Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 163 of 187
Found at i:49412958 original size:21 final size:17
Alignment explanation
Indices: 49412909--49412954 Score: 76
Period size: 18 Copynumber: 2.7 Consensus size: 17
49412899 GATAATGTAC
49412909 AAAAAAT-GTATAAATA
1 AAAAAATAGTATAAATA
49412925 AAAAAATAGTATAAATTA
1 AAAAAATAGTATAAA-TA
49412943 AAAAAATAGTAT
1 AAAAAATAGTAT
49412955 TATATAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 7 0.25
17 7 0.25
18 14 0.50
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (17 bp):
AAAAAATAGTATAAATA
Found at i:49413128 original size:24 final size:23
Alignment explanation
Indices: 49413096--49413275 Score: 134
Period size: 23 Copynumber: 7.6 Consensus size: 23
49413086 TAATAGATGG
*
49413096 AAATTAAAATAATAATATATGAT
1 AAATTAAAATAATAATACATGAT
49413119 AAATTAAAA-AAGTAATTACACATGA-
1 AAATTAAAATAA-TAA-T--ACATGAT
*
49413144 AAACTTAGAATAATAATACAT-AT
1 AAA-TTAAAATAATAATACATGAT
*
49413167 AAAATTTAAAATAATAATAAATGAT
1 -AAA-TTAAAATAATAATACATGAT
* * *
49413192 GAATTTAAATAACAAATACATGAT
1 AAATTAAAATAA-TAATACATGAT
* **
49413216 AAATTTAAATAATGTTA-ATGAT
1 AAATTAAAATAATAATACATGAT
** * *
49413238 AAATTTAAAATAATAATATGTTAC
1 AAA-TTAAAATAATAATACATGAT
49413262 AAATTAAAATAATA
1 AAATTAAAATAATA
49413276 TTGATAATAA
Statistics
Matches: 126, Mismatches: 19, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
22 11 0.09
23 48 0.38
24 46 0.37
25 6 0.05
26 13 0.10
27 2 0.02
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (23 bp):
AAATTAAAATAATAATACATGAT
Found at i:49414431 original size:17 final size:17
Alignment explanation
Indices: 49414411--49414443 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
49414401 CTAGGGTCTA
49414411 ATTGGGTCTAGGATTGT
1 ATTGGGTCTAGGATTGT
49414428 ATTGGGTCTAGGATTG
1 ATTGGGTCTAGGATTG
49414444 GGTTAGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.06, G:0.36, T:0.39
Consensus pattern (17 bp):
ATTGGGTCTAGGATTGT
Found at i:49417062 original size:142 final size:142
Alignment explanation
Indices: 49416872--49417300 Score: 750
Period size: 142 Copynumber: 3.0 Consensus size: 142
49416862 ATTCAATTTG
* * * *
49416872 ACTCTTAGTATAAAGGCCTTCATGATATTTTTGAGTAGCATTTAGTATGATGGAAAGTAATCACC
1 ACTCTTAGTATAAAGGCCTCCATGATATTTTTGGGTAGCATTTGGTATGATGGAAAGTAATCACT
49416937 TTCCTAGAAATTTAATCAATTGGAAAGTGATTCTAACGTTTGGTATGTCAAATTTTATTTACTTT
66 TTCCTAGAAATTTAATCAATTGGAAAGTGATTCTAACGTTTGGTATGTCAAATTTTATTTACTTT
49417002 CCTTGGAATCTA
131 CCTTGGAATCTA
49417014 ACTCTTAGTATAAAGGCCTCCATGATATTTTTGGGTAGCATTTGGTATGATGGAAAGTAATCACT
1 ACTCTTAGTATAAAGGCCTCCATGATATTTTTGGGTAGCATTTGGTATGATGGAAAGTAATCACT
* * * *
49417079 TTTCTAGAAATTTAATCAATTGGAAAATGATTCTAACGTTTAGTATGTAAAATTTTATTTACTTT
66 TTCCTAGAAATTTAATCAATTGGAAAGTGATTCTAACGTTTGGTATGTCAAATTTTATTTACTTT
49417144 CCTTGGAATCTA
131 CCTTGGAATCTA
* *
49417156 ACTCTTAGTATAAAGGCCTCCATGATATTTTTGGGTAGCGTTTGGTATGATGGAAAATAATCACT
1 ACTCTTAGTATAAAGGCCTCCATGATATTTTTGGGTAGCATTTGGTATGATGGAAAGTAATCACT
*
49417221 TTCCTAGAAATTTAATCAATTGGAAAGTGATTCTAACGTTTGATATGTCAAATTTTATTTACTTT
66 TTCCTAGAAATTTAATCAATTGGAAAGTGATTCTAACGTTTGGTATGTCAAATTTTATTTACTTT
*
49417286 CCTTGGAATCGA
131 CCTTGGAATCTA
49417298 ACT
1 ACT
49417301 TTTCATTGAT
Statistics
Matches: 271, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 271 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (142 bp):
ACTCTTAGTATAAAGGCCTCCATGATATTTTTGGGTAGCATTTGGTATGATGGAAAGTAATCACT
TTCCTAGAAATTTAATCAATTGGAAAGTGATTCTAACGTTTGGTATGTCAAATTTTATTTACTTT
CCTTGGAATCTA
Found at i:49423192 original size:47 final size:47
Alignment explanation
Indices: 49423123--49423216 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
49423113 TCCTGTTTTA
49423123 AACACGTCATGAGATTCATTCTACCATATCCATCAACTATCTTCCCT
1 AACACGTCATGAGATTCATTCTACCATATCCATCAACTATCTTCCCT
49423170 AACACGTCATGAGATTCATTCTACCATATCCATCAACTATCTTCCCT
1 AACACGTCATGAGATTCATTCTACCATATCCATCAACTATCTTCCCT
49423217 TTTGTTTCCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.30, C:0.32, G:0.06, T:0.32
Consensus pattern (47 bp):
AACACGTCATGAGATTCATTCTACCATATCCATCAACTATCTTCCCT
Found at i:49424336 original size:18 final size:18
Alignment explanation
Indices: 49424310--49424436 Score: 155
Period size: 18 Copynumber: 6.9 Consensus size: 18
49424300 ACTTCACAAC
*
49424310 GGGTTCGCATACATATAA
1 GGGTTCACATACATATAA
* *
49424328 GGGTCCGCATACATATATAA
1 GGGTTCACATAC--ATATAA
*
49424348 GGGTTCATATACATATAA
1 GGGTTCACATACATATAA
* *
49424366 GGGTTCACATGCATATGA
1 GGGTTCACATACATATAA
* *
49424384 GGGTTCGCATGCATATAA
1 GGGTTCACATACATATAA
*
49424402 TGGTTCACATACATATAA
1 GGGTTCACATACATATAA
49424420 GGGTTCACATACATATA
1 GGGTTCACATACATATA
49424437 TACAATTTGT
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
18 79 0.84
20 15 0.16
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (18 bp):
GGGTTCACATACATATAA
Found at i:49424424 original size:54 final size:55
Alignment explanation
Indices: 49424310--49424436 Score: 175
Period size: 54 Copynumber: 2.3 Consensus size: 55
49424300 ACTTCACAAC
* *
49424310 GGGTTCGCATACATATAAGGGTCCGCATACATATATAAGGGTTCATATACATATAA
1 GGGTTCACATACATATAAGGGTCCGCATACA-ATATAAGGGTTCACATACATATAA
* * * * *
49424366 GGGTTCACATGCATATGAGGGTTCGCATGC-ATATAATGGTTCACATACATATAA
1 GGGTTCACATACATATAAGGGTCCGCATACAATATAAGGGTTCACATACATATAA
49424420 GGGTTCACATACATATA
1 GGGTTCACATACATATA
49424437 TACAATTTGT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 37 0.60
56 25 0.40
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (55 bp):
GGGTTCACATACATATAAGGGTCCGCATACAATATAAGGGTTCACATACATATAA
Found at i:49425641 original size:31 final size:31
Alignment explanation
Indices: 49425605--49425666 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
49425595 AGATAATTTT
49425605 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
*
49425636 AAAGAGTTTTATTATGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
49425667 TAATTTGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:49426207 original size:11 final size:12
Alignment explanation
Indices: 49426186--49426215 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
49426176 AAGAAGAAGT
49426186 AAAAAGCGTAAA
1 AAAAAGCGTAAA
49426198 AAAAAG-GTAAA
1 AAAAAGCGTAAA
49426209 AAAAAGC
1 AAAAAGC
49426216 AAAAAGCGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.70, C:0.07, G:0.17, T:0.07
Consensus pattern (12 bp):
AAAAAGCGTAAA
Found at i:49431185 original size:31 final size:31
Alignment explanation
Indices: 49431149--49431210 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
49431139 AGATAATTTT
49431149 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
49431180 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
49431211 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:49433547 original size:20 final size:21
Alignment explanation
Indices: 49433509--49433550 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
49433499 ATACATGAAA
*
49433509 TTAAAAAAAATAACTCTTAAT
1 TTAAAAAAAATAACACTTAAT
*
49433530 TTAAAGAAAATAA-ACTTAAT
1 TTAAAAAAAATAACACTTAAT
49433550 T
1 T
49433551 ATCTAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.33
Consensus pattern (21 bp):
TTAAAAAAAATAACACTTAAT
Found at i:49434366 original size:17 final size:18
Alignment explanation
Indices: 49434344--49434377 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
49434334 ACCAATAATT
49434344 TATTTTAA-TTTATTATA
1 TATTTTAATTTTATTATA
49434361 TATTTTAATTTTATTAT
1 TATTTTAATTTTATTAT
49434378 GCACATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTTTAATTTTATTATA
Found at i:49434854 original size:25 final size:25
Alignment explanation
Indices: 49434825--49434875 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
49434815 TTTAATCTGA
49434825 TATATTTATATGCTTAAATTTTGTT
1 TATATTTATATGCTTAAATTTTGTT
49434850 TATATTTATATGCTTAAATTTTGTT
1 TATATTTATATGCTTAAATTTTGTT
49434875 T
1 T
49434876 TACTCACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.61
Consensus pattern (25 bp):
TATATTTATATGCTTAAATTTTGTT
Found at i:49439595 original size:84 final size:84
Alignment explanation
Indices: 49439450--49439607 Score: 223
Period size: 84 Copynumber: 1.9 Consensus size: 84
49439440 ATATGTGTTA
* * *
49439450 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACGTGTAAGACCATGTCTGGGA
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTACATGTAAGACCACGTCTGGGA
49439515 CATTGGCATCGTATTTGAT
66 CATTGGCATCGTATTTGAT
*
49439534 TCGTGTAAGACC-CTGTCTGGGACAG-TGGCATTGA-TATGTGATTACATGTAAGACCACGTCTG
1 TCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TGTGATTACATGTAAGACCACGTCTG
*
49439596 GGACGTTGGCAT
63 GGACATTGGCAT
49439608 TGTACGAGTC
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
83 2 0.03
84 63 0.95
85 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (84 bp):
TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTACATGTAAGACCACGTCTGGGA
CATTGGCATCGTATTTGAT
Found at i:49439609 original size:43 final size:43
Alignment explanation
Indices: 49439438--49439607 Score: 208
Period size: 43 Copynumber: 4.0 Consensus size: 43
49439428 ATAGGATTTC
49439438 CGATATGTG-TTATCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGATTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
* * *
49439481 CGACT-TGTGTTTACGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGA-TATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
*
49439524 CG-TATTTGATT-CGTGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* *
49439565 TGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
49439608 TGTACGAGTC
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
41 28 0.26
42 14 0.13
43 62 0.57
44 5 0.05
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (43 bp):
CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:49439797 original size:16 final size:17
Alignment explanation
Indices: 49439768--49439799 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
49439758 TGAATTGATG
49439768 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
49439785 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
49439800 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:49441364 original size:396 final size:396
Alignment explanation
Indices: 49440632--49441422 Score: 1537
Period size: 396 Copynumber: 2.0 Consensus size: 396
49440622 GTGAATCTTG
49440632 TTTGATATGCTTTGTTAAGGTATTGTTATGTAATTTAGTAATTAAGTGAACCCGGAAATGACATA
1 TTTGATATGCTTTGTTAAGGTATTGTTATGTAATTTAGTAATTAAGTGAACCCGGAAATGACATA
49440697 TTTTGACTTATGATTTAATGGCTAAATCTTGTACAAATTATGAGGTTATTTATGGATGTCAATTT
66 TTTTGACTTATGATTTAATGGCTAAATCTTGTACAAATTATGAGGTTATTTATGGATGTCAATTT
49440762 GTTATGAAATAAATTAGGAATGTGGAGTATTTAATAAAGGTACGATTTGCTCATGCAAGTGGACT
131 GTTATGAAATAAATTAGGAATGTGGAGTATTTAATAAAGGTACGATTTGCTCATGCAAGTGGACT
49440827 TAATATTCGATTTTATTTTTGTAAAATGATATGAATTGTATGGATTTTTTTTTGATATGGCTAAA
196 TAATATTCGATTTTATTTTTGTAAAATGATATGAATTGTATGGATTTTTTTTTGATATGGCTAAA
49440892 ATGGTGTATTCATATGCGCAAACTTGTAATAGATAAATATGCATGTTTTTGGTCTTTTAAATGAT
261 ATGGTGTATTCATATGCGCAAACTTGTAATAGATAAATATGCATGTTTTTGGTCTTTTAAATGAT
*
49440957 ATATATAAATGATTTCAAGGTAGATTTAAAATTTATGAATAAGATACATACAAATTTAGGTAATG
326 ATATATAAATGATTTCAAGGTAGATTTAAAATTTATGAATAAGATACATACAAATTCAGGTAATG
49441022 ATAGTC
391 ATAGTC
*
49441028 TTTGATATGCTTTGTTAAGGTATTGTTATGTAATTTAGTAATTAAGTGAACCCGGAAATGGCATA
1 TTTGATATGCTTTGTTAAGGTATTGTTATGTAATTTAGTAATTAAGTGAACCCGGAAATGACATA
*
49441093 TTTTGACTTATGATTTAATGGCTATATCTTGTACAAATTATGAGGTTATTTATGGATGTCAATTT
66 TTTTGACTTATGATTTAATGGCTAAATCTTGTACAAATTATGAGGTTATTTATGGATGTCAATTT
49441158 GTTATGAAATAAATTAGGAATGTGGAGTATTTAATAAAGGTACGATTTGCTCATGCAAGTGGACT
131 GTTATGAAATAAATTAGGAATGTGGAGTATTTAATAAAGGTACGATTTGCTCATGCAAGTGGACT
*
49441223 TAATATTCGATTTTATTTTTGTAAAATGATATGAATTGTATGGTTTTTTTTTTGATATGGCTAAA
196 TAATATTCGATTTTATTTTTGTAAAATGATATGAATTGTATGGATTTTTTTTTGATATGGCTAAA
49441288 ATGGTGTATTCATATGCGCAAACTTGTAATAGATAAATATGCATGTTTTTGGTCTTTTAAATGAT
261 ATGGTGTATTCATATGCGCAAACTTGTAATAGATAAATATGCATGTTTTTGGTCTTTTAAATGAT
*
49441353 ATATATAAATGATTTCAAGGTAGATTTAAAATTTATGAATAAGATACATACAAATTCGGGTAATG
326 ATATATAAATGATTTCAAGGTAGATTTAAAATTTATGAATAAGATACATACAAATTCAGGTAATG
49441418 ATAGT
391 ATAGT
49441423 TAAGTGAGCA
Statistics
Matches: 390, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
396 390 1.00
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (396 bp):
TTTGATATGCTTTGTTAAGGTATTGTTATGTAATTTAGTAATTAAGTGAACCCGGAAATGACATA
TTTTGACTTATGATTTAATGGCTAAATCTTGTACAAATTATGAGGTTATTTATGGATGTCAATTT
GTTATGAAATAAATTAGGAATGTGGAGTATTTAATAAAGGTACGATTTGCTCATGCAAGTGGACT
TAATATTCGATTTTATTTTTGTAAAATGATATGAATTGTATGGATTTTTTTTTGATATGGCTAAA
ATGGTGTATTCATATGCGCAAACTTGTAATAGATAAATATGCATGTTTTTGGTCTTTTAAATGAT
ATATATAAATGATTTCAAGGTAGATTTAAAATTTATGAATAAGATACATACAAATTCAGGTAATG
ATAGTC
Found at i:49444192 original size:109 final size:102
Alignment explanation
Indices: 49444007--49444349 Score: 322
Period size: 109 Copynumber: 3.2 Consensus size: 102
49443997 ATAATACTGA
* * * *
49444007 TATACGAAAAACGA-AAAAAAAATTTGGGTGCTGGCCTGTCAATGGGCGGCACCCAGTACAATTT
1 TATACGAAAAA-AATAAAAAAAATTTTGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAATTT
* * *
49444071 AAAATTTTTTTTTCTTTTTTCTTTCATGTCAGAATTAGATATCAG
65 AAAA------ATTCTTTTTT-TTTCGTGTCAGAATCAGATATCAG
* *
49444116 TATACGAAAAAAATAAAAAAAATTTTGGTGCTGACCTATCAATGGCCGGCACCTAGTACAATTTT
1 TATACGAAAAAAATAAAAAAAATTTTGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAA--TT
* *
49444181 TGAAAAA-----TTTTTTT-GTGTCAGAAACAGATATTAG
64 T-AAAAATTCTTTTTTTTTCGTGTCAGAATCAGATATCAG
**
49444215 TATACGAAAAAAATTAAAAAAAAAATTTTGGGTGCTGGCCTATCAATGGCCAACACCCAGTACAA
1 TATACGAAAAAAA-T--AAAAAAAATTTT-GGTGCTGGCCTATCAATGGCCGGCACCCAGTACAA
* *
49444280 TTTAAAAAAAATTCTTTCTTTTTTCGTGTCAAAATCAGATATCAA
62 TTT---AAAAATTCTTT-TTTTTTCGTGTCAGAATCAGATATCAG
*
49444325 TATACAAAAAAAATAAAAAAAATTT
1 TATACGAAAAAAATAAAAAAAATTT
49444350 GGATATTTGA
Statistics
Matches: 196, Mismatches: 21, Indels: 36
0.77 0.08 0.14
Matches are distributed among these distances:
99 29 0.15
100 4 0.02
101 7 0.04
102 12 0.06
103 36 0.18
107 11 0.06
108 2 0.01
109 60 0.31
110 28 0.14
111 3 0.02
112 4 0.02
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (102 bp):
TATACGAAAAAAATAAAAAAAATTTTGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAATTTA
AAAATTCTTTTTTTTTCGTGTCAGAATCAGATATCAG
Found at i:49444210 original size:99 final size:103
Alignment explanation
Indices: 49444092--49444349 Score: 292
Period size: 103 Copynumber: 2.5 Consensus size: 103
49444082 TTCTTTTTTC
* **
49444092 TTTCATGTCAGAATTAGATATCAGTATACGAAAAAAATAAAAAAAATTTT-GGTGCTGACCTATC
1 TTTCGTGTCAGAAACAGATATCAGTATACGAAAAAAATAAAAAAAATTTTGGGTGCTGACCTATC
** * ***
49444156 AATGGCCGGCACCTAGTACAATTTTTGAAAAA-T-TTT
66 AATGGCCAACACCCAGTACAATTTAAAAAAAATTCTTT
* *
49444192 TTT-GTGTCAGAAACAGATATTAGTATACGAAAAAAATTAAAAAAAAAATTTTGGGTGCTGGCCT
1 TTTCGTGTCAGAAACAGATATCAGTATACGAAAAAAA-T--AAAAAAAATTTTGGGTGCTGACCT
49444256 ATCAATGGCCAACACCCAGTACAATTTAAAAAAAATTCTTTCTTT
63 ATCAATGGCCAACACCCAGTACAATTTAAAAAAAA----TTCTTT
* *
49444301 TTTCGTGTCA-AAATCAGATATCAATATACAAAAAAAATAAAAAAAATTT
1 TTTCGTGTCAGAAA-CAGATATCAGTATACGAAAAAAATAAAAAAAATTT
49444350 GGATATTTGA
Statistics
Matches: 132, Mismatches: 14, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
99 29 0.22
100 4 0.03
102 12 0.09
103 39 0.30
107 11 0.08
108 1 0.01
109 10 0.08
110 26 0.20
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.31
Consensus pattern (103 bp):
TTTCGTGTCAGAAACAGATATCAGTATACGAAAAAAATAAAAAAAATTTTGGGTGCTGACCTATC
AATGGCCAACACCCAGTACAATTTAAAAAAAATTCTTT
Found at i:49444535 original size:101 final size:100
Alignment explanation
Indices: 49444351--49444842 Score: 437
Period size: 99 Copynumber: 4.9 Consensus size: 100
49444341 AAAAAATTTG
* *
49444351 GATATTTGATTCTGACACGAAATTTTTTTTTTTAAAATTGTACTGGGTGCCGGTCATTGACAGGC
1 GATATCTGATTCTGACACGAAA-TTTTTTTTTT-AAATTGTACTGGGTGCCGGCCATTGACAGGC
* *
49444416 CAGCACCCAAAAAATTTTTTTTTATTTTTTTCGTATACT
64 CAACACCC--AAAATTTTTTTTTTTTTTTTTCGTATACT
* *
49444455 GATATCTGATTTTGACACGAAA-TTTTTTTTTAAATTGTACTGGGTGCCGGCCATTCACAGGCCA
1 GATATCTGATTCTGACACGAAATTTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCA
* *
49444519 ACACCCAAAATTTTTTTTATTTTTTTTCGTATATT
66 ACACCCAAAATTTTTTTTTTTTTTTTTCGTATACT
** *
49444554 GATATCTGATTCTGACACGAAAAAAAAGAATTTTTTTTAAATTGTACTAGGTGCCGGCCATTGAC
1 GATATCTGATTCTGACACG-----AAA-TTTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGAC
**
49444619 ---CC-A-A---AATTTTTATTTTTTTATTTTTTTCGTATACT
60 AGGCCAACACCCAAAATTT-TTTTTTT-TTTTTTTCGTATACT
* ***
49444654 GATATCTGATTCTGACATGGAAAAAAAAAGAATTTTTTTAAATTGTACTGGGTGCCGGCCATTGA
1 GATATCTGATTCTGACA-CG------AAATTTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGA
* * *
49444719 CAGGCCAACACCCCAAA--------TTTTTTTTTCATATATT
59 CAGGCCAACACCCAAAATTTTTTTTTTTTTTTTTCGTATACT
* ** * *
49444753 GATATCTAACCCTGGCAC-AAATTTTTTTTTTAAATTGTACTGGGTGCTGGCCATTGACAGG-CA
1 GATATCTGATTCTGACACGAAATTTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCA
*
49444816 AGCACCCAAAATTTTTTTTTTGTTTTT
66 A-CACCCAAAATTTTTTTTTTTTTTTT
49444843 CTTTTTTTCC
Statistics
Matches: 324, Mismatches: 36, Indels: 61
0.77 0.09 0.14
Matches are distributed among these distances:
90 3 0.01
91 47 0.15
98 5 0.02
99 83 0.26
100 33 0.10
101 72 0.22
102 18 0.06
103 2 0.01
104 25 0.08
105 1 0.00
106 34 0.10
109 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (100 bp):
GATATCTGATTCTGACACGAAATTTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCA
ACACCCAAAATTTTTTTTTTTTTTTTTCGTATACT
Found at i:49444669 original size:100 final size:102
Alignment explanation
Indices: 49444530--49444719 Score: 323
Period size: 101 Copynumber: 1.9 Consensus size: 102
49444520 CACCCAAAAT
*
49444530 TTTTTTTATTTTTTTTCGTATATTGATATCTGATTCTGACA-CG-AAAAAAAAGAATTTTTTTTA
1 TTTTTTTATTTTTTTTCGTATACTGATATCTGATTCTGACATCGAAAAAAAAAGAA-TTTTTTTA
49444593 AATTGTACTAGGTGCCGGCCATTGACCCAAAATTTTTA
65 AATTGTACTAGGTGCCGGCCATTGACCCAAAATTTTTA
*
49444631 TTTTTTTA-TTTTTTTCGTATACTGATATCTGATTCTGACATGGAAAAAAAAAGAATTTTTTTAA
1 TTTTTTTATTTTTTTTCGTATACTGATATCTGATTCTGACATCGAAAAAAAAAGAATTTTTTTAA
*
49444695 ATTGTACTGGGTGCCGGCCATTGAC
66 ATTGTACTAGGTGCCGGCCATTGAC
49444720 AGGCCAACAC
Statistics
Matches: 84, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
100 31 0.37
101 42 0.50
102 11 0.13
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.44
Consensus pattern (102 bp):
TTTTTTTATTTTTTTTCGTATACTGATATCTGATTCTGACATCGAAAAAAAAAGAATTTTTTTAA
ATTGTACTAGGTGCCGGCCATTGACCCAAAATTTTTA
Found at i:49451919 original size:3 final size:3
Alignment explanation
Indices: 49451911--49451958 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
49451901 TGCTGGGTTG
*
49451911 TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49451959 ACTCATAAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:49459687 original size:13 final size:14
Alignment explanation
Indices: 49459655--49459687 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
49459645 GAGTTCATAA
49459655 ATTATTCAAGTATT
1 ATTATTCAAGTATT
*
49459669 ACTATTCAA-TATT
1 ATTATTCAAGTATT
49459682 ATTATT
1 ATTATT
49459688 TAGCATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (14 bp):
ATTATTCAAGTATT
Found at i:49469746 original size:558 final size:558
Alignment explanation
Indices: 49468692--49469803 Score: 2215
Period size: 558 Copynumber: 2.0 Consensus size: 558
49468682 AGAGCCTAGC
49468692 AGGTATTGAGTCGGTGTGGCCATATCAGGTAACTTGTATGGAAGATACTTTTTCAAGTAACCGTC
1 AGGTATTGAGTCGGTGTGGCCATATCAGGTAACTTGTATGGAAGATACTTTTTCAAGTAACCGTC
49468757 GAATTTAAAAATGTTTATGACCTTATAAGCTTATATATGGTGTATCAGTTCGTGACTTGGTGATT
66 GAATTTAAAAATGTTTATGACCTTATAAGCTTATATATGGTGTATCAGTTCGTGACTTGGTGATT
49468822 TTAAACAATTCAGATTTTTATAGATTAAATTATATTGGTCGTTTGAGATAGGGAATCATGATACG
131 TTAAACAATTCAGATTTTTATAGATTAAATTATATTGGTCGTTTGAGATAGGGAATCATGATACG
49468887 TCGTTACATTAATGTACTTATATTTTTTAGTATAACAAGTTAACTTCAGGAACTTACTAAGCTTT
196 TCGTTACATTAATGTACTTATATTTTTTAGTATAACAAGTTAACTTCAGGAACTTACTAAGCTTT
49468952 ACTCGAGCTTACTTCGTTTGATTTAATTTTGTAGGTCCGTTAAAATTTTGACATCGATTGGACCA
261 ACTCGAGCTTACTTCGTTTGATTTAATTTTGTAGGTCCGTTAAAATTTTGACATCGATTGGACCA
49469017 GCTCAAGAGATCTCACACTATCCACTATATTTTTGATAGTCATATTGTTCATTTTGGGGTCGATT
326 GCTCAAGAGATCTCACACTATCCACTATATTTTTGATAGTCATATTGTTCATTTTGGGGTCGATT
49469082 TGAAGTGGCATGTAAATAGGGTATCTAGATATATATGTTTTAAACTCTAATTAATAAACAACTTT
391 TGAAGTGGCATGTAAATAGGGTATCTAGATATATATGTTTTAAACTCTAATTAATAAACAACTTT
*
49469147 TGTTGGATTAGTAACTTGTATAAGTCATTATGGTACTTGATGGACGTGCTTGGTGTTTTGCAATG
456 TGTTGGATTAGTAACTTGTATAAGTCATTATAGTACTTGATGGACGTGCTTGGTGTTTTGCAATG
49469212 GTTATATGTAATTATCATTAAGTATCATATTGAGGTGG
521 GTTATATGTAATTATCATTAAGTATCATATTGAGGTGG
49469250 AGGTATTGAGTCGGTGTGGCCATATCAGGTAACTTGTATGGAAGATACTTTTTCAAGTAACCGTC
1 AGGTATTGAGTCGGTGTGGCCATATCAGGTAACTTGTATGGAAGATACTTTTTCAAGTAACCGTC
49469315 GAATTTAAAAATGTTTATGACCTTATAAGCTTATATATGGTGTATCAGTTCGTGACTTGGTGATT
66 GAATTTAAAAATGTTTATGACCTTATAAGCTTATATATGGTGTATCAGTTCGTGACTTGGTGATT
49469380 TTAAACAATTCAGATTTTTATAGATTAAATTATATTGGTCGTTTGAGATAGGGAATCATGATACG
131 TTAAACAATTCAGATTTTTATAGATTAAATTATATTGGTCGTTTGAGATAGGGAATCATGATACG
49469445 TCGTTACATTAATGTACTTATATTTTTTAGTATAACAAGTTAACTTCAGGAACTTACTAAGCTTT
196 TCGTTACATTAATGTACTTATATTTTTTAGTATAACAAGTTAACTTCAGGAACTTACTAAGCTTT
49469510 ACTCGAGCTTACTTCGTTTGATTTAATTTTGTAGGTCCGTTAAAATTTTGACATCGATTGGACCA
261 ACTCGAGCTTACTTCGTTTGATTTAATTTTGTAGGTCCGTTAAAATTTTGACATCGATTGGACCA
49469575 GCTCAAGAGATCTCACACTATCCACTATATTTTTGATAGTCATATTGTTCATTTTGGGGTCGATT
326 GCTCAAGAGATCTCACACTATCCACTATATTTTTGATAGTCATATTGTTCATTTTGGGGTCGATT
49469640 TGAAGTGGCATGTAAATAGGGTATCTAGATATATATGTTTTAAACTCTAATTAATAAACAACTTT
391 TGAAGTGGCATGTAAATAGGGTATCTAGATATATATGTTTTAAACTCTAATTAATAAACAACTTT
49469705 TGTTGGATTAGTAACTTGTATAAGTCATTATAGTACTTGATGGACGTGCTTGGTGTTTTGCAATG
456 TGTTGGATTAGTAACTTGTATAAGTCATTATAGTACTTGATGGACGTGCTTGGTGTTTTGCAATG
49469770 GTTATATGTAATTATCATTAAGTATCATATTGAG
521 GTTATATGTAATTATCATTAAGTATCATATTGAG
49469804 ATGGGAATGG
Statistics
Matches: 553, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
558 553 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.39
Consensus pattern (558 bp):
AGGTATTGAGTCGGTGTGGCCATATCAGGTAACTTGTATGGAAGATACTTTTTCAAGTAACCGTC
GAATTTAAAAATGTTTATGACCTTATAAGCTTATATATGGTGTATCAGTTCGTGACTTGGTGATT
TTAAACAATTCAGATTTTTATAGATTAAATTATATTGGTCGTTTGAGATAGGGAATCATGATACG
TCGTTACATTAATGTACTTATATTTTTTAGTATAACAAGTTAACTTCAGGAACTTACTAAGCTTT
ACTCGAGCTTACTTCGTTTGATTTAATTTTGTAGGTCCGTTAAAATTTTGACATCGATTGGACCA
GCTCAAGAGATCTCACACTATCCACTATATTTTTGATAGTCATATTGTTCATTTTGGGGTCGATT
TGAAGTGGCATGTAAATAGGGTATCTAGATATATATGTTTTAAACTCTAATTAATAAACAACTTT
TGTTGGATTAGTAACTTGTATAAGTCATTATAGTACTTGATGGACGTGCTTGGTGTTTTGCAATG
GTTATATGTAATTATCATTAAGTATCATATTGAGGTGG
Found at i:49476674 original size:41 final size:41
Alignment explanation
Indices: 49476617--49476727 Score: 107
Period size: 41 Copynumber: 2.7 Consensus size: 41
49476607 GTATTAGACT
*
49476617 TTGAGTCTAGCAGGCTTCGTGCCAGTGTATGGAATCAGGCC
1 TTGAGCCTAGCAGGCTTCGTGCCAGTGTATGGAATCAGGCC
* * * * * *
49476658 TTGAGCCTAGTAGGCTTTGTGCCGGTGTATTGTATCAGG-T
1 TTGAGCCTAGCAGGCTTCGTGCCAGTGTATGGAATCAGGCC
* * **
49476698 TTTATACCTAGCAGGCTTTATGCCAGTGTA
1 TTGA-GCCTAGCAGGCTTCGTGCCAGTGTA
49476728 ATTGTAACAG
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
40 3 0.05
41 54 0.95
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (41 bp):
TTGAGCCTAGCAGGCTTCGTGCCAGTGTATGGAATCAGGCC
Found at i:49477847 original size:30 final size:30
Alignment explanation
Indices: 49477812--49478377 Score: 747
Period size: 30 Copynumber: 18.7 Consensus size: 30
49477802 GTATACATTT
*
49477812 TATACATTGCCAAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* *
49477842 TATACAATGCCGAATTGATTTGTATATAGC
1 TATACATTGCCGAATTGATTTGTATATAGA
* *
49477872 TATATATTGCCGAATTGATTTGTATATAGC
1 TATACATTGCCGAATTGATTTGTATATAGA
* * *
49477902 TATACATTGCCGAATTGATTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* *
49477932 TATACATTGCCAAATTGATTGGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* * *
49477962 TATACATTG-CGAAATTCATTTGTATTTGGA
1 TATACATTGCCG-AATTGATTTGTATATAGA
* * *
49477992 TATACATTGCCGAATTGATTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* ** *
49478022 TATAAATTATCGAATTGATTGGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* * * *
49478052 TATACATTACCGAATTGATCTGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* * * *
49478082 TATACATTGCCGAATTAATTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
49478112 TATACATTGCCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* *
49478142 TATACATTGCCGAATTGATTTGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
49478172 TATACATTGCCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* *
49478202 TATACATTGCCTAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
49478232 TATACATTGCCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* *
49478262 TATACATTGCCTAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
49478292 TATACATTGCCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* *
49478322 TATACATTGTCGAATTGATTTGTATATGTACACA
1 TATACATTGCCGAATTGATTTGTATA--T--AGA
*
49478356 TATATATTGCCGAATTGATTTG
1 TATACATTGCCGAATTGATTTG
49478378 AGCATTGGAT
Statistics
Matches: 473, Mismatches: 57, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
29 1 0.00
30 447 0.95
31 2 0.00
32 1 0.00
34 22 0.05
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.41
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATAGA
Found at i:49488532 original size:28 final size:28
Alignment explanation
Indices: 49488501--49488556 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
49488491 TATCATTCAC
*
49488501 CCTCTAATTCATTTTATACCATCTTAGG
1 CCTCTAATTAATTTTATACCATCTTAGG
49488529 CCTCTAATTAATTTTATACCATCTTAGG
1 CCTCTAATTAATTTTATACCATCTTAGG
49488557 TGATTTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (28 bp):
CCTCTAATTAATTTTATACCATCTTAGG
Found at i:49489354 original size:50 final size:50
Alignment explanation
Indices: 49489238--49489430 Score: 314
Period size: 50 Copynumber: 3.8 Consensus size: 50
49489228 GATAATAACA
* ** *
49489238 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* **
49489289 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
49489339 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
49489389 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
49489431 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 98 0.74
51 34 0.26
ACGTcount: A:0.20, C:0.31, G:0.24, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:49489546 original size:13 final size:13
Alignment explanation
Indices: 49489525--49489554 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
49489515 GCTTGGATAA
49489525 TCATCAAATAAAT
1 TCATCAAATAAAT
*
49489538 TCATGAAATAAAT
1 TCATCAAATAAAT
49489551 TCAT
1 TCAT
49489555 AGTTACTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:49497850 original size:40 final size:40
Alignment explanation
Indices: 49497806--49498067 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
49497796 GCTCCTCGTT
* *
49497806 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
49497846 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
49497886 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
49497925 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
49497964 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
49498003 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
49498044 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49498068 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:49512847 original size:28 final size:28
Alignment explanation
Indices: 49512815--49512868 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
49512805 GTTAAGTTAG
* *
49512815 TTAACACTGTAGCTAAGGTTTATTTGTA
1 TTAACACTATAACTAAGGTTTATTTGTA
49512843 TTAACACTATAACTAAGGTTTATTTG
1 TTAACACTATAACTAAGGTTTATTTG
49512869 CATTTCAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (28 bp):
TTAACACTATAACTAAGGTTTATTTGTA
Found at i:49516163 original size:10 final size:10
Alignment explanation
Indices: 49516148--49516176 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
49516138 GAAATGTTTG
49516148 ATGATATAAT
1 ATGATATAAT
49516158 ATGATATAAT
1 ATGATATAAT
49516168 A-GATATAAT
1 ATGATATAAT
49516177 TGTTTTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (10 bp):
ATGATATAAT
Found at i:49517365 original size:30 final size:30
Alignment explanation
Indices: 49517331--49517394 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
49517321 TGATTTGAGG
* *
49517331 CACAACCGTATGTTATAACTCAGTGTGTTA
1 CACAACCGTATGTCATAACTCAGTGAGTTA
* * *
49517361 CACAATCGTGTGTCATAAGTCAGTGAGTTA
1 CACAACCGTATGTCATAACTCAGTGAGTTA
49517391 CACA
1 CACA
49517395 GGCTGAGACA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (30 bp):
CACAACCGTATGTCATAACTCAGTGAGTTA
Found at i:49520998 original size:42 final size:42
Alignment explanation
Indices: 49520924--49521020 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
49520914 GTGTTTCAAG
* * * * *
49520924 TCAGTGAGTTACACGGCCTGACACGCGGGCGTGTGTGGCAAC
1 TCAGAGAGTTACACAGCCTGACACACGAGCGTGTGAGGCAAC
*
49520966 TCAGAGAGTTACACAGCCTGGCACACGAGCGTGTGAGGCAAC
1 TCAGAGAGTTACACAGCCTGACACACGAGCGTGTGAGGCAAC
49521008 TCA-ATGAGTTACA
1 TCAGA-GAGTTACA
49521021 TGGGTGATGA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 47 0.98
ACGTcount: A:0.26, C:0.25, G:0.31, T:0.19
Consensus pattern (42 bp):
TCAGAGAGTTACACAGCCTGACACACGAGCGTGTGAGGCAAC
Found at i:49525278 original size:43 final size:43
Alignment explanation
Indices: 49525242--49525440 Score: 263
Period size: 43 Copynumber: 4.6 Consensus size: 43
49525232 ACGCTACTAT
* * * *
49525242 AGAACAATACCTTTAACGGCGCTTTTCACGCAAACGCCGCTAT
1 AGAACAAGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTAA
* * * *
49525285 AGAACAAGACTTTTATCGGCGCTTTTCCCACAAATGCCGCTAA
1 AGAACAAGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTAA
* * *
49525328 AGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
1 AGAACAAGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTAA
* *
49525371 AGAATAAGACCTTTAGCGACGCTTTTCACACAAACGCCGCTAA
1 AGAACAAGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTAA
* *
49525414 AGAATAAGACCTTTAGCGACGCTTTTC
1 AGAACAAGACCTTTAGCGGCGCTTTTC
49525441 TATCATGACC
Statistics
Matches: 139, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 139 1.00
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (43 bp):
AGAACAAGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTAA
Found at i:49529996 original size:20 final size:19
Alignment explanation
Indices: 49529971--49530036 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 19
49529961 AATATAAAAG
49529971 TTTAAAATATTTTCAAAATT
1 TTTAAAATATTTT-AAAATT
* *
49529991 TTTAAAAAAATTTAAAATCT
1 TTTAAAATATTTTAAAAT-T
49530011 TTTAAAATTCATTTT-AAATT
1 TTTAAAA-T-ATTTTAAAATT
49530031 TTTAAA
1 TTTAAA
49530037 TCACGAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 5 0.13
20 26 0.67
21 4 0.10
22 4 0.10
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTAAAATATTTTAAAATT
Found at i:49530564 original size:14 final size:14
Alignment explanation
Indices: 49530541--49530625 Score: 59
Period size: 13 Copynumber: 6.0 Consensus size: 14
49530531 AACACTAGTT
49530541 AATC-TAAACCCTA
1 AATCATAAACCCTA
49530554 AATCATAAA-CCTA
1 AATCATAAACCCTA
* *
49530567 AATCCTAAAACCTTAA
1 AATCAT-AAACCCT-A
* *
49530583 AACCATAAACCCTT
1 AATCATAAACCCTA
49530597 AA-CATATAACCTCTA
1 AATCATA-AACC-CTA
* *
49530612 AACCTTAAACCCTA
1 AATCATAAACCCTA
49530626 GCCTTTAAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
13 17 0.30
14 16 0.28
15 16 0.28
16 8 0.14
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (14 bp):
AATCATAAACCCTA
Found at i:49530726 original size:14 final size:14
Alignment explanation
Indices: 49530704--49530742 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
49530694 CCTAAATCTT
* *
49530704 AAACTCTAAACCAT
1 AAACCCTAAACCAA
*
49530718 ATACCCTAAACCAA
1 AAACCCTAAACCAA
49530732 AAACCCTAAAC
1 AAACCCTAAAC
49530743 TATAGTGATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.15
Consensus pattern (14 bp):
AAACCCTAAACCAA
Found at i:49531022 original size:41 final size:41
Alignment explanation
Indices: 49530938--49531085 Score: 185
Period size: 41 Copynumber: 3.6 Consensus size: 41
49530928 CATTAGCGGT
** * *
49530938 GCTTTCT-AGAAAACGCCGCTAAA-AATAGAGCATTCACAGC
1 GCTTTCTCA-AAAACGCCGCTAAAGCCTTGAGCATTCGCAGC
*
49530978 GCTTTCTCAAAAACGTCGCTAAAGCCTTGAGCATTCGCAGC
1 GCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATTCGCAGC
* *
49531019 GCTTTCTCAAAAACGCCGCTAAAACCTTGAGCATTAGC-GAC
1 GCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATTCGCAG-C
*
49531060 GCTTTCTTAAAAACGCCGCTAAAGCC
1 GCTTTCTCAAAAACGCCGCTAAAGCC
49531086 CCGAAAGCTC
Statistics
Matches: 95, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
40 21 0.22
41 74 0.78
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (41 bp):
GCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATTCGCAGC
Found at i:49531225 original size:32 final size:32
Alignment explanation
Indices: 49531179--49531239 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
49531169 GCGTTTTCCA
* *
49531179 TAAAGCGCCGCTAATGCTCGATCTTTAGCCGC
1 TAAAACGCCGCTAATGCTCGACCTTTAGCCGC
49531211 TAAAACGCCGCTAATGCTCGACCTTTAGC
1 TAAAACGCCGCTAATGCTCGACCTTTAGC
49531240 GGCATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.25
Consensus pattern (32 bp):
TAAAACGCCGCTAATGCTCGACCTTTAGCCGC
Found at i:49532301 original size:84 final size:83
Alignment explanation
Indices: 49532112--49532376 Score: 290
Period size: 83 Copynumber: 3.2 Consensus size: 83
49532102 TAATTTAATT
* * *
49532112 AAATCAAAATAAAAT-TTGTTAAACGACAGGAATAAATCTCGAAATAGA-ATTATTTGA-TT-AC
1 AAATC-AAATAAAATATTGTTAAACG-CAGGAATAAATCTCGAAACAGATTTTATTTAATTTAAC
* * * *
49532173 GTCTTTATTTGGAAACAATACA
64 -TC-TAATTTAGAAACAAAATA
* * *
49532195 ATATCGAATAAAATATTGTTAAACGGCAGGAATAAAT-TCCGAAACAGATTTTATTTAATTTAAT
1 AAATCAAATAAAATATTGTTAAAC-GCAGGAATAAATCT-CGAAACAGATTTTATTTAATTTAAC
49532259 TCTAATTTAGAAACAAAATA
64 TCTAATTTAGAAACAAAATA
* *
49532279 AAATCAAATCAAATATTGTTAAAC-AAGAGAATAAATCTCGAAACAGATTTTATTTAATTTAACT
1 AAATCAAATAAAATATTGTTAAACGCAG-GAATAAATCTCGAAACAGATTTTATTTAATTTAACT
* *
49532343 CCAATTTAGAAATAAAATA
65 CTAATTTAGAAACAAAATA
*
49532362 AAATAAAATAAAATA
1 AAATCAAATAAAATA
49532377 AAATAAAATC
Statistics
Matches: 155, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
82 11 0.07
83 95 0.61
84 44 0.28
85 4 0.03
86 1 0.01
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.31
Consensus pattern (83 bp):
AAATCAAATAAAATATTGTTAAACGCAGGAATAAATCTCGAAACAGATTTTATTTAATTTAACTC
TAATTTAGAAACAAAATA
Found at i:49532362 original size:5 final size:5
Alignment explanation
Indices: 49532352--49532385 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
49532342 TCCAATTTAG
49532352 AAATA AAATA AAATA AAATA AAATA AAATA AAAT
1 AAATA AAATA AAATA AAATA AAATA AAATA AAAT
49532386 CTTGTTAAAC
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:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:49532505 original size:86 final size:88
Alignment explanation
Indices: 49532402--49532700 Score: 245
Period size: 86 Copynumber: 3.4 Consensus size: 88
49532392 AAACAGTTGG
** *
49532402 AATAAATCTTGAAACAGATTTTA-TTTAATTTAATTTCTCGTTTTTGGCAACAAAATCAAAATGT
1 AATAAATCCCGAAACAGATTTTAGTTTAATTTAATTTCTCGTTTTTGGAAACAAAATCAAAAT-T
*
49532466 -AAT-AAATCCGTTGAACGGTGGA
65 AAATAAAATCCGTTGAACGGCGGA
* * *
49532488 AATAAATCCCGAAACAGATTTTATTTTAATTTTAA-TACTCGTTTTTTGGAAATAAAATCAAAAT
1 AATAAATCCCGAAACAGATTTTAGTTTAA-TTTAATTTCTCG-TTTTTGGAAACAAAATCAAAAT
** *
49532552 TAGAATAAAATTTGTTGAACGGCGGG
64 TA-AATAAAATCCGTTGAACGGCGGA
* * * * * * * * **
49532578 AGTAAATCCCAAAATAGATTTTAGTTAAATTTAATTTCCCG--TTCGGAAATAAAATAAAAATGG
1 AATAAATCCCGAAACAGATTTTAGTTTAATTTAATTTCTCGTTTTTGGAAACAAAATCAAAATTA
* * *
49532641 AATAAAATCCATTAAACAGC-GA
66 AATAAAATCCGTTGAACGGCGGA
* ** *
49532663 GAATAAATCCTGAAATGGATTTTA-TTTACTTTTAATTT
1 -AATAAATCCCGAAACAGATTTTAGTTTA-ATTTAATTT
49532701 GAAAACAAAA
Statistics
Matches: 172, Mismatches: 32, Indels: 18
0.77 0.14 0.08
Matches are distributed among these distances:
85 4 0.02
86 63 0.37
87 29 0.17
88 25 0.15
89 8 0.05
90 43 0.25
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (88 bp):
AATAAATCCCGAAACAGATTTTAGTTTAATTTAATTTCTCGTTTTTGGAAACAAAATCAAAATTA
AATAAAATCCGTTGAACGGCGGA
Found at i:49532758 original size:73 final size:73
Alignment explanation
Indices: 49532634--49532771 Score: 188
Period size: 73 Copynumber: 1.9 Consensus size: 73
49532624 AAATAAAATA
* * ***
49532634 AAAATGGAATAAAATCCATTAAACAGCGAGAATAAATCCTGAAATGGATTTTATTTACTTTTAAT
1 AAAATCGAATAAAATCCATTAAACAGCGAGAATAAATCCCGAAACAAATTTTATTTACTTTTAAT
49532699 TTGAAAAC
66 TTGAAAAC
* * *
49532707 AAAATCGAATAAAATCTATTAAAC-GACGGGAATAAATCCCGAAACAAATTTTATTTAGTTTTAA
1 AAAATCGAATAAAATCCATTAAACAG-CGAGAATAAATCCCGAAACAAATTTTATTTACTTTTAA
49532771 T
65 T
49532772 ATTCTTTTCG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 1 0.02
73 55 0.98
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (73 bp):
AAAATCGAATAAAATCCATTAAACAGCGAGAATAAATCCCGAAACAAATTTTATTTACTTTTAAT
TTGAAAAC
Found at i:49535811 original size:21 final size:21
Alignment explanation
Indices: 49535785--49535837 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
49535775 AGCGGTGGCG
* *
49535785 GTGAGATTAGTTACTGTAGTA
1 GTGAGATTAGATACTGTAGCA
*
49535806 GTGAGATTAGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
49535827 GTGAGATTAGA
1 GTGAGATTAGA
49535838 AACAATGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.06, G:0.32, T:0.32
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:49537428 original size:45 final size:45
Alignment explanation
Indices: 49537364--49537456 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
49537354 TCATAGTTTA
49537364 ACAGAAATAAATAGTCACCCTGATACTAGTGTATATATATATATT
1 ACAGAAATAAATAGTCACCCTGATACTAGTGTATATATATATATT
49537409 ACAGAAATAAATAGTCACCCTGATACTAGTGTATATATATATATT
1 ACAGAAATAAATAGTCACCCTGATACTAGTGTATATATATATATT
49537454 ACA
1 ACA
49537457 AACTTCAGGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (45 bp):
ACAGAAATAAATAGTCACCCTGATACTAGTGTATATATATATATT
Found at i:49545248 original size:20 final size:21
Alignment explanation
Indices: 49545225--49545265 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
49545215 TAAATTTCTC
*
49545225 CAAAATATTT-TCTAAGTATT
1 CAAAATATTTATCAAAGTATT
*
49545245 CAAAGTATTTATCAAAGTATT
1 CAAAATATTTATCAAAGTATT
49545266 TGGAGTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (21 bp):
CAAAATATTTATCAAAGTATT
Found at i:49553887 original size:106 final size:105
Alignment explanation
Indices: 49553759--49553983 Score: 281
Period size: 106 Copynumber: 2.1 Consensus size: 105
49553749 AGTTTATTTC
* * * * *
49553759 TTAAGAATGTATTGGTCCTTTTGACGCGAAGAGGGATGACAAACCAAGCACCCTACCCCAGTTAT
1 TTAACAATGTTTTGGTCCTTTTGACACGAAGAGGGATGACAAACCAAGCACCCCACCCCAGTTAC
* * *
49553824 TTAGCCCAACACACTCCTATTTTTTTTTATTATTATTTTGG
66 TTAGCCCAACACACTCCTAATTTTTTTTATT-TAATTCTGG
* * * * *
49553865 TTAATAATGTTTTGG-CCATTTTGACACGAAGTGGGATGACAACCCAAGCACCCCATCCCGGTTA
1 TTAACAATGTTTTGGTCC-TTTTGACACGAAGAGGGATGACAAACCAAGCACCCCACCCCAGTTA
* *
49553929 CTTAGCCCAACACACTCTTAATTTTTTTTGTTTAATTCTGG
65 CTTAGCCCAACACACTCCTAATTTTTTTTATTTAATTCTGG
*
49553970 TTAACAAAGTTTTG
1 TTAACAATGTTTTG
49553984 TGTAACACGT
Statistics
Matches: 102, Mismatches: 16, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
105 21 0.21
106 81 0.79
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (105 bp):
TTAACAATGTTTTGGTCCTTTTGACACGAAGAGGGATGACAAACCAAGCACCCCACCCCAGTTAC
TTAGCCCAACACACTCCTAATTTTTTTTATTTAATTCTGG
Found at i:49554760 original size:14 final size:14
Alignment explanation
Indices: 49554741--49554795 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 14
49554731 AACATGCAAG
49554741 AAAATA-AAGAAAAT
1 AAAATATAA-AAAAT
*
49554755 AAAATATAAAATAT
1 AAAATATAAAAAAT
49554769 AAAATATATAACAGAAT
1 AAAATATA-AA-A-AAT
49554786 AAAA-ATAAAA
1 AAAATATAAAA
49554796 TAAAATTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 19 0.54
15 6 0.17
16 4 0.11
17 6 0.17
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (14 bp):
AAAATATAAAAAAT
Found at i:49554930 original size:25 final size:25
Alignment explanation
Indices: 49554902--49554953 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
49554892 TATGGGCTTG
49554902 AAAATTCTCCTATTTTACCACATCC
1 AAAATTCTCCTATTTTACCACATCC
49554927 AAAATTCTCCTATTTTACCACATCC
1 AAAATTCTCCTATTTTACCACATCC
49554952 AA
1 AA
49554954 CATAAGGTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (25 bp):
AAAATTCTCCTATTTTACCACATCC
Found at i:49559804 original size:13 final size:13
Alignment explanation
Indices: 49559786--49559846 Score: 68
Period size: 13 Copynumber: 4.7 Consensus size: 13
49559776 CTAGTTTAGC
49559786 AATGCTTTTAAAA
1 AATGCTTTTAAAA
49559799 AATGCTTTTAAAA
1 AATGCTTTTAAAA
* *
49559812 AATACTTTTGAAA
1 AATGCTTTTAAAA
* * **
49559825 AGTGCTGTGGAAA
1 AATGCTTTTAAAA
49559838 AATGCTTTT
1 AATGCTTTT
49559847 GAGAAGTACT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AATGCTTTTAAAA
Found at i:49559858 original size:13 final size:13
Alignment explanation
Indices: 49559803--49559866 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
49559793 TTAAAAAATG
* *
49559803 CTTTTAAAAAATA
1 CTTTTGAAAAGTA
*
49559816 CTTTTGAAAAGTG
1 CTTTTGAAAAGTA
* * * *
49559829 CTGTGGAAAAATG
1 CTTTTGAAAAGTA
*
49559842 CTTTTGAGAAGTA
1 CTTTTGAAAAGTA
49559855 CTTTTGAAAAGT
1 CTTTTGAAAAGT
49559867 TTGGTTTAAA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.36
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:49559863 original size:26 final size:26
Alignment explanation
Indices: 49559803--49559864 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
49559793 TTAAAAAATG
* *
49559803 CTTTTAAAAAATACTTTTGAAAAGTG
1 CTTTTGAAAAATACTTTTGAAAAGTA
* * * *
49559829 CTGTGGAAAAATGCTTTTGAGAAGTA
1 CTTTTGAAAAATACTTTTGAAAAGTA
49559855 CTTTTGAAAA
1 CTTTTGAAAA
49559865 GTTTGGTTTA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (26 bp):
CTTTTGAAAAATACTTTTGAAAAGTA
Found at i:49561493 original size:30 final size:31
Alignment explanation
Indices: 49561459--49561520 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
49561449 TCTGGTTTCA
*
49561459 TGCATGTAACGTAGG-TTTTGCATGCATTCT
1 TGCATGCAACGTAGGTTTTTGCATGCATTCT
* *
49561489 TGCATGCAACGTGGGTTTTTGCATGGATTCT
1 TGCATGCAACGTAGGTTTTTGCATGCATTCT
49561520 T
1 T
49561521 AAACTTTGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 13 0.46
31 15 0.54
ACGTcount: A:0.18, C:0.16, G:0.26, T:0.40
Consensus pattern (31 bp):
TGCATGCAACGTAGGTTTTTGCATGCATTCT
Found at i:49566033 original size:30 final size:31
Alignment explanation
Indices: 49565999--49566060 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
49565989 TTTGGTTTCA
*
49565999 TGCATGTAACGTAGG-TTTTGCATGGATTCT
1 TGCATGCAACGTAGGTTTTTGCATGGATTCT
*
49566029 TGCATGCAACGTGGGTTTTTGCATGGATTCT
1 TGCATGCAACGTAGGTTTTTGCATGGATTCT
49566060 T
1 T
49566061 AAACTTTGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.18, C:0.15, G:0.27, T:0.40
Consensus pattern (31 bp):
TGCATGCAACGTAGGTTTTTGCATGGATTCT
Found at i:49583619 original size:6 final size:6
Alignment explanation
Indices: 49583608--49583636 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
49583598 TAATAATTAC
49583608 ATATTT ATATTT ATATTT ATATTT ATATT
1 ATATTT ATATTT ATATTT ATATTT ATATT
49583637 AAATCACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATATTT
Found at i:49583817 original size:40 final size:39
Alignment explanation
Indices: 49583738--49583826 Score: 126
Period size: 40 Copynumber: 2.3 Consensus size: 39
49583728 AAAATTTATA
* * *
49583738 TTTAATACAATAAAATATTTATTATATTTATTTGTGTTTT
1 TTTAATATAATAAAACATTTATTATATTTATTGGTG-TTT
49583778 TTTAATATAATAAAACATTTATTATATTTA-TGGTAGTTT
1 TTTAATATAATAAAACATTTATTATATTTATTGGT-GTTT
49583817 TTTAATATAA
1 TTTAATATAA
49583827 ATATTTTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 16 0.36
40 29 0.64
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (39 bp):
TTTAATATAATAAAACATTTATTATATTTATTGGTGTTT
Found at i:49590879 original size:19 final size:19
Alignment explanation
Indices: 49590851--49590914 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
49590841 AATTTTAGAG
*
49590851 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
49590870 GATATGCAATTTTAGATAT
1 GATATGCAATCTTAGATAT
49590889 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
49590910 GATAT
1 GATAT
49590915 ATACAATCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
19 22 0.55
21 18 0.45
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:49590933 original size:19 final size:21
Alignment explanation
Indices: 49590852--49590927 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
49590842 ATTTTAGAGG
49590852 ATATACAATCTTAGATATG--
1 ATATACAATCTTAGATATGAT
* *
49590871 ATATGCAATTTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
49590892 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
49590913 ATATACAATCTTAGA
1 ATATACAATCTTAGA
49590928 ATATATGATT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.33
21 34 0.67
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:49591151 original size:19 final size:21
Alignment explanation
Indices: 49591127--49591165 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
49591117 GTTTTCTTTT
*
49591127 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
49591146 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
49591166 TTAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:49591395 original size:3 final size:3
Alignment explanation
Indices: 49591387--49591423 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
49591377 ATTAATTTTG
49591387 TTA TTA TTA TTA TTA -TA TTA TATA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T
49591424 ACCTACATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:49595781 original size:15 final size:15
Alignment explanation
Indices: 49595753--49595794 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
49595743 CAAATTTTTC
49595753 AAAAA-AAA-AAAAG
1 AAAAAGAAAGAAAAG
*
49595766 AGAAAGAAAGAAAAG
1 AAAAAGAAAGAAAAG
49595781 AAAAAGAAAGAAAA
1 AAAAAGAAAGAAAA
49595795 ATGAGAGGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 4 0.16
14 3 0.12
15 18 0.72
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAGAAAAG
Found at i:49595788 original size:19 final size:20
Alignment explanation
Indices: 49595756--49595793 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
49595746 ATTTTTCAAA
49595756 AAAAAAAAAGAGAAAGAAAG
1 AAAAAAAAAGAGAAAGAAAG
*
49595776 AAAAGAAAA-AGAAAGAAA
1 AAAAAAAAAGAGAAAGAAA
49595794 AATGAGAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGAGAAAGAAAG
Found at i:49597330 original size:131 final size:132
Alignment explanation
Indices: 49597013--49597592 Score: 872
Period size: 131 Copynumber: 4.5 Consensus size: 132
49597003 CGGTGAAACG
* *
49597013 CCAAGCCTTGTCTCCTTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG-
1 CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* * * * *
49597077 AGTAGTGGAACAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGCGGGAAGTAGATTTAAGC
66 AGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
49597142 CA
131 CA
*
49597144 CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGT
1 CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
*
49597209 AGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAAGC
66 AGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
49597274 CA
131 CA
* * * *
49597276 CCAAGCCTTATCTCCTTCAGCAACAGCGGAGTA-GTTGAAGATTGTAGATCTTATCTCCCTAAGC
1 CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* * * *
49597340 AGTAGTGAAGCAGATCAAATACGGTAAATCTTATCTTTCGAAGATAATGGGAAGCAGATTTAAGC
66 AGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
49597405 CA
131 CA
* * *
49597407 CAAAGCCTTGTCTCCCTAAGCAGCAGC-G-G-A-G-T-AAG-TTGTAGATCCTATCTCCCTAAGC
1 CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
*
49597465 AGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
66 AGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
49597530 CA
131 CA
* * * *
49597532 CCAAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATGGCAAATCTTATCTCCCT
1 CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCT
49597593 GAAGTTGCAG
Statistics
Matches: 405, Mismatches: 36, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
125 108 0.27
126 4 0.01
127 2 0.00
128 3 0.01
129 2 0.00
130 2 0.00
131 179 0.44
132 105 0.26
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (132 bp):
CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
AGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
CA
Found at i:49597632 original size:44 final size:43
Alignment explanation
Indices: 49597579--49597954 Score: 232
Period size: 44 Copynumber: 8.7 Consensus size: 43
49597569 GAAGATGGCA
*
49597579 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-AT
* * * *
49597623 AATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACCTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAT
* * * *** *
49597666 GGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCATC-T
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAT
* * * ** *
49597707 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTCAGCAGCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAACCAT
* * * *
49597750 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGTAGACTGAAGATAGCA-
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-ACCAT
* *
49597795 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-AT
* * * * *
49597839 AATCCTATCTCCCTGAAATTGCAGTGGAGCGGATCAAAACCTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAT
** * ** * *** *
49597882 GGGTCTTTTCTATCTGAAGTTGCAG-AGAGCAGA-TCGCATC-T
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAT
*
49597923 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
49597955 GCTAAGTAAA
Statistics
Matches: 259, Mismatches: 58, Indels: 33
0.74 0.17 0.09
Matches are distributed among these distances:
40 42 0.16
41 15 0.06
42 9 0.03
43 49 0.19
44 111 0.43
45 30 0.12
46 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAT
Found at i:49598373 original size:3 final size:3
Alignment explanation
Indices: 49598352--49598398 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
49598342 GTTTTTAGTC
49598352 TAT T-T TAT TAAT T-T TAT TAT TAT TA- TAT TAT ATAT TAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
49598396 TAT
1 TAT
49598399 ACCTACATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 6 0.15
3 27 0.69
4 6 0.15
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:49598727 original size:3 final size:3
Alignment explanation
Indices: 49598706--49598752 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
49598696 GTTTTTAGTC
49598706 TAT T-T TAT TAAT T-T TAT TAT TAT TA- TAT TAT GTAT TAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
49598750 TAT
1 TAT
49598753 ACCTACATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 6 0.15
3 27 0.69
4 6 0.15
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:49598748 original size:354 final size:354
Alignment explanation
Indices: 49598323--49599030 Score: 1407
Period size: 354 Copynumber: 2.0 Consensus size: 354
49598313 TCAATTTAAT
49598323 CCTTAATCTTTCATTTTAGGTTTTTAGTCTATTTTATTAATTTTATTATTATTATATTATATATT
1 CCTTAATCTTTCATTTTAGGTTTTTAGTCTATTTTATTAATTTTATTATTATTATATTATATATT
49598388 ATTATTATTATACCTACATATATATGTGCGCATATCCATGTTAATATATATACATATATATTTTA
66 ATTATTATTATACCTACATATATATGTGCGCATATCCATGTTAATATATATACATATATATTTTA
49598453 AACGTTTTAATATATATACATATTATATAGATACTTTATTATTGTTTTATTTTCATAGTTTTATA
131 AACGTTTTAATATATATACATATTATATAGATACTTTATTATTGTTTTATTTTCATAGTTTTATA
49598518 CATATATATACACATTTATATTTCATAATATTTATACGTTTTCCCATGTTCTATGATTTTTATAT
196 CATATATATACACATTTATATTTCATAATATTTATACGTTTTCCCATGTTCTATGATTTTTATAT
49598583 GTTTATACATTTTTGTAATATATACACATATATTTATACTCCATTCAAAGCTTATTATAAATATT
261 GTTTATACATTTTTGTAATATATACACATATATTTATACTCCATTCAAAGCTTATTATAAATATT
49598648 TTCTACGTTTTATATTATAATTATATATG
326 TTCTACGTTTTATATTATAATTATATATG
*
49598677 CCTTAATCTTTCATTTTAGGTTTTTAGTCTATTTTATTAATTTTATTATTATTATATTATGTATT
1 CCTTAATCTTTCATTTTAGGTTTTTAGTCTATTTTATTAATTTTATTATTATTATATTATATATT
49598742 ATTATTATTATACCTACATATATATGTGCGCATATCCATGTTAATATATATACATATATATTTTA
66 ATTATTATTATACCTACATATATATGTGCGCATATCCATGTTAATATATATACATATATATTTTA
49598807 AACGTTTTAATATATATACATATTATATAGATACTTTATTATTGTTTTATTTTCATAGTTTTATA
131 AACGTTTTAATATATATACATATTATATAGATACTTTATTATTGTTTTATTTTCATAGTTTTATA
49598872 CATATATATACACATTTATATTTCATAATATTTATACGTTTTCCCATGTTCTATGATTTTTATAT
196 CATATATATACACATTTATATTTCATAATATTTATACGTTTTCCCATGTTCTATGATTTTTATAT
49598937 GTTTATACATTTTTGTAATATATACACATATATTTATACTCCATTCAAAGCTTATTATAAATATT
261 GTTTATACATTTTTGTAATATATACACATATATTTATACTCCATTCAAAGCTTATTATAAATATT
49599002 TTCTACGTTTTATATTATAATTATATATG
326 TTCTACGTTTTATATTATAATTATATATG
49599031 TCATTTTTTT
Statistics
Matches: 353, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
354 353 1.00
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.52
Consensus pattern (354 bp):
CCTTAATCTTTCATTTTAGGTTTTTAGTCTATTTTATTAATTTTATTATTATTATATTATATATT
ATTATTATTATACCTACATATATATGTGCGCATATCCATGTTAATATATATACATATATATTTTA
AACGTTTTAATATATATACATATTATATAGATACTTTATTATTGTTTTATTTTCATAGTTTTATA
CATATATATACACATTTATATTTCATAATATTTATACGTTTTCCCATGTTCTATGATTTTTATAT
GTTTATACATTTTTGTAATATATACACATATATTTATACTCCATTCAAAGCTTATTATAAATATT
TTCTACGTTTTATATTATAATTATATATG
Found at i:49602519 original size:41 final size:41
Alignment explanation
Indices: 49602474--49602556 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
49602464 CAATTTGATT
* *
49602474 CTAATATCTAATCAGGTTTGCTACACAATTCAAAATCCATC
1 CTAATATCTAATCAGCTTTCCTACACAATTCAAAATCCATC
* *
49602515 CTAATATCTTATCAGCTTTCCTACACAATTCGAAATCCATC
1 CTAATATCTAATCAGCTTTCCTACACAATTCAAAATCCATC
49602556 C
1 C
49602557 AAACTCTACC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.33
Consensus pattern (41 bp):
CTAATATCTAATCAGCTTTCCTACACAATTCAAAATCCATC
Found at i:49613131 original size:7 final size:7
Alignment explanation
Indices: 49613111--49613149 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
49613101 CCAGAATCTC
49613111 GAACCTT
1 GAACCTT
49613118 GAA-CTT
1 GAACCTT
49613124 GAACCTT
1 GAACCTT
49613131 GAACCTT
1 GAACCTT
* *
49613138 AAACTTT
1 GAACCTT
49613145 GAACC
1 GAACC
49613150 CCAAATCCTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (7 bp):
GAACCTT
Found at i:49613236 original size:14 final size:14
Alignment explanation
Indices: 49613217--49613255 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
49613207 AAGTTTTGGG
49613217 TTCAAGGTTCAATA
1 TTCAAGGTTCAATA
*
49613231 TTCAAGATTCAATA
1 TTCAAGGTTCAATA
49613245 TTCAA-GTTCAA
1 TTCAAGGTTCAA
49613256 GGTTTAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (14 bp):
TTCAAGGTTCAATA
Found at i:49613580 original size:23 final size:23
Alignment explanation
Indices: 49613554--49613599 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
49613544 TTGTCTTTAA
*
49613554 ATTTTAATGATGTGGTAAAATTT
1 ATTTTAATGACGTGGTAAAATTT
*
49613577 ATTTTGATGACGTGGTAAAATTT
1 ATTTTAATGACGTGGTAAAATTT
49613600 TATTGGTACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.46
Consensus pattern (23 bp):
ATTTTAATGACGTGGTAAAATTT
Found at i:49617656 original size:3 final size:3
Alignment explanation
Indices: 49617648--49617679 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
49617638 TACGTAATTC
49617648 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
49617680 TCAAGTTGTT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:49626359 original size:27 final size:29
Alignment explanation
Indices: 49626329--49626382 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
49626319 CATCTCAAAG
* *
49626329 CACATCACATTGG-T-ATAAGAAATAAAA
1 CACATCACAATGGATAATAAAAAATAAAA
49626356 CACATCACAATGGATAATAAAAAATAA
1 CACATCACAATGGATAATAAAAAATAA
49626383 GATAAACTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 12 0.52
28 1 0.04
29 10 0.43
ACGTcount: A:0.56, C:0.15, G:0.09, T:0.20
Consensus pattern (29 bp):
CACATCACAATGGATAATAAAAAATAAAA
Found at i:49631448 original size:16 final size:16
Alignment explanation
Indices: 49631416--49631462 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
49631406 GTTATGTATG
*
49631416 AATTTTAA-TAATTTA
1 AATTTTAATTAATATA
49631431 AATTTTAATTAATATA
1 AATTTTAATTAATATA
* *
49631447 AAATGTAATTCAATAT
1 AATTTTAATT-AATAT
49631463 TTCTCAGACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 8 0.30
16 14 0.52
17 5 0.19
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
AATTTTAATTAATATA
Found at i:49632484 original size:27 final size:26
Alignment explanation
Indices: 49632447--49632501 Score: 101
Period size: 27 Copynumber: 2.1 Consensus size: 26
49632437 TATTAAAACA
49632447 TTAATACTGGATGGAACCACTGGCTG
1 TTAATACTGGATGGAACCACTGGCTG
49632473 TTAAGTACTGGATGGAACCACTGGCTG
1 TTAA-TACTGGATGGAACCACTGGCTG
49632500 TT
1 TT
49632502 CTGGGCGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (26 bp):
TTAATACTGGATGGAACCACTGGCTG
Found at i:49634645 original size:40 final size:41
Alignment explanation
Indices: 49634556--49634648 Score: 102
Period size: 40 Copynumber: 2.3 Consensus size: 41
49634546 ACGAGATTTG
* * * *
49634556 CACTTCGGTG-CCTCTGTATACACTTTTGTGTCCCTGTTCG
1 CACTTCGGTGCCCTCTGTATACACATTTGGGCCCCTGTTCA
* *
49634596 CACTACGGTGCCCT-TGTTTACACATTTGGGCCCCTG-TCTA
1 CACTTCGGTGCCCTCTGTATACACATTTGGGCCCCTGTTC-A
49634636 CACTTCGGTGCCC
1 CACTTCGGTGCCC
49634649 CTATTATGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
39 2 0.05
40 39 0.89
41 3 0.07
ACGTcount: A:0.12, C:0.33, G:0.20, T:0.34
Consensus pattern (41 bp):
CACTTCGGTGCCCTCTGTATACACATTTGGGCCCCTGTTCA
Found at i:49634648 original size:20 final size:19
Alignment explanation
Indices: 49634556--49634650 Score: 66
Period size: 20 Copynumber: 4.8 Consensus size: 19
49634546 ACGAGATTTG
*
49634556 CACTTCGGTGCCTCTGTATA
1 CACTTCGGTGCCCCTGT-TA
** * *
49634576 CACTTTTGTGTCCCTGTTCG
1 CACTTCGGTGCCCCTGTT-A
* *
49634596 CACTACGGTGCCCTTGTTTA
1 CACTTCGGTGCCCCTG-TTA
*
49634616 CACATTTGG-GCCCCTGTCTA
1 CAC-TTCGGTGCCCCTGT-TA
49634636 CACTTCGGTGCCCCT
1 CACTTCGGTGCCCCT
49634651 ATTATGCATC
Statistics
Matches: 55, Mismatches: 15, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
19 6 0.11
20 44 0.80
21 5 0.09
ACGTcount: A:0.12, C:0.34, G:0.20, T:0.35
Consensus pattern (19 bp):
CACTTCGGTGCCCCTGTTA
Found at i:49637414 original size:57 final size:56
Alignment explanation
Indices: 49637319--49637514 Score: 182
Period size: 57 Copynumber: 3.4 Consensus size: 56
49637309 AGACATTCAC
* * *
49637319 TTAACTAAGATAGCCACAAATGCATCTTTTTAATAGAGATAGCCATAAAGGTTTCCTT
1 TTAACAAAGATAGCCACAAAGGC-TCTTTTTAACAGAGATAGCCATAAAGG-TTCCTT
* * *
49637377 TTAACAAAGATAGCTACAAAGGCTCTTTTTAACAGAGATAGCCACAAAGGCTCC-T
1 TTAACAAAGATAGCCACAAAGGCTCTTTTTAACAGAGATAGCCATAAAGGTTCCTT
* * * * *
49637432 TTAACATAGATTGGCCACAAAGGATTTCTTTTAACATAGATCA-CCATAAAGGCTTCCTT
1 TTAACAAAGA-TAGCCACAAAGGCTCT-TTTTAACAGAGAT-AGCCATAAAGG-TTCCTT
* * *
49637491 ATAATAAAGATCA-CTACAAAGGCT
1 TTAACAAAGAT-AGCCACAAAGGCT
49637515 TTCGTTTTAA
Statistics
Matches: 112, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
55 10 0.09
56 15 0.13
57 45 0.40
58 34 0.30
59 8 0.07
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (56 bp):
TTAACAAAGATAGCCACAAAGGCTCTTTTTAACAGAGATAGCCATAAAGGTTCCTT
Found at i:49637415 original size:28 final size:28
Alignment explanation
Indices: 49637326--49637485 Score: 135
Period size: 29 Copynumber: 5.6 Consensus size: 28
49637316 CACTTAACTA
* *
49637326 AGATAGCCACAAATGCATCTTTTTAATAG
1 AGATAGCCACAAAGGC-TCTTTTTAACAG
* * * *
49637355 AGATAGCCATAAAGGTTTCCTTTTAACAA
1 AGATAGCCACAAAGG-CTCTTTTTAACAG
*
49637384 AGATAGCTACAAAGGCTCTTTTTAACAG
1 AGATAGCCACAAAGGCTCTTTTTAACAG
* *
49637412 AGATAGCCACAAAGGCTC-CTTTAACAT
1 AGATAGCCACAAAGGCTCTTTTTAACAG
* * * *
49637439 AGATTGGCCACAAAGGATTTCTTTTAACAT
1 AGA-TAGCCACAAAGGCTCT-TTTTAACAG
*
49637469 AGATCA-CCATAAAGGCT
1 AGAT-AGCCACAAAGGCT
49637486 TCCTTATAAT
Statistics
Matches: 105, Mismatches: 21, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
27 10 0.10
28 39 0.37
29 45 0.43
30 11 0.10
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (28 bp):
AGATAGCCACAAAGGCTCTTTTTAACAG
Found at i:49641974 original size:31 final size:32
Alignment explanation
Indices: 49641915--49641979 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
49641905 GGCAAATTAC
49641915 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
49641947 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
49641978 AA
1 AA
49641980 ATTATCTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:49662177 original size:4 final size:4
Alignment explanation
Indices: 49662168--49662193 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
49662158 AAAATTAGTT
49662168 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
49662194 AAGGATAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:49662555 original size:31 final size:32
Alignment explanation
Indices: 49662496--49662560 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
49662486 GGCAAATTAC
49662496 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
49662528 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
49662559 AA
1 AA
49662561 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:49682013 original size:17 final size:17
Alignment explanation
Indices: 49681991--49682029 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
49681981 TAGAATTGGG
*
49681991 TTGAAAAAATTATTTAA
1 TTGAAAAAATTAATTAA
49682008 TTG-AAAAATTAATTAA
1 TTGAAAAAATTAATTAA
49682024 TT-AAAA
1 TTGAAAA
49682030 TTAATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
TTGAAAAAATTAATTAA
Found at i:49682031 original size:14 final size:15
Alignment explanation
Indices: 49681995--49682035 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
49681985 ATTGGGTTGA
*
49681995 AAAAATTATTTAATT
1 AAAAATTAATTAATT
49682010 GAAAAATTAATTAATT
1 -AAAAATTAATTAATT
49682026 -AAAATTAATT
1 AAAAATTAATT
49682036 TAATAAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.42
16 14 0.58
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
AAAAATTAATTAATT
Found at i:49702417 original size:24 final size:24
Alignment explanation
Indices: 49702369--49702415 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
49702359 ACTGGTCACA
* *
49702369 GAGAGATTTGAGGAGGGATATTTG
1 GAGAGATTTAAGGAGGAATATTTG
49702393 GAGAGATTTAAGGAGAGAATATT
1 GAGAGATTTAAGGAG-GAATATT
49702416 GGGGATTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.28
Consensus pattern (24 bp):
GAGAGATTTAAGGAGGAATATTTG
Found at i:49702632 original size:55 final size:55
Alignment explanation
Indices: 49702541--49702654 Score: 174
Period size: 55 Copynumber: 2.1 Consensus size: 55
49702531 CATATTGCCT
* ** *
49702541 GGGAATCAAGGGTGCGATGATCATCGTTTTGTGGAATAATAGTGTTCGGATCGAA
1 GGGAATCAAGGGTGCGATGATCATCGATTTACGGAATAAGAGTGTTCGGATCGAA
* *
49702596 GGGAATCAATGGTGCGATGATCATTGATTTACGGAATAAGAGTGTTCGGATCGAA
1 GGGAATCAAGGGTGCGATGATCATCGATTTACGGAATAAGAGTGTTCGGATCGAA
49702651 GGGA
1 GGGA
49702655 GTCTGCAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.29, C:0.11, G:0.33, T:0.27
Consensus pattern (55 bp):
GGGAATCAAGGGTGCGATGATCATCGATTTACGGAATAAGAGTGTTCGGATCGAA
Found at i:49703137 original size:27 final size:27
Alignment explanation
Indices: 49703086--49703277 Score: 160
Period size: 27 Copynumber: 7.1 Consensus size: 27
49703076 TCGATATCTA
** * * *
49703086 GACCGAAATACCCTTAAAGGTTAAAAA
1 GACCGAAATACCCTCGATGGGTAAAAT
*
49703113 GACCGAAATAACCTCGATGGGTAAAAT
1 GACCGAAATACCCTCGATGGGTAAAAT
**
49703140 GATTGAAATACCCTCGATGGGTAAAAT
1 GACCGAAATACCCTCGATGGGTAAAAT
* *
49703167 GATCGAAATACCCTCGACGGGTAAAAT
1 GACCGAAATACCCTCGATGGGTAAAAT
* *
49703194 GACTGAAATGCTCC-C-ATAGGGTAAAAT
1 GACCGAAATAC-CCTCGAT-GGGTAAAAT
* *
49703221 GATCGAAATACCCCCG-TAGGGTAAAAT
1 GACCGAAATACCCTCGAT-GGGTAAAAT
* *
49703248 GACTGTAATACCC-CTG-TAGGGTAAAAT
1 GACCGAAATACCCTC-GAT-GGGTAAAAT
49703275 GAC
1 GAC
49703278 TGTAATGCCC
Statistics
Matches: 139, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.03
27 133 0.96
28 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (27 bp):
GACCGAAATACCCTCGATGGGTAAAAT
Found at i:49703165 original size:54 final size:53
Alignment explanation
Indices: 49703107--49703276 Score: 200
Period size: 54 Copynumber: 3.2 Consensus size: 53
49703097 CCTTAAAGGT
* * * *
49703107 TAAAAAGACCGAAATAACCTCGATGGGTAAAATGATTGAAATACCCTCGAT-GGG
1 TAAAATGATCGAAATACCCTCGATGGGTAAAATGACTGAAATACCC-C-ATAGGG
* *
49703161 TAAAATGATCGAAATACCCTCGACGGGTAAAATGACTGAAATGCTCCCATAGGG
1 TAAAATGATCGAAATACCCTCGATGGGTAAAATGACTGAAATAC-CCCATAGGG
* * *
49703215 TAAAATGATCGAAATACCCCCG-TAGGGTAAAATGACTGTAATACCCCTGTAGGG
1 TAAAATGATCGAAATACCCTCGAT-GGGTAAAATGACTGAAATACCCC-ATAGGG
49703269 TAAAATGA
1 TAAAATGA
49703277 CTGTAATGCC
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
53 5 0.05
54 94 0.93
55 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.21
Consensus pattern (53 bp):
TAAAATGATCGAAATACCCTCGATGGGTAAAATGACTGAAATACCCCATAGGG
Found at i:49703278 original size:27 final size:27
Alignment explanation
Indices: 49703131--49703437 Score: 217
Period size: 27 Copynumber: 11.5 Consensus size: 27
49703121 TAACCTCGAT
* *
49703131 GGGTAAAATGATTGAAATA-CCCTCG-A
1 GGGTAAAATGACTGTAATACCCCT-GTA
*
49703157 TGGGTAAAATGA-TCGAAATA-CCCTCG-A
1 -GGGTAAAATGACT-GTAATACCCCT-GTA
* * *
49703184 CGGGTAAAATGACTGAAATGCTCCC-ATA
1 -GGGTAAAATGACTGTAATAC-CCCTGTA
* *
49703212 GGGTAAAATGA-TCGAAATACCCCCGTA
1 GGGTAAAATGACT-GTAATACCCCTGTA
49703239 GGGTAAAATGACTGTAATACCCCTGTA
1 GGGTAAAATGACTGTAATACCCCTGTA
* * *
49703266 GGGTAAAATGACTGTAATGCCCGTATA
1 GGGTAAAATGACTGTAATACCCCTGTA
*
49703293 GGGTAAAATGAGC-GTAAT-CCCCTATA
1 GGGTAAAATGA-CTGTAATACCCCTGTA
* * * ** *
49703319 AGGTAAATTGACCGTAACGCCCTTGTA
1 GGGTAAAATGACTGTAATACCCCTGTA
*
49703346 GGGTAAAATGA-TCGTCATACCCCTGTA
1 GGGTAAAATGACT-GTAATACCCCTGTA
* * * *
49703373 GGATAAAATGACCGTAATGCCCCTCTA
1 GGGTAAAATGACTGTAATACCCCTGTA
*
49703400 GGGTAAAATGACCGTAATA-CCCTGGT-
1 GGGTAAAATGACTGTAATACCCCT-GTA
49703426 GGGT-AAATGACT
1 GGGTAAAATGACT
49703438 ATTTTTGCCT
Statistics
Matches: 234, Mismatches: 32, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
25 8 0.03
26 33 0.14
27 186 0.79
28 4 0.02
29 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (27 bp):
GGGTAAAATGACTGTAATACCCCTGTA
Found at i:49703516 original size:24 final size:24
Alignment explanation
Indices: 49703481--49703539 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
49703471 TATGTGGTTA
*
49703481 AATGACTAATTTGTCTGTG-TTTGG
1 AATGACTGATTTGTCTGTGATTT-G
*
49703505 TATGACTGATTTGTCTGTGATTTG
1 AATGACTGATTTGTCTGTGATTTG
49703529 AATGACTGATT
1 AATGACTGATT
49703540 CTGAGCATAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.22, C:0.08, G:0.24, T:0.46
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGATTTG
Found at i:49703811 original size:64 final size:64
Alignment explanation
Indices: 49703707--49703993 Score: 312
Period size: 64 Copynumber: 4.5 Consensus size: 64
49703697 TTTACTACGA
* * *
49703707 TGCTACTGATGGCTTTGTGCTGATCATAGTACCGTTACTGATGGCTTTGTATCGATCATAGT-AC
1 TGCTACTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGCTTTGTGTCGATCATA-TCAC
* *
49703771 TGTTACTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGCTTTGTGTCGATCATATTA-
1 TGCTACTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGCTTTGTGTCGATCATATCAC
* * * * * * * * *
49703834 TCGTTACCGATGG-TTGTGTACTGAT-ATTTTACTGTTACTGATGGCTATGTGCCGATTATATCA
1 T-GCTACTGATGGCTT-TGTGCCGATCATATTACCGTTACTGATGGCTTTGTGTCGATCATATCA
49703897 C
64 C
* * * * * *
49703898 TGCCACTAATGGCTTTATGCCGATCATGTTACCGTTACTGATGGCTGTGTGTCGATTATATCAC
1 TGCTACTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGCTTTGTGTCGATCATATCAC
* * *
49703962 TGCTATTGATGGCTTTGTGCCAATCACATTAC
1 TGCTACTGATGGCTTTGTGCCGATCATATTAC
49703994 TATACTTATG
Statistics
Matches: 186, Mismatches: 31, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
63 49 0.26
64 137 0.74
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (64 bp):
TGCTACTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGCTTTGTGTCGATCATATCAC
Found at i:49703841 original size:38 final size:33
Alignment explanation
Indices: 49703710--49703980 Score: 224
Period size: 32 Copynumber: 8.5 Consensus size: 33
49703700 ACTACGATGC
49703710 TACTGATGGCTTTGTG-CTGATCATAG-TACCGT
1 TACTGATGGCTTTGTGTC-GATCATAGTTACCGT
* *
49703742 TACTGATGGCTTTGTATCGATCATAG-TACTGT
1 TACTGATGGCTTTGTGTCGATCATAGTTACCGT
*
49703774 TACTGATGGCTTTGTGCCGATCATA-TTACCGT
1 TACTGATGGCTTTGTGTCGATCATAGTTACCGT
*
49703806 TACTGATGGCTTTGTGTCGATCATA-TTATCGT
1 TACTGATGGCTTTGTGTCGATCATAGTTACCGT
* * *
49703838 TACCGATGG--TTGTGTACTGAT-AT-TTTACTGT
1 TACTGATGGCTTTGTGT-C-GATCATAGTTACCGT
* * * * * *
49703869 TACTGATGGCTATGTGCCGATTATA-TCACTGC
1 TACTGATGGCTTTGTGTCGATCATAGTTACCGT
* * * *
49703901 CACTAATGGCTTTATGCCGATCAT-GTTACCGT
1 TACTGATGGCTTTGTGTCGATCATAGTTACCGT
* * * * *
49703933 TACTGATGGCTGTGTGTCGATTATA-TCACTGC
1 TACTGATGGCTTTGTGTCGATCATAGTTACCGT
*
49703965 TATTGATGGCTTTGTG
1 TACTGATGGCTTTGTG
49703981 CCAATCACAT
Statistics
Matches: 194, Mismatches: 34, Indels: 22
0.78 0.14 0.09
Matches are distributed among these distances:
30 6 0.03
31 19 0.10
32 164 0.85
33 5 0.03
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (33 bp):
TACTGATGGCTTTGTGTCGATCATAGTTACCGT
Found at i:49716620 original size:28 final size:28
Alignment explanation
Indices: 49716578--49716659 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
49716568 AACAGTCTGG
*
49716578 GCCTTAGCCTGATACAGTAATAGTATGA
1 GCCTTAGCCTAATACAGTAATAGTATGA
* * * *
49716606 GCCTTAGCCCAATACAGTAACAGTGTGG
1 GCCTTAGCCTAATACAGTAATAGTATGA
49716634 GCCTTAGCCTAATACAGTAACTAGTA
1 GCCTTAGCCTAATACAGTAA-TAGTA
49716660 CAGTGAAATA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 42 0.93
29 3 0.07
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (28 bp):
GCCTTAGCCTAATACAGTAATAGTATGA
Found at i:49716814 original size:26 final size:26
Alignment explanation
Indices: 49716785--49716860 Score: 100
Period size: 26 Copynumber: 2.9 Consensus size: 26
49716775 TATAAGCAAT
*
49716785 AGTATCGCAGCAAAGCTGCCAGTAAC
1 AGTATCGCAGCAAAGTTGCCAGTAAC
*
49716811 AGTATAGC-GACAAAGTTGCCAGTAAC
1 AGTATCGCAG-CAAAGTTGCCAGTAAC
* *
49716837 AGTATCGTAGTAAAGTTGCCAGTA
1 AGTATCGCAGCAAAGTTGCCAGTA
49716861 CTAGTATACT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
25 1 0.02
26 41 0.95
27 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.21
Consensus pattern (26 bp):
AGTATCGCAGCAAAGTTGCCAGTAAC
Found at i:49717088 original size:27 final size:27
Alignment explanation
Indices: 49717058--49717361 Score: 233
Period size: 27 Copynumber: 11.4 Consensus size: 27
49717048 GGCATTTTGG
*
49717058 TCATTTTACCCTACTGGGGTATTTC-A
1 TCATTTTACCCTTCTGGGGTATTTCGA
**
49717084 GTCATTTTA-CCTTACAAGGGTATTTCGA
1 -TCATTTTACCCTT-CTGGGGTATTTCGA
*
49717112 TCATTTCACCCTTC-GAGGGTA-TTCTGA
1 TCATTTTACCCTTCTG-GGGTATTTC-GA
* * *
49717139 TCATTTCACCCTTCGGGGGTATTCCGA
1 TCATTTTACCCTTCTGGGGTATTTCGA
49717166 TCATTTTACCCTTC-GGGGTATTTCGA
1 TCATTTTACCCTTCTGGGGTATTTCGA
** * *
49717192 TCATTTTACCCTTCAAGAGTATTTCGG
1 TCATTTTACCCTTCTGGGGTATTTCGA
* **
49717219 TCATTTTATCCTTC-AAGGTATTTC-A
1 TCATTTTACCCTTCTGGGGTATTTCGA
*
49717244 GTCATTTTACCTTTC-GGAGGTATTTC-A
1 -TCATTTTACCCTTCTGG-GGTATTTCGA
** *
49717271 GTCATTTTACAATT-TGGGGGTATTTTAGA
1 -TCATTTTACCCTTCT-GGGGTA-TTTCGA
*
49717300 -CATTTTACCC-TATGAGGGTATTTCGA
1 TCATTTTACCCTTCTG-GGGTATTTCGA
*
49717326 TCATTTTACCC-TAT--GGTATTTCGA
1 TCATTTTACCCTTCTGGGGTATTTCGA
49717350 TCATTTTACCCT
1 TCATTTTACCCT
49717362 ATGAGGGTAT
Statistics
Matches: 234, Mismatches: 25, Indels: 38
0.79 0.08 0.13
Matches are distributed among these distances:
24 21 0.09
26 58 0.25
27 141 0.60
28 13 0.06
29 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTTCTGGGGTATTTCGA
Found at i:49717123 original size:54 final size:54
Alignment explanation
Indices: 49717058--49717373 Score: 271
Period size: 54 Copynumber: 5.9 Consensus size: 54
49717048 GGCATTTTGG
* *
49717058 TCATTTTACCCTACTGGGGTATTTCAG-TCATTTTACCTTACAAGGGTATTTCGA
1 TCATTTTACCCTTC-GGGGTATTTCAGATCATTTTACCTTACGAGGGTATTTCGA
* * * * *
49717112 TCATTTCACCCTTCGAGGGTA-TTCTGATCATTTCACCCTT-CGGGGGTATTCCGA
1 TCATTTTACCCTTCG-GGGTATTTCAGATCATTTTA-CCTTACGAGGGTATTTCGA
* * *
49717166 TCATTTTACCCTTCGGGGTATTTC-GATCATTTTACCCTT-CAAGAGTATTTCGG
1 TCATTTTACCCTTCGGGGTATTTCAGATCATTTTA-CCTTACGAGGGTATTTCGA
* ** *
49717219 TCATTTTATCCTTCAAGGTATTTCAG-TCATTTTACCTTTCG-GAGGTATTTC-A
1 TCATTTTACCCTTCGGGGTATTTCAGATCATTTTACCTTACGAG-GGTATTTCGA
** * * * *
49717271 GTCATTTTACAATTTGGGGGTATTTTAGA-CATTTTACCCTATGAGGGTATTTCGA
1 -TCATTTTAC-CCTTCGGGGTATTTCAGATCATTTTACCTTACGAGGGTATTTCGA
* *
49717326 TCATTTTACCCTAT---GGTATTTC-GATCATTTTACCCTATGAGGGTATTT
1 TCATTTTACCCT-TCGGGGTATTTCAGATCATTTTACCTTACGAGGGTATTT
49717374 TGGTCATCAC
Statistics
Matches: 215, Mismatches: 33, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
50 2 0.01
51 30 0.14
52 5 0.02
53 79 0.37
54 93 0.43
55 6 0.03
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (54 bp):
TCATTTTACCCTTCGGGGTATTTCAGATCATTTTACCTTACGAGGGTATTTCGA
Found at i:49717214 original size:107 final size:106
Alignment explanation
Indices: 49717057--49717361 Score: 295
Period size: 107 Copynumber: 2.9 Consensus size: 106
49717047 GGGCATTTTG
* *
49717057 GTCATTTTACCCTACTGGGGTATTTC-AGTCATTTTA-CCTTACAAGGGTATTTCGATCATTTCA
1 GTCATTTTACCCTTC-GGGGTATTTCGA-TCATTTTACCCTT-CAAGGGTATTTCGATCATTTTA
* * *
49717120 CCCTTCGAGGGTA-TTCTGATCATTTCACCCTTCGGGGGTATTCC-
63 CCCTTC-AAGGTATTTCAG-TCATTTCACCCTTCGGAGGTATTCCA
* * *
49717164 GATCATTTTACCCTTCGGGGTATTTCGATCATTTTACCCTTCAAGAGTATTTCGGTCATTTTATC
1 G-TCATTTTACCCTTCGGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCGATCATTTTACC
* * *
49717229 CTTCAAGGTATTTCAGTCATTTTACCTTTCGGAGGTATTTCA
65 CTTCAAGGTATTTCAGTCATTTCACCCTTCGGAGGTATTCCA
** * * *
49717271 GTCATTTTACAATTTGGGGGTATTTTAGA-CATTTTACCCTAT-GAGGGTATTTCGATCATTTTA
1 GTCATTTTAC-CCTTCGGGGTA-TTTCGATCATTTTACCCT-TCAAGGGTATTTCGATCATTTTA
* *
49717334 CCC-T-ATGGTATTTC-GATCATTTTACCCT
63 CCCTTCAAGGTATTTCAG-TCATTTCACCCT
49717362 ATGAGGGTAT
Statistics
Matches: 168, Mismatches: 21, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
104 1 0.01
105 20 0.12
106 36 0.21
107 87 0.52
108 24 0.14
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.42
Consensus pattern (106 bp):
GTCATTTTACCCTTCGGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCC
TTCAAGGTATTTCAGTCATTTCACCCTTCGGAGGTATTCCA
Found at i:49717380 original size:27 final size:26
Alignment explanation
Indices: 49717034--49717380 Score: 231
Period size: 27 Copynumber: 13.1 Consensus size: 26
49717024 TATAACAGTT
* * * *
49717034 ATTTCACCCTTTAGGGCATTTTGGTC
1 ATTTTACCCTTGAGGGTATTTCGGTC
*
49717060 ATTTTACCCTACTG-GGGTATTTCAGTC
1 ATTTTACCCT--TGAGGGTATTTCGGTC
* *
49717087 ATTTTA-CCTTACAAGGGTATTTCGATC
1 ATTTTACCCTT--GAGGGTATTTCGGTC
* *
49717114 ATTTCACCCTTCGAGGGTA-TTCTGATC
1 ATTTTACCCTT-GAGGGTATTTC-GGTC
* * * *
49717141 ATTTCACCCTTCGGGGGTATTCCGATC
1 ATTTTACCCTT-GAGGGTATTTCGGTC
*
49717168 ATTTTACCCTTCG-GGGTATTTCGATC
1 ATTTTACCCTT-GAGGGTATTTCGGTC
* *
49717194 ATTTTACCCTTCAAGAGTATTTCGGTC
1 ATTTTACCCTT-GAGGGTATTTCGGTC
* * * *
49717221 ATTTTATCCTTCAAGGTATTTCAGTC
1 ATTTTACCCTTGAGGGTATTTCGGTC
* *
49717247 ATTTTACCTTTCG-GAGGTATTTCAGTC
1 ATTTTACCCTT-GAG-GGTATTTCGGTC
** * ** *
49717274 ATTTTACAATTTGGGGGTATTTTAGAC
1 ATTTTAC-CCTTGAGGGTATTTCGGTC
*
49717301 ATTTTACCCTATGAGGGTATTTCGATC
1 ATTTTACCCT-TGAGGGTATTTCGGTC
* *
49717328 ATTTTACCC-T-ATGGTATTTCGATC
1 ATTTTACCCTTGAGGGTATTTCGGTC
*
49717352 ATTTTACCCTATGAGGGTATTTTGGTC
1 ATTTTACCCT-TGAGGGTATTTCGGTC
49717379 AT
1 AT
49717381 CACAGTGTAA
Statistics
Matches: 264, Mismatches: 40, Indels: 33
0.78 0.12 0.10
Matches are distributed among these distances:
24 23 0.09
25 1 0.00
26 61 0.23
27 168 0.64
28 11 0.04
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (26 bp):
ATTTTACCCTTGAGGGTATTTCGGTC
Found at i:49720877 original size:3 final size:3
Alignment explanation
Indices: 49720869--49720913 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
49720859 TTTTAGAGTA
49720869 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
49720914 ACATTTAGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:49722086 original size:49 final size:49
Alignment explanation
Indices: 49722006--49722196 Score: 167
Period size: 49 Copynumber: 3.9 Consensus size: 49
49721996 TCCTAGCACT
* * * *
49722006 CACGCCAA-CTGGTTAGTAACTAAGATACCCTACCAGTGGCTCATCATA
1 CACGCCAATCTAGTTAGCAACTAACATGCCCTACCAGTGGCTCATCATA
*
49722054 CACGCCAATCTGGTTAGCAACTAACATGCCCTACCAGTGGC-CTATCATA
1 CACGCCAATCTAGTTAGCAACTAACATGCCCTACCAGTGGCTC-ATCATA
* * * * * * *
49722103 TACTCCCACCTAGTTAGCAACTAGCATGCCTTACCAGTGGTCTAGCA-CATG
1 CACGCCAATCTAGTTAGCAACTAACATGCCCTACCAGTGG-CT--CATCATA
* * * *
49722154 TAC-CC-TTCTAGTTTGCAACTAGCATGCCCTACCAGTGGCTCAT
1 CACGCCAATCTAGTTAGCAACTAACATGCCCTACCAGTGGCTCAT
49722197 GATAATCGGA
Statistics
Matches: 121, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
46 2 0.02
48 11 0.09
49 97 0.80
50 3 0.02
51 6 0.05
52 1 0.01
53 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (49 bp):
CACGCCAATCTAGTTAGCAACTAACATGCCCTACCAGTGGCTCATCATA
Found at i:49726839 original size:20 final size:20
Alignment explanation
Indices: 49726806--49726845 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
49726796 GGTCTCGATA
* *
49726806 CTAAGGGAAGGTATCAATAC
1 CTAAGAGAAAGTATCAATAC
*
49726826 CTAAGAGAAAGTATCGATAC
1 CTAAGAGAAAGTATCAATAC
49726846 TTCAAGCATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (20 bp):
CTAAGAGAAAGTATCAATAC
Found at i:49732203 original size:966 final size:966
Alignment explanation
Indices: 49730333--49732266 Score: 3868
Period size: 966 Copynumber: 2.0 Consensus size: 966
49730323 GGTTCCAGGG
49730333 ATGATTTTCTTCCTAACCTTGTCGCAATTTCTCTTGTTCTTCATCTTTTTCTGTAGCTTGAAGAT
1 ATGATTTTCTTCCTAACCTTGTCGCAATTTCTCTTGTTCTTCATCTTTTTCTGTAGCTTGAAGAT
49730398 GGAATAGCCATGGAAGGTTCTGCGTGGAGCAGGCTTCGTGAGGATAGAGCTAGAAAAGTAAAGAA
66 GGAATAGCCATGGAAGGTTCTGCGTGGAGCAGGCTTCGTGAGGATAGAGCTAGAAAAGTAAAGAA
49730463 ATCAACAAGCCAGTAAGATTCTTAAACCTTCTAGGTACGAATAATGAAGTTATGAATATCAGAAC
131 ATCAACAAGCCAGTAAGATTCTTAAACCTTCTAGGTACGAATAATGAAGTTATGAATATCAGAAC
49730528 TATTTTAACATATCTACATGTTTTTGAAAAATGGCTTTAAGCTAAGAACGTTGAATATAACCCAT
196 TATTTTAACATATCTACATGTTTTTGAAAAATGGCTTTAAGCTAAGAACGTTGAATATAACCCAT
49730593 GATTTTTTATTATAAGCTATTGACCGACTCCGAACATGCCAACGTCCAGAGTGGAAATCCTGCAC
261 GATTTTTTATTATAAGCTATTGACCGACTCCGAACATGCCAACGTCCAGAGTGGAAATCCTGCAC
49730658 AAAATATGTAAAAAGAAAGTATCCGCAAGTTGTAATGTAGTTACAACGAAGGAGATGAGTACTCT
326 AAAATATGTAAAAAGAAAGTATCCGCAAGTTGTAATGTAGTTACAACGAAGGAGATGAGTACTCT
49730723 GAGGATCGTACCCAATGGAAGCGAGCACTAAATTAATCCTAACCTAAATAGAAATAGATCAAATT
391 GAGGATCGTACCCAATGGAAGCGAGCACTAAATTAATCCTAACCTAAATAGAAATAGATCAAATT
49730788 AGTACTTTAAATGAATTATATTATGATGAAATAAAAAAGAAAGGTTTTTGTGATCTATGCAATAA
456 AGTACTTTAAATGAATTATATTATGATGAAATAAAAAAGAAAGGTTTTTGTGATCTATGCAATAA
49730853 TAATAAAAGAAACAAATAAATCACGAGAAATTAAATAATAGAATATATCATATCTAGGAATGGGT
521 TAATAAAAGAAACAAATAAATCACGAGAAATTAAATAATAGAATATATCATATCTAGGAATGGGT
49730918 GATTAGCTCGCTTCGATAATCATAACCAACTGTTACTTCAAGTTTTCTTGTTCAATCAACTAGTC
586 GATTAGCTCGCTTCGATAATCATAACCAACTGTTACTTCAAGTTTTCTTGTTCAATCAACTAGTC
49730983 AATATCCCAGTAGGATCTTTTTATATTTCGATCTTCCACTAAAATAATGAGTCAGCATGAACTAC
651 AATATCCCAGTAGGATCTTTTTATATTTCGATCTTCCACTAAAATAATGAGTCAGCATGAACTAC
49731048 TTATCTCCCGACCTTATAGTCCAAACAGGTTCAAGGTTAAGGTGTTCACAGATAGGTCATACCAA
716 TTATCTCCCGACCTTATAGTCCAAACAGGTTCAAGGTTAAGGTGTTCACAGATAGGTCATACCAA
49731113 ATTTAGGTTAATTCTCACCTTAATGACTTCTTAGGGTTGTCAGGCCTAGGTTTTAAGTTCTTCCT
781 ATTTAGGTTAATTCTCACCTTAATGACTTCTTAGGGTTGTCAGGCCTAGGTTTTAAGTTCTTCCT
49731178 TTCCTAAACAGCTGATCCACTAAGAGAACCTTACAAAATAGTTAATTAATCACACTTCTACTCGT
846 TTCCTAAACAGCTGATCCACTAAGAGAACCTTACAAAATAGTTAATTAATCACACTTCTACTCGT
49731243 TAATTGATGGTCACTAAACTAACTAAAATTATGACAAAGGCAAGTGCACCTATCGA
911 TAATTGATGGTCACTAAACTAACTAAAATTATGACAAAGGCAAGTGCACCTATCGA
49731299 ATGATTTTCTTCCTAACCTTGTCGCAATTTCTCTTGTTCTTCATCTTTTTCTGTAGCTTGAAGAT
1 ATGATTTTCTTCCTAACCTTGTCGCAATTTCTCTTGTTCTTCATCTTTTTCTGTAGCTTGAAGAT
49731364 GGAATAGCCATGGAAGGTTCTGCGTGGAGCAGGCTTCGTGAGGATAGAGCTAGAAAAGTAAAGAA
66 GGAATAGCCATGGAAGGTTCTGCGTGGAGCAGGCTTCGTGAGGATAGAGCTAGAAAAGTAAAGAA
49731429 ATCAACAAGCCAGTAAGATTCTTAAACCTTCTAGGTACGAATAATGAAGTTATGAATATCAGAAC
131 ATCAACAAGCCAGTAAGATTCTTAAACCTTCTAGGTACGAATAATGAAGTTATGAATATCAGAAC
49731494 TATTTTAACATATCTACATGTTTTTGAAAAATGGCTTTAAGCTAAGAACGTTGAATATAACCCAT
196 TATTTTAACATATCTACATGTTTTTGAAAAATGGCTTTAAGCTAAGAACGTTGAATATAACCCAT
49731559 GATTTTTTATTATAAGCTATTGACCGACTCCGAACATGCCAACGTCCAGAGTGGAAATCCTGCAC
261 GATTTTTTATTATAAGCTATTGACCGACTCCGAACATGCCAACGTCCAGAGTGGAAATCCTGCAC
49731624 AAAATATGTAAAAAGAAAGTATCCGCAAGTTGTAATGTAGTTACAACGAAGGAGATGAGTACTCT
326 AAAATATGTAAAAAGAAAGTATCCGCAAGTTGTAATGTAGTTACAACGAAGGAGATGAGTACTCT
49731689 GAGGATCGTACCCAATGGAAGCGAGCACTAAATTAATCCTAACCTAAATAGAAATAGATCAAATT
391 GAGGATCGTACCCAATGGAAGCGAGCACTAAATTAATCCTAACCTAAATAGAAATAGATCAAATT
49731754 AGTACTTTAAATGAATTATATTATGATGAAATAAAAAAGAAAGGTTTTTGTGATCTATGCAATAA
456 AGTACTTTAAATGAATTATATTATGATGAAATAAAAAAGAAAGGTTTTTGTGATCTATGCAATAA
49731819 TAATAAAAGAAACAAATAAATCACGAGAAATTAAATAATAGAATATATCATATCTAGGAATGGGT
521 TAATAAAAGAAACAAATAAATCACGAGAAATTAAATAATAGAATATATCATATCTAGGAATGGGT
49731884 GATTAGCTCGCTTCGATAATCATAACCAACTGTTACTTCAAGTTTTCTTGTTCAATCAACTAGTC
586 GATTAGCTCGCTTCGATAATCATAACCAACTGTTACTTCAAGTTTTCTTGTTCAATCAACTAGTC
49731949 AATATCCCAGTAGGATCTTTTTATATTTCGATCTTCCACTAAAATAATGAGTCAGCATGAACTAC
651 AATATCCCAGTAGGATCTTTTTATATTTCGATCTTCCACTAAAATAATGAGTCAGCATGAACTAC
49732014 TTATCTCCCGACCTTATAGTCCAAACAGGTTCAAGGTTAAGGTGTTCACAGATAGGTCATACCAA
716 TTATCTCCCGACCTTATAGTCCAAACAGGTTCAAGGTTAAGGTGTTCACAGATAGGTCATACCAA
49732079 ATTTAGGTTAATTCTCACCTTAATGACTTCTTAGGGTTGTCAGGCCTAGGTTTTAAGTTCTTCCT
781 ATTTAGGTTAATTCTCACCTTAATGACTTCTTAGGGTTGTCAGGCCTAGGTTTTAAGTTCTTCCT
49732144 TTCCTAAACAGCTGATCCACTAAGAGAACCTTACAAAATAGTTAATTAATCACACTTCTACTCGT
846 TTCCTAAACAGCTGATCCACTAAGAGAACCTTACAAAATAGTTAATTAATCACACTTCTACTCGT
49732209 TAATTGATGGTCACTAAACTAACTAAAATTATGACAAAGGCAAGTGCACCTATCGA
911 TAATTGATGGTCACTAAACTAACTAAAATTATGACAAAGGCAAGTGCACCTATCGA
49732265 AT
1 AT
49732267 AATAGAATAG
Statistics
Matches: 968, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
966 968 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (966 bp):
ATGATTTTCTTCCTAACCTTGTCGCAATTTCTCTTGTTCTTCATCTTTTTCTGTAGCTTGAAGAT
GGAATAGCCATGGAAGGTTCTGCGTGGAGCAGGCTTCGTGAGGATAGAGCTAGAAAAGTAAAGAA
ATCAACAAGCCAGTAAGATTCTTAAACCTTCTAGGTACGAATAATGAAGTTATGAATATCAGAAC
TATTTTAACATATCTACATGTTTTTGAAAAATGGCTTTAAGCTAAGAACGTTGAATATAACCCAT
GATTTTTTATTATAAGCTATTGACCGACTCCGAACATGCCAACGTCCAGAGTGGAAATCCTGCAC
AAAATATGTAAAAAGAAAGTATCCGCAAGTTGTAATGTAGTTACAACGAAGGAGATGAGTACTCT
GAGGATCGTACCCAATGGAAGCGAGCACTAAATTAATCCTAACCTAAATAGAAATAGATCAAATT
AGTACTTTAAATGAATTATATTATGATGAAATAAAAAAGAAAGGTTTTTGTGATCTATGCAATAA
TAATAAAAGAAACAAATAAATCACGAGAAATTAAATAATAGAATATATCATATCTAGGAATGGGT
GATTAGCTCGCTTCGATAATCATAACCAACTGTTACTTCAAGTTTTCTTGTTCAATCAACTAGTC
AATATCCCAGTAGGATCTTTTTATATTTCGATCTTCCACTAAAATAATGAGTCAGCATGAACTAC
TTATCTCCCGACCTTATAGTCCAAACAGGTTCAAGGTTAAGGTGTTCACAGATAGGTCATACCAA
ATTTAGGTTAATTCTCACCTTAATGACTTCTTAGGGTTGTCAGGCCTAGGTTTTAAGTTCTTCCT
TTCCTAAACAGCTGATCCACTAAGAGAACCTTACAAAATAGTTAATTAATCACACTTCTACTCGT
TAATTGATGGTCACTAAACTAACTAAAATTATGACAAAGGCAAGTGCACCTATCGA
Found at i:49739122 original size:22 final size:22
Alignment explanation
Indices: 49739091--49739149 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
49739081 AAAATTAAGC
*
49739091 TAAAAGTAAAAAT-AAAATGCAA
1 TAAAAATAAAAATAAAAATG-AA
49739113 TAAAAATAAAAATAAAAATGAA
1 TAAAAATAAAAATAAAAATGAA
49739135 TAAATTAATAAAAAT
1 TAAA--AATAAAAAT
49739150 TGAGTGTTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
22 18 0.55
23 6 0.18
24 9 0.27
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (22 bp):
TAAAAATAAAAATAAAAATGAA
Found at i:49745824 original size:51 final size:51
Alignment explanation
Indices: 49745748--49745860 Score: 208
Period size: 51 Copynumber: 2.2 Consensus size: 51
49745738 AAGACCATAA
* *
49745748 ATGAAAGATGTTATAGTAGTCTAGTATGTGGTACGTAGCGTAAGGTCATGG
1 ATGAAAGATGTTATAGTAGTCTAGTATATGGTACGTAGCGTAAGGCCATGG
49745799 ATGAAAGATGTTATAGTAGTCTAGTATATGGTACGTAGCGTAAGGCCATGG
1 ATGAAAGATGTTATAGTAGTCTAGTATATGGTACGTAGCGTAAGGCCATGG
49745850 ATGAAAGATGT
1 ATGAAAGATGT
49745861 CATGGCAGCA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (51 bp):
ATGAAAGATGTTATAGTAGTCTAGTATATGGTACGTAGCGTAAGGCCATGG
Found at i:49746092 original size:33 final size:33
Alignment explanation
Indices: 49746054--49746141 Score: 86
Period size: 33 Copynumber: 2.7 Consensus size: 33
49746044 CCTCCGGGAT
49746054 AGTAAACACGAAACAGAGTAAGCCCATCAGGAC
1 AGTAAACACGAAACAGAGTAAGCCCATCAGGAC
* * * * * ** *
49746087 AGTAAACATGGAATAGAGTAAGTCCGTTGGGAT
1 AGTAAACACGAAACAGAGTAAGCCCATCAGGAC
* *
49746120 AGTAAATACAAAACAGAGTAAG
1 AGTAAACACGAAACAGAGTAAG
49746142 TCTATTGGGA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.45, C:0.15, G:0.24, T:0.16
Consensus pattern (33 bp):
AGTAAACACGAAACAGAGTAAGCCCATCAGGAC
Found at i:49749501 original size:20 final size:19
Alignment explanation
Indices: 49749461--49749497 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
49749451 AAAGTAGTGG
49749461 AAATTTATTTTCTTAGAAT
1 AAATTTATTTTCTTAGAAT
49749480 AAATTTGATTTT-TTAGAA
1 AAATTT-ATTTTCTTAGAA
49749498 ATAATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (19 bp):
AAATTTATTTTCTTAGAAT
Found at i:49757265 original size:20 final size:20
Alignment explanation
Indices: 49757240--49757277 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
49757230 TATTCTCTCT
49757240 TTTTTTGTGAAAAAAAAAAG
1 TTTTTTGTGAAAAAAAAAAG
49757260 TTTTTTGTGAAAAAAAAA
1 TTTTTTGTGAAAAAAAAA
49757278 GAAACATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (20 bp):
TTTTTTGTGAAAAAAAAAAG
Found at i:49781514 original size:7 final size:7
Alignment explanation
Indices: 49781496--49781545 Score: 64
Period size: 7 Copynumber: 7.1 Consensus size: 7
49781486 TTTCTTAAGC
49781496 GATGTGG
1 GATGTGG
* *
49781503 AATGTGT
1 GATGTGG
49781510 GATGTGG
1 GATGTGG
49781517 GATGTGG
1 GATGTGG
49781524 GATGTGG
1 GATGTGG
*
49781531 GATATGG
1 GATGTGG
*
49781538 GATATGG
1 GATGTGG
49781545 G
1 G
49781546 TATATATAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.20, C:0.00, G:0.50, T:0.30
Consensus pattern (7 bp):
GATGTGG
Found at i:49782043 original size:58 final size:58
Alignment explanation
Indices: 49781946--49782117 Score: 276
Period size: 57 Copynumber: 3.0 Consensus size: 58
49781936 CAAAATCTTA
49781946 ATATTTATATATAAAATATTATGTGTTACTATA-AGTGTAAGTTTGTCTTTCTTTTTTT
1 ATATTTATATATAAAATATTATGTGTTACTATATA-TGTAAGTTTGTCTTTCTTTTTTT
* *
49782004 ATATCTATATATAAAATATTATGTGTTACTATATATGTAAGTTTGTCTTT-TTTTTAT
1 ATATTTATATATAAAATATTATGTGTTACTATATATGTAAGTTTGTCTTTCTTTTTTT
* * *
49782061 ATATTTATATATAAAATATTCTGTGTTACTATATGTGCAAGTTTGTCTTTCTTTTTT
1 ATATTTATATATAAAATATTATGTGTTACTATATATGTAAGTTTGTCTTTCTTTTTT
49782118 ATTGGACTTT
Statistics
Matches: 105, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
57 52 0.50
58 52 0.50
59 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.55
Consensus pattern (58 bp):
ATATTTATATATAAAATATTATGTGTTACTATATATGTAAGTTTGTCTTTCTTTTTTT
Found at i:49785818 original size:43 final size:44
Alignment explanation
Indices: 49785770--49785859 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 44
49785760 GCAGGTCAAA
* *
49785770 TAATATTAAAATAACCTACACTAATTA-AGTTTAAGTGAGAAGC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGAGAAAC
* * *
49785813 TAATATTAAAATAGCCTACACTCATCAGAGTTTAAGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGAGAAAC
49785857 TAA
1 TAA
49785860 AAATAGAGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 24 0.59
44 17 0.41
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.29
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGAGAAAC
Found at i:49785886 original size:25 final size:25
Alignment explanation
Indices: 49785839--49785888 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
49785829 TACACTCATC
* *
49785839 AGAGTTTAAGTGGGAAACTAAAAAT
1 AGAGTTTAACTGGGAAACGAAAAAT
49785864 AGAGTTTAACTGGGAGAA-GAAAAAT
1 AGAGTTTAACTGGGA-AACGAAAAAT
49785889 CGAAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (25 bp):
AGAGTTTAACTGGGAAACGAAAAAT
Found at i:49786095 original size:13 final size:12
Alignment explanation
Indices: 49786066--49786095 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
49786056 TAAAAGAGTT
49786066 ATTAATTAAAAA
1 ATTAATTAAAAA
49786078 ATTAATTAAAAA
1 ATTAATTAAAAA
49786090 ACTTAA
1 A-TTAA
49786096 AAAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (12 bp):
ATTAATTAAAAA
Found at i:49790839 original size:26 final size:26
Alignment explanation
Indices: 49790800--49790854 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
49790790 TGCATAGTTC
* *
49790800 AAGATAGTCTCGTGGTGGGCTTTGGA
1 AAGATAGGCCCGTGGTGGGCTTTGGA
*
49790826 AAGATAGGCCCGTGGTGTGCTTTGGA
1 AAGATAGGCCCGTGGTGGGCTTTGGA
49790852 AAG
1 AAG
49790855 GATGGCGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.22, C:0.13, G:0.38, T:0.27
Consensus pattern (26 bp):
AAGATAGGCCCGTGGTGGGCTTTGGA
Found at i:49793172 original size:43 final size:43
Alignment explanation
Indices: 49793072--49793172 Score: 98
Period size: 43 Copynumber: 2.3 Consensus size: 43
49793062 TACATGTAAC
*** *
49793072 CTCATATCGATGCCAATAGCCCAGTTATAGTCTTACACGAAAT
1 CTCATATCGATGCCAATAGCCCAAACATAGTCTCACACGAAAT
* * * *
49793115 -TACATATTGCTGCCAAT-GTCCCAAACATGGTCTCACACGAAGT
1 CT-CATATCGATGCCAATAG-CCCAAACATAGTCTCACACGAAAT
49793158 CTCATATCGATGCCA
1 CTCATATCGATGCCA
49793173 TATCTCAGAT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
42 2 0.04
43 42 0.93
44 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (43 bp):
CTCATATCGATGCCAATAGCCCAAACATAGTCTCACACGAAAT
Found at i:49802766 original size:31 final size:32
Alignment explanation
Indices: 49802712--49802772 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
49802702 TCAAATCTCT
*
49802712 TATATCATAATCCATTGATCCAAATACATTTCA
1 TATATCATAATACATTGATCCAAATA-ATTTCA
49802745 TATATCA-AATACATT-ATCCAAATAATTT
1 TATATCATAATACATTGATCCAAATAATTT
49802773 TTCTTTTATC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 4 0.15
31 9 0.33
32 7 0.26
33 7 0.26
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.38
Consensus pattern (32 bp):
TATATCATAATACATTGATCCAAATAATTTCA
Found at i:49805883 original size:58 final size:57
Alignment explanation
Indices: 49805762--49805909 Score: 183
Period size: 58 Copynumber: 2.5 Consensus size: 57
49805752 TTGGCACTTT
* *
49805762 ATTTTTTCTAATTTGGTATCTAAATTTTTTTGGCTCAATTTGGTACTTGAATTTAAC
1 ATTTTTTCTAATTTGGTATCTAAACTTTTTTGGCTCAATTTGGTACTTGAACTTAAC
* *
49805819 ACTTTTTT-TAAATTTGGTATCTAAACTTTTTTGGGTCATATTTGGTACTTGAACTTGAC
1 A-TTTTTTCT-AATTTGGTATCTAAACTTTTTTGGCTCA-ATTTGGTACTTGAACTTAAC
* *
49805878 -TTTTTTCCTAATTTGGTACCTAAGCATTTTTT
1 ATTTTTT-CTAATTTGGTATCTAAAC-TTTTTT
49805910 TTAGGTTTAA
Statistics
Matches: 79, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
57 8 0.10
58 46 0.58
59 25 0.32
ACGTcount: A:0.23, C:0.12, G:0.13, T:0.52
Consensus pattern (57 bp):
ATTTTTTCTAATTTGGTATCTAAACTTTTTTGGCTCAATTTGGTACTTGAACTTAAC
Found at i:49806053 original size:25 final size:25
Alignment explanation
Indices: 49806025--49806072 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
49806015 AAAGGAAATT
49806025 TATG-TTAAAAAATTAGATATTAAGC
1 TATGCTTAAAAAATTA-ATATTAAGC
**
49806050 TATGCTTAATGAATTAATATTAA
1 TATGCTTAAAAAATTAATATTAA
49806073 AGAAGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (25 bp):
TATGCTTAAAAAATTAATATTAAGC
Found at i:49806821 original size:136 final size:136
Alignment explanation
Indices: 49806566--49806942 Score: 479
Period size: 136 Copynumber: 2.8 Consensus size: 136
49806556 TGCATTTAAT
* * ** * * * *
49806566 TGTGCGTTGTGTACCCACAGCAAAAGCATATTCCAACTGCGTCCATTTTACCGTGCAAGCACAAC
1 TGTGCGCTGTGTATCCACAAAAAAAACAGATTCCAACTGCGTCCATTTTACTGTGCGAGCACAAC
* *
49806631 CCTCTGACAACTTTTATCTGTGAGTATGTTGTGATTCCACTGCAATTGTCAGATTTTATCTGCAT
66 CCTCTGACAACTTTTATCTGCGAGTATGTTGTGATTCCACTGCAATTGTAAGATTTTATCTGCAT
*
49806696 TATATG
131 TATATA
* *
49806702 TGTGCGCTGTGTATCCACAAAAAAAATAGATTCCAACTGCGTCCATTTTACTGTGTGAGCACAAC
1 TGTGCGCTGTGTATCCACAAAAAAAACAGATTCCAACTGCGTCCATTTTACTGTGCGAGCACAAC
* * * *
49806767 CCTCTGACAGCTTTTTTCTGCGAGTATGTTGTGTTTCCA-TGGCTATTAG-AAGATTTTATCTGC
66 CCTCTGACAACTTTTATCTGCGAGTATGTTGTGATTCCACT-GCAATT-GTAAGATTTTATCTGC
49806830 ATTATATA
129 ATTATATA
** * * * * *
49806838 TGTGCGCTGTGTATCCACAGCAAAAGCAGATTCCAAATGCGTCCATTTTATTGTACGAGCAGAAC
1 TGTGCGCTGTGTATCCACAAAAAAAACAGATTCCAACTGCGTCCATTTTACTGTGCGAGCACAAC
* * *
49806903 CCTCTAACAACTTTTATCTGCGAGCATGTTGTGCTTCCAC
66 CCTCTGACAACTTTTATCTGCGAGTATGTTGTGATTCCAC
49806943 GGCCAGTGGC
Statistics
Matches: 207, Mismatches: 31, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
135 1 0.00
136 205 0.99
137 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (136 bp):
TGTGCGCTGTGTATCCACAAAAAAAACAGATTCCAACTGCGTCCATTTTACTGTGCGAGCACAAC
CCTCTGACAACTTTTATCTGCGAGTATGTTGTGATTCCACTGCAATTGTAAGATTTTATCTGCAT
TATATA
Found at i:49807352 original size:39 final size:39
Alignment explanation
Indices: 49807308--49807384 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
49807298 TGCGAAACTA
*
49807308 TTTGTCATTGTACTGAATTGATTGACATGTGAAATTGTG
1 TTTGTCATTGTACTGAATTGATTAACATGTGAAATTGTG
49807347 TTTGTCATTGTACTGAATTGATTAACATGTGAAATTGT
1 TTTGTCATTGTACTGAATTGATTAACATGTGAAATTGT
49807385 TTGCTATTAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (39 bp):
TTTGTCATTGTACTGAATTGATTAACATGTGAAATTGTG
Done.