364164 AAATAATAAAATACGAAAATAATATATTTTTAGTGAAAGTAATAAAATTCGAGAAAATAATATGA
196 AAATAATAAAATACGAAAATAATATATTTTTAGTGAAAGTAATAAAATTCGAGAAAATAATACGA
*
50364229 GCAAAGGGCAGGAATAAGGGTTTTTTTTACACTAAATTAATTTAAAAAACACTAAA
261 GCAAAGGGCAGGAATAAGGGTCTTTTTTACACTAAATTAATTTAAAAAACACTAAA
*
50364285 TTAATAATTTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATT
1 TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATT
* * *
50364350 TTTTAAAGTAATAAAATGCGGAG-AAAAAATACGAACAAATAGCCGAAGTAAGAGTTTTTTACTA
66 TTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTA
50364414 A
131 A
50364415 CTTTTTTTCA
Statistics
Matches: 422, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
315 38 0.09
316 88 0.21
317 266 0.63
318 30 0.07
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (316 bp):
TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATT
TTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTA
AAGTTTTTAAAAATTCAGAAATAATTAAGACAAATATTTCAAACAAAATGTACTAAAATAATATA
AAATAATAAAATACGAAAATAATATATTTTTAGTGAAAGTAATAAAATTCGAGAAAATAATACGA
GCAAAGGGCAGGAATAAGGGTCTTTTTTACACTAAATTAATTTAAAAAACACTAAA
Found at i:50374735 original size:29 final size:29
Alignment explanation
Indices: 50374702--50374764 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
50374692 AATTTGTGAG
* *
50374702 AATTAAATC-AAATCAAAATTGATGTATAA
1 AATTAAA-CAAAATCAAAACTCATGTATAA
* *
50374731 AATTACACAAAATCAAAGCTCATGTATAA
1 AATTAAACAAAATCAAAACTCATGTATAA
50374760 AATTA
1 AATTA
50374765 CACATTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 1 0.03
29 28 0.97
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (29 bp):
AATTAAACAAAATCAAAACTCATGTATAA
Found at i:50378727 original size:3 final size:3
Alignment explanation
Indices: 50378719--50378748 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
50378709 GCGTATGTAA
50378719 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
50378749 AAAATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:50384866 original size:46 final size:46
Alignment explanation
Indices: 50384796--50384972 Score: 246
Period size: 46 Copynumber: 3.8 Consensus size: 46
50384786 ACAATGCTAT
* * *
50384796 AACTCAGTATAGTTTTCTTCACTGAAATATCATACCTACTTTTCAG
1 AACTCAGTATAGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
* * ** * *
50384842 AACTCAGTATGGTTTTCGTTACTGAAATGTCATATCTACTTCTCAC
1 AACTCAGTATAGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
50384888 AACTCAGTATAGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATAGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
* * *
50384934 AACTCAGTATGGTTCTCTTTACTAAAATACCATACCTAC
1 AACTCAGTATAGTTTTCTTTACTGAAATACCATACCTAC
50384973 ATTCCACACT
Statistics
Matches: 115, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 115 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (46 bp):
AACTCAGTATAGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
Found at i:50390477 original size:21 final size:23
Alignment explanation
Indices: 50390433--50390477 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
50390423 GTTTCTAGCT
50390433 AGCCTCCAGCGCCGTAGCCAACAGG
1 AGCCTCCAGCGCC--AGCCAACAGG
50390458 AGCCTCCAGCGCC-G-CAACAG
1 AGCCTCCAGCGCCAGCCAACAG
50390478 TGGTGTCCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.30
22 1 0.05
25 13 0.65
ACGTcount: A:0.24, C:0.42, G:0.27, T:0.07
Consensus pattern (23 bp):
AGCCTCCAGCGCCAGCCAACAGG
Found at i:50393513 original size:3 final size:3
Alignment explanation
Indices: 50393505--50393536 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
50393495 ACTATTTACC
50393505 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
50393537 AATCCTTTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:50399153 original size:32 final size:32
Alignment explanation
Indices: 50399112--50399175 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
50399102 CTCAAGGCTA
50399112 CTAATGTAACGACCCGATAGTTAGGGGTCTAT
1 CTAATGTAACGACCCGATAGTTAGGGGTCTAT
50399144 CTAATGTAACGACCCGATAGTTAGGGGTCTAT
1 CTAATGTAACGACCCGATAGTTAGGGGTCTAT
50399176 TTTTGTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (32 bp):
CTAATGTAACGACCCGATAGTTAGGGGTCTAT
Found at i:50400277 original size:25 final size:25
Alignment explanation
Indices: 50400229--50400277 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
50400219 CATAATTGAA
* * *
50400229 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
50400254 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
50400278 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:50400737 original size:43 final size:43
Alignment explanation
Indices: 50400673--50400758 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
50400663 TCTGTGATTG
* *
50400673 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAA
1 ATATTAAAATGGAAAAGATGAGAAATGAATATGAGATGAGAAA
* *
50400716 ATATTAAAATGGAAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTAAAATGGAAAAGATGAGAAATGAATATGAGATGAGAAA
50400759 TGAAATATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.52, C:0.01, G:0.23, T:0.23
Consensus pattern (43 bp):
ATATTAAAATGGAAAAGATGAGAAATGAATATGAGATGAGAAA
Found at i:50407822 original size:13 final size:13
Alignment explanation
Indices: 50407804--50407851 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
50407794 TTAGCAATGC
50407804 TTTGAAAAGTGCT
1 TTTGAAAAGTGCT
*
50407817 TTTGAAAACTG-T
1 TTTGAAAAGTGCT
*
50407829 TGTGGAAAAGTGCT
1 T-TTGAAAAGTGCT
50407843 TTTGAAAAG
1 TTTGAAAAG
50407852 GTTGGTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 2 0.07
13 25 0.86
14 2 0.07
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.35
Consensus pattern (13 bp):
TTTGAAAAGTGCT
Found at i:50407863 original size:26 final size:26
Alignment explanation
Indices: 50407807--50407855 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
50407797 GCAATGCTTT
*
50407807 GAAAAGTGCTTTTGAAAACTGTTGTG
1 GAAAAGTGCTTTTGAAAACGGTTGTG
50407833 GAAAAGTGCTTTTGAAAA-GGTTG
1 GAAAAGTGCTTTTGAAAACGGTTG
50407856 GTTTAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.33
Consensus pattern (26 bp):
GAAAAGTGCTTTTGAAAACGGTTGTG
Found at i:50410858 original size:95 final size:95
Alignment explanation
Indices: 50410697--50411088 Score: 428
Period size: 95 Copynumber: 4.1 Consensus size: 95
50410687 ACTCGAATAG
* * * *** * * *
50410697 GATTGTTGATGATAATAAACCAAATGAATTTAGGCTATGATATTAGATCAGCGA-ACATATTAGA
1 GATTGTTCATGATAATAAATCAAATGAACTTAGGCTGCAATATTAAATCAGCGAGTCAT-TTGGA
* * * *
50410761 GCAACGATATTAAATCATCTAACTCGGATAG
65 GCAACGATATTAAATCAGCTAACTCAGAGAA
* * **
50410792 GATTGTTCATGAGAATAAATCAAATGAACTTAGGCTGCAATCTTAAATCAGCGACCCATTTGGAG
1 GATTGTTCATGATAATAAATCAAATGAACTTAGGCTGCAATATTAAATCAGCGAGTCATTTGGAG
*
50410857 CAACGATATTAAGTCAGCTAACTCAGAGAA
66 CAACGATATTAAATCAGCTAACTCAGAGAA
** *
50410887 GATTGTTCATGATAATAAATCAAATGAACTTA-GCTTGCAATCCTAAATTAGCGAGTCATTTGGA
1 GATTGTTCATGATAATAAATCAAATGAACTTAGGC-TGCAATATTAAATCAGCGAGTCATTTGGA
**
50410951 GCAGTGATATTAAATCAGCTAACTCAGAGAA
65 GCAACGATATTAAATCAGCTAACTCAGAGAA
* * * * * * * *
50410982 AATCGATCATGATAGTAAATCAAATGAGCTTAGGTTGCGATATTAAATCAGGGAGTCATTTGGAG
1 GATTGTTCATGATAATAAATCAAATGAACTTAGGCTGCAATATTAAATCAGCGAGTCATTTGGAG
* * * *
50411047 TAGCGATATTAAATCATCTAACTCAAAGAA
66 CAACGATATTAAATCAGCTAACTCAGAGAA
*
50411077 GATTTTTCATGA
1 GATTGTTCATGA
50411089 CAAATAAACT
Statistics
Matches: 251, Mismatches: 43, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
94 2 0.01
95 245 0.98
96 4 0.02
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (95 bp):
GATTGTTCATGATAATAAATCAAATGAACTTAGGCTGCAATATTAAATCAGCGAGTCATTTGGAG
CAACGATATTAAATCAGCTAACTCAGAGAA
Found at i:50412932 original size:14 final size:14
Alignment explanation
Indices: 50412913--50412940 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
50412903 AAAAGTTATA
50412913 TTTAATAATTCATT
1 TTTAATAATTCATT
50412927 TTTAATAATTCATT
1 TTTAATAATTCATT
50412941 AATAAATTGA
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:50419241 original size:17 final size:17
Alignment explanation
Indices: 50419203--50419241 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
50419193 TTTGCAATAA
* *
50419203 AAAAAGAAATTATATAC
1 AAAAAGAAATTAAAAAC
*
50419220 CAAAAGAAATTAAAAAC
1 AAAAAGAAATTAAAAAC
50419237 AAAAA
1 AAAAA
50419242 AACAAAATCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (17 bp):
AAAAAGAAATTAAAAAC
Found at i:50423325 original size:16 final size:15
Alignment explanation
Indices: 50423302--50423331 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
50423292 ATGAAAACAG
50423302 AAAGGAAAGAAAGAA
1 AAAGGAAAGAAAGAA
50423317 AAAGAGAAAGAAAGA
1 AAAG-GAAAGAAAGA
50423332 TACAAGGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
AAAGGAAAGAAAGAA
Found at i:50424035 original size:15 final size:15
Alignment explanation
Indices: 50424015--50424067 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 15
50424005 GATTGAATTG
50424015 ATATATATATTATGA
1 ATATATATATTATGA
50424030 ATATAT-TGATTATGA
1 ATATATAT-ATTATGA
*
50424045 ATTGATATATATAATGA
1 A-T-ATATATATTATGA
50424062 ATATAT
1 ATATAT
50424068 TGATTATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
14 1 0.03
15 18 0.55
16 2 0.06
17 11 0.33
18 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (15 bp):
ATATATATATTATGA
Found at i:50424062 original size:32 final size:34
Alignment explanation
Indices: 50424006--50424097 Score: 125
Period size: 34 Copynumber: 2.6 Consensus size: 34
50423996 GATTGAATGG
50424006 ATTGAATTGATATATATATTATGAATATATTGATT
1 ATTGAATTGATATATATA-TATGAATATATTGATT
50424041 A-TGAATTGATATATATA-ATGAATATATTGATT
1 ATTGAATTGATATATATATATGAATATATTGATT
*
50424073 ATTTGAATTGAAATGAATATATATG
1 A-TTGAATTGATAT--ATATATATG
50424098 TGCAAATATG
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
32 16 0.31
34 26 0.51
35 1 0.02
36 5 0.10
37 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (34 bp):
ATTGAATTGATATATATATATGAATATATTGATT
Found at i:50427837 original size:41 final size:40
Alignment explanation
Indices: 50427780--50427888 Score: 127
Period size: 41 Copynumber: 2.8 Consensus size: 40
50427770 CAACTTTGAG
50427780 TCGATGAGACACTGGGTGTCAATTTACTACTGCGGATTAAT
1 TCGATGAGACACTGGGTGTCAATTTACTACT-CGGATTAAT
* *
50427821 TCGATGAGGCACTGGGTGCCAATTTACT--TC-GATTTAA-
1 TCGATGAGACACTGGGTGTCAATTTACTACTCGGA-TTAAT
* * *
50427858 TCGATGATACACTGGGTGTCAAATTATTACT
1 TCGATGAGACACTGGGTGTCAATTTACTACT
50427889 TCGAATTATC
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
37 25 0.43
38 5 0.09
39 2 0.03
41 26 0.45
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTCAATTTACTACTCGGATTAAT
Found at i:50432613 original size:43 final size:43
Alignment explanation
Indices: 50432523--50432630 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 43
50432513 TGTAATTACG
* * ****
50432523 TGTAAGACCAT-GTATGGGACATTGGCATCATTATGTGATTTTG
1 TGTAAGACCATAG-CTGGGATATTGGCATCATTATGTGATAACA
50432566 TGTAAGACCATAGCTGGGATATTGGCATCGA-TATGTGATAACA
1 TGTAAGACCATAGCTGGGATATTGGCATC-ATTATGTGATAACA
*
50432609 TGTAAGACCATATCTGGGATAT
1 TGTAAGACCATAGCTGGGATAT
50432631 GGAATTGTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
43 54 0.96
44 2 0.04
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATAGCTGGGATATTGGCATCATTATGTGATAACA
Found at i:50432627 original size:86 final size:88
Alignment explanation
Indices: 50432437--50432632 Score: 206
Period size: 86 Copynumber: 2.3 Consensus size: 88
50432427 TGATTTCGTA
* *
50432437 TAAGACCATAGCTGGG-CTATGGCATCGATATATGAGACTTTGTGTAAAACCATATCTAGGATAT
1 TAAGACCATATCTGGGACTATGGCATCGATATATGAGACTTTGTGTAAAACCATAGCTAGGATAT
* * * *
50432501 GTCATTGATATATGTAATTACGTG
66 GGCATCGA-ATATGTAATAACATG
* * * * * *
50432525 TAAGACCATGTATGGGAC-ATTGGCATC-AT-TATGTGATTTTGTGTAAGACCATAGCTGGGATA
1 TAAGACCATATCTGGGACTA-TGGCATCGATATATGAGACTTTGTGTAAAACCATAGCTAGGATA
*
50432587 TTGGCATCG-ATATGTGATAACATG
65 -TGGCATCGAATATGTAATAACATG
50432611 TAAGACCATATCTGGGA-TATGG
1 TAAGACCATATCTGGGACTATGG
50432633 AATTGTATGT
Statistics
Matches: 89, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
85 3 0.03
86 28 0.31
87 28 0.31
88 22 0.25
89 8 0.09
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (88 bp):
TAAGACCATATCTGGGACTATGGCATCGATATATGAGACTTTGTGTAAAACCATAGCTAGGATAT
GGCATCGAATATGTAATAACATG
Found at i:50433183 original size:16 final size:16
Alignment explanation
Indices: 50433156--50433192 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
50433146 CTTGATGCAA
50433156 TTATTTGTAATAT-AG
1 TTATTTGTAATATGAG
50433171 TTATTTAGTAATATGAG
1 TTATTT-GTAATATGAG
50433188 TTATT
1 TTATT
50433193 ATATTACGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.30
16 7 0.35
17 7 0.35
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (16 bp):
TTATTTGTAATATGAG
Found at i:50435148 original size:3 final size:3
Alignment explanation
Indices: 50435140--50435166 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
50435130 ATTATATTCC
50435140 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
50435167 TGAATTATGG
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):
ATT
Found at i:50440568 original size:3 final size:3
Alignment explanation
Indices: 50440539--50440599 Score: 54
Period size: 3 Copynumber: 20.3 Consensus size: 3
50440529 AAATAGATAT
* * * *
50440539 TTA TTG TTA TAA TTA TTAA TTA CTA TTA TTA TT- TATA TTA TTA TTT
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA T-TA TTA TTA TTA
50440585 TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA T
50440600 AGAATATTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
2 3 0.07
3 39 0.85
4 4 0.09
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:50440579 original size:12 final size:12
Alignment explanation
Indices: 50440545--50440686 Score: 76
Period size: 12 Copynumber: 11.4 Consensus size: 12
50440535 ATATTTATTG
*
50440545 TTATAATTATTAA
1 TTAT-ATTATTAT
50440558 TTACTATTATTAT
1 TTA-TATTATTAT
50440571 TTATATTATTAT
1 TTATATTATTAT
*
50440583 TTTTATTATTAT
1 TTATATTATTAT
* *
50440595 ATTATA-GAATAT
1 -TTATATTATTAT
*
50440607 TT-T-TTATGAAAT
1 TTATATTAT--TAT
** *
50440619 AGATATTTATT-G
1 TTATA-TTATTAT
*
50440631 TTATAATTATTAA
1 TTAT-ATTATTAT
*
50440644 TTACTATTATTGT
1 TTA-TATTATTAT
50440657 TTATATTATTAT
1 TTATATTATTAT
*
50440669 TTTTATTATTAT
1 TTATATTATTAT
50440681 ATTATA
1 -TTATA
50440687 GAATAAATTA
Statistics
Matches: 97, Mismatches: 20, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
10 2 0.02
11 2 0.02
12 52 0.54
13 35 0.36
14 2 0.02
15 4 0.04
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (12 bp):
TTATATTATTAT
Found at i:50440662 original size:86 final size:86
Alignment explanation
Indices: 50440517--50440691 Score: 341
Period size: 86 Copynumber: 2.0 Consensus size: 86
50440507 TGTAATACAT
50440517 ATATTTTTTATGAAATAGATATTTATTGTTATAATTATTAATTACTATTATTATTTATATTATTA
1 ATATTTTTTATGAAATAGATATTTATTGTTATAATTATTAATTACTATTATTATTTATATTATTA
50440582 TTTTTATTATTATATTATAGA
66 TTTTTATTATTATATTATAGA
*
50440603 ATATTTTTTATGAAATAGATATTTATTGTTATAATTATTAATTACTATTATTGTTTATATTATTA
1 ATATTTTTTATGAAATAGATATTTATTGTTATAATTATTAATTACTATTATTATTTATATTATTA
50440668 TTTTTATTATTATATTATAGA
66 TTTTTATTATTATATTATAGA
50440689 ATA
1 ATA
50440692 AATTAAGAAA
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 88 1.00
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (86 bp):
ATATTTTTTATGAAATAGATATTTATTGTTATAATTATTAATTACTATTATTATTTATATTATTA
TTTTTATTATTATATTATAGA
Found at i:50440668 original size:15 final size:15
Alignment explanation
Indices: 50440624--50440680 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
50440614 GAAATAGATA
* *
50440624 TTTATTGTTATAATT
1 TTTATTATTATTATT
* *
50440639 ATTAATTACTATTATT
1 -TTTATTATTATTATT
50440655 GTTTA-TATTATTATT
1 -TTTATTATTATTATT
50440670 TTTATTATTAT
1 TTTATTATTAT
50440681 ATTATAGAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
14 4 0.12
15 15 0.45
16 14 0.42
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (15 bp):
TTTATTATTATTATT
Found at i:50444622 original size:23 final size:23
Alignment explanation
Indices: 50444556--50444624 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
50444546 GGCTTTGCCG
*
50444556 ATCAGGCACTTTATGTGTCGCAT
1 ATCAGGCACTTTATGTGTCGTAT
50444579 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* * * *
50444602 TTTAGGCACCTCATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
50444625 CAAGCACCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:50444633 original size:21 final size:21
Alignment explanation
Indices: 50444607--50444665 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
50444597 CGTATTTTAG
50444607 GCACCTCATGTGTCGTATCAA
1 GCACCTCATGTGTCGTATCAA
* *
50444628 GCACCTCGTGTGTCGTTTCAA
1 GCACCTCATGTGTCGTATCAA
* *
50444649 ACA-CTTATGTGTCGTAT
1 GCACCTCATGTGTCGTAT
50444666 ATTCATTAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 11 0.34
21 21 0.66
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (21 bp):
GCACCTCATGTGTCGTATCAA
Found at i:50449809 original size:25 final size:25
Alignment explanation
Indices: 50449781--50449935 Score: 104
Period size: 24 Copynumber: 6.2 Consensus size: 25
50449771 ATCCAGGCAA
*
50449781 TATAATGGGAAGCTCACAAAGAGCC
1 TATAACGGGAAGCTCACAAAGAGCC
* * *
50449806 TATAACAGGTAGCTC-CGAAGAGCAC
1 TATAACGGGAAGCTCACAAAGAGC-C
* * * *
50449831 T-TAACGGGTAGCAC-CGAATAGCC
1 TATAACGGGAAGCTCACAAAGAGCC
* * **
50449854 ATATAATGGGAAGTTCA-AGCGAG-C
1 -TATAACGGGAAGCTCACAAAGAGCC
* *
50449878 AATAACGGGAAGCTCACAAAAAGCC
1 TATAACGGGAAGCTCACAAAGAGCC
*
50449903 TTTAATCGGGAAGCTCACAAAGAGCC
1 TATAA-CGGGAAGCTCACAAAGAGCC
50449929 GTATAAC
1 -TATAAC
50449936 AAGACGCTCA
Statistics
Matches: 97, Mismatches: 25, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
23 14 0.14
24 30 0.31
25 29 0.30
26 20 0.21
27 4 0.04
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (25 bp):
TATAACGGGAAGCTCACAAAGAGCC
Found at i:50452319 original size:15 final size:15
Alignment explanation
Indices: 50452299--50452351 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 15
50452289 GATTGAATTG
50452299 ATATATATATTATGA
1 ATATATATATTATGA
50452314 ATATAT-TGATTATGA
1 ATATATAT-ATTATGA
*
50452329 ATTGATATATATAATGA
1 A-T-ATATATATTATGA
50452346 ATATAT
1 ATATAT
50452352 TGATTATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
14 1 0.03
15 18 0.55
16 2 0.06
17 11 0.33
18 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (15 bp):
ATATATATATTATGA
Found at i:50452346 original size:32 final size:34
Alignment explanation
Indices: 50452290--50452381 Score: 125
Period size: 34 Copynumber: 2.6 Consensus size: 34
50452280 GATTGAATGG
50452290 ATTGAATTGATATATATATTATGAATATATTGATT
1 ATTGAATTGATATATATA-TATGAATATATTGATT
50452325 A-TGAATTGATATATATA-ATGAATATATTGATT
1 ATTGAATTGATATATATATATGAATATATTGATT
*
50452357 ATTTGAATTGAAATGAATATATATG
1 A-TTGAATTGATAT--ATATATATG
50452382 TGCAAATATG
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
32 16 0.31
34 26 0.51
35 1 0.02
36 5 0.10
37 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (34 bp):
ATTGAATTGATATATATATATGAATATATTGATT
Found at i:50454933 original size:25 final size:26
Alignment explanation
Indices: 50454862--50454933 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
50454852 AATTTTCTTG
* * *
50454862 AAATTTTAGCGGGGGTAAAATCATCA
1 AAATTTTACCGAGAGTAAAATCATCA
* *
50454888 AAATTTTACCGAGAGTAAAATCGTTA
1 AAATTTTACCGAGAGTAAAATCATCA
*
50454914 AAATTTTA-CTAGAGTAAAAT
1 AAATTTTACCGAGAGTAAAAT
50454934 TGAGATAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
25 11 0.28
26 29 0.73
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.31
Consensus pattern (26 bp):
AAATTTTACCGAGAGTAAAATCATCA
Found at i:50471038 original size:21 final size:22
Alignment explanation
Indices: 50471005--50471053 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
50470995 ATAAAAGTTA
50471005 AAAAAATTACATA-TAATTTTTT
1 AAAAAATTACATACT-ATTTTTT
*
50471027 AAAAAATT-CATACTTTTTTTT
1 AAAAAATTACATACTATTTTTT
50471048 AAAAAA
1 AAAAAA
50471054 ATGTCCATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAAAATTACATACTATTTTTT
Found at i:50471054 original size:22 final size:23
Alignment explanation
Indices: 50471002--50471055 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
50470992 TTCATAAAAG
50471002 TTAAAAAAATTACATATAATTTT
1 TTAAAAAAATTACATATAATTTT
*
50471025 TT-AAAAAATT-CATACT-TTTTT
1 TTAAAAAAATTACATA-TAATTTT
50471046 TTAAAAAAAT
1 TTAAAAAAAT
50471056 GTCCATATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 10 0.36
22 16 0.57
23 2 0.07
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (23 bp):
TTAAAAAAATTACATATAATTTT
Found at i:50472109 original size:16 final size:16
Alignment explanation
Indices: 50472088--50472118 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50472078 GAAGCCATTG
50472088 TAAATTGAAAAATTAC
1 TAAATTGAAAAATTAC
50472104 TAAATTGAAAAATTA
1 TAAATTGAAAAATTA
50472119 TCTTTGATGT
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:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (16 bp):
TAAATTGAAAAATTAC
Found at i:50473849 original size:87 final size:87
Alignment explanation
Indices: 50473694--50473854 Score: 214
Period size: 87 Copynumber: 1.9 Consensus size: 87
50473684 TTAAAATTAA
* * * * *
50473694 GTGAATTCATCAAGTCCGCCTCAATAGAACCACCCAAACTCTGGGATATGAATTCATTTAGAGTA
1 GTGAATTCATCAAGTCCACCTCAATAGAACCACCCAAACTCTGGGATATGAACTCATTAAAAGCA
50473759 AAAAACTCAACCTCACACATCG
66 AAAAACTCAACCTCACACATCG
* * * * * *
50473781 GTGAATTCATCAAGTTCATCTCACTAGGACCACCCAAACTTTGGGCTATGAACTCATTAAAAGCA
1 GTGAATTCATCAAGTCCACCTCAATAGAACCACCCAAACTCTGGGATATGAACTCATTAAAAGCA
*
50473846 AAAAGCTCA
66 AAAAACTCA
50473855 TCCTTATGCA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
87 62 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (87 bp):
GTGAATTCATCAAGTCCACCTCAATAGAACCACCCAAACTCTGGGATATGAACTCATTAAAAGCA
AAAAACTCAACCTCACACATCG
Found at i:50478136 original size:16 final size:16
Alignment explanation
Indices: 50478115--50478162 Score: 96
Period size: 16 Copynumber: 3.0 Consensus size: 16
50478105 AATAAGAATT
50478115 AGTTATGACCACCATA
1 AGTTATGACCACCATA
50478131 AGTTATGACCACCATA
1 AGTTATGACCACCATA
50478147 AGTTATGACCACCATA
1 AGTTATGACCACCATA
50478163 GCAAGCTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (16 bp):
AGTTATGACCACCATA
Found at i:50481296 original size:24 final size:24
Alignment explanation
Indices: 50481269--50481392 Score: 96
Period size: 24 Copynumber: 5.2 Consensus size: 24
50481259 TAAGCACATA
50481269 AACGGAAAGCTCTGGAGAGCCATT
1 AACGGAAAGCTCTGGAGAGCCATT
* * *
50481293 AACGGGAAGCTCCGGAGAGCTATT
1 AACGGAAAGCTCTGGAGAGCCATT
*
50481317 AAC-GAGAAGCTCAT--ACGAGCCAAT
1 AACGGA-AAGCTC-TGGA-GAGCCATT
* *
50481341 ATC-GAGAAGCTCTGGAGATCCATT
1 AACGGA-AAGCTCTGGAGAGCCATT
**
50481365 AACAGG-AAGCTCCAGAGAGCCATT
1 AAC-GGAAAGCTCTGGAGAGCCATT
50481389 AACG
1 AACG
50481393 AGAAGGTCAT
Statistics
Matches: 79, Mismatches: 14, Indels: 15
0.73 0.13 0.14
Matches are distributed among these distances:
23 4 0.05
24 73 0.92
25 1 0.01
26 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.27, T:0.16
Consensus pattern (24 bp):
AACGGAAAGCTCTGGAGAGCCATT
Found at i:50481385 original size:48 final size:47
Alignment explanation
Indices: 50481283--50481447 Score: 134
Period size: 48 Copynumber: 3.4 Consensus size: 47
50481273 GAAAGCTCTG
* *
50481283 GAGAGCCATTAACGGGAAGCTCCGGAGAGCTATTAACGAGAAGCTCA
1 GAGAGCCATTAACGAGAAGCTCCGGAGAGCCATTAACGAGAAGCTCA
* * * * *
50481330 TACGAGCCAATATCGAGAAGCTCTGGAGATCCATTAAC-AGGAAGCTCCA
1 GA-GAGCCATTAACGAGAAGCTCCGGAGAGCCATTAACGA-GAAGCT-CA
* *** *
50481379 GAGAGCCATTAACGAGAAGGTCATAAAGAGCCTTTAATCGAGAAGCTCA
1 GAGAGCCATTAACGAGAAGCTC-CGGAGAGCCATTAA-CGAGAAGCTCA
*
50481428 CGAAGAGCCATATATCGAGA
1 -G-AGAGCCAT-TAACGAGA
50481448 CGTTCATAAG
Statistics
Matches: 93, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
47 2 0.02
48 52 0.56
49 15 0.16
50 8 0.09
51 9 0.10
52 7 0.08
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.17
Consensus pattern (47 bp):
GAGAGCCATTAACGAGAAGCTCCGGAGAGCCATTAACGAGAAGCTCA
Found at i:50481392 original size:72 final size:74
Alignment explanation
Indices: 50481275--50481426 Score: 218
Period size: 72 Copynumber: 2.1 Consensus size: 74
50481265 CATAAACGGA
* * * *
50481275 AAGCTCTGGAGAGCCATTAACGGGAAGCTCCGGAGAGCTATTAACGAGAAGCTCAT-ACGAGCCA
1 AAGCTCTGGAGAGCCATTAACAGGAAGCTCCAGAGAGCCATTAACGAGAAGCTCATAAAGAGCCA
50481339 AT-ATCGAG
66 ATAATCGAG
* * *
50481347 AAGCTCTGGAGATCCATTAACAGGAAGCTCCAGAGAGCCATTAACGAGAAGGTCATAAAGAGCCT
1 AAGCTCTGGAGAGCCATTAACAGGAAGCTCCAGAGAGCCATTAACGAGAAGCTCATAAAGAGCCA
*
50481412 TTAATCGAG
66 ATAATCGAG
50481421 AAGCTC
1 AAGCTC
50481427 ACGAAGAGCC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
72 51 0.73
73 7 0.10
74 12 0.17
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.18
Consensus pattern (74 bp):
AAGCTCTGGAGAGCCATTAACAGGAAGCTCCAGAGAGCCATTAACGAGAAGCTCATAAAGAGCCA
ATAATCGAG
Found at i:50481397 original size:24 final size:24
Alignment explanation
Indices: 50481283--50481426 Score: 121
Period size: 24 Copynumber: 5.9 Consensus size: 24
50481273 GAAAGCTCTG
* *
50481283 GAGAGCCATTAACGGGAAGCTCCG
1 GAGAGCCATTAACGAGAAGCTCCA
*
50481307 GAGAGCTATTAACGAGAAGCT-CA
1 GAGAGCCATTAACGAGAAGCTCCA
* * * **
50481330 TACGAGCCAATATCGAGAAGCTCTG
1 GA-GAGCCATTAACGAGAAGCTCCA
*
50481355 GAGATCCATTAAC-AGGAAGCTCCA
1 GAGAGCCATTAACGA-GAAGCTCCA
* *
50481379 GAGAGCCATTAACGAGAAGGTCATA
1 GAGAGCCATTAACGAGAAGCTC-CA
* *
50481404 AAGAGCCTTTAATCGAGAAGCTC
1 GAGAGCCATTAA-CGAGAAGCTC
50481427 ACGAAGAGCC
Statistics
Matches: 93, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
23 3 0.03
24 68 0.73
25 13 0.14
26 9 0.10
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (24 bp):
GAGAGCCATTAACGAGAAGCTCCA
Found at i:50481433 original size:26 final size:25
Alignment explanation
Indices: 50481284--50481447 Score: 104
Period size: 24 Copynumber: 6.6 Consensus size: 25
50481274 AAAGCTCTGG
* **
50481284 AGAGCCATTAACGGGAAGCTC-CGG
1 AGAGCCATTAACGAGAAGCTCACAA
* *
50481308 AGAGCTATTAACGAGAAGCTCA-TA
1 AGAGCCATTAACGAGAAGCTCACAA
* * * ***
50481332 CGAGCCAATATCGAGAAGCTC-TGG
1 AGAGCCATTAACGAGAAGCTCACAA
* *
50481356 AGATCCATTAAC-AGGAAGCTC-CAG
1 AGAGCCATTAACGA-GAAGCTCACAA
* *
50481380 AGAGCCATTAACGAGAAGGTCATAA
1 AGAGCCATTAACGAGAAGCTCACAA
* *
50481405 AGAGCCTTTAATCGAGAAGCTCACGA
1 AGAGCCATTAA-CGAGAAGCTCACAA
*
50481431 AGAGCCATATATCGAGA
1 AGAGCCAT-TAACGAGA
50481448 CGTTCATAAG
Statistics
Matches: 107, Mismatches: 26, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
23 1 0.01
24 69 0.64
25 12 0.11
26 23 0.21
27 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (25 bp):
AGAGCCATTAACGAGAAGCTCACAA
Found at i:50481533 original size:24 final size:26
Alignment explanation
Indices: 50481500--50481558 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
50481490 ACAACTAAAT
*
50481500 CGGGATGCTCCG-AAG-AGC-TATTAA
1 CGGGAAGCTCCGCAAGAAGCATA-TAA
50481524 CGGGAAGCT-CGCAAGAAGCATATAA
1 CGGGAAGCTCCGCAAGAAGCATATAA
50481549 CGGGAAGCTC
1 CGGGAAGCTC
50481559 ATAAGAACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 2 0.07
24 11 0.37
25 15 0.50
26 2 0.07
ACGTcount: A:0.32, C:0.22, G:0.31, T:0.15
Consensus pattern (26 bp):
CGGGAAGCTCCGCAAGAAGCATATAA
Found at i:50484850 original size:14 final size:14
Alignment explanation
Indices: 50484831--50484869 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
50484821 ATTAATATAG
50484831 AAAATTGAGAGAAA
1 AAAATTGAGAGAAA
*
50484845 AAAATTTA-AGAAA
1 AAAATTGAGAGAAA
*
50484858 AAAAATGAGAGA
1 AAAATTGAGAGA
50484870 TTAGAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (14 bp):
AAAATTGAGAGAAA
Found at i:50487112 original size:25 final size:25
Alignment explanation
Indices: 50487083--50487132 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
50487073 TATTTTTTAA
50487083 AAATA-TATAAAATTTGAAACATTAT
1 AAATATTATAAAATTTGAAA-ATTAT
* *
50487108 AAATATTTTGAAATTTGAAAATTAT
1 AAATATTATAAAATTTGAAAATTAT
50487133 TTTGATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (25 bp):
AAATATTATAAAATTTGAAAATTAT
Found at i:50494411 original size:29 final size:29
Alignment explanation
Indices: 50494369--50494426 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
50494359 TCAGCCAAAA
*
50494369 ACAGCCATAAGAAAGAGCTTAAGTTGGTT
1 ACAGCCATAAGAAAGAGCTTAAGCTGGTT
**
50494398 ACAGCCATGGGAAAGAGCTTAAGCTGGTT
1 ACAGCCATAAGAAAGAGCTTAAGCTGGTT
50494427 TTTCATACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (29 bp):
ACAGCCATAAGAAAGAGCTTAAGCTGGTT
Found at i:50496886 original size:20 final size:20
Alignment explanation
Indices: 50496848--50496887 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
50496838 AGGCAACCCA
*
50496848 CATTTATTTTTATTTATTTT
1 CATTTATTTTAATTTATTTT
50496868 CATTTA-TTTAATTTAATTTT
1 CATTTATTTTAATTT-ATTTT
50496888 GAATTCTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
CATTTATTTTAATTTATTTT
Found at i:50497873 original size:26 final size:29
Alignment explanation
Indices: 50497830--50497884 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
50497820 CATAAAACCC
50497830 AATTACAACCCAAACCC-AAGACCCAACA
1 AATTACAACCCAAACCCAAAGACCCAACA
* *
50497858 AATTA-AA-CCAAGCCCAAATACCCAACA
1 AATTACAACCCAAACCCAAAGACCCAACA
50497885 GGCCCAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.29
27 12 0.50
28 5 0.21
ACGTcount: A:0.51, C:0.36, G:0.04, T:0.09
Consensus pattern (29 bp):
AATTACAACCCAAACCCAAAGACCCAACA
Found at i:50498275 original size:10 final size:10
Alignment explanation
Indices: 50498262--50498286 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
50498252 TTTTTTTTCG
50498262 TTTTTATTTA
1 TTTTTATTTA
50498272 TTTTTATTTA
1 TTTTTATTTA
50498282 TTTTT
1 TTTTT
50498287 CCCCCTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:50498985 original size:3 final size:3
Alignment explanation
Indices: 50498977--50499012 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
50498967 AATAATTTGA
*
50498977 TAT TAT TAT TAT TAT TAT TAT TAT CAT TATT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA
50499013 GTTTTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:50500936 original size:13 final size:13
Alignment explanation
Indices: 50500918--50500960 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
50500908 AAATTTGAAT
50500918 TATTTAGTGATAA
1 TATTTAGTGATAA
50500931 TATTTAG-GAT--
1 TATTTAGTGATAA
50500941 TATTTAGTGATAA
1 TATTTAGTGATAA
50500954 TATTTAG
1 TATTTAG
50500961 AATTAATAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:50500942 original size:23 final size:23
Alignment explanation
Indices: 50500910--50500965 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
50500900 GATTTTTAAA
50500910 ATTT-GAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
50500932 ATTTAGGATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
50500955 ATTTAGAATTA
1 ATTTAGAATTA
50500966 ATAGCTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 4 0.13
23 27 0.87
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:50506666 original size:18 final size:19
Alignment explanation
Indices: 50506636--50506678 Score: 79
Period size: 18 Copynumber: 2.3 Consensus size: 19
50506626 CCTAGAAAGT
50506636 ATAAAAAATATTGACAAAA
1 ATAAAAAATATTGACAAAA
50506655 ATAAAAAA-ATTGACAAAA
1 ATAAAAAATATTGACAAAA
50506673 ATAAAA
1 ATAAAA
50506679 GATGATTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.19
Consensus pattern (19 bp):
ATAAAAAATATTGACAAAA
Found at i:50506752 original size:12 final size:12
Alignment explanation
Indices: 50506735--50506764 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
50506725 GTTTATTTTT
50506735 TTAAAAAAATAG
1 TTAAAAAAATAG
*
50506747 TTAAAAGAATAG
1 TTAAAAAAATAG
50506759 TTAAAA
1 TTAAAA
50506765 TTTGTTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (12 bp):
TTAAAAAAATAG
Found at i:50510579 original size:116 final size:116
Alignment explanation
Indices: 50510375--50510609 Score: 452
Period size: 116 Copynumber: 2.0 Consensus size: 116
50510365 ATTCTCAGGT
50510375 ATTTCTTTAACTTCATTATCACAAAGGACTTGAGTAGGTTGTGCTTCATCCCAATCCCAAGTGTT
1 ATTTCTTTAACTTCATTATCACAAAGGACTTGAGTAGGTTGTGCTTCATCCCAATCCCAAGTGTT
* *
50510440 CTCTTCATCAAACACATCGTCTCAGCTAATCACGACCTTTTTTGTCACATG
66 CTCTTCATCAAACACATCATCTCAGCTAATCACGACCTTTTCTGTCACATG
50510491 ATTTCTTTAACTTCATTATCACAAAGGACTTGAGTAGGTTGTGCTTCATCCCAATCCCAAGTGTT
1 ATTTCTTTAACTTCATTATCACAAAGGACTTGAGTAGGTTGTGCTTCATCCCAATCCCAAGTGTT
50510556 CTCTTCATCAAACACATCATCTCAGCTAATCACGACCTTTTCTGTCACATG
66 CTCTTCATCAAACACATCATCTCAGCTAATCACGACCTTTTCTGTCACATG
50510607 ATT
1 ATT
50510610 GAACAATTTG
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 117 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.35
Consensus pattern (116 bp):
ATTTCTTTAACTTCATTATCACAAAGGACTTGAGTAGGTTGTGCTTCATCCCAATCCCAAGTGTT
CTCTTCATCAAACACATCATCTCAGCTAATCACGACCTTTTCTGTCACATG
Found at i:50518635 original size:33 final size:33
Alignment explanation
Indices: 50518592--50518658 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
50518582 CAAAATATTT
50518592 TCCACTATGGTGACATCCTTCATCTTCTCACCA
1 TCCACTATGGTGACATCCTTCATCTTCTCACCA
*
50518625 TCCATTATGGTGACATCCTTCATCTTCTCACCA
1 TCCACTATGGTGACATCCTTCATCTTCTCACCA
50518658 T
1 T
50518659 GGAACCACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.34, G:0.09, T:0.36
Consensus pattern (33 bp):
TCCACTATGGTGACATCCTTCATCTTCTCACCA
Found at i:50521906 original size:24 final size:24
Alignment explanation
Indices: 50521876--50521944 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
50521866 ACAAATAAAA
50521876 AATAATAATACAGT-ATAACTTTTA-
1 AATAATAATACA-TAATAA-TTTTAG
*
50521900 AGTAATAATACATAATAATTTTAG
1 AATAATAATACATAATAATTTTAG
*
50521924 AATAATAATACACAATAATTT
1 AATAATAATACATAATAATTT
50521945 CAAAAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
23 6 0.15
24 34 0.85
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.36
Consensus pattern (24 bp):
AATAATAATACATAATAATTTTAG
Found at i:50522844 original size:20 final size:21
Alignment explanation
Indices: 50522801--50522851 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
50522791 CTCGATTAAC
* *
50522801 AGAAAAATA-AAAAAATCTGG
1 AGAAAAAAAGAAAAAATCTGA
*
50522821 AGAAAGAAAGAAAAAATC-GA
1 AGAAAAAAAGAAAAAATCTGA
50522841 AGAAAAAAAGA
1 AGAAAAAAAGA
50522852 TTGAATCACC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.71, C:0.04, G:0.18, T:0.08
Consensus pattern (21 bp):
AGAAAAAAAGAAAAAATCTGA
Found at i:50523384 original size:25 final size:26
Alignment explanation
Indices: 50523331--50523381 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
50523321 TAAGTTGGGT
*
50523331 TTTGGGCTAGGCTTAATGGGTTTAGG
1 TTTGGGCTAGGCTTAATAGGTTTAGG
50523357 TTTGGGCTAGG-TTAATAAGGTTTAG
1 TTTGGGCTAGGCTTAAT-AGGTTTAG
50523382 TTTACTTGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.20, C:0.06, G:0.35, T:0.39
Consensus pattern (26 bp):
TTTGGGCTAGGCTTAATAGGTTTAGG
Found at i:50523862 original size:44 final size:44
Alignment explanation
Indices: 50523765--50524319 Score: 154
Period size: 44 Copynumber: 12.8 Consensus size: 44
50523755 ACTTGATGCG
* * * * * *
50523765 ATCTACTCTACTGCAACATCAGAGAGATAAGATCTAT-TACTTTA
1 ATCTACTCCACTACAACCTCAGGGAGATAAGAT-TATCGACTTCA
* * * *
50523809 ATCTGCTCCACTACAACTTCTGGGAGATAGGATTATCGACTTCA
1 ATCTACTCCACTACAACCTCAGGGAGATAAGATTATCGACTTCA
* ** *
50523853 ATCTACTCCACTGCAACCTCAGGGAGATAAGATT-TGCTTCTTCG
1 ATCTACTCCACTACAACCTCAGGGAGATAAGATTAT-CGACTTCA
* * * *** * * ***
50523897 GTCTGCCCCACTGTGACTTCAGGGGGATAAGACTTATTTTC-TCA
1 ATCTACTCCACTACAACCTCAGGGAGATAAGA-TTATCGACTTCA
* * * ** * *
50523941 GTCTGCTCCACTGCAACCTCAGGGAGATAAGA-CCT-GA-TGCG
1 ATCTACTCCACTACAACCTCAGGGAGATAAGATTATCGACTTCA
* * * * * * *
50523982 ATCCACTCTACTGCAACTTCAGAGAGATAAGATTTAT-TACTTTA
1 ATCTACTCCACTACAACCTCAGGGAGATAAGA-TTATCGACTTCA
** * * * * *
50524026 ATCCGCTCCACTGCAGCTTCAGGGAGATAGGATTATCGGCTTCA
1 ATCTACTCCACTACAACCTCAGGGAGATAAGATTATCGACTTCA
* * * * *
50524070 ATCTGCTCCACTGCAACCTCAGAGAGATAAGATT-TGCCATCTTCG
1 ATCTACTCCACTACAACCTCAGGGAGATAAGATTAT-CGA-CTTCA
* ** * ** * * * * *
50524115 ATCT-GTCCCACTGTAACTTTGGGGGGATAATACCT-GCTTAC-TCA
1 ATCTACT-CCACTACAACCTCAGGGAGATAAGA-TTATC-GACTTCA
* * * * ** * *
50524159 GTCTGCTCCGCTGCAACCTCAGGGAGATAAGA-CCT-GA-TACG
1 ATCTACTCCACTACAACCTCAGGGAGATAAGATTATCGACTTCA
* * * * * * *
50524200 ATCCACTCTACTGCAACTTCAGAGAGATAAGATTTAT-TACTTTA
1 ATCTACTCCACTACAACCTCAGGGAGATAAGA-TTATCGACTTCA
* * * *
50524244 ATCTGCTCCACTACAACTTCA--GAGATAGGATTATCGGCTTCA
1 ATCTACTCCACTACAACCTCAGGGAGATAAGATTATCGACTTCA
* *
50524286 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATT
1 ATCTACTCCACTACAACCTCAGGGAGATAAGATT
50524320 TGCCATCTTC
Statistics
Matches: 373, Mismatches: 115, Indels: 46
0.70 0.22 0.09
Matches are distributed among these distances:
41 58 0.16
42 32 0.09
43 13 0.03
44 233 0.62
45 34 0.09
46 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
ATCTACTCCACTACAACCTCAGGGAGATAAGATTATCGACTTCA
Found at i:50524231 original size:218 final size:218
Alignment explanation
Indices: 50523752--50524409 Score: 1052
Period size: 218 Copynumber: 3.0 Consensus size: 218
50523742 TCTAGTCGGC
* * * *
50523752 AAGACTTGATGCGATCTACTCTACTGCAACATCAGAGAGATAAGATCTATTACTTTAATCTGCTC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATTTATTACTTTAATCTGCTC
* * *
50523817 CACTACAACTTCTGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAGATA
66 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATA
* * * * * ** *
50523882 AGATTTG-CTTCTTCGGTCTGCCCCACTGTGACTTCAGGGGGATAAGACTTATTTTCTCAGTCTG
131 AGATTTGCCATCTTCGATCTGTCCCACTGTAACTTCAGGGGGATAAGACCTGCTTACTCAGTCTG
50523946 CTCCACTGCAACCTCAGGGAGAT
196 CTCCACTGCAACCTCAGGGAGAT
*
50523969 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATTTATTACTTTAATCCGCTC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATTTATTACTTTAATCTGCTC
* * *
50524034 CACTGCAGCTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGAGAGATA
66 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATA
** *
50524099 AGATTTGCCATCTTCGATCTGTCCCACTGTAACTTTGGGGGGATAATACCTGCTTACTCAGTCTG
131 AGATTTGCCATCTTCGATCTGTCCCACTGTAACTTCAGGGGGATAAGACCTGCTTACTCAGTCTG
*
50524164 CTCCGCTGCAACCTCAGGGAGAT
196 CTCCACTGCAACCTCAGGGAGAT
*
50524187 AAGACCTGATACGATCCACTCTACTGCAACTTCAGAGAGATAAGATTTATTACTTTAATCTGCTC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATTTATTACTTTAATCTGCTC
50524252 CACTACAACTTCA--GAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATA
66 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATA
* *
50524315 AGATTTGCCATCTTCGATCTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTACTCAATCTG
131 AGATTTGCCATCTTCGATCTGTCCCACTGTAACTTCAGGGGGATAAGACCTGCTTACTCAGTCTG
*
50524380 CTCCACTGCAACCTTAGGGAGAT
196 CTCCACTGCAACCTCAGGGAGAT
50524403 AAGACCT
1 AAGACCT
50524410 AATTTCCCAA
Statistics
Matches: 405, Mismatches: 35, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
216 137 0.34
217 126 0.31
218 142 0.35
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (218 bp):
AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATTTATTACTTTAATCTGCTC
CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATA
AGATTTGCCATCTTCGATCTGTCCCACTGTAACTTCAGGGGGATAAGACCTGCTTACTCAGTCTG
CTCCACTGCAACCTCAGGGAGAT
Found at i:50524404 original size:44 final size:43
Alignment explanation
Indices: 50523850--50524409 Score: 159
Period size: 44 Copynumber: 12.9 Consensus size: 43
50523840 ATTATCGACT
* * ** *
50523850 TCAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCTTC
1 TCAATCTGCTCCACTGCAACCTTAGGGAGATAAGACCTGCTAC
** * ** * * ** *
50523893 TTCGGTCTGCCCCACTGTGA-CTTCAGGGGGATAAGACTTATTTTC
1 -TCAATCTGCTCCACTGCAACCTT-AGGGAGATAAGACCT-GCTAC
* *
50523938 TCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTG--A-
1 TCAATCTGCTCCACTGCAACCTTAGGGAGATAAGACCTGCTAC
* ** * * ** **
50523978 TGCGATCCACTCTACTGCAA-CTTCAGAGAGATAAGATTTATTAC
1 T-CAATCTGCTCCACTGCAACCTT-AGGGAGATAAGACCTGCTAC
* * * * * *
50524022 TTTAATCCGCTCCACTGC-AGCTTCAGGGAGATAGGATTATCGGCT--
1 -TCAATCTGCTCCACTGCAACCTT-AGGGAGATA--A-GACCTGCTAC
* * ** *
50524067 TCAATCTGCTCCACTGCAACCTCAGAGAGATAAGATTTGCCATC
1 TCAATCTGCTCCACTGCAACCTTAGGGAGATAAGACCTGCTA-C
* * * * * *
50524111 TTCGATCTG-TCCCACTGTAACTTTGGGGGGATAATACCTGCTTAC
1 -TCAATCTGCT-CCACTGCAACCTTAGGGAGATAAGACCTGC-TAC
* * * *
50524156 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATA-
1 TCAATCTGCTCCACTGCAACCTTAGGGAGATAAGACCTGCTAC
* ** * * ** **
50524198 -CGATCCACTCTACTGCAA-CTTCAGAGAGATAAGATTTATTAC
1 TCAATCTGCTCCACTGCAACCTT-AGGGAGATAAGACCTGCTAC
* * * * *
50524240 TTTAATCTGCTCCACTACAA-CTTCA--GAGATAGGATTATCGGCT--
1 -TCAATCTGCTCCACTGCAACCTT-AGGGAGATA--A-GACCTGCTAC
* ** *
50524283 TCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATC
1 TCAATCTGCTCCACTGCAACCTTAGGGAGATAAGACCTGCTA-C
* *
50524327 TTCGATCTG-TCCCACTGCAA-CTTCAGGGGGATAAGACCTGCTTAC
1 -TCAATCTGCT-CCACTGCAACCTT-AGGGAGATAAGACCTGC-TAC
50524372 TCAATCTGCTCCACTGCAACCTTAGGGAGATAAGACCT
1 TCAATCTGCTCCACTGCAACCTTAGGGAGATAAGACCT
50524410 AATTTCCCAA
Statistics
Matches: 368, Mismatches: 108, Indels: 80
0.66 0.19 0.14
Matches are distributed among these distances:
40 5 0.01
41 59 0.16
42 26 0.07
43 8 0.02
44 187 0.51
45 77 0.21
46 3 0.01
47 3 0.01
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (43 bp):
TCAATCTGCTCCACTGCAACCTTAGGGAGATAAGACCTGCTAC
Found at i:50524528 original size:216 final size:213
Alignment explanation
Indices: 50523769--50524510 Score: 747
Period size: 218 Copynumber: 3.4 Consensus size: 213
50523759 GATGCGATCT
* * *
50523769 ACTCTACTGCAACATCAGAGAGATAAGA-TCTATTACTTTAATCTGCTCCACTACAACTTCTGGG
1 ACTCTACTGCAAC-TCAGAGAGATAAGACT-TATGACTTAAATCTGCTCCACTACAACTTC--AG
* * ** *
50523833 AGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTG-CTTCTTCG
62 AGATAAGATTATCGGCTTCAATCCGCT-C-CTGCAACCTCAGGGAGATAAGATTTGCCATCTTCG
* * ** * ** * *
50523897 GTCTGCCCCACTGTGACTTCAGGGGGATAAGACTTATTTTCTCAGTCTGCTCCACTGCAACCTCA
125 ATCTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTACTCAATCTGCTCCACTGCAACCTCA
* * * *
50523962 GGGAGATAAGACCTGATGCGATCC
190 GGGAGATAAGACCTAATACCAACC
* * * * * *
50523986 ACTCTACTGCAACTTCAGAGAGATAAGATTTATTACTTTAATCCGCTCCACTGCAGCTTCAGGGA
1 ACTCTACTGCAAC-TCAGAGAGATAAGACTTATGACTTAAATCTGCTCCACTACAACTTCA--GA
* * *
50524051 GATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGAGAGATAAGATTTGCCATCTTCGA
63 GATAAGATTATCGGCTTCAATCCGCT-C-CTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGA
* ** * * *
50524116 TCTGTCCCACTGTAACTTTGGGGGGATAATACCTGCTTACTCAGTCTGCTCCGCTGCAACCTCAG
126 TCTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTACTCAATCTGCTCCACTGCAACCTCAG
* * *
50524181 GGAGATAAGACCTGATACGATCC
191 GGAGATAAGACCTAATACCAACC
* * *
50524204 ACTCTACTGCAACTTCAGAGAGATAAGATTTATTACTTTAATCTGCTCCACTACAACTTCAGAGA
1 ACTCTACTGCAAC-TCAGAGAGATAAGACTTATGACTTAAATCTGCTCCACTACAACTTCAGAGA
* *
50524269 TAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGATC
65 TAAGATTATCGGCTTCAATCCGCT-C-CTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGATC
*
50524334 TGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTACTCAATCTGCTCCACTGCAACCTTAGGG
128 TGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTACTCAATCTGCTCCACTGCAACCTCAGGG
*
50524399 AGATAAGACCTAATTTCCCAACC
193 AGATAAGACCTAA--TACCAACC
* * * * * * * * * *
50524422 TATTCTACTGCTGAC-CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCATTAC-ACTTGA-AG
1 -ACTCTACTGC-AACTCAGAGAGATAAGACTTATGACTTAAATCTGCTCCACTACAACTTCAGAG
* * *
50524484 ATAAGATTTGTCGTCTTCGATCCGCTC
64 ATAAGA-TTATCGGCTTCAATCCGCTC
50524511 TGCTACTGCT
Statistics
Matches: 462, Mismatches: 54, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
216 146 0.32
217 128 0.28
218 177 0.38
219 9 0.02
220 2 0.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (213 bp):
ACTCTACTGCAACTCAGAGAGATAAGACTTATGACTTAAATCTGCTCCACTACAACTTCAGAGAT
AAGATTATCGGCTTCAATCCGCTCCTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTGT
CCCACTGCAACTTCAGGGGGATAAGACCTGCTTACTCAATCTGCTCCACTGCAACCTCAGGGAGA
TAAGACCTAATACCAACC
Found at i:50524555 original size:129 final size:129
Alignment explanation
Indices: 50524409--50524666 Score: 435
Period size: 129 Copynumber: 2.0 Consensus size: 129
50524399 AGATAAGACC
* *
50524409 TAATTTCCCAACCTATTCTACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCATT
1 TAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATATGCTTCATT
*** * *
50524474 ACACTTGAAGATAAGATTTGTCGTCTTCGATCCGCTCTGCTACTGCTTAGGGAGACAATATCTG
66 ACACTTGAAGATAAGATTCACCGTCTTCGATCCGCTCCGCTACTGCTTAGGGAGACAAAATCTG
* *
50524538 TAATTTCCCGACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATATGCTTCCTT
1 TAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATATGCTTCATT
50524603 ACACTTGAAGATAAGATTCACCGTCTTCGATCCGCTCCGCTACTGCTTAGGGAGACAAAATCTG
66 ACACTTGAAGATAAGATTCACCGTCTTCGATCCGCTCCGCTACTGCTTAGGGAGACAAAATCTG
50524667 CTATATTTAC
Statistics
Matches: 120, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 120 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (129 bp):
TAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATATGCTTCATT
ACACTTGAAGATAAGATTCACCGTCTTCGATCCGCTCCGCTACTGCTTAGGGAGACAAAATCTG
Found at i:50530801 original size:24 final size:24
Alignment explanation
Indices: 50530771--50530839 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
50530761 ACAAATAAAA
50530771 AATAATAATACAGT-ATAACTTTTA-
1 AATAATAATACA-TAATAA-TTTTAG
*
50530795 AGTAATAATACATAATAATTTTAG
1 AATAATAATACATAATAATTTTAG
*
50530819 AATAATAATACACAATAATTT
1 AATAATAATACATAATAATTT
50530840 CAAAAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
23 6 0.15
24 34 0.85
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.36
Consensus pattern (24 bp):
AATAATAATACATAATAATTTTAG
Found at i:50535811 original size:33 final size:30
Alignment explanation
Indices: 50535773--50535851 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 30
50535763 ACTATATTAG
50535773 AATATTACTAATACATAAAATAATAAAATAATA
1 AATATTACTAATA-ATAAAAT-ATAAAAT-ATA
* * *
50535806 AATATTATTAATAATATAATATAACATATA
1 AATATTACTAATAATAAAATATAAAATATA
* *
50535836 ACTATTACTAAAAATA
1 AATATTACTAATAATA
50535852 TTAATACATA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 16 0.40
31 6 0.15
32 6 0.15
33 12 0.30
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (30 bp):
AATATTACTAATAATAAAATATAAAATATA
Found at i:50535852 original size:30 final size:30
Alignment explanation
Indices: 50535775--50535882 Score: 85
Period size: 30 Copynumber: 3.5 Consensus size: 30
50535765 TATATTAGAA
* * *
50535775 TATTACTAATACATAAAATAATAAAATAATAAA
1 TATTACTAA-AAATATAAT-ATAAAAT-ATAAC
* * *
50535808 TATTATTAATAATATAATATAACATATAAC
1 TATTACTAAAAATATAATATAAAATATAAC
* *
50535838 TATTACTAAAAATATTAATA-CATATATAAC
1 TATTACTAAAAATA-TAATATAAAATATAAC
*
50535868 TATTA-TAATAATATA
1 TATTACTAAAAATATA
50535883 GGTTATAATA
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
28 2 0.03
29 7 0.11
30 29 0.46
31 11 0.17
32 6 0.10
33 8 0.13
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.37
Consensus pattern (30 bp):
TATTACTAAAAATATAATATAAAATATAAC
Found at i:50535967 original size:5 final size:5
Alignment explanation
Indices: 50535957--50535990 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
50535947 AACTATTAAT
50535957 ATATG ATATG ATATG ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATAT
50535991 AGGGTTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:50538236 original size:12 final size:12
Alignment explanation
Indices: 50538221--50538246 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50538211 AAAAAATTTG
50538221 AAAAAAAAACAA
1 AAAAAAAAACAA
50538233 AAAAAAAAACAA
1 AAAAAAAAACAA
50538245 AA
1 AA
50538247 CTTGATAACT
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAACAA
Done.