Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 312 of 320
Found at i:99634124 original size:14 final size:15
Alignment explanation
Indices: 99634085--99634126 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
99634075 TTTAAACATA
*
99634085 ATTATTATTAAATAT
1 ATTATAATTAAATAT
99634100 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
99634114 A-TATAATTTAATA
1 ATTATAATTAAATA
99634127 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:99637117 original size:11 final size:11
Alignment explanation
Indices: 99637101--99637126 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
99637091 TCGGGAGGCA
99637101 AAGGTAGAACG
1 AAGGTAGAACG
99637112 AAGGTAGAACG
1 AAGGTAGAACG
99637123 AAGG
1 AAGG
99637127 AAGAGGCGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.08, G:0.38, T:0.08
Consensus pattern (11 bp):
AAGGTAGAACG
Found at i:99642858 original size:15 final size:15
Alignment explanation
Indices: 99642838--99642884 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
99642828 TTATTTCAAG
99642838 TTATATTTTAGTTAT
1 TTATATTTTAGTTAT
* **
99642853 TTATATTTAAAATA-
1 TTATATTTTAGTTAT
99642867 TTATATTTTAGTTAT
1 TTATATTTTAGTTAT
99642882 TTA
1 TTA
99642885 CGTTATTATT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (15 bp):
TTATATTTTAGTTAT
Found at i:99642882 original size:14 final size:14
Alignment explanation
Indices: 99642838--99642882 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
99642828 TTATTTCAAG
99642838 TTATATTTTAGTTA
1 TTATATTTTAGTTA
* **
99642852 TTTATATTTAAAATA
1 -TTATATTTTAGTTA
99642867 TTATATTTTAGTTA
1 TTATATTTTAGTTA
99642881 TT
1 TT
99642883 TACGTTATTA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (14 bp):
TTATATTTTAGTTA
Found at i:99650220 original size:16 final size:17
Alignment explanation
Indices: 99650194--99650225 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
99650184 GTCAAATCGA
99650194 TTAATTAATATTTTTAT
1 TTAATTAATATTTTTAT
99650211 TTAA-TAATATTTTTA
1 TTAATTAATATTTTTA
99650226 AAAATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTAATTAATATTTTTAT
Found at i:99664674 original size:28 final size:29
Alignment explanation
Indices: 99664643--99664699 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
99664633 AAAATATATT
99664643 TTTAACCCTTT-AAAACTATAAAAATTTA
1 TTTAACCCTTTAAAAACTATAAAAATTTA
* * *
99664671 TTTAATCTTTTAAAAATTATAAAAATTTA
1 TTTAACCCTTTAAAAACTATAAAAATTTA
99664700 GAATATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (29 bp):
TTTAACCCTTTAAAAACTATAAAAATTTA
Found at i:99668356 original size:11 final size:11
Alignment explanation
Indices: 99668340--99668370 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
99668330 TAGAATATAC
99668340 CCCATACCTTG
1 CCCATACCTTG
*
99668351 CCCATACCTTT
1 CCCATACCTTG
99668362 CCCATACCT
1 CCCATACCT
99668371 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:99668946 original size:18 final size:18
Alignment explanation
Indices: 99668923--99668975 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
99668913 CGTTTACGGT
99668923 ACTATTCACGTATACAGC
1 ACTATTCACGTATACAGC
* *
99668941 ACTATTCACGTATACGGT
1 ACTATTCACGTATACAGC
* *
99668959 ACTGTTCACATATACAG
1 ACTATTCACGTATACAG
99668976 TAGTTGGGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (18 bp):
ACTATTCACGTATACAGC
Found at i:99673037 original size:11 final size:11
Alignment explanation
Indices: 99673021--99673051 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
99673011 TAGAATATAC
99673021 CCCATACCTTG
1 CCCATACCTTG
*
99673032 CCCATACCTTT
1 CCCATACCTTG
99673043 CCCATACCT
1 CCCATACCT
99673052 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:99680799 original size:132 final size:129
Alignment explanation
Indices: 99680618--99680987 Score: 350
Period size: 131 Copynumber: 2.8 Consensus size: 129
99680608 TGTATTCCAG
* * * ** * * *
99680618 CACGATAGGGTACTATTCCCCGAATTGCCAAACATCGAATATCGCCTTCGTTTTAAAGGGTTTTT
1 CACGATAGAGCACGATT-CCCGAATTATCAAACACCGAGTATTG-CTTCGTTTTAAAGGGTTTTT
* * * *
99680683 AGAAAATGTGAGTGAAATTTCGAAGGAATCTTCGATTGTTTTGAAAAAAACGGGAAATCACAACT
64 AGAAAA-GTGAGTGAAATTTCGAAGGAATATTCGATTATTTTGAAAAAAA-GAGAAATCACAACC
99680748 CAA
127 CAA
*
99680751 CACG-TCAGAGCACGATTCCCGAATTATCAAACACCGAGTATTGTCTTCGTTTTGGAA-GGTTTT
1 CACGAT-AGAGCACGATTCCCGAATTATCAAACACCGAGTATTG-CTTCGTTTT-AAAGGGTTTT
* * ** * * *
99680814 TAATAAAAGCGAGTGAAA-ACCTAAAGGAATATTCGATTATTTTGAACAAAAGAGAAATCATAAC
63 T-AGAAAAGTGAGTGAAATTTC-GAAGGAATATTCGATTATTTTGAAAAAAAGAGAAATCACAAC
99680878 CCAA
126 CCAA
* * * * * *
99680882 CACGATAGGGCATGATTCTCGAATTATCAAACACCGGGTATTGCTTTTGTTTTAAAGGATTTTTA
1 CACGATAGAGCACGATTCCCGAATTATCAAACACCGAGTATTGC-TTCGTTTTAAAGGGTTTTTA
* * * *
99680947 GAAGAAATGAGTGAAATTTTGAAGGGATATTTGATTATTTT
65 GAA-AAGTGAGTGAAATTTCGAAGGAATATTCGATTATTTT
99680988 AAGCAAATTA
Statistics
Matches: 191, Mismatches: 37, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
130 6 0.03
131 93 0.49
132 73 0.38
133 19 0.10
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (129 bp):
CACGATAGAGCACGATTCCCGAATTATCAAACACCGAGTATTGCTTCGTTTTAAAGGGTTTTTAG
AAAAGTGAGTGAAATTTCGAAGGAATATTCGATTATTTTGAAAAAAAGAGAAATCACAACCCAA
Found at i:99680977 original size:131 final size:129
Alignment explanation
Indices: 99680578--99680987 Score: 378
Period size: 132 Copynumber: 3.1 Consensus size: 129
99680568 CTCCAAAGAG
* ** ** * *
99680578 ATATTCGATTATTTTGAACAAACGGGAAATTGTATTCCAGCACGATAGGGTACT-ATTCCCCGAA
1 ATATTCGATTATTTTGAACAAAAGGGAAATCATAACCCAACACGATAGGGCA-TGATT-CCCGAA
** * * * * * *
99680642 TTGCCAAACATCGAATATCGCCTTCGTTTTAAAGGGTTTTTAGAAAATGTGAGTGAAATTTCGAA
64 TTATCAAACACCGAGTATTGCTTTCGTTTTAAA-GGTTTTTAGAAAA-ATGAGTGAAATTTTGAA
99680707 GGA
127 GGA
* * * * * * *
99680710 ATCTTCGATTGTTTTGAAAAAAACGGGAAATCACAACTCAACACG-TCAGAGCACGATTCCCGAA
1 ATATTCGATTATTTTGAACAAAA-GGGAAATCATAACCCAACACGAT-AGGGCATGATTCCCGAA
* * *** *
99680774 TTATCAAACACCGAGTATTG-TCTTCGTTTTGGAAGGTTTTTA-ATAAAAGCGAGTGAAAACCTA
64 TTATCAAACACCGAGTATTGCT-TTCGTTTT-AAAGGTTTTTAGA-AAAA-TGAGTGAAATTTTG
99680837 AAGGA
125 AAGGA
* *
99680842 ATATTCGATTATTTTGAACAAAAGAGAAATCATAACCCAACACGATAGGGCATGATTCTCGAATT
1 ATATTCGATTATTTTGAACAAAAGGGAAATCATAACCCAACACGATAGGGCATGATTCCCGAATT
* *
99680907 ATCAAACACCGGGTATTGCTTTTGTTTTAAAGGATTTTTAGAAGAAATGAGTGAAATTTTGAAGG
66 ATCAAACACCGAGTATTGCTTTCGTTTTAAAGG-TTTTTAGAA-AAATGAGTGAAATTTTGAAGG
*
99680972 G
129 A
*
99680973 ATATTTGATTATTTT
1 ATATTCGATTATTTT
99680988 AAGCAAATTA
Statistics
Matches: 219, Mismatches: 47, Indels: 25
0.75 0.16 0.09
Matches are distributed among these distances:
130 4 0.02
131 93 0.42
132 99 0.45
133 23 0.11
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (129 bp):
ATATTCGATTATTTTGAACAAAAGGGAAATCATAACCCAACACGATAGGGCATGATTCCCGAATT
ATCAAACACCGAGTATTGCTTTCGTTTTAAAGGTTTTTAGAAAAATGAGTGAAATTTTGAAGGA
Found at i:99683954 original size:25 final size:26
Alignment explanation
Indices: 99683901--99683955 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
99683891 AATAAATTTG
* *
99683901 AAATAAAATATTTGTGTTTTTTTATA
1 AAATAAAACATTTATGTTTTTTTATA
99683927 AAATAAAACATTTAT-TTATTTTT-TA
1 AAATAAAACATTTATGTT-TTTTTATA
99683952 AAAT
1 AAAT
99683956 CTAACTGGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (26 bp):
AAATAAAACATTTATGTTTTTTTATA
Found at i:99700106 original size:21 final size:23
Alignment explanation
Indices: 99700064--99700108 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
99700054 ATCAATGACG
99700064 ACAATAAAGAATGAAATATATAT
1 ACAATAAAGAATGAAATATATAT
*
99700087 ACAA-AAAGAA-GAAATTTATAT
1 ACAATAAAGAATGAAATATATAT
99700108 A
1 A
99700109 ATAAAACTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.52
22 6 0.29
23 4 0.19
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.24
Consensus pattern (23 bp):
ACAATAAAGAATGAAATATATAT
Found at i:99709119 original size:24 final size:24
Alignment explanation
Indices: 99709087--99709141 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
99709077 ATAGTAAAAA
*
99709087 TATAATTTTACTA-TTTTAATAGAT
1 TATAATTTTA-TAGTTTTAAAAGAT
*
99709111 TATAGTTTTATAGTTTTTAAAAGAT
1 TATAATTTTATAG-TTTTAAAAGAT
99709136 TA-AATT
1 TATAATT
99709142 AATTTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 2 0.08
24 12 0.46
25 12 0.46
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (24 bp):
TATAATTTTATAGTTTTAAAAGAT
Found at i:99715024 original size:340 final size:342
Alignment explanation
Indices: 99714242--99715174 Score: 1165
Period size: 340 Copynumber: 2.7 Consensus size: 342
99714232 ATACGAATCA
* ** * *
99714242 TGCT-AAAATTAGCTTTT-CCTAGTTCCTCTACCTCAGTTAGAGCAGACTGAACTTCTTCTTTAC
1 TGCTCAAAATTAGCTTTTCCCGA-TAACTCTACCTCAGTTAGAGCAGACTGAACTTCTTCTTCAA
* *
99714305 CGAGGCCAGGACTTGTCATGTTCCCACCATCGATACAGCCTGCAGAACCATTCATTGGCCCAGTA
65 CGAGGCCAGGACTTGTCATGTTCCCACCATCGACACAGCCTGCAGAACCTTTCATTGGCCCAGTA
* * * * * * *
99714370 GAAAG---TTGCAAACGTATTCTTCTAGGAGCAATGGCTTGGTTTACAATATTCATCTCTGACTC
130 GAAAGTTTTTGCAAGCTTATTCTTCTTGGAGCAGTGACTTGATTTACAATATTCTTCTCTGACTC
99714432 ATCAGAGCTAGAAGTCTGTCCTA-CAGCTTCAGCTTCTGTGACCTGCATTTAAAGTATTGGAAGA
195 ATCAGAGCTAGAAGTCTGTCC-AGCAGCTTCAGCTTCTGTGACCTGCATTTAAAGTATTGGAAGA
* *
99714496 AATTGTTCACTTCAAGAAATGTAATTCAGTGACTAGCATTATATTTTGACCTTTGGCAAAAGAAA
259 AATTGTTCACTTCAAGAAATGTAATTCAGTGACTAACATTATAATTTGACCTTTGGC--AAGAAA
99714561 AGGAGTAAGATAAACAGTGCATCAACAG
322 A-GAG-AAG----ACAGT-CATCAACAG
** * * *
99714589 CACTCAAAATTAGCTTTTTTCCTGGTAACTCTACCTCGGTTAGAGCAGACTGAACTTCTTCTTCA
1 TGCTCAAAATTAGC--TTTTCCCGATAACTCTACCTCAGTTAGAGCAGACTGAACTTCTTCTTCA
* *
99714654 ACGAGGCCAGGACTTGTCATGCTCCCACCATCGACACAGCCTGCAGAACCTTTCATTGGTCCAGT
64 ACGAGGCCAGGACTTGTCATGTTCCCACCATCGACACAGCCTGCAGAACCTTTCATTGGCCCAGT
* * *
99714719 AGAAAGATTAATTTGCAGGCTTATTCTTCTTGGAGCAGTGCCTTGATTTACAATATTCTTCTCTA
129 AGAAAG-TT--TTTGCAAGCTTATTCTTCTTGGAGCAGTGACTTGATTTACAATATTCTTCTCTG
* *
99714784 ACTCATCTGAGCTAGAAGTCAGTCCAGCAGCTTCAGCTTCTGTGACCTGCATTTAAAGTATTGGA
191 ACTCATCAGAGCTAGAAGTCTGTCCAGCAGCTTCAGCTTCTGTGACCTGCATTTAAAGTATTGGA
* ** * * *
99714849 AGATATTGTTCACTTTGAGAAATGTATTTCAGTGTACTAATATTATAATTTGGCC-TTGGC-AGT
256 AGAAATTGTTCACTTCAAGAAATGTAATTCAGTG-ACTAACATTATAATTTGACCTTTGGCAAG-
*
99714912 AAAA-A-CAG-CA-T-ATCAACAG
319 AAAAGAGAAGACAGTCATCAACAG
* *
99714931 TGCTCAAAATTAGCTTTTCCCGATAACTCTACCTCAGTAAGAGCAGATTGAACTTCTTCTTCAAC
1 TGCTCAAAATTAGCTTTTCCCGATAACTCTACCTCAGTTAGAGCAGACTGAACTTCTTCTTCAAC
* * * * *
99714996 GAGGCCAGGACTAGTCATGTTCCCACCATTGACACAGCCTGTAAAACCTTTCATTGCCCCAGTAG
66 GAGGCCAGGACTTGTCATGTTCCCACCATCGACACAGCCTGCAGAACCTTTCATTGGCCCAGTAG
*
99715061 AAAGTTTCGTTTGCAAG-TGTATTCTTCTTGGTGCAGTGACTTGATTTACAATATTCTTCTCTGA
131 AAAG-TT--TTTGCAAGCT-TATTCTTCTTGGAGCAGTGACTTGATTTACAATATTCTTCTCTGA
* *
99715125 CTCATCAGAGCTAGAAGTCTGTTCTGCAGCTTCAGCTTCTGTGACCTGCA
192 CTCATCAGAGCTAGAAGTCTGTCCAGCAGCTTCAGCTTCTGTGACCTGCA
99715175 AACGAAAAAG
Statistics
Matches: 513, Mismatches: 59, Indels: 35
0.85 0.10 0.06
Matches are distributed among these distances:
339 1 0.00
340 205 0.40
342 20 0.04
344 1 0.00
345 2 0.00
347 2 0.00
348 9 0.02
350 108 0.21
351 1 0.00
352 1 0.00
353 2 0.00
354 4 0.01
355 1 0.00
356 140 0.27
357 16 0.03
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (342 bp):
TGCTCAAAATTAGCTTTTCCCGATAACTCTACCTCAGTTAGAGCAGACTGAACTTCTTCTTCAAC
GAGGCCAGGACTTGTCATGTTCCCACCATCGACACAGCCTGCAGAACCTTTCATTGGCCCAGTAG
AAAGTTTTTGCAAGCTTATTCTTCTTGGAGCAGTGACTTGATTTACAATATTCTTCTCTGACTCA
TCAGAGCTAGAAGTCTGTCCAGCAGCTTCAGCTTCTGTGACCTGCATTTAAAGTATTGGAAGAAA
TTGTTCACTTCAAGAAATGTAATTCAGTGACTAACATTATAATTTGACCTTTGGCAAGAAAAGAG
AAGACAGTCATCAACAG
Found at i:99719878 original size:12 final size:12
Alignment explanation
Indices: 99719861--99719886 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
99719851 CACCAAAATC
99719861 ACAACAATATTT
1 ACAACAATATTT
99719873 ACAACAATATTT
1 ACAACAATATTT
99719885 AC
1 AC
99719887 TAATAACCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (12 bp):
ACAACAATATTT
Found at i:99727938 original size:21 final size:20
Alignment explanation
Indices: 99727912--99727950 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
99727902 AAAAAAGATG
99727912 CGTAGAATTGAAGCTTGGATA
1 CGTAGAATTGAAG-TTGGATA
99727933 CGTAGAATTGAAGTTGGA
1 CGTAGAATTGAAGTTGGA
99727951 ATCTATGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (20 bp):
CGTAGAATTGAAGTTGGATA
Found at i:99738231 original size:18 final size:18
Alignment explanation
Indices: 99738196--99738230 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
99738186 AAAACTAAGA
99738196 ATTTTGTTTAATGTTTTT
1 ATTTTGTTTAATGTTTTT
*
99738214 ATTTT-TTTTATGTTTTT
1 ATTTTGTTTAATGTTTTT
99738231 TTAAAGAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (18 bp):
ATTTTGTTTAATGTTTTT
Found at i:99738351 original size:29 final size:31
Alignment explanation
Indices: 99738306--99738369 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 31
99738296 AAATTTCCCT
*
99738306 ATTTTTTTCTCACTTTATTTATTT-TTA-AA
1 ATTTTTATCTCACTTTATTTATTTATTATAA
99738335 ATTTTTATCT-ACTTTTATTTATTTATTATAA
1 ATTTTTATCTCAC-TTTATTTATTTATTATAA
99738366 ATTT
1 ATTT
99738370 CTAAATTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 2 0.06
29 20 0.65
30 3 0.10
31 6 0.19
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.66
Consensus pattern (31 bp):
ATTTTTATCTCACTTTATTTATTTATTATAA
Found at i:99740621 original size:24 final size:24
Alignment explanation
Indices: 99740594--99740650 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
99740584 TCCAGTACTT
*
99740594 CTGCCTTCGCTG-CTGCAAGCACTC
1 CTGCCTTCGCTGTC-ACAAGCACTC
*
99740618 CTGCCTTCGGTGTCACAAGCACTC
1 CTGCCTTCGCTGTCACAAGCACTC
99740642 CTGCCTTCG
1 CTGCCTTCG
99740651 GTTCAACTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 29 0.97
25 1 0.03
ACGTcount: A:0.12, C:0.40, G:0.21, T:0.26
Consensus pattern (24 bp):
CTGCCTTCGCTGTCACAAGCACTC
Found at i:99740815 original size:21 final size:22
Alignment explanation
Indices: 99740755--99740816 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 22
99740745 AAGCGCACCA
*
99740755 GCTTTTGGCACTTCTCTCACTCAT
1 GCTTTTGGCACTTC-C-AACTCAT
* *
99740779 GCTTTTGG-AGCATCCAATTC-T
1 GCTTTTGGCA-CTTCCAACTCAT
99740800 GCTTTTGGCACTTCCAA
1 GCTTTTGGCACTTCCAA
99740817 GACTCCTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
21 15 0.47
22 4 0.12
23 2 0.06
24 11 0.34
ACGTcount: A:0.16, C:0.29, G:0.16, T:0.39
Consensus pattern (22 bp):
GCTTTTGGCACTTCCAACTCAT
Found at i:99740830 original size:45 final size:45
Alignment explanation
Indices: 99740755--99740853 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 45
99740745 AAGCGCACCA
*
99740755 GCTTTTGGCACTTCTCTCACTCATGCTTTTGGAGCATCCAA-TTCT
1 GCTTTTGGCACTTCTCACACTCATGCTTTTGGAGCAT-CAAGTTCT
* * * **
99740800 GCTTTTGGCACTTC-CAAGACTCCTGTTTTTGGAGTGTCAAGTTCT
1 GCTTTTGGCACTTCTC-ACACTCATGCTTTTGGAGCATCAAGTTCT
99740845 GCTTTTGGC
1 GCTTTTGGC
99740854 GTTTCCGACA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
44 4 0.09
45 42 0.91
ACGTcount: A:0.14, C:0.25, G:0.20, T:0.40
Consensus pattern (45 bp):
GCTTTTGGCACTTCTCACACTCATGCTTTTGGAGCATCAAGTTCT
Found at i:99744260 original size:50 final size:50
Alignment explanation
Indices: 99744136--99744384 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
99744126 GATAATAACA
* * ** * *
99744136 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
99744187 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
99744237 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
99744287 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* * *
99744342 ATGTCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
99744385 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:99744314 original size:100 final size:104
Alignment explanation
Indices: 99744135--99744384 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
99744125 TGATAATAAC
**
99744135 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
99744200 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
99744237 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
99744300 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* * *
99744342 ATGTCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
99744385 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:99744500 original size:13 final size:13
Alignment explanation
Indices: 99744479--99744510 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
99744469 GCTTGGATCA
*
99744479 TCATCAAATAAAT
1 TCATAAAATAAAT
99744492 TCATAAAATAAAT
1 TCATAAAATAAAT
99744505 TCATAA
1 TCATAA
99744511 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:99744758 original size:30 final size:30
Alignment explanation
Indices: 99744722--99744779 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
99744712 CCTCGACTCT
*
99744722 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
99744752 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
99744780 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:99745561 original size:3 final size:3
Alignment explanation
Indices: 99745553--99745603 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
99745543 TCATATATAT
*
99745553 ATA ATA AT- ATA ATA AT- ATA AT- ATA AT- ATA AT- ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
99745596 AT- ATA ATA
1 ATA ATA ATA
99745604 TAAAAACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
2 12 0.30
3 28 0.70
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:99745564 original size:8 final size:8
Alignment explanation
Indices: 99745551--99745606 Score: 62
Period size: 8 Copynumber: 6.8 Consensus size: 8
99745541 TGTCATATAT
99745551 ATATAATA
1 ATATAATA
99745559 ATATAATA
1 ATATAATA
99745567 ATATAATATA
1 ATAT-A-ATA
99745577 ATATAAT-
1 ATATAATA
99745584 ATATTAATA
1 ATA-TAATA
99745593 ATA-ATATA
1 ATATA-ATA
99745601 ATATAA
1 ATATAA
99745607 AAACATAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
7 4 0.10
8 25 0.60
9 6 0.14
10 7 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATAATA
Found at i:99745566 original size:5 final size:5
Alignment explanation
Indices: 99745545--99745606 Score: 67
Period size: 5 Copynumber: 12.2 Consensus size: 5
99745535 TTTCTTTGTC
99745545 ATATA TATATA ATA-A TATAATA ATATA ATATA ATATA ATAT- AT-TA
1 ATATA -ATATA ATATA -AT-ATA ATATA ATATA ATATA ATATA ATATA
99745590 ATAATA ATATA ATATA A
1 AT-ATA ATATA ATATA A
99745607 AAACATAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
3 1 0.02
4 5 0.10
5 31 0.62
6 12 0.24
7 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:99745614 original size:13 final size:13
Alignment explanation
Indices: 99745556--99745615 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
99745546 TATATATATA
*
99745556 ATAATATAATAAT
1 ATAATATAAAAAT
99745569 ATAATATAATATAAT
1 ATAATATAA-A-AAT
* *
99745584 ATATTAATAATAAT
1 ATAAT-ATAAAAAT
*
99745598 ATAATATAAAAAC
1 ATAATATAAAAAT
99745611 ATAAT
1 ATAAT
99745616 TATTACTTAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
13 20 0.53
14 7 0.18
15 7 0.18
16 4 0.11
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATATAAAAAT
Found at i:99745615 original size:37 final size:37
Alignment explanation
Indices: 99745545--99745615 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
99745535 TTTCTTTGTC
* *
99745545 ATATATATATAATAATATAATAATATAATATAATATA
1 ATATATATATAATAATATAATAATAAAACATAATATA
99745582 ATATAT-TAATAATAATATAAT-ATAAAAACATAAT
1 ATATATAT-ATAATAATATAATAAT-AAAACATAAT
99745616 TATTACTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 3 0.10
37 27 0.90
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (37 bp):
ATATATATATAATAATATAATAATAAAACATAATATA
Found at i:99749793 original size:79 final size:79
Alignment explanation
Indices: 99749709--99749859 Score: 275
Period size: 79 Copynumber: 1.9 Consensus size: 79
99749699 ATGTATCAAA
**
99749709 TTTAATCTTGATTTTAAAAAAATTAAGCTTCAACATTATATATCGTATCCTTCCAACCAAATATA
1 TTTAATCTTGATTTTAAAAAAACAAAGCTTCAACATTATATATCGTATCCTTCCAACCAAATATA
99749774 AAAAAAACAAAAAT
66 AAAAAAACAAAAAT
*
99749788 TTTAATCTTGATTTTAAAAAAACAAAGCTTCAACATTATATATCGTATCCTTCCAACCAAATATC
1 TTTAATCTTGATTTTAAAAAAACAAAGCTTCAACATTATATATCGTATCCTTCCAACCAAATATA
99749853 AAAAAAA
66 AAAAAAA
99749860 GAAACAAAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 69 1.00
ACGTcount: A:0.47, C:0.17, G:0.04, T:0.32
Consensus pattern (79 bp):
TTTAATCTTGATTTTAAAAAAACAAAGCTTCAACATTATATATCGTATCCTTCCAACCAAATATA
AAAAAAACAAAAAT
Found at i:99749965 original size:40 final size:40
Alignment explanation
Indices: 99749921--99750036 Score: 94
Period size: 40 Copynumber: 3.1 Consensus size: 40
99749911 ATTCTTTTAA
99749921 AATTAATTCTCAATGTTATAAATAATTTATAAAGAAAAAT
1 AATTAATTCTCAATGTTATAAATAATTTATAAAGAAAAAT
* * **
99749961 AATTAAATTATACAAT-TT-T-TATTCTTT-T-------AA-
1 AATT-AATTCT-CAATGTTATAAATAATTTATAAAGAAAAAT
99749991 AATTAATTCTCAATGTTATAAATAATTTATAAAGAAAAAT
1 AATTAATTCTCAATGTTATAAATAATTTATAAAGAAAAAT
99750031 AATTAA
1 AATTAA
99750037 ATTATACAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 28
0.60 0.09 0.31
Matches are distributed among these distances:
28 4 0.07
29 7 0.13
30 5 0.09
31 7 0.13
32 1 0.02
38 1 0.02
39 7 0.13
40 11 0.20
41 7 0.13
42 4 0.07
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.41
Consensus pattern (40 bp):
AATTAATTCTCAATGTTATAAATAATTTATAAAGAAAAAT
Found at i:99750017 original size:70 final size:70
Alignment explanation
Indices: 99749904--99750046 Score: 286
Period size: 70 Copynumber: 2.0 Consensus size: 70
99749894 CTCTTTTTAT
99749904 AATTTTTATTCTTTTAAAATTAATTCTCAATGTTATAAATAATTTATAAAGAAAAATAATTAAAT
1 AATTTTTATTCTTTTAAAATTAATTCTCAATGTTATAAATAATTTATAAAGAAAAATAATTAAAT
99749969 TATAC
66 TATAC
99749974 AATTTTTATTCTTTTAAAATTAATTCTCAATGTTATAAATAATTTATAAAGAAAAATAATTAAAT
1 AATTTTTATTCTTTTAAAATTAATTCTCAATGTTATAAATAATTTATAAAGAAAAATAATTAAAT
99750039 TATAC
66 TATAC
99750044 AAT
1 AAT
99750047 GTGTAAAAGT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.44
Consensus pattern (70 bp):
AATTTTTATTCTTTTAAAATTAATTCTCAATGTTATAAATAATTTATAAAGAAAAATAATTAAAT
TATAC
Found at i:99750059 original size:22 final size:22
Alignment explanation
Indices: 99750034--99750078 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
99750024 GAAAAATAAT
*
99750034 TAAATTATACAATGTGTAAAAG
1 TAAATTATACAATGTATAAAAG
*
99750056 TAAATTATATAATGTATAAAAG
1 TAAATTATACAATGTATAAAAG
99750078 T
1 T
99750079 TGAGGGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (22 bp):
TAAATTATACAATGTATAAAAG
Found at i:99754347 original size:26 final size:26
Alignment explanation
Indices: 99754311--99754363 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
99754301 GAATGGCTTG
*
99754311 AGGACTTATTAGCAAATCGACCATTT
1 AGGACTTATTAGCAAATCAACCATTT
99754337 AGGACTTATTAGCAAATCAACCATTT
1 AGGACTTATTAGCAAATCAACCATTT
99754363 A
1 A
99754364 ATAAAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (26 bp):
AGGACTTATTAGCAAATCAACCATTT
Found at i:99757836 original size:50 final size:50
Alignment explanation
Indices: 99757761--99758037 Score: 464
Period size: 50 Copynumber: 5.5 Consensus size: 50
99757751 CCATGGCAAC
* *
99757761 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
99757811 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
99757861 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
99757911 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
99757961 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
99758011 CAAGTAAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
99758038 CTGATCAATG
Statistics
Matches: 213, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
50 191 0.90
51 22 0.10
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:99758055 original size:31 final size:31
Alignment explanation
Indices: 99758017--99758075 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
99758007 ATGACAAGTA
99758017 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
99758048 AAAAGTGGTAGCTTCGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
99758076 TCGGCTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:99758083 original size:46 final size:46
Alignment explanation
Indices: 99758030--99758121 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
99758020 AGTGGTAGCT
* *
99758030 TCGGCTACCTGATCAATGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
* * *
99758076 TCGGCTACTTGATTAGTGAAAAATGGTAGCTCCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
99758122 ATGAATAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (46 bp):
TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
Found at i:99758800 original size:37 final size:37
Alignment explanation
Indices: 99758739--99758995 Score: 437
Period size: 37 Copynumber: 7.0 Consensus size: 37
99758729 TACGTATGAT
* *
99758739 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
99758774 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
99758811 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
99758848 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
99758885 CACCTATCACTTTGTTTCTTGATCAAATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
99758922 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
99758959 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
99758996 TAAAGCTATC
Statistics
Matches: 209, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
35 9 0.04
36 3 0.01
37 197 0.94
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:99758894 original size:111 final size:111
Alignment explanation
Indices: 99758739--99758995 Score: 482
Period size: 111 Copynumber: 2.3 Consensus size: 111
99758729 TACGTATGAT
* *
99758739 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAAAT
99758802 AAGTGTAGCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
66 AAGTGTAGCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
99758848 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAAAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAAAT
99758913 AAGTGTAGCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
66 AAGTGTAGCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
99758959 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
99758996 TAAAGCTATC
Statistics
Matches: 144, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
109 10 0.07
110 5 0.03
111 129 0.90
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (111 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAAAT
AAGTGTAGCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:99759012 original size:46 final size:46
Alignment explanation
Indices: 99758959--99759227 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
99758949 TAAGTGTAGC
* **
99758959 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
99759005 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
99759051 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
99759103 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
99759149 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
99759201 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
99759228 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:99759078 original size:52 final size:52
Alignment explanation
Indices: 99759002--99759221 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
99758992 TAGCTAAAGC
* *
99759002 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
99759055 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
99759107 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
99759153 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
99759205 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
99759222 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:99759124 original size:98 final size:98
Alignment explanation
Indices: 99758959--99759227 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
99758949 TAAGTGTAGC
* * *
99758959 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
99759024 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
99759058 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
99759123 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
99759156 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
99759221 GATCAGA
66 GATCAGA
99759228 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:99782752 original size:3 final size:3
Alignment explanation
Indices: 99782746--99782786 Score: 57
Period size: 3 Copynumber: 13.3 Consensus size: 3
99782736 AGAGAGAGGG
99782746 AGA AGA AGA AGA AGA AGA AGA AGA AGAA AGAA AGA A-A AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AG-A AG-A AGA AGA AGA A
99782787 AGATGGTGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 27 0.75
4 7 0.19
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:99784199 original size:20 final size:18
Alignment explanation
Indices: 99784169--99784213 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
99784159 AGAATTTTAA
99784169 TAAAAATATATAATAATGG
1 TAAAAATATAT-ATAATGG
99784188 TAAAAGATATATATAAT--
1 TAAAA-ATATATATAATGG
99784205 TAAAAATAT
1 TAAAAATAT
99784214 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.16
17 5 0.20
19 10 0.40
20 6 0.24
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (18 bp):
TAAAAATATATATAATGG
Found at i:99784684 original size:29 final size:30
Alignment explanation
Indices: 99784629--99784689 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
99784619 TTAATTAAAT
* * *
99784629 TTTTTATTTTATAATAATCTATAATATATA
1 TTTTAATTTTATAAAAATATATAATATATA
99784659 TTTTAATTTTATAAAAATAT-T--TATATA
1 TTTTAATTTTATAAAAATATATAATATATA
99784686 TTTT
1 TTTT
99784690 GTTATATTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 10 0.36
29 1 0.04
30 17 0.61
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTTAATTTTATAAAAATATATAATATATA
Found at i:99792912 original size:21 final size:20
Alignment explanation
Indices: 99792876--99792914 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
99792866 GGAGAAAACA
99792876 AGAGAAAGCCAAGCGGCAGT
1 AGAGAAAGCCAAGCGGCAGT
99792896 AGAGATAAG-CAACGCGGCA
1 AGAGA-AAGCCAA-GCGGCA
99792915 ACCGCAACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.41, C:0.21, G:0.33, T:0.05
Consensus pattern (20 bp):
AGAGAAAGCCAAGCGGCAGT
Found at i:99796655 original size:25 final size:25
Alignment explanation
Indices: 99796609--99796660 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
99796599 GGCATATATC
* * *
99796609 TTGATTTTATTTGATTCCAATCAAT
1 TTGATTTCATTTGAATCAAATCAAT
* *
99796634 TTGATTTCATTTTAATCAAATCGAT
1 TTGATTTCATTTGAATCAAATCAAT
99796659 TT
1 TT
99796661 AATTGCTCGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.52
Consensus pattern (25 bp):
TTGATTTCATTTGAATCAAATCAAT
Found at i:99796688 original size:12 final size:13
Alignment explanation
Indices: 99796654--99796681 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
99796644 TTTAATCAAA
99796654 TCGATTTAATTGC
1 TCGATTTAATTGC
99796667 TCGATTTAATTGC
1 TCGATTTAATTGC
99796680 TC
1 TC
99796682 CTTTAATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.46
Consensus pattern (13 bp):
TCGATTTAATTGC
Found at i:99800664 original size:126 final size:126
Alignment explanation
Indices: 99800330--99800639 Score: 300
Period size: 126 Copynumber: 2.5 Consensus size: 126
99800320 ACATAAGAAT
* * * * * ** *
99800330 ATATTTCGTGTTTG-GAAGTTTGAGAAATCGTGCCAAATCGTGCTGGGTTACGACTTTTTCATTC
1 ATATTTCGTATTTGAGAAATTCGAGAAATCGTGCCCAATCGTGCTGGGTTTCGA-TTTACCATTT
* * * *** * * * * * *
99800394 AACTGAACTATGGAATATCCTTGTGAGATTTCATCCATGTTTTCTTAAATTAAAATGAGGCA
65 GACTAAAATACAAAATATCATTTTAAAATTTCATCCATGTTTTCTCAAATTAAAATAAGGCA
* * * * * * * * *
99800456 GTATTTCGTATTTGGGGAGTTTGGGAGATCGTGCCCAATCGTGTTGGGTTTCGATTTTCCATTTG
1 ATATTTCGTATTTGAGAAATTCGAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTACCATTTG
*
99800521 ACTAAAATACAAAATATCATTTTAAAATTTTATCCATGTTTTCTCAAATTAAAATAAGGCA
66 ACTAAAATACAAAATATCATTTTAAAATTTCATCCATGTTTTCTCAAATTAAAATAAGGCA
* * *
99800582 ATGTTTCGTATTT-AGAAATTCGATAAATCGTGCCCATTCGTGCTGGGTTTCGATTTAC
1 ATATTTCGTATTTGAGAAATTCGAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTAC
99800640 TGTTTGAGCC
Statistics
Matches: 148, Mismatches: 35, Indels: 3
0.80 0.19 0.02
Matches are distributed among these distances:
125 35 0.24
126 80 0.54
127 33 0.22
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (126 bp):
ATATTTCGTATTTGAGAAATTCGAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTACCATTTG
ACTAAAATACAAAATATCATTTTAAAATTTCATCCATGTTTTCTCAAATTAAAATAAGGCA
Found at i:99802810 original size:37 final size:37
Alignment explanation
Indices: 99802740--99802834 Score: 100
Period size: 37 Copynumber: 2.6 Consensus size: 37
99802730 TATTTTCAAT
* * * * * *
99802740 TTATCTTATTGTTGTTTTTTATTTATTGTGATAGATG
1 TTATCTTATTGTTGTTTTATACTGACTGCGATAGATC
* *
99802777 TTATCTTATTGTTATTTTATACTGACTGCGATAGTTC
1 TTATCTTATTGTTGTTTTATACTGACTGCGATAGATC
* *
99802814 TTATTTTATTATTGTTTTATA
1 TTATCTTATTGTTGTTTTATA
99802835 GGAATTGTGA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.21, C:0.06, G:0.13, T:0.60
Consensus pattern (37 bp):
TTATCTTATTGTTGTTTTATACTGACTGCGATAGATC
Found at i:99803337 original size:27 final size:28
Alignment explanation
Indices: 99803307--99803360 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
99803297 ATTATTTCAT
99803307 AACTT-TCACATAATTAAATGA-TGGAAA
1 AACTTCTCA-ATAATTAAATGACTGGAAA
*
99803334 AACTTCTCATTAATTAAATGACTGGAA
1 AACTTCTCAATAATTAAATGACTGGAA
99803361 CTGGAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.31
Consensus pattern (28 bp):
AACTTCTCAATAATTAAATGACTGGAAA
Found at i:99809753 original size:24 final size:24
Alignment explanation
Indices: 99809694--99809753 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
99809684 ATAATCAATT
*
99809694 AATATTTTTATATTTAAAATTATTT
1 AATATTTTT-TATTTAAAATTATTA
* **
99809719 AATCTAATTTATTT-AAATATATTA
1 AATATTTTTTATTTAAAAT-TATTA
99809743 AATATTTTTTA
1 AATATTTTTTA
99809754 AAAATATCGA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
23 4 0.15
24 17 0.63
25 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
AATATTTTTTATTTAAAATTATTA
Found at i:99810083 original size:47 final size:47
Alignment explanation
Indices: 99810014--99810107 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
99810004 CTGTACTCAT
99810014 AAGAAAAAAAAGTGAATTTCAACATAAATCGCCTTCCTATTTAATAG
1 AAGAAAAAAAAGTGAATTTCAACATAAATCGCCTTCCTATTTAATAG
99810061 AAGAAAAAAAAGTGAATTTCAACATAAATCGCCTTCCTATTTAATAG
1 AAGAAAAAAAAGTGAATTTCAACATAAATCGCCTTCCTATTTAATAG
99810108 TTTAGGGGTT
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:0.47, C:0.15, G:0.11, T:0.28
Consensus pattern (47 bp):
AAGAAAAAAAAGTGAATTTCAACATAAATCGCCTTCCTATTTAATAG
Found at i:99816082 original size:108 final size:108
Alignment explanation
Indices: 99815930--99816171 Score: 315
Period size: 108 Copynumber: 2.2 Consensus size: 108
99815920 ATTTTCATTG
* * * * * *
99815930 CGGCTTATCTTTTGAGGACTGTGTGTATCTTCATTCCGGTTTATATCTCGAGCTTTTTGTGCATC
1 CGGCTTCTCTTTTGAGGACTTTGTGTACCTCCATTCCAGATTATATCTCGAGCTTTTTGTGCATC
** *
99815995 TTCATTA-GGATTTATATGTTGAGGACTACTCATGTTAGCATCG
66 TTCATTATGG-TTTATACATTGAGGACTACTCATGTTAGCATCA
* * * *
99816038 CGGTTTCTCTTTTTAGGACTTTGTGTACCTCCATTCCAGATTATATCTTGAGGTTTTTGTGCATC
1 CGGCTTCTCTTTTGAGGACTTTGTGTACCTCCATTCCAGATTATATCTCGAGCTTTTTGTGCATC
* *
99816103 TTCATTATTGTTTATACATTGAGGACTACTCATGTTTGCATCA
66 TTCATTATGGTTTATACATTGAGGACTACTCATGTTAGCATCA
* *
99816146 TGGCTTCTCTTCTGAGGACTTTGTGT
1 CGGCTTCTCTTTTGAGGACTTTGTGT
99816172 GTCATCATTG
Statistics
Matches: 114, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
108 113 0.99
109 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (108 bp):
CGGCTTCTCTTTTGAGGACTTTGTGTACCTCCATTCCAGATTATATCTCGAGCTTTTTGTGCATC
TTCATTATGGTTTATACATTGAGGACTACTCATGTTAGCATCA
Found at i:99816309 original size:36 final size:35
Alignment explanation
Indices: 99816269--99816347 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 35
99816259 AATCTCTGAA
*
99816269 GGACTTTG-TGTGTTCTCACTCAGGTTTGTTCCTTG
1 GGACTTTGAT-TGTTCTCACTCAGGTTGGTTCCTTG
* *
99816304 TGGACTTAGATTGTTTTCACTCAGGTTGGTTCCTTG
1 -GGACTTTGATTGTTCTCACTCAGGTTGGTTCCTTG
99816340 GGTACTTT
1 GG-ACTTT
99816348 CTGAGTGTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 2 0.05
36 34 0.92
37 1 0.03
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.46
Consensus pattern (35 bp):
GGACTTTGATTGTTCTCACTCAGGTTGGTTCCTTG
Found at i:99818349 original size:29 final size:29
Alignment explanation
Indices: 99818307--99818367 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
99818297 ACCAATAAAA
99818307 GACTTATAACAATTAAACTTTCTTTCAAT
1 GACTTATAACAATTAAACTTTCTTTCAAT
99818336 GACTTATAACAATTAAACTTTCTTTCAAT
1 GACTTATAACAATTAAACTTTCTTTCAAT
99818365 GAC
1 GAC
99818368 CTTTATGCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.39
Consensus pattern (29 bp):
GACTTATAACAATTAAACTTTCTTTCAAT
Found at i:99820219 original size:12 final size:12
Alignment explanation
Indices: 99820202--99820236 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
99820192 CCGGCCCGCA
99820202 TATATTAATTTT
1 TATATTAATTTT
99820214 TATATTAATTTT
1 TATATTAATTTT
99820226 TATA-TAATTTT
1 TATATTAATTTT
99820237 AAAATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.30
12 16 0.70
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:99823388 original size:25 final size:25
Alignment explanation
Indices: 99823337--99823389 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
99823327 TTTTTAATAG
* *
99823337 TTTTTAATTTTAAAAATATGAATTT
1 TTTTTATTTTTAAAAAAATGAATTT
*
99823362 TTTTTATTTTTAAAAAAATTTAATTT
1 TTTTTATTTTTAAAAAAA-TGAATTT
99823388 TT
1 TT
99823390 ATATTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTTTATTTTTAAAAAAATGAATTT
Found at i:99835841 original size:17 final size:17
Alignment explanation
Indices: 99835803--99835844 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
99835793 AATTTTATTT
* *
99835803 TTATAATTTTTTGGTTAA
1 TTATAA-TTTTGGGTAAA
99835821 -TATAATTTTGGGTAAA
1 TTATAATTTTGGGTAAA
99835837 TTATAATT
1 TTATAATT
99835845 AGATTTTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (17 bp):
TTATAATTTTGGGTAAA
Found at i:99836201 original size:15 final size:15
Alignment explanation
Indices: 99836181--99836209 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
99836171 TAAAAATATT
99836181 AAAATAATATTTTAA
1 AAAATAATATTTTAA
99836196 AAAATAATATTTTA
1 AAAATAATATTTTA
99836210 GTTGAGTCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAATAATATTTTAA
Found at i:99837073 original size:18 final size:18
Alignment explanation
Indices: 99837046--99837090 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
99837036 GGGGGGACGT
99837046 ACCAAATTGAATTCAGTC
1 ACCAAATTGAATTCAGTC
*
99837064 ACCAATTTGAATTCAGTC
1 ACCAAATTGAATTCAGTC
99837082 ACCAAATTG
1 ACCAAATTG
99837091 GGTGACCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (18 bp):
ACCAAATTGAATTCAGTC
Found at i:99839118 original size:19 final size:19
Alignment explanation
Indices: 99839081--99839120 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
99839071 GTTAATTTAT
* *
99839081 TTAAAATATAAATATTAAA
1 TTAAAATATAAAAAATAAA
*
99839100 TTAAAATTTAAAAAATAAA
1 TTAAAATATAAAAAATAAA
99839119 TT
1 TT
99839121 TATAGTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TTAAAATATAAAAAATAAA
Found at i:99839298 original size:17 final size:18
Alignment explanation
Indices: 99839276--99839309 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
99839266 AATCACATAT
99839276 AATATA-TAAAATTTAAA
1 AATATATTAAAATTTAAA
*
99839293 AATATATTTAAATTTAA
1 AATATATTAAAATTTAA
99839310 GTAATTGCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AATATATTAAAATTTAAA
Found at i:99839460 original size:21 final size:23
Alignment explanation
Indices: 99839420--99839478 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
99839410 ATTCTTGTAA
* *
99839420 ATTTTATTTAATAATTTTTTATA-
1 ATTTTATAT-ATATTTTTTTATAG
*
99839443 A-TTTATATATATTTTTTTCTAG
1 ATTTTATATATATTTTTTTATAG
*
99839465 ATTTTGTATATATT
1 ATTTTATATATATT
99839479 ATTATGAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 11 0.37
22 7 0.23
23 12 0.40
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (23 bp):
ATTTTATATATATTTTTTTATAG
Found at i:99839496 original size:22 final size:22
Alignment explanation
Indices: 99839466--99839513 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
99839456 TTTTTCTAGA
99839466 TTTTGTATATATT-ATTATGAAT
1 TTTTGTATATATTCATT-TGAAT
* *
99839488 TTTTTTATATATTCATTTTAAT
1 TTTTGTATATATTCATTTGAAT
99839510 TTTT
1 TTTT
99839514 CATATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTTGTATATATTCATTTGAAT
Found at i:99859328 original size:18 final size:18
Alignment explanation
Indices: 99859305--99859343 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
99859295 TACGACCGTT
99859305 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
99859323 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
99859341 TAC
1 TAC
99859344 AGTAGTTGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:99860232 original size:41 final size:41
Alignment explanation
Indices: 99860173--99860373 Score: 244
Period size: 41 Copynumber: 4.9 Consensus size: 41
99860163 GTAAAACATA
* *
99860173 GAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAAC-A
1 GAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACTG
* ** *
99860213 GAGCAATAGCGGTATTTTTTGTTAAAACGCCGCTAAAAACTG
1 GAGCATTAGCGG-CGTTTTTGGTAAAACGCCGCTAAAAACTG
* *
99860255 GAGCATTAGCGGCGCTTTTT-GTAAAATGCCGCTAAAAACCG
1 GAGCATTAGCGGCG-TTTTTGGTAAAACGCCGCTAAAAACTG
* * * *
99860296 GATCATTAGCGGCGCTTTTGGTATAACGCCCCTAAAAACTG
1 GAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACTG
* *
99860337 GAGCATTAGCGGCGCTTTTGATAAAACGCCGCTAAAA
1 GAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTAAAA
99860374 GTCATATAAC
Statistics
Matches: 137, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
40 16 0.12
41 105 0.77
42 16 0.12
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (41 bp):
GAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACTG
Found at i:99860462 original size:23 final size:22
Alignment explanation
Indices: 99860415--99860462 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
99860405 AAAAAATCAT
* *
99860415 AAACACTAATCTATAATCCTTA
1 AAACACTAAACTATAAACCTTA
*
99860437 AAACACTAAACTCCTAAACCTTA
1 AAACACTAAACT-ATAAACCTTA
99860460 AAA
1 AAA
99860463 AATCTTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (22 bp):
AAACACTAAACTATAAACCTTA
Found at i:99860803 original size:14 final size:14
Alignment explanation
Indices: 99860781--99860828 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
99860771 TTAATTATCA
*
99860781 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
99860795 TTATGGTTTAAGCT
1 TTATGGTTTAAGGT
*
99860809 ATATGGGTTTAAGGT
1 TTAT-GGTTTAAGGT
99860824 TTATG
1 TTATG
99860829 AGTTAACTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:99860828 original size:15 final size:15
Alignment explanation
Indices: 99860786--99860828 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
99860776 TATCATTATA
99860786 GTTTAAGGTTTAT-G
1 GTTTAAGGTTTATGG
* *
99860800 GTTTAAGCTATATGG
1 GTTTAAGGTTTATGG
99860815 GTTTAAGGTTTATG
1 GTTTAAGGTTTATG
99860829 AGTTAACTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (15 bp):
GTTTAAGGTTTATGG
Found at i:99860895 original size:14 final size:14
Alignment explanation
Indices: 99860850--99860925 Score: 57
Period size: 14 Copynumber: 5.5 Consensus size: 14
99860840 GTTTAAAGGT
99860850 GGGTTAAGGGTT-G
1 GGGTTAAGGGTTAG
*
99860863 GGTTTAA-GGTTAG
1 GGGTTAAGGGTTAG
* * *
99860876 GTGTTAGGGGTTAA
1 GGGTTAAGGGTTAG
*
99860890 GGGTTAAGGGTGAG
1 GGGTTAAGGGTTAG
* *
99860904 AGGTTTAGGGTTTAG
1 GGGTTAAGGG-TTAG
*
99860919 GGTTTAA
1 GGGTTAA
99860926 TGCTTAGAGA
Statistics
Matches: 45, Mismatches: 15, Indels: 4
0.70 0.23 0.06
Matches are distributed among these distances:
12 4 0.09
13 11 0.24
14 23 0.51
15 7 0.16
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.34
Consensus pattern (14 bp):
GGGTTAAGGGTTAG
Found at i:99860925 original size:29 final size:29
Alignment explanation
Indices: 99860874--99860953 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 29
99860864 GTTTAAGGTT
* *
99860874 AGGTGTTAGGGGTTAAGGG-TTAAGGGTGAG
1 AGGT-TTA-GGGTTTAGGGTTTAAGGCTGAG
* *
99860904 AGGTTTAGGGTTTAGGGTTTAATGCTTAG
1 AGGTTTAGGGTTTAGGGTTTAAGGCTGAG
* * *
99860933 AGATTAAGAGTTTAGGGTTTA
1 AGGTTTAGGGTTTAGGGTTTA
99860954 GATTAGTTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 9 0.21
29 29 0.69
30 4 0.10
ACGTcount: A:0.25, C:0.01, G:0.39, T:0.35
Consensus pattern (29 bp):
AGGTTTAGGGTTTAGGGTTTAAGGCTGAG
Found at i:99861114 original size:22 final size:22
Alignment explanation
Indices: 99861089--99861131 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
99861079 GAGTTATTAT
99861089 TTTAAGGTTTATGGA-TTATGGG
1 TTTAAGGTTTAT-GATTTATGGG
*
99861111 TTTAGGGTTTATGATTTATGG
1 TTTAAGGTTTATGATTTATGG
99861132 TTATGTAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (22 bp):
TTTAAGGTTTATGATTTATGGG
Found at i:99864379 original size:30 final size:30
Alignment explanation
Indices: 99864343--99864403 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
99864333 GTCTTCCAAA
*
99864343 TAAGTTCCGTGTTATATCAACTCGTGAATT
1 TAAGTTCCGTGCTATATCAACTCGTGAATT
*
99864373 TAAGTTCTGTGCTATATCAACTCGTGAATT
1 TAAGTTCCGTGCTATATCAACTCGTGAATT
99864403 T
1 T
99864404 TGATCATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (30 bp):
TAAGTTCCGTGCTATATCAACTCGTGAATT
Found at i:99865860 original size:21 final size:21
Alignment explanation
Indices: 99865834--99865874 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
99865824 ACTTAGAGCG
99865834 GAGGCAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
99865855 GAGGCAGCAGCGAGGGAGGC
1 GAGGCAGCAGCGAGGGAGGC
99865875 GGAGCAGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.54, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:99873992 original size:17 final size:15
Alignment explanation
Indices: 99873970--99874005 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
99873960 AGACCAGCCT
99873970 AAATCTAAAATATTATA
1 AAATCTAAAA-A-TATA
99873987 AAATCTAAAAATATA
1 AAATCTAAAAATATA
99874002 AAAT
1 AAAT
99874006 GAATAAAGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.42
16 1 0.05
17 10 0.53
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATCTAAAAATATA
Found at i:99875739 original size:43 final size:42
Alignment explanation
Indices: 99875683--99875835 Score: 171
Period size: 43 Copynumber: 3.5 Consensus size: 42
99875673 AAAAAGCCAC
* * *
99875683 AAAAGATCATGACTTTTAGCGGCGTTTGTAGGAAAAGCGCCGTT
1 AAAAG-TCACGACTTTTAGCGGCGTTTGT-GGGAAAGCGCCGCT
* * *
99875727 AAAAGTCATGACTTTTAGCGGCGTTTGTGGTGGAAGCGCCACT
1 AAAAGTCACGACTTTTAGCGGCGTTTGTGG-GAAAGCGCCGCT
* * * *
99875770 AAAAGTCACGGCTTTTAGCGCCGTTTGTGGGGAATGTGCCGCT
1 AAAAGTCACGACTTTTAGCGGCGTTTGT-GGGAAAGCGCCGCT
*
99875813 AAAAGTCACGACTTTTAGGGGCG
1 AAAAGTCACGACTTTTAGCGGCG
99875836 CTTTTGTTAC
Statistics
Matches: 93, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
42 2 0.02
43 84 0.90
44 7 0.08
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (42 bp):
AAAAGTCACGACTTTTAGCGGCGTTTGTGGGAAAGCGCCGCT
Found at i:99875789 original size:86 final size:86
Alignment explanation
Indices: 99875678--99875835 Score: 210
Period size: 86 Copynumber: 1.8 Consensus size: 86
99875668 TTAAAAAAAA
* * * *
99875678 GCCACAAAAGATCATGACTTTTAGCGGCGTTTGTAGGAAAAGCGCCGTTAAAAGTCATGACTTTT
1 GCCACAAAAGATCACGACTTTTAGCGCCGTTTGTAGGAAAAGCGCCGCTAAAAGTCACGACTTTT
99875743 AGCGGCGTTTGTGGTGGAAGC
66 AGCGGCGTTTGTGGTGGAAGC
* * * * *
99875764 GCCACTAAAAG-TCACGGCTTTTAGCGCCGTTTGTGGGGAATGTGCCGCTAAAAGTCACGACTTT
1 GCCAC-AAAAGATCACGACTTTTAGCGCCGTTTGTAGGAAAAGCGCCGCTAAAAGTCACGACTTT
*
99875828 TAGGGGCG
65 TAGCGGCG
99875836 CTTTTGTTAC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
86 56 0.92
87 5 0.08
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.26
Consensus pattern (86 bp):
GCCACAAAAGATCACGACTTTTAGCGCCGTTTGTAGGAAAAGCGCCGCTAAAAGTCACGACTTTT
AGCGGCGTTTGTGGTGGAAGC
Found at i:99875990 original size:33 final size:32
Alignment explanation
Indices: 99875912--99876024 Score: 156
Period size: 31 Copynumber: 3.5 Consensus size: 32
99875902 TTCCTGCATT
* * *
99875912 AAATCCAACCAAAAACAACAAATATAGCAT-G
1 AAATACAACCAAAAACAACAAATATAACATAA
* * *
99875943 AAATCCAACCAAAAACAGCAAATGTAACATAAA
1 AAATACAACCAAAAACAACAAATATAACAT-AA
99875976 AAATACAACCAAAAACAACAAATATAACATAA
1 AAATACAACCAAAAACAACAAATATAACATAA
99876008 AAATACAACCAAAAACA
1 AAATACAACCAAAAACA
99876025 TTAAATCTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
31 27 0.37
32 19 0.26
33 27 0.37
ACGTcount: A:0.64, C:0.21, G:0.04, T:0.12
Consensus pattern (32 bp):
AAATACAACCAAAAACAACAAATATAACATAA
Found at i:99876727 original size:13 final size:14
Alignment explanation
Indices: 99876700--99876728 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
99876690 ACTAACGACG
99876700 AATTAAACTATTAT
1 AATTAAACTATTAT
99876714 AATTAAAC-ATTAT
1 AATTAAACTATTAT
99876727 AA
1 AA
99876729 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTAAACTATTAT
Found at i:99883672 original size:73 final size:74
Alignment explanation
Indices: 99883455--99883699 Score: 334
Period size: 74 Copynumber: 3.3 Consensus size: 74
99883445 TTTTTGCAGT
*
99883455 GTTTTCTAAAAAACGCCACTAATAGTCAGACAAAAACGACAGCGTTTTCTACACGCTTAAAACAT
1 GTTTTCTTAAAAACGCCACTAATAGTCAGACAAAAACGACAGCGTTTTCTACACGCTTAAAACAT
99883520 ATTTGCGGC
66 ATTTGCGGC
* * *
99883529 GTTTTCTTTAAAACGCCACTAATAGTCAGACAGAAACGACATCGTTTTCTACACGCTTAAAACAT
1 GTTTTCTTAAAAACGCCACTAATAGTCAGACAAAAACGACAGCGTTTTCTACACGCTTAAAACAT
99883594 ATTTGCGGC
66 ATTTGCGGC
* * * **
99883603 GTTTTCTTAAAAATGCCACTAAAAGTCAGA-AAAAACGACAGCATTTTGC-ACACTTTTAAAACA
1 GTTTTCTTAAAAACGCCACTAATAGTCAGACAAAAACGACAGCGTTTT-CTACACGCTTAAAACA
*
99883666 TTTTTGCGGGC
65 TATTTGC-GGC
*
99883677 GTTTT-TTGCGAAAACGCCACTAA
1 GTTTTCTT--AAAAACGCCACTAA
99883700 AGGATATCTT
Statistics
Matches: 152, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
73 34 0.22
74 106 0.70
75 12 0.08
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.29
Consensus pattern (74 bp):
GTTTTCTTAAAAACGCCACTAATAGTCAGACAAAAACGACAGCGTTTTCTACACGCTTAAAACAT
ATTTGCGGC
Found at i:99884252 original size:16 final size:16
Alignment explanation
Indices: 99884227--99884270 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
99884217 AGACTTAGGG
*
99884227 TTTAAAGGTTTAGTGA
1 TTTAAGGGTTTAGTGA
*
99884243 TTTAAGGGTTTAGTGG
1 TTTAAGGGTTTAGTGA
*
99884259 GTT-AGGGTTTAG
1 TTTAAGGGTTTAG
99884271 AGAAAGCCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 9 0.36
16 16 0.64
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.43
Consensus pattern (16 bp):
TTTAAGGGTTTAGTGA
Found at i:99884963 original size:40 final size:39
Alignment explanation
Indices: 99884886--99884972 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 39
99884876 CGTTTATAGG
* *
99884886 TCGACCTATAGCGGCACTTTTTTAAAAATGCCACTAATGC
1 TCGATCTATAGCGGCAC-TTTTTAAAAATGCCACTAATAC
**
99884926 TCGATCTATAGCGGCGA-TTTTTAAAAAGTGCTGCTAATAC
1 TCGATCTATAGCGGC-ACTTTTTAAAAA-TGCCACTAATAC
*
99884966 TTGATCT
1 TCGATCT
99884973 TTTCGATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 10 0.25
40 29 0.73
41 1 0.03
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (39 bp):
TCGATCTATAGCGGCACTTTTTAAAAATGCCACTAATAC
Found at i:99905888 original size:7 final size:7
Alignment explanation
Indices: 99905876--99905906 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
99905866 GGAAGAAAGT
99905876 GAAAAAA
1 GAAAAAA
99905883 GAAAAAA
1 GAAAAAA
99905890 GAAAAAA
1 GAAAAAA
99905897 GAAAAAA
1 GAAAAAA
99905904 GAA
1 GAA
99905907 GAAGATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:99906479 original size:13 final size:13
Alignment explanation
Indices: 99906461--99906492 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
99906451 CCGTTAACAT
99906461 GTTAATTTTAATC
1 GTTAATTTTAATC
99906474 GTTAATTTTAATC
1 GTTAATTTTAATC
99906487 GTTAAT
1 GTTAAT
99906493 ATAAGGGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.53
Consensus pattern (13 bp):
GTTAATTTTAATC
Found at i:99910124 original size:18 final size:18
Alignment explanation
Indices: 99910103--99910137 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
99910093 TGAATATGCA
*
99910103 TTGTCGTTGCTGTTGCTG
1 TTGTCGTTGCTGCTGCTG
*
99910121 TTGTTGTTGCTGCTGCT
1 TTGTCGTTGCTGCTGCT
99910138 CGTTCCTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.31, T:0.51
Consensus pattern (18 bp):
TTGTCGTTGCTGCTGCTG
Found at i:99923746 original size:14 final size:14
Alignment explanation
Indices: 99923727--99923773 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
99923717 ATTTTTAATC
99923727 ACATAAATATTTAA
1 ACATAAATATTTAA
99923741 ACAT-AATATTTTAA
1 ACATAAATA-TTTAA
99923755 A-A-AAATATTTAA
1 ACATAAATATTTAA
*
99923767 AGATAAA
1 ACATAAA
99923774 ATATATGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 6 0.21
13 10 0.34
14 13 0.45
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (14 bp):
ACATAAATATTTAA
Found at i:99926365 original size:21 final size:21
Alignment explanation
Indices: 99926339--99926384 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
99926329 AAATAACAAT
*
99926339 AAAATAACAACAAAATAGTGA
1 AAAATAACAACAAAATAGTAA
* * *
99926360 AAAATAGCAAGAAAATGGTAA
1 AAAATAACAACAAAATAGTAA
99926381 AAAA
1 AAAA
99926385 GTAATATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.67, C:0.07, G:0.13, T:0.13
Consensus pattern (21 bp):
AAAATAACAACAAAATAGTAA
Found at i:99927987 original size:15 final size:15
Alignment explanation
Indices: 99927967--99927998 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
99927957 TTCATGTCTA
99927967 TTTTACTGTGCATAT
1 TTTTACTGTGCATAT
99927982 TTTTACTGTGCATAT
1 TTTTACTGTGCATAT
99927997 TT
1 TT
99927999 GGGTTTCGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.56
Consensus pattern (15 bp):
TTTTACTGTGCATAT
Found at i:99932848 original size:5 final size:6
Alignment explanation
Indices: 99932821--99932847 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
99932811 TTGAACAAGC
99932821 TTTTCT TTTTCT TTTTCT TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTT
99932848 CCATATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:99939543 original size:21 final size:22
Alignment explanation
Indices: 99939509--99939556 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
99939499 ATTCAAAAAT
99939509 TAAAAAATTAAAAA-AA-AACCA
1 TAAAAAATTAAAAACAATAA-CA
* *
99939530 TAAAAATTTCAAAACAATAACA
1 TAAAAAATTAAAAACAATAACA
99939552 TAAAA
1 TAAAA
99939557 TACACATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 12 0.52
22 9 0.39
23 2 0.09
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (22 bp):
TAAAAAATTAAAAACAATAACA
Found at i:99939543 original size:22 final size:21
Alignment explanation
Indices: 99939509--99939556 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
99939499 ATTCAAAAAT
99939509 TAAAAAATTAAAA-AAAAACCA
1 TAAAAAATTAAAACAAAAA-CA
* *
99939530 TAAAAATTTCAAAACAATAACA
1 TAAAAAATT-AAAACAAAAACA
99939552 TAAAA
1 TAAAA
99939557 TACACATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 8 0.35
22 11 0.48
23 4 0.17
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAAAAATTAAAACAAAAACA
Found at i:99940861 original size:16 final size:16
Alignment explanation
Indices: 99940840--99940870 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
99940830 GATATTTTAA
99940840 TATATTATATTAATAT
1 TATATTATATTAATAT
*
99940856 TATATTATGTTAATA
1 TATATTATATTAATA
99940871 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:99942132 original size:21 final size:23
Alignment explanation
Indices: 99942090--99942132 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
99942080 CAATATTCCG
*
99942090 GGTGTGTTTGGGTTGGACATTCT
1 GGTGTGTTTGGGATGGACATTCT
99942113 GGTGTGTTT-GGATGGA-ATTC
1 GGTGTGTTTGGGATGGACATTC
99942133 GCGTATCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 9 0.47
ACGTcount: A:0.12, C:0.07, G:0.40, T:0.42
Consensus pattern (23 bp):
GGTGTGTTTGGGATGGACATTCT
Found at i:99948895 original size:19 final size:19
Alignment explanation
Indices: 99948839--99948895 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
99948829 ATAAATTTTT
*
99948839 AAAAGTAAAAATAATATATA
1 AAAAGTAAAAAAAAT-TATA
* **
99948859 AAAATTAAAAAATGTTATA
1 AAAAGTAAAAAAAATTATA
*
99948878 AGAAGTAAAAAAAATTAT
1 AAAAGTAAAAAAAATTAT
99948896 TTGAAGAAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (19 bp):
AAAAGTAAAAAAAATTATA
Found at i:99951173 original size:340 final size:341
Alignment explanation
Indices: 99950546--99951237 Score: 1368
Period size: 340 Copynumber: 2.0 Consensus size: 341
99950536 AAAAGTGGAA
*
99950546 AACAATATTTTATATTTTTTTTGGCCTTCAACCCTGAACGACCGACACACCTCTATACCACCTCT
1 AACAAGATTTTATATTTTTTTTGGCCTTCAACCCTGAACGACCGACACACCTCTATACCACCTCT
99950611 AGAGCCGAGCCTGATCAACACAAGGTATTTATGAAGAGCTGGTAAGCAAGTGCTACTGCTACACC
66 AGAGCCGAGCCTGATCAACACAAGGTATTTATGAAGAGCTGGTAAGCAAGTGCTACTGCTACACC
99950676 TTTTTAATATTTTACTTCCTTATTTGTTAAACTATTTTTATTTGAGCAAGTATTATCTTCTTCGT
131 TTTTTAATATTTTACTTCCTTATTTGTTAAACTATTTTTATTTGAGCAAGTATTATCTTCTTCGT
99950741 TTTATTTGTAATAAACTGTGATTGGACTGAGATTACCGTACGTTGGACTGTCTGTTTTGATCAGC
196 TTTATTTGTAATAAACTGTGATTGGACTGAGATTACCGTACGTTGGACTGTCTGTTTTGATCAGC
99950806 TACTACTTGAAAGGCAGTGCTGGAAGATGGAATTCCATTCAACAAGACCAGTGGTGGTATGACCG
261 TACTACTTGAAAGGCAGTGCTGGAAGATGGAATTCCATTCAACAAGACCAGTGGTGGTATGACCG
99950871 CACAGATTCTAAACTC
326 CACAGATTCTAAACTC
99950887 AACAAGATTTTATATTTTTTTTGGCCTTCAACCCTGAACGACCGACACACCTCTATACCACCTCT
1 AACAAGATTTTATATTTTTTTTGGCCTTCAACCCTGAACGACCGACACACCTCTATACCACCTCT
99950952 AGAGCCGAGCCTGATCAACACAAGGTATTTATGAAGAGCTGGTAAGCAAGTGCTACTGCTACACC
66 AGAGCCGAGCCTGATCAACACAAGGTATTTATGAAGAGCTGGTAAGCAAGTGCTACTGCTACACC
99951017 TTTTTAATA-TTTACTTCCTTATTTGTTAAACTATTTTTATTTGAGCAAGTATTATCTTCTTCGT
131 TTTTTAATATTTTACTTCCTTATTTGTTAAACTATTTTTATTTGAGCAAGTATTATCTTCTTCGT
99951081 TTTATTTGTAATAAACTGTGATTGGACTGAGATTACCGTACGTTGGACTGTCTGTTTTGATCAGC
196 TTTATTTGTAATAAACTGTGATTGGACTGAGATTACCGTACGTTGGACTGTCTGTTTTGATCAGC
99951146 TACTACTTGAAAGGCAGTGCTGGAAGATGGAATTCCATTCAACAAGACCAGTGGTGGTATGACCG
261 TACTACTTGAAAGGCAGTGCTGGAAGATGGAATTCCATTCAACAAGACCAGTGGTGGTATGACCG
99951211 CACAGATTCTAAACTC
326 CACAGATTCTAAACTC
99951227 AACAAGATTTT
1 AACAAGATTTT
99951238 CAATAAGGGG
Statistics
Matches: 350, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
340 212 0.61
341 138 0.39
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (341 bp):
AACAAGATTTTATATTTTTTTTGGCCTTCAACCCTGAACGACCGACACACCTCTATACCACCTCT
AGAGCCGAGCCTGATCAACACAAGGTATTTATGAAGAGCTGGTAAGCAAGTGCTACTGCTACACC
TTTTTAATATTTTACTTCCTTATTTGTTAAACTATTTTTATTTGAGCAAGTATTATCTTCTTCGT
TTTATTTGTAATAAACTGTGATTGGACTGAGATTACCGTACGTTGGACTGTCTGTTTTGATCAGC
TACTACTTGAAAGGCAGTGCTGGAAGATGGAATTCCATTCAACAAGACCAGTGGTGGTATGACCG
CACAGATTCTAAACTC
Found at i:99954726 original size:16 final size:15
Alignment explanation
Indices: 99954701--99954732 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
99954691 ATATCAGTAC
99954701 CACTTTTACTTTATG
1 CACTTTTACTTTATG
99954716 CACTATTTACTTTATG
1 CACT-TTTACTTTATG
99954732 C
1 C
99954733 TTTAATGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (15 bp):
CACTTTTACTTTATG
Found at i:99961042 original size:31 final size:31
Alignment explanation
Indices: 99961004--99961152 Score: 190
Period size: 31 Copynumber: 4.8 Consensus size: 31
99960994 ACAAATGACA
* *
99961004 AGTGAAAAGTGGTAGCTTCGGTTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
99961035 AGTGAAAAGTGATAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
99961066 AGTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
99961097 AGTGAAAAATGGTAGCTCCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
99961128 AGTGGATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
99961153 AAGTGACAAG
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 103 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:99961288 original size:46 final size:49
Alignment explanation
Indices: 99961223--99961346 Score: 164
Period size: 49 Copynumber: 2.6 Consensus size: 49
99961213 CTACTATATG
* * *
99961223 AGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATT-CGTGTA
1 AGACCATAGCTGGGCTATGGCATCGATATGAGATATGTGATTACGTGTA
* *
99961269 AGACCATAGCTCGGCTATGGCATCGATATGTGATATGTGATTACGTGTA
1 AGACCATAGCTGGGCTATGGCATCGATATGAGATATGTGATTACGTGTA
* *
99961318 AGACCATAGCTGGGCTATGACATCTATAT
1 AGACCATAGCTGGGCTATGGCATCGATAT
99961347 ATGAAGATGT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
46 21 0.31
47 1 0.01
48 13 0.19
49 32 0.48
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (49 bp):
AGACCATAGCTGGGCTATGGCATCGATATGAGATATGTGATTACGTGTA
Found at i:99967521 original size:3 final size:3
Alignment explanation
Indices: 99967513--99967540 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
99967503 AATTAAATTG
99967513 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
99967541 ACTTTTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:99984813 original size:46 final size:46
Alignment explanation
Indices: 99984704--99984884 Score: 247
Period size: 46 Copynumber: 4.0 Consensus size: 46
99984694 TTATCTTCGA
* * * * * *
99984704 CATGATGCCATAGTGTCTTTCAACTATGGTTTTACTCATTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* **
99984749 CATGTTGCCATGGTATCTTTCAACAATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* * *
99984795 CACGTTGCTATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
99984841 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
99984885 TTCAGGAAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 36 0.30
46 85 0.70
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
Found at i:99988312 original size:25 final size:25
Alignment explanation
Indices: 99988252--99988312 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
99988242 ATACATATGT
* *
99988252 GCTCATACGAGCATGTTAACTGGAA
1 GCTCATACGAGCATGATAACGGGAA
* *
99988277 GCTCTTCCGAGCCAT-ATAACGGGAA
1 GCTCATACGAG-CATGATAACGGGAA
99988302 GCTCATACGAG
1 GCTCATACGAG
99988313 TCAAACATCG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
25 26 0.90
26 3 0.10
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.21
Consensus pattern (25 bp):
GCTCATACGAGCATGATAACGGGAA
Found at i:99988372 original size:25 final size:26
Alignment explanation
Indices: 99988325--99988415 Score: 98
Period size: 25 Copynumber: 3.6 Consensus size: 26
99988315 AAACATCGGA
* * *
99988325 AAGCTCAAGAGAGCC-ATTAATCATG
1 AAGCTCATGAGAGCCAAATAATCAGG
99988350 AAGCTCATGAGAGCCAAAT-ATCAGG
1 AAGCTCATGAGAGCCAAATAATCAGG
* * *
99988375 ATGCTCATAAGAGCTAAATAAT-AGG
1 AAGCTCATGAGAGCCAAATAATCAGG
*
99988400 AAGCGCATGAGAGCCA
1 AAGCTCATGAGAGCCA
99988416 TGGTGTGTCC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
25 50 0.93
26 4 0.07
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.18
Consensus pattern (26 bp):
AAGCTCATGAGAGCCAAATAATCAGG
Found at i:99994795 original size:12 final size:12
Alignment explanation
Indices: 99994758--99994800 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
99994748 GTTTTTATTG
99994758 TAATTATAATTT
1 TAATTATAATTT
*
99994770 TATTTATTAA--T
1 TAATTA-TAATTT
99994781 TAATTATAATTT
1 TAATTATAATTT
99994793 TAATTATA
1 TAATTATA
99994801 TAAATAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 3 0.12
11 6 0.23
12 14 0.54
13 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TAATTATAATTT
Found at i:99994826 original size:29 final size:29
Alignment explanation
Indices: 99994751--99994826 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
99994741 TACAAATGTT
* * ** *
99994751 TTTATTGTAATTATAATTTTATTTATTAA
1 TTTATTATAATTATAATTATATAAATAAA
* *
99994780 TTAATTATAATTTTAATTATATAAATAAA
1 TTTATTATAATTATAATTATATAAATAAA
*
99994809 TTTATTATAATTACAATT
1 TTTATTATAATTATAATT
99994827 GTAGTTATAC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (29 bp):
TTTATTATAATTATAATTATATAAATAAA
Found at i:100001084 original size:25 final size:26
Alignment explanation
Indices: 100001035--100001085 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
100001025 AAATAATTTA
* *
100001035 AAATTTATAAATATATTCAGAAAAAT
1 AAATATATAAAAATATTCAGAAAAAT
*
100001061 AAATATATAAAAAT-TTCATAAAAAT
1 AAATATATAAAAATATTCAGAAAAAT
100001086 TCAAAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (26 bp):
AAATATATAAAAATATTCAGAAAAAT
Found at i:100001830 original size:26 final size:27
Alignment explanation
Indices: 100001772--100001826 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
100001762 TTAAAAATAT
* *
100001772 ATTT-AAAAAATAAAAGAATATTTATA
1 ATTTCAAAAAATAAAAGAATATTGAAA
100001798 ATTTCAAAAAATAAAA-AATA-TGAAA
1 ATTTCAAAAAATAAAAGAATATTGAAA
100001823 ATTT
1 ATTT
100001827 TCAATAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 7 0.27
26 8 0.31
27 11 0.42
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (27 bp):
ATTTCAAAAAATAAAAGAATATTGAAA
Found at i:100004724 original size:42 final size:42
Alignment explanation
Indices: 100004663--100004824 Score: 175
Period size: 42 Copynumber: 3.7 Consensus size: 42
100004653 TCGTTTTCTC
** *
100004663 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT
1 GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATAAT
*
100004705 GATGCCATAGCCCAGCTATGGTCTTACACATATTCATC-T-AT
1 GATGCCATAGCCCAGCTATGGTCTTACACATCTTCA-CATAAT
**
100004746 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATAGC
1 -GATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATAAT
100004796 GATGCCATAGCCCAGCTATGGTCTTACAC
1 GATGCCATAGCCCAGCTATGGTCTTACAC
100004825 GAATCACATA
Statistics
Matches: 102, Mismatches: 7, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
41 2 0.02
42 62 0.61
43 1 0.01
45 2 0.02
48 2 0.02
49 33 0.32
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (42 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATAAT
Found at i:100004974 original size:31 final size:31
Alignment explanation
Indices: 100004936--100005053 Score: 193
Period size: 31 Copynumber: 3.8 Consensus size: 31
100004926 CTTGTCACTT
100004936 GTAGCCGGAGCTACCACTATTT-ACTGATCAG
1 GTAGCCGGAGCTACCACT-TTTCACTGATCAG
*
100004967 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
100004998 GTAGCCGGAGCTACCACTTTTCACTAATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
100005029 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACT
100005054 TGTCATTTGT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
30 3 0.04
31 79 0.96
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:100005141 original size:50 final size:50
Alignment explanation
Indices: 100005029--100005205 Score: 273
Period size: 50 Copynumber: 3.5 Consensus size: 50
100005019 CACTAATCAG
* *
100005029 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
100005080 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * * * *
100005130 GTTGCCAAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAAATAACT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
100005180 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
100005206 GTTGCCATGG
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 90 0.79
51 24 0.21
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:100019141 original size:21 final size:22
Alignment explanation
Indices: 100019115--100019161 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
100019105 CTCTGCTCAA
*
100019115 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
100019136 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
100019158 ACTC
1 ACTC
100019162 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:100025703 original size:16 final size:16
Alignment explanation
Indices: 100025657--100025726 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
100025647 TTTGGTTCGC
* **
100025657 TGTATTGGATTAGAAC
1 TGTAATGGATTAGAGG
*
100025673 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
100025689 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
*
100025705 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
100025721 TGTAAT
1 TGTAAT
100025727 AGCAAATCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.31, C:0.01, G:0.33, T:0.34
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:100025810 original size:39 final size:43
Alignment explanation
Indices: 100025705--100025814 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
100025695 GGATTAGAGG
100025705 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
100025750 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
100025790 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
100025815 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:100025977 original size:16 final size:16
Alignment explanation
Indices: 100025940--100025981 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
100025930 TTAATCATTT
*
100025940 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
100025956 TT-AAATATATTATAA
1 TTAAAATATATTATAA
100025971 TTAAAATATAT
1 TTAAAATATAT
100025982 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:100025988 original size:14 final size:15
Alignment explanation
Indices: 100025949--100025990 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
100025939 TTTAAACATA
*
100025949 ATTATTATTAAATAT
1 ATTATAATTAAATAT
100025964 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
100025978 A-TATAATTTAATA
1 ATTATAATTAAATA
100025991 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:100026040 original size:61 final size:61
Alignment explanation
Indices: 100025975--100026162 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
100025965 TTATAATTAA
*
100025975 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * *
100026036 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTATTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
100026095 AATATATAATTTAATAATATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
100026156 AATATAT
1 AATATAT
100026163 GACTGTTATT
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.30
60 25 0.26
61 37 0.38
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:100026087 original size:15 final size:15
Alignment explanation
Indices: 100026059--100026117 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
100026049 ATAAAATATA
100026059 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
100026074 TATTAAATATATTAT
1 AATTAAATATATTAT
100026089 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
100026102 AATTTAATAATATTAT
1 AATTAAAT-ATATTAT
100026118 TAATAATCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 9 0.24
14 6 0.16
15 19 0.51
16 3 0.08
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:100026088 original size:120 final size:120
Alignment explanation
Indices: 100025943--100026164 Score: 426
Period size: 120 Copynumber: 1.9 Consensus size: 120
100025933 ATCATTTTTA
*
100025943 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAA
100026008 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
100026063 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAATATTATTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAA
100026128 TATTCTTATATGAATTTACTCAAATCATAATATATGA
66 TATTCTTATATGAATTTACTCAAATCATAATATATGA
100026165 CTGTTATTGC
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Done.