Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 39 of 433
Found at i:10150673 original size:21 final size:21
Alignment explanation
Indices: 10150648--10150693 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
10150638 TGATAATTAA
10150648 CCAAATCAATTATCCATCTAG
1 CCAAATCAATTATCCATCTAG
10150669 CCAAATCAATTATCCATCTAG
1 CCAAATCAATTATCCATCTAG
10150690 CCAA
1 CCAA
10150694 TAAATGAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.30, G:0.04, T:0.26
Consensus pattern (21 bp):
CCAAATCAATTATCCATCTAG
Found at i:10151359 original size:43 final size:44
Alignment explanation
Indices: 10151292--10151419 Score: 163
Period size: 43 Copynumber: 3.0 Consensus size: 44
10151282 ATATAGCTCG
* * *
10151292 TACAATGCC-ATATCCCATATATGGTCTTACATGTTATCACATA
1 TACAATGCCAATATCCCAGACATGGTCTTACATGTAATCACATA
* * * *
10151335 T-CGATGCCAATGTCCCAGACATGGTCTTGCACGTAATCACA-A
1 TACAATGCCAATATCCCAGACATGGTCTTACATGTAATCACATA
*
10151377 TACAATGCCAATATTCCAGACATGGTCTTACATGTAATCACAT
1 TACAATGCCAATATCCCAGACATGGTCTTACATGTAATCACAT
10151420 CTCGGCAATC
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 8 0.11
43 62 0.89
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (44 bp):
TACAATGCCAATATCCCAGACATGGTCTTACATGTAATCACATA
Found at i:10159017 original size:21 final size:21
Alignment explanation
Indices: 10158981--10159024 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
10158971 AAGTTAATAT
*
10158981 AATAAATAATAAACAAAGGTAA
1 AATAAATAAGAAACAAA-GTAA
10159003 AATAAA-AAGAAACAAAGTAA
1 AATAAATAAGAAACAAAGTAA
10159023 AA
1 AA
10159025 GAAACAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 9 0.43
22 6 0.29
ACGTcount: A:0.73, C:0.05, G:0.09, T:0.14
Consensus pattern (21 bp):
AATAAATAAGAAACAAAGTAA
Found at i:10159453 original size:17 final size:18
Alignment explanation
Indices: 10159431--10159466 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10159421 TAGATGAGTT
10159431 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
10159448 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
10159466 A
1 A
10159467 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:10159882 original size:15 final size:15
Alignment explanation
Indices: 10159862--10159894 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
10159852 TTGTGATTAT
10159862 ATGTGAATAATTGAA
1 ATGTGAATAATTGAA
10159877 ATGTGAATAATTGAA
1 ATGTGAATAATTGAA
10159892 ATG
1 ATG
10159895 CATATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.33
Consensus pattern (15 bp):
ATGTGAATAATTGAA
Found at i:10159940 original size:18 final size:19
Alignment explanation
Indices: 10159896--10159941 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
10159886 ATTGAAATGC
* **
10159896 ATATTTAATTGAGAAAGTG
1 ATATTGAATTGAGAAAAAG
10159915 ATATTGAATTGAGAAAAAG
1 ATATTGAATTGAGAAAAAG
10159934 A-ATTGAAT
1 ATATTGAAT
10159942 ACCCTATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.33
Consensus pattern (19 bp):
ATATTGAATTGAGAAAAAG
Found at i:10167826 original size:25 final size:25
Alignment explanation
Indices: 10167768--10167829 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
10167758 GGCTCGCATG
* * *
10167768 AGCTTCCCATTATGCAGCCCGGATA
1 AGCTTCCCGTTATACAACCCGGATA
*
10167793 AGCTTCCCGTTATACAACCTGGATA
1 AGCTTCCCGTTATACAACCCGGATA
10167818 AGCTTCCCGTTA
1 AGCTTCCCGTTA
10167830 CATGGCTCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (25 bp):
AGCTTCCCGTTATACAACCCGGATA
Found at i:10170230 original size:48 final size:47
Alignment explanation
Indices: 10170167--10170443 Score: 209
Period size: 48 Copynumber: 5.8 Consensus size: 47
10170157 CGATATGTGT
10170167 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACAATATGAGA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGG-CACAATATGAGA
* * * *
10170215 GCCAGTGTAAAACCATGT-TTGGAATATGGCATC-G-ACAATGTAATGAGA
1 GCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCACAA--T-ATGAGA
* * * ** * *
10170263 GCCAGTGTAAGACCATGTCTGGGACATTGCATCGGCATTGATATGTGC
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCA-CAATATGAGA
* * *** *
10170311 GCTAGTGTAAAACCATGTCTAGGACATGTCATCGGCATTGTGACGAGA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAAT-ATGAGA
* * * * * * *
10170359 GCTAGTGTAAGACCATGTTTGGGACATGGTATCGGCCTCGACATGTGA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGG-CACAATATGAGA
* * * *
10170407 GCTAGTGCAAGACCATGTTTAGAACTTGGCATCGGCA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
10170444 ATTCACCCTC
Statistics
Matches: 179, Mismatches: 40, Indels: 21
0.75 0.17 0.09
Matches are distributed among these distances:
45 4 0.02
47 8 0.04
48 159 0.89
49 6 0.03
50 1 0.01
51 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAATATGAGA
Found at i:10170344 original size:96 final size:96
Alignment explanation
Indices: 10170170--10170445 Score: 297
Period size: 96 Copynumber: 2.9 Consensus size: 96
10170160 TATGTGTGCT
* * * *
10170170 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCA-CAATATGAGAGCCAGTGTAAAACCATGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCGATATGTGAGCTAGTGTAAAACCATGTT
* * *
10170234 TGGAATATGGCATCGACAATGTAATGAGAGCC
65 AGGAACATGGCATCGACAATGTAACGAGAGCC
* * *
10170266 AGTGTAAGACCATGTCTGGGACATTGCATCGGCATTGATATGTGCGCTAGTGTAAAACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAGTGTAAAACCATGT-T
* * * * *
10170331 AGG-ACATGTCATCGGCATTGTGACGAGAGCT
65 AGGAACATGGCATCGACAATGTAACGAGAGCC
* * * * * *
10170362 AGTGTAAGACCATGTTTGGGACATGGTATCGGCCTCGACATGTGAGCTAGTGCAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAGTGTAAAACCATG-TT
* *
10170427 A-GAACTTGGCATCGGCAAT
65 AGGAACATGGCATCGACAAT
10170446 TCACCCTCTT
Statistics
Matches: 149, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
95 3 0.02
96 142 0.95
97 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAGTGTAAAACCATGTTA
GGAACATGGCATCGACAATGTAACGAGAGCC
Found at i:10170439 original size:144 final size:144
Alignment explanation
Indices: 10170158--10170443 Score: 328
Period size: 144 Copynumber: 2.0 Consensus size: 144
10170148 ACATTTGAGC
* * *
10170158 GATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACAATATGAGAGCCAGTGT
1 GATATGTGCGCTAGTGTAAAACCATGTCTAGGACATGGCATCGGCCACAATACGAGAGCCAGTGT
* * * *
10170223 AAAACCATGTTTGGAATATGGCATCGACAATGTAATGAGAGCCAGTGTAAGACCATGTCTGGGAC
66 AAAACCATGTTTGGAACATGGCATCGACAATGTAATGAGAGCCAGTGCAAGACCATGTCTAGAAC
10170288 ATTGCATCGGCATT
131 ATTGCATCGGCATT
* *** *
10170302 GATATGTGCGCTAGTGTAAAACCATGTCTAGGACATGTCATCGG-CATTGTGACGAGAGCTAGTG
1 GATATGTGCGCTAGTGTAAAACCATGTCTAGGACATGGCATCGGCCACAAT-ACGAGAGCCAGTG
* * * * * * * *
10170366 TAAGACCATGTTTGGGACATGGTATCGGC-CTCG-ACATGTGAGCTAGTGCAAGACCATGTTTAG
65 TAAAACCATGTTTGGAACATGGCATCGACAAT-GTA-ATGAGAGCCAGTGCAAGACCATGTCTAG
10170429 AAC-TTGGCATCGGCA
128 AACATT-GCATCGGCA
10170444 ATTCACCCTC
Statistics
Matches: 118, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
143 7 0.06
144 111 0.94
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (144 bp):
GATATGTGCGCTAGTGTAAAACCATGTCTAGGACATGGCATCGGCCACAATACGAGAGCCAGTGT
AAAACCATGTTTGGAACATGGCATCGACAATGTAATGAGAGCCAGTGCAAGACCATGTCTAGAAC
ATTGCATCGGCATT
Found at i:10172330 original size:29 final size:29
Alignment explanation
Indices: 10172289--10172374 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
10172279 AATTCATCTC
*
10172289 GTCAAAATAATTTTTTCAGAACACATCA-T
1 GTCAAAATTATTTTTTCAGAACACAT-ATT
* * * * *
10172318 GTTAAATTTATTTTTTTAAAACCCATATT
1 GTCAAAATTATTTTTTCAGAACACATATT
*
10172347 GTCAAAATTATTTTTCCAGAACA-ATATT
1 GTCAAAATTATTTTTTCAGAACACATATT
10172375 TAACAATTAA
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
28 6 0.14
29 38 0.86
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (29 bp):
GTCAAAATTATTTTTTCAGAACACATATT
Found at i:10175231 original size:51 final size:50
Alignment explanation
Indices: 10175143--10175313 Score: 198
Period size: 51 Copynumber: 3.4 Consensus size: 50
10175133 CTCAAACTTC
* * * * *
10175143 CTTCATACTTCATCCGAAATTATTACCTTGTTACTCTAACTTCAACAAGAG
1 CTTCATATTTCATCCGGAATAATTA-CTTGTTGCTCTAGCTTCAACAAGAG
* * * *
10175194 CGTCATATTTCATCCGGAATAATTACTGTGTTGCTCTAGCTTTAATAAAAG
1 CTTCATATTTCATCCGGAATAATTACT-TGTTGCTCTAGCTTCAACAAGAG
* * *
10175245 CTTCATATTTCATCCGGAAAAATTATTTTGCTGCTCTAGCTTCAACAAGAG
1 CTTCATATTTCATCCGGAATAATTA-CTTGTTGCTCTAGCTTCAACAAGAG
*
10175296 CTTCATATTTTATCCGGA
1 CTTCATATTTCATCCGGA
10175314 TAACTTAGTT
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
50 2 0.02
51 98 0.97
52 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (50 bp):
CTTCATATTTCATCCGGAATAATTACTTGTTGCTCTAGCTTCAACAAGAG
Found at i:10178088 original size:23 final size:23
Alignment explanation
Indices: 10178062--10178129 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 23
10178052 GATGGATTAT
10178062 ATTATTCTGGTGTGTTTGGGAGG
1 ATTATTCTGGTGTGTTTGGGAGG
*
10178085 ATTATATGATACTGGTGTGTTTTGGAGG
1 A-T-TAT--T-CTGGTGTGTTTGGGAGG
*
10178113 ATTATACTGGTGTGTTT
1 ATTATTCTGGTGTGTTT
10178130 TGGTTGGACA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
23 12 0.32
24 1 0.03
25 3 0.08
26 3 0.08
27 2 0.05
28 17 0.45
ACGTcount: A:0.18, C:0.04, G:0.32, T:0.46
Consensus pattern (23 bp):
ATTATTCTGGTGTGTTTGGGAGG
Found at i:10178088 original size:28 final size:29
Alignment explanation
Indices: 10178006--10178118 Score: 185
Period size: 29 Copynumber: 4.0 Consensus size: 29
10177996 CACTTTGTGC
10178006 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGATGGATTATAT
10178035 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGATGGATTATAT
*
10178064 TATTCTGGTGTGTTTGGGA-GGATTATAT
1 TATTCTGGTGTGTTTTGGATGGATTATAT
* *
10178092 GATACTGGTGTGTTTTGGA-GGATTATA
1 TATTCTGGTGTGTTTTGGATGGATTATA
10178119 CTGGTGTGTT
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
28 33 0.41
29 47 0.59
ACGTcount: A:0.19, C:0.04, G:0.30, T:0.48
Consensus pattern (29 bp):
TATTCTGGTGTGTTTTGGATGGATTATAT
Found at i:10178100 original size:57 final size:57
Alignment explanation
Indices: 10178006--10178118 Score: 183
Period size: 57 Copynumber: 2.0 Consensus size: 57
10177996 CACTTTGTGC
* * *
10178006 TATTCTGGTGTGTTTTGGATGGATTATATTATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTGGGATGGATTATATGATACTGGTGTGTTTTGGA-GGATTATAT
10178064 TATTCTGGTGTGTTTGGGA-GGATTATATGATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTGGGATGGATTATATGATACTGGTGTGTTTTGGAGGATTATA
10178119 CTGGTGTGTT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
56 8 0.15
57 26 0.50
58 18 0.35
ACGTcount: A:0.19, C:0.04, G:0.30, T:0.48
Consensus pattern (57 bp):
TATTCTGGTGTGTTTGGGATGGATTATATGATACTGGTGTGTTTTGGAGGATTATAT
Found at i:10178370 original size:21 final size:21
Alignment explanation
Indices: 10178335--10178429 Score: 102
Period size: 21 Copynumber: 4.5 Consensus size: 21
10178325 AAGTACTTTA
*
10178335 TGTGTCGTATTTCAGGCACCTTG
1 TGTGTCGTA--TCAGGCACCTCG
*
10178358 TGTGTTGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
10178379 TGTGTCGTTTCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * **
10178400 TGTGTCATTTCAGGCA-CTTA
1 TGTGTCGTATCAGGCACCTCG
10178420 TGTGTCGTAT
1 TGTGTCGTAT
10178430 ACTGATCAGG
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.16
21 45 0.71
23 8 0.13
ACGTcount: A:0.14, C:0.22, G:0.26, T:0.38
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:10179644 original size:46 final size:46
Alignment explanation
Indices: 10179511--10179660 Score: 131
Period size: 46 Copynumber: 3.1 Consensus size: 46
10179501 TGGTTGGACC
* * * *
10179511 ATGGTATCAATGTAATATGTGA-TCTGTGTAAGACCATAGCTAGGCT
1 ATGGCATCAGTGTGATATGTGATTC-GTGTAAGACCATAGCTGGGCT
* * * * *
10179557 ATGGCATCAGAGATATGTGATTACGTGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATC--AG---TGTGA-TATGTGATT-CGTGTAAGACCATAGCTGGGCT
*
10179610 ATGGCATCAGTGTGATATGTGATTCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
10179656 ATGGC
1 ATGGC
10179661 TACGGTGTGT
Statistics
Matches: 81, Mismatches: 15, Indels: 16
0.72 0.13 0.14
Matches are distributed among these distances:
46 30 0.37
47 7 0.09
48 6 0.07
51 6 0.07
52 5 0.06
53 26 0.32
54 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (46 bp):
ATGGCATCAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
Found at i:10183024 original size:26 final size:26
Alignment explanation
Indices: 10182920--10183023 Score: 154
Period size: 26 Copynumber: 4.0 Consensus size: 26
10182910 ACAAATTGAC
10182920 AATGGGTTAGGTAAATATTCCATGAT
1 AATGGGTTAGGTAAATATTCCATGAT
* * *
10182946 AATGGATTAAGTAAATATTTCATGAT
1 AATGGGTTAGGTAAATATTCCATGAT
*
10182972 AATGGGTTAGGTAAATGTTCCATGAT
1 AATGGGTTAGGTAAATATTCCATGAT
* *
10182998 GATGGGTTAGGTAAATGTTCCATGAT
1 AATGGGTTAGGTAAATATTCCATGAT
10183024 GGGCATTTCA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 70 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
AATGGGTTAGGTAAATATTCCATGAT
Found at i:10184537 original size:26 final size:26
Alignment explanation
Indices: 10184508--10184560 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
10184498 TTTACAATTT
10184508 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
10184534 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
10184560 T
1 T
10184561 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:10186256 original size:14 final size:14
Alignment explanation
Indices: 10186234--10186272 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
10186224 ACTGTTATTC
10186234 TTTTTAAAAACA-AA
1 TTTTTAAAAA-ATAA
*
10186248 TTTTCAAAAAATAA
1 TTTTTAAAAAATAA
10186262 TTTTTAAAAAA
1 TTTTTAAAAAA
10186273 ATTGTTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (14 bp):
TTTTTAAAAAATAA
Found at i:10186946 original size:25 final size:25
Alignment explanation
Indices: 10186897--10186968 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
10186887 TTATAAATTG
* *
10186897 TAATATATATTTATTATTAGA-ATAT
1 TAATATATATTTTTTAATA-ATATAT
10186922 TAATATATATTTTTTAATAATATAT
1 TAATATATATTTTTTAATAATATAT
* *
10186947 TAAGA-ATATTATTTAA-AATATA
1 TAATATATATTTTTTAATAATATA
10186969 AAATTATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
23 6 0.14
24 11 0.26
25 25 0.60
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (25 bp):
TAATATATATTTTTTAATAATATAT
Found at i:10189747 original size:14 final size:14
Alignment explanation
Indices: 10189728--10189754 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10189718 TTGTTTAAAT
10189728 AAATCATTATTTTG
1 AAATCATTATTTTG
10189742 AAATCATTATTTT
1 AAATCATTATTTT
10189755 ATTTTACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (14 bp):
AAATCATTATTTTG
Found at i:10190546 original size:15 final size:15
Alignment explanation
Indices: 10190526--10190558 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10190516 ATTATTGGTT
10190526 TTGTTAATTTGTTAG
1 TTGTTAATTTGTTAG
*
10190541 TTGTTAGTTTGTTAG
1 TTGTTAATTTGTTAG
10190556 TTG
1 TTG
10190559 GTATTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.24, T:0.61
Consensus pattern (15 bp):
TTGTTAATTTGTTAG
Found at i:10190555 original size:8 final size:8
Alignment explanation
Indices: 10190525--10190557 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
10190515 AATTATTGGT
*
10190525 TTTGTTAA
1 TTTGTTAG
10190533 TTTGTTAG
1 TTTGTTAG
10190541 -TTGTTAG
1 TTTGTTAG
10190548 TTTGTTAG
1 TTTGTTAG
10190556 TT
1 TT
10190558 GGTATTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.64
Consensus pattern (8 bp):
TTTGTTAG
Found at i:10190959 original size:131 final size:130
Alignment explanation
Indices: 10190722--10191035 Score: 454
Period size: 131 Copynumber: 2.4 Consensus size: 130
10190712 TTATTTGAAG
* *
10190722 ATTCTTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAGTCGTGCCTTATCATGCTGG
1 ATTCTTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTATCATGCTGG
* * * *
10190787 GTTGCAATTTCCCGTTTGTTCAAAATAATCGAGTATTCCTTTGGAATTTCACTCATGTCTTTAAA
66 GTTGCAATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGT-TTTAAA
10190852 A
130 A
* * * *
10190853 ATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCATGCCCTATCGTGCTGG
1 ATTCTTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTATCATGCTGG
* **
10190918 GTTGCAATTTCCTGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGTTTTCTAA
66 GTTGCAATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGTTTTAAAA
* * *
10190983 ATTC--TAAAAC-AAGGCAATGTTCAATGTCTAGAAATTCGGGGAATCGTGCCCTA
1 ATTCTTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTA
10191036 CTGCGCTGGG
Statistics
Matches: 164, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
127 37 0.23
128 6 0.04
130 9 0.05
131 112 0.68
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (130 bp):
ATTCTTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTATCATGCTGG
GTTGCAATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGTTTTAAAA
Found at i:10205402 original size:13 final size:13
Alignment explanation
Indices: 10205384--10205409 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10205374 ATAAACAGTA
10205384 AAAGAATTATATC
1 AAAGAATTATATC
10205397 AAAGAATTATATC
1 AAAGAATTATATC
10205410 CAAGGAGGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
AAAGAATTATATC
Found at i:10211886 original size:31 final size:31
Alignment explanation
Indices: 10211848--10211911 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
10211838 TTTTGCCCAC
10211848 TTTAGTCCATAACGTTATCAGACATTCTCAA
1 TTTAGTCCATAACGTTATCAGACATTCTCAA
* *
10211879 TTTAGTCCCTAATGTTATCAGACATTCTCAA
1 TTTAGTCCATAACGTTATCAGACATTCTCAA
10211910 TT
1 TT
10211912 CAATCCTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (31 bp):
TTTAGTCCATAACGTTATCAGACATTCTCAA
Found at i:10212026 original size:23 final size:22
Alignment explanation
Indices: 10211992--10212038 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
10211982 TAAAACCCTT
*
10211992 AAAAATCTTTAAAAATTGGAAAA
1 AAAAATCTTT-AAAATAGGAAAA
10212015 AAAAAT-TATTAAAATAGGAAAA
1 AAAAATCT-TTAAAATAGGAAAA
10212037 AA
1 AA
10212039 TTATAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (22 bp):
AAAAATCTTTAAAATAGGAAAA
Found at i:10212379 original size:16 final size:17
Alignment explanation
Indices: 10212358--10212389 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10212348 AACTTATCAC
10212358 TTAAAATTT-TAAAATA
1 TTAAAATTTCTAAAATA
10212374 TTAAAATTTCTAAAAT
1 TTAAAATTTCTAAAAT
10212390 GTTTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAAATTTCTAAAATA
Found at i:10212452 original size:19 final size:19
Alignment explanation
Indices: 10212391--10212452 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
10212381 TTCTAAAATG
* *
10212391 TTTTTAAAATTTTAGTAAAT
1 TTTTTATAATTTTA-TAATT
*
10212411 TTTTTAT-ATTTTAT-ATAC
1 TTTTTATAATTTTATAAT-T
*
10212429 TTTTTGTAATTTTATAATT
1 TTTTTATAATTTTATAATT
10212448 TTTTT
1 TTTTT
10212453 CTCTATTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 1 0.03
18 7 0.21
19 18 0.53
20 8 0.24
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTTATAATTTTATAATT
Found at i:10213229 original size:20 final size:20
Alignment explanation
Indices: 10213204--10213270 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
10213194 AAATATTTTT
10213204 TTAAAAATTACAAAAAATTA
1 TTAAAAATTACAAAAAATTA
* *
10213224 TTAAAAATAGAGAAAAAATTA
1 TTAAAAAT-TACAAAAAATTA
* *
10213245 -T-AAAATTACTAAAAACTTT
1 TTAAAAATTAC-AAAAAATTA
10213264 TTAAAAA
1 TTAAAAA
10213271 ATATATTAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
18 1 0.03
19 12 0.32
20 10 0.27
21 14 0.38
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (20 bp):
TTAAAAATTACAAAAAATTA
Found at i:10213877 original size:20 final size:19
Alignment explanation
Indices: 10213831--10213903 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
10213821 TAAATTTCAG
*
10213831 TATTTTTATAATGTTTATTG
1 TATTTTTATAAT-TTTATTC
*
10213851 TAATTTTATAATTTTATTC
1 TATTTTTATAATTTTATTC
*
10213870 TATTTTTTACTAATTATA-T-
1 TA-TTTTTA-TAATTTTATTC
*
10213889 TATTTTTGTAATTTT
1 TATTTTTATAATTTT
10213904 TAAATATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
17 6 0.13
18 5 0.11
19 10 0.22
20 17 0.38
21 7 0.16
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (19 bp):
TATTTTTATAATTTTATTC
Found at i:10215251 original size:66 final size:65
Alignment explanation
Indices: 10215174--10215299 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 65
10215164 ACTGTAGCTG
* *
10215174 GAGTTCGTCATATTTTCTGCTT-GCCTCTACTTCTCTCGCTGCTT-CCTCCGCTTTAAGTTGTAG
1 GAGTTCGTCATATTTTCT--TTAGCCTCTACTTCTCTCGATG-TTGCCTCCACTTTAAGTTGTAG
10215237 TTA
63 TTA
* * *
10215240 GAGTTCTTCATATTTTCTTTAAGCCTCTGCTTCTCTCGATGTTGGCTCCACTTTAAGTTG
1 GAGTTCGTCATATTTTCTTT-AGCCTCTACTTCTCTCGATGTTGCCTCCACTTTAAGTTG
10215300 AGAAATTTGC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
64 2 0.04
65 2 0.04
66 48 0.92
ACGTcount: A:0.13, C:0.25, G:0.17, T:0.44
Consensus pattern (65 bp):
GAGTTCGTCATATTTTCTTTAGCCTCTACTTCTCTCGATGTTGCCTCCACTTTAAGTTGTAGTTA
Found at i:10220864 original size:31 final size:33
Alignment explanation
Indices: 10220793--10220864 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 33
10220783 GGGTCAGGCA
*
10220793 ATGTGGG-CTACACGGGCAAGGCCAATCTGGGC
1 ATGTGGGCCTACACGGGCAAGGCCAATCAGGGC
*
10220825 GTGTGGGCCTACACGGGCAA-GCC-A-CGAGGGC
1 ATGTGGGCCTACACGGGCAAGGCCAATC-AGGGC
10220856 ATGTGGGCC
1 ATGTGGGCC
10220865 ATTACACTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 1 0.03
31 13 0.37
32 9 0.26
33 12 0.34
ACGTcount: A:0.19, C:0.26, G:0.40, T:0.14
Consensus pattern (33 bp):
ATGTGGGCCTACACGGGCAAGGCCAATCAGGGC
Found at i:10221856 original size:27 final size:27
Alignment explanation
Indices: 10221818--10221871 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
10221808 GAGTTAGTTA
10221818 ACTGAAACTATTTTGCTAGACAATCTT
1 ACTGAAACTATTTTGCTAGACAATCTT
10221845 ACTGAAACTATTTTGCTAGACAATCTT
1 ACTGAAACTATTTTGCTAGACAATCTT
10221872 CATTTTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (27 bp):
ACTGAAACTATTTTGCTAGACAATCTT
Found at i:10234545 original size:55 final size:53
Alignment explanation
Indices: 10234458--10234712 Score: 261
Period size: 55 Copynumber: 4.8 Consensus size: 53
10234448 ATTAGGGTTT
* *
10234458 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * * *
10234513 AAGGAAATCATGTAATACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * * *
10234568 AAAGG-TCCCATGTAAGACCATGACAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTC-TAAGGC
*
10234621 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCTAAGGC
* * * * *
10234670 AAGGATACCACGTAAGACCATGACAAGTCATCGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
10234713 ATACCCGTGT
Statistics
Matches: 169, Mismatches: 25, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 42 0.25
54 11 0.07
55 66 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:10234664 original size:108 final size:110
Alignment explanation
Indices: 10234465--10234665 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
10234455 TTTAAGGATA
* * *
10234465 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAATA
1 CCATGTAAGACCATGACAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
10234530 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
10234575 CCATGTAAGACCATGACAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGACAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
10234637 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
10234666 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGACAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:10234818 original size:23 final size:24
Alignment explanation
Indices: 10234781--10234825 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
10234771 AATGTAAGGT
**
10234781 AAGGTAAGATGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
10234804 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
10234826 GAAGAGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:10236851 original size:4 final size:4
Alignment explanation
Indices: 10236844--10236881 Score: 58
Period size: 4 Copynumber: 9.2 Consensus size: 4
10236834 TTGCTTGTAC
*
10236844 ATAA ATAA ATAA ATAA ATAAA ATGA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA A
10236882 GGCTCAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:10236871 original size:17 final size:17
Alignment explanation
Indices: 10236846--10236881 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
10236836 GCTTGTACAT
10236846 AAATAAATAAATAAATA
1 AAATAAATAAATAAATA
*
10236863 AAATGAATAAATAAATA
1 AAATAAATAAATAAATA
10236880 AA
1 AA
10236882 GGCTCAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
AAATAAATAAATAAATA
Found at i:10237441 original size:191 final size:190
Alignment explanation
Indices: 10237111--10237487 Score: 646
Period size: 191 Copynumber: 2.0 Consensus size: 190
10237101 ACCATGTCTT
10237111 AAAAAAAATTCTTTTTAATTAATAATGCCTTGCAAATTTTGGATTCAAACTCAATTTAGTGAAAT
1 AAAAAAAATTCTTTTTAATTAATAATGCCTTGCAAATTTTGGATTCAAACTCAATTTAGTGAAAT
* * * *
10237176 TGTTTAGTTTACATATTCTAATTTTACGACACTTGTTTATTAAACTATATATTCTGAGCATTTGT
66 AGTTTAGTTTACATATTCCAATTTTACGACACTTGTTGATTAAACTATATAATCTGAGCATTTGT
*
10237241 TTATTTTTGCCTATGATGTTTGCGTTGATTATGGATGTGGAAAAGAGGCTCGATTTATTC
131 TTATTTTTGCCTATGATGTTTGCGTTAATTATGGATGTGGAAAAGAGGCTCGATTTATTC
* *
10237301 AAAAAATAATTCTTTTTAATTAATAATGTCTTGCAAATTTTGGATTCAAACTCAATTTGGTGAAA
1 AAAAAA-AATTCTTTTTAATTAATAATGCCTTGCAAATTTTGGATTCAAACTCAATTTAGTGAAA
** *
10237366 TAGTTTAGTTTACATATTCCAATTTTGTGATACTTGTTGATTAAACTATATAATCTGAGCATTTG
65 TAGTTTAGTTTACATATTCCAATTTTACGACACTTGTTGATTAAACTATATAATCTGAGCATTTG
*
10237431 TTTATTTTTGCCTATGATGTTTGCGTTAATTATGGATGTGGAAAAGAGGCTCTATTT
130 TTTATTTTTGCCTATGATGTTTGCGTTAATTATGGATGTGGAAAAGAGGCTCGATTT
10237488 GTAATAAATT
Statistics
Matches: 175, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
190 6 0.03
191 169 0.97
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (190 bp):
AAAAAAAATTCTTTTTAATTAATAATGCCTTGCAAATTTTGGATTCAAACTCAATTTAGTGAAAT
AGTTTAGTTTACATATTCCAATTTTACGACACTTGTTGATTAAACTATATAATCTGAGCATTTGT
TTATTTTTGCCTATGATGTTTGCGTTAATTATGGATGTGGAAAAGAGGCTCGATTTATTC
Found at i:10237810 original size:6 final size:6
Alignment explanation
Indices: 10237799--10237840 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
10237789 CAAAAATAGA
*
10237799 ATTTTT ATTTTT ATTTTT ATTTATT A-TTTT ATTTTG ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTT-TT ATTTTT ATTTTT ATTTTT
10237841 TGTTAATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 3 0.09
6 26 0.81
7 3 0.09
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:10243604 original size:35 final size:34
Alignment explanation
Indices: 10243552--10243617 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 34
10243542 CTGTGAAAAT
* *
10243552 TTTAACTTTAAAATTAAATATAA-AAATTAATGAA
1 TTTAAATTTAAAATTAAA-AAAATAAATTAATGAA
*
10243586 TTTAAATTTAGAATTTAAAAAAATAAATTAAT
1 TTTAAATTTA-AAATTAAAAAAATAAATTAAT
10243618 AACACAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 12 0.44
35 15 0.56
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (34 bp):
TTTAAATTTAAAATTAAAAAAATAAATTAATGAA
Found at i:10243614 original size:27 final size:27
Alignment explanation
Indices: 10243558--10243614 Score: 62
Period size: 28 Copynumber: 2.1 Consensus size: 27
10243548 AAATTTTAAC
*
10243558 TTTAAAATTAAATATAAAAATTAATGAA
1 TTTAAAATTAAATATAAAAA-TAATAAA
* *
10243586 TTTAAATTTAGAATTTAAAAA-AATAAA
1 TTTAAAATTA-AATATAAAAATAATAAA
10243613 TT
1 TT
10243615 AATAACACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 7 0.28
28 9 0.36
29 9 0.36
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (27 bp):
TTTAAAATTAAATATAAAAATAATAAA
Found at i:10247265 original size:2 final size:2
Alignment explanation
Indices: 10247258--10247290 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10247248 TTATAAACTA
*
10247258 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10247291 AATGTCATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:10247729 original size:22 final size:24
Alignment explanation
Indices: 10247701--10247744 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
10247691 TATGGCAAGA
10247701 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
10247723 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
10247745 AACTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:10249736 original size:25 final size:25
Alignment explanation
Indices: 10249678--10249739 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
10249668 TTACACCTCG
* * *
10249678 ATGCAACAAAGGAGTGTTGACGGCG
1 ATGCAGCAGAGGAGTGTTGACGGCA
* *
10249703 ATGCGGCAGAGGAGTGTTGATGGCA
1 ATGCAGCAGAGGAGTGTTGACGGCA
*
10249728 ATGTAGCAGAGG
1 ATGCAGCAGAGG
10249740 GGACAATTGA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.29, C:0.13, G:0.40, T:0.18
Consensus pattern (25 bp):
ATGCAGCAGAGGAGTGTTGACGGCA
Found at i:10250638 original size:114 final size:112
Alignment explanation
Indices: 10250400--10250626 Score: 400
Period size: 114 Copynumber: 2.0 Consensus size: 112
10250390 TAAGATGTTT
*
10250400 GGGCATAACATGAATCATTTGAAGATGGATAAGAAATCTAGAGAGGATCTATCACTCAAAGTGAT
1 GGGCATAACATGAATCATTTGAAGATGGATAAGAAATCTAGAGAGGAACTATCACTCAAAGTGAT
*
10250465 ACTATAAACATATCTCATTTGTCATGGTTAATTTGATCAATACTTTG
66 ACTATAAACATATCTCATTTGCCATGGTTAATTTGATCAATACTTTG
* *
10250512 GGGCATAACATGAATCATTTGAAGATGTATAAGTAATCTAGGGAGAGGAACTATCACTCAAAGTG
1 GGGCATAACATGAATCATTTGAAGATGGATAAGAAATCTA--GAGAGGAACTATCACTCAAAGTG
10250577 ATACTATAAACATATCTCATTTGCCATGGTTAATTTGATCAATACTTTG
64 ATACTATAAACATATCTCATTTGCCATGGTTAATTTGATCAATACTTTG
10250626 G
1 G
10250627 TTTATAACAT
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
112 38 0.35
114 71 0.65
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (112 bp):
GGGCATAACATGAATCATTTGAAGATGGATAAGAAATCTAGAGAGGAACTATCACTCAAAGTGAT
ACTATAAACATATCTCATTTGCCATGGTTAATTTGATCAATACTTTG
Found at i:10250709 original size:98 final size:98
Alignment explanation
Indices: 10250540--10250722 Score: 303
Period size: 98 Copynumber: 1.9 Consensus size: 98
10250530 TTGAAGATGT
* *
10250540 ATAAGTAATCTAGGGAGAGGAACTATCACTCAAAGTGATACTATAAACATATCTCATTTGCCATG
1 ATAAGTAATCTAGAGAGAGGAACTATCACTCAAAGTGATACTATAAACATATCTCATTCGCCATG
*
10250605 GTTAATTTGATCAATACTTTGGTTTATAACATG
66 GTTAATTTCATCAATACTTTGGTTTATAACATG
* **
10250638 ATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTGATACTATAAACATATCTCATTCGTTATG
1 ATAAGTAATCTAGAGAGAGGAACTATCACTCAAAGTGATACTATAAACATATCTCATTCGCCATG
*
10250703 GTTAATTTCATGAATACTTT
66 GTTAATTTCATCAATACTTT
10250723 AACTAGAGCA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 78 1.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.34
Consensus pattern (98 bp):
ATAAGTAATCTAGAGAGAGGAACTATCACTCAAAGTGATACTATAAACATATCTCATTCGCCATG
GTTAATTTCATCAATACTTTGGTTTATAACATG
Found at i:10252058 original size:20 final size:20
Alignment explanation
Indices: 10252035--10252074 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10252025 AAATATATTT
10252035 TACAAAAT-GGTTGAATATGG
1 TACAAAATGGGTT-AATATGG
*
10252055 TACAAAGTGGGTTAATATGG
1 TACAAAATGGGTTAATATGG
10252075 GCCTGTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.38, C:0.05, G:0.28, T:0.30
Consensus pattern (20 bp):
TACAAAATGGGTTAATATGG
Found at i:10261979 original size:2 final size:2
Alignment explanation
Indices: 10261974--10262011 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10261964 GAAAAAAAGC
10261974 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10262012 AACGATATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10265113 original size:16 final size:17
Alignment explanation
Indices: 10265094--10265134 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
10265084 TTAATTTTTT
10265094 TAAAATT-TT-AAA-AA
1 TAAAATTATTAAAATAA
10265108 TATAAATTATTAAAATAA
1 TA-AAATTATTAAAATAA
10265126 TAAAATTAT
1 TAAAATTAT
10265135 ATTTTTACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 2 0.09
15 5 0.22
16 2 0.09
17 10 0.43
18 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAAATTATTAAAATAA
Found at i:10277745 original size:18 final size:18
Alignment explanation
Indices: 10277724--10278006 Score: 124
Period size: 18 Copynumber: 15.3 Consensus size: 18
10277714 AAACAATTAT
10277724 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
10277742 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
10277760 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
10277778 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
10277804 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
*
10277822 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * * *
10277839 ATATTTAGTAACAATTAAG
1 TTATTCAGTAAC-AGTCAG
*
10277858 TTATTCAATAACAGTCA-
1 TTATTCAGTAACAGTCAG
** *
10277875 TTCATTCAGCGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* * *
10277894 TTATTCAATAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
10277912 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
*
10277930 TTATTCAGTAATAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * * *
10277948 ATATCCAGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * *
10277966 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
10277984 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
10278002 TTATT
1 TTATT
10278007 TTATACCTTT
Statistics
Matches: 194, Mismatches: 55, Indels: 32
0.69 0.20 0.11
Matches are distributed among these distances:
17 16 0.08
18 145 0.75
19 17 0.09
21 2 0.01
22 1 0.01
23 2 0.01
26 11 0.06
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:10277764 original size:36 final size:36
Alignment explanation
Indices: 10277715--10278006 Score: 178
Period size: 36 Copynumber: 7.9 Consensus size: 36
10277705 TAACACCCAA
* * * *
10277715 AACAATTATTTATTCAGTAACAGTCAGTTATTCGGT
1 AACAATCAATTATTCAGTAACAATCAGTTATTCAGT
* * *
10277751 AACAATCAATTATTCAATAATAACCAGTTATTCAGT
1 AACAATCAATTATTCAGTAACAATCAGTTATTCAGT
* * * *
10277787 ATCGATCAATTGATCGGTTATCCAGTAACAGTCAATTATTCAGT
1 AACAATCAATT-A-----T-T-CAGTAACAATCAGTTATTCAGT
* * *
10277831 AA-AATCAGA-TATTTAGTAACAATTAAGTTATTCAAT
1 AACAATCA-ATTATTCAGTAACAA-TCAGTTATTCAGT
* ** *
10277867 AACAGTC-ATTCATTCAGCGACAATCAGTTATTCAAT
1 AACAATCAATT-ATTCAGTAACAATCAGTTATTCAGT
** * *
10277903 AATGATCAATTATTCAGTAATATTCAGTTATTCAGT
1 AACAATCAATTATTCAGTAACAATCAGTTATTCAGT
* * * * * *
10277939 AATAGTCTAA-TATCCAGTAACAATCAATTATCCGGT
1 AACAATC-AATTATTCAGTAACAATCAGTTATTCAGT
* *
10277975 AACAGTCAATTATTCAGTAATAATCAGTTATT
1 AACAATCAATTATTCAGTAACAATCAGTTATT
10278007 TTATACCTTT
Statistics
Matches: 193, Mismatches: 47, Indels: 32
0.71 0.17 0.12
Matches are distributed among these distances:
35 10 0.05
36 137 0.71
37 19 0.10
42 2 0.01
43 6 0.03
44 19 0.10
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (36 bp):
AACAATCAATTATTCAGTAACAATCAGTTATTCAGT
Found at i:10278270 original size:51 final size:45
Alignment explanation
Indices: 10278174--10278293 Score: 141
Period size: 45 Copynumber: 2.5 Consensus size: 45
10278164 ATTCGGAACA
* * *
10278174 GTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCAATAACG
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAACAACG
10278219 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAACAGCAACG
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC----A-A-CAACG
* *
10278270 GTAACAGTAACAGTAGTCGGCACA
1 GTAACAGTAACAGTATTCGACACA
10278294 TAAGTACCTG
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
45 36 0.56
49 1 0.02
50 1 0.02
51 26 0.41
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (45 bp):
GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAACAACG
Found at i:10278274 original size:45 final size:45
Alignment explanation
Indices: 10278166--10278278 Score: 156
Period size: 45 Copynumber: 2.5 Consensus size: 45
10278156 CAGAACAAAT
*
10278166 TCGG-AACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAA
1 TCGGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAA
** * *
10278210 TCAATAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAA
1 TCGGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAA
* *
10278255 TCGGTAACAGCAACGGTAACAGTA
1 TCGGTAACAGTAACAGTAACAGTA
10278279 ACAGTAGTCG
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
44 2 0.03
45 56 0.97
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (45 bp):
TCGGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAA
Found at i:10279898 original size:13 final size:13
Alignment explanation
Indices: 10279880--10279909 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10279870 CCAATTTTTC
*
10279880 CTTTTTTTTCTTT
1 CTTTTTTTTCCTT
10279893 CTTTTTTTTCCTT
1 CTTTTTTTTCCTT
10279906 CTTT
1 CTTT
10279910 CCTTCCCTTA
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
CTTTTTTTTCCTT
Found at i:10279990 original size:2 final size:2
Alignment explanation
Indices: 10279985--10280014 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10279975 TTTACTTTAC
10279985 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10280015 ATAGAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10280199 original size:3 final size:3
Alignment explanation
Indices: 10280191--10280235 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
10280181 AAAAACCATA
10280191 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10280236 TTAATGTACA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10284219 original size:21 final size:21
Alignment explanation
Indices: 10284195--10284246 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
10284185 TTTTTCCTAA
* *
10284195 AATGTGAATTGGATTGAATTG
1 AATGTAAATTGGATTAAATTG
*
10284216 AATGTAAATTGTATTAAATTG
1 AATGTAAATTGGATTAAATTG
10284237 -ATGTTAAATT
1 AATG-TAAATT
10284247 CATTCGTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.42
Consensus pattern (21 bp):
AATGTAAATTGGATTAAATTG
Found at i:10284399 original size:22 final size:23
Alignment explanation
Indices: 10284373--10284428 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
10284363 TGTGTATATT
*
10284373 TATATGTTTGAATTGGAT-ACTG
1 TATATGTTTGAATTGGATAAATG
*
10284395 TATATG--TGAATTGTATAAATG
1 TATATGTTTGAATTGGATAAATG
10284416 TCATATGTTTGAA
1 T-ATATGTTTGAA
10284429 ATTGATCACA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 9 0.32
21 4 0.14
22 11 0.39
24 4 0.14
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.45
Consensus pattern (23 bp):
TATATGTTTGAATTGGATAAATG
Found at i:10284729 original size:25 final size:26
Alignment explanation
Indices: 10284700--10284748 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
10284690 CCCTTTATAG
10284700 GCTCTTTG-GAACTTCCCGATTAAAA
1 GCTCTTTGTGAACTTCCCGATTAAAA
* *
10284725 GCTCTTTGTGAGCTTCCTGATTAA
1 GCTCTTTGTGAACTTCCCGATTAA
10284749 TGGCTCTCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.37
Consensus pattern (26 bp):
GCTCTTTGTGAACTTCCCGATTAAAA
Found at i:10284746 original size:26 final size:25
Alignment explanation
Indices: 10284700--10284771 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
10284690 CCCTTTATAG
* *
10284700 GCTCTTTGGAACTTCCCGATTAAAA
1 GCTCTTTGGAGCTTCCTGATTAAAA
**
10284725 GCTCTTTGTGAGCTTCCTGATTAATG
1 GCTCTTTG-GAGCTTCCTGATTAAAA
**
10284751 GCTCTCCGGAGCTTCCTGATT
1 GCTCTTTGGAGCTTCCTGATT
10284772 GGCTCGCTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
25 21 0.52
26 19 0.47
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (25 bp):
GCTCTTTGGAGCTTCCTGATTAAAA
Found at i:10284823 original size:25 final size:24
Alignment explanation
Indices: 10284725--10284827 Score: 77
Period size: 25 Copynumber: 4.2 Consensus size: 24
10284715 CCGATTAAAA
*
10284725 GCTCTTTGTGAGCTTCCTGATTAATG
1 GCTCTCTG-GAGCTTCCTGA-TAATG
*
10284751 GCTCTCCGGAGCTTCCTGAT--TG
1 GCTCTCTGGAGCTTCCTGATAATG
* * * *
10284773 GCTCGCTTGAACTT-TTCGATATATG
1 GCTCTCTGGAGCTTCCT-GATA-ATG
*
10284798 GCTATCTGGAGCTTCCTGATTAATG
1 GCTCTCTGGAGCTTCCTGA-TAATG
10284823 GCTCT
1 GCTCT
10284828 TCAGAGCTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 13
0.69 0.15 0.15
Matches are distributed among these distances:
21 1 0.02
22 15 0.26
24 1 0.02
25 32 0.55
26 9 0.16
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (24 bp):
GCTCTCTGGAGCTTCCTGATAATG
Found at i:10284909 original size:49 final size:51
Alignment explanation
Indices: 10284856--10284983 Score: 129
Period size: 49 Copynumber: 2.5 Consensus size: 51
10284846 GGCTTGCATG
* *
10284856 AGCTTCTTGATTATGGCTCTTATGAGCTTCCTGTTATATAGC-CCAGA-TA
1 AGCTTCTTGATTATGGCTCTTATGAGCTTCCCGTTATATAGCTCCAGAGAA
* * * *
10284905 AGCTTCCGTT-A-CAAGGCTCTTATGAGCTTCCCGTTATATGGCTCGAGAGAA
1 AGCTT-C-TTGATTATGGCTCTTATGAGCTTCCCGTTATATAGCTCCAGAGAA
* *
10284956 AGCTTCCTGATTATGTGCTCTAATGAGC
1 AGCTTCTTGATTATG-GCTCTTATGAGC
10284984 ACCCCCGAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
49 33 0.53
50 8 0.13
51 10 0.16
52 11 0.18
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (51 bp):
AGCTTCTTGATTATGGCTCTTATGAGCTTCCCGTTATATAGCTCCAGAGAA
Found at i:10284947 original size:25 final size:25
Alignment explanation
Indices: 10284867--10284948 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
10284857 GCTTCTTGAT
*
10284867 TATGGCTCTTATGAGCTTCCTGTTA
1 TATGGCTCTTATGAGCTTCCCGTTA
* * ** *
10284892 TATAGCCCAGATAAGCTT-CCGTTA
1 TATGGCTCTTATGAGCTTCCCGTTA
* *
10284916 CAAGGCTCTTATGAGCTTCCCGTTA
1 TATGGCTCTTATGAGCTTCCCGTTA
10284941 TATGGCTC
1 TATGGCTC
10284949 GAGAGAAAGC
Statistics
Matches: 41, Mismatches: 15, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
24 16 0.39
25 25 0.61
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (25 bp):
TATGGCTCTTATGAGCTTCCCGTTA
Found at i:10286799 original size:14 final size:15
Alignment explanation
Indices: 10286780--10286821 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
10286770 CTCTTTCTGA
10286780 TTGTATATTTGATG-
1 TTGTATATTTGATGC
10286794 TTGTATATTTGCATGC
1 TTGTATATTTG-ATGC
10286810 TTG-AT-TTTGATG
1 TTGTATATTTGATG
10286822 GGTTACACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.12
14 15 0.58
15 5 0.19
16 3 0.12
ACGTcount: A:0.19, C:0.05, G:0.21, T:0.55
Consensus pattern (15 bp):
TTGTATATTTGATGC
Found at i:10288534 original size:202 final size:201
Alignment explanation
Indices: 10288171--10288535 Score: 588
Period size: 202 Copynumber: 1.8 Consensus size: 201
10288161 CAAAATTAAT
* ** *
10288171 TACACGGCCTGGCACACGGTGTGTGGCTTGGCCATGTGACTTTTGCACCTATACACGGCCTAGCA
1 TACACAGCCTGGCACACGGTGTGTGGCTTGGCCATGTGACTCCTGCACCTATACACGGCCTAACA
* * *
10288236 CACGGGCGTGTGAATTGGCCGTGTGACCCAAGTTAAAGAGTTACACGGTACAGACACGGGCTGGG
66 CACGGGCGTGTGAATTGGCCGTATGACCCAAGTCAAAGAGTTACACGGTACAGACACAGGCTGGG
*
10288301 ACACAATCATGTGCCTTATTTCGAATGCCCACATAGCCTAAGACACGAGCGTGTCTCTTGGCTGT
131 ACACAATCATGTGCCCTATTTCGAATGCCCACATAGCCTAAGACACGAGCGTGTCTCTTGGCTGT
10288366 GTAAGC
196 GTAAGC
* *
10288372 TACACAGCCTGGCACATGGGTGTGTGGCTTGGCCATGTGACTCCTGCACCTATACACTGCCTAAC
1 TACACAGCCTGGCACA-CGGTGTGTGGCTTGGCCATGTGACTCCTGCACCTATACACGGCCTAAC
* *
10288437 ACATGGGCGTGT-AACTTGGCCGTATGACCCGAGTCAAAGAGTTACACGGTACAGACACAGGCTG
65 ACACGGGCGTGTGAA-TTGGCCGTATGACCCAAGTCAAAGAGTTACACGGTACAGACACAGGCTG
*
10288501 GGACACAATCATGTGCCCTATTTCTAATGCCCACA
129 GGACACAATCATGTGCCCTATTTCGAATGCCCACA
10288536 CGGCCTGACC
Statistics
Matches: 149, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
201 17 0.11
202 132 0.89
ACGTcount: A:0.24, C:0.27, G:0.26, T:0.23
Consensus pattern (201 bp):
TACACAGCCTGGCACACGGTGTGTGGCTTGGCCATGTGACTCCTGCACCTATACACGGCCTAACA
CACGGGCGTGTGAATTGGCCGTATGACCCAAGTCAAAGAGTTACACGGTACAGACACAGGCTGGG
ACACAATCATGTGCCCTATTTCGAATGCCCACATAGCCTAAGACACGAGCGTGTCTCTTGGCTGT
GTAAGC
Found at i:10294410 original size:3 final size:3
Alignment explanation
Indices: 10294402--10294447 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
10294392 AGATGAACAT
10294402 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-A GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
10294448 TAGGGTTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10310061 original size:18 final size:18
Alignment explanation
Indices: 10310038--10310105 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 18
10310028 ATTAATTTTT
10310038 AAAATATAAAAATTTTAA
1 AAAATATAAAAATTTTAA
*
10310056 AAAATATATAAATTTATTAA
1 AAAATATA-AAAATT-TTAA
* *
10310076 AAATTAAAAAAATATTTAA
1 AAAATATAAAAAT-TTTAA
*
10310095 AAAGTATAAAA
1 AAAATATAAAA
10310106 TTATAAATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
18 8 0.20
19 22 0.54
20 11 0.27
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (18 bp):
AAAATATAAAAATTTTAA
Found at i:10310104 original size:28 final size:27
Alignment explanation
Indices: 10310037--10310105 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 27
10310027 AATTAATTTT
*
10310037 TAAAATATAAAAATTTTAAAAAATATA
1 TAAAATATAAAAATTTAAAAAAATATA
* *
10310064 TAAATTTATTAAAAA-TTAAAAAAATATT
1 TAAA-ATA-TAAAAATTTAAAAAAATATA
10310092 TAAAAAGTATAAAA
1 T-AAAA-TATAAAA
10310106 TTATAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
27 4 0.12
28 19 0.56
29 11 0.32
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (27 bp):
TAAAATATAAAAATTTAAAAAAATATA
Found at i:10310800 original size:32 final size:33
Alignment explanation
Indices: 10310764--10310836 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 33
10310754 TGTTTGTCTA
*
10310764 ATATTATATT-AAATTCAT-ATATAA-GATAATTT
1 ATATTATATTCAAATT-ATAATA-AATAATAATTT
*
10310796 ATATT-TATTCAAATTTTAATAAATAATAATTT
1 ATATTATATTCAAATTATAATAAATAATAATTT
10310828 ATATTATAT
1 ATATTATAT
10310837 ATTTTGAGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
31 7 0.20
32 25 0.71
33 3 0.09
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (33 bp):
ATATTATATTCAAATTATAATAAATAATAATTT
Found at i:10314924 original size:22 final size:23
Alignment explanation
Indices: 10314875--10314934 Score: 77
Period size: 22 Copynumber: 2.6 Consensus size: 23
10314865 GTTTTATATT
*
10314875 TTTTAATTATTTATATAATTAATA
1 TTTTAATAATTTA-ATAATTAATA
*
10314899 TTTTAATAATTTAATTATT-ATA
1 TTTTAATAATTTAATAATTAATA
*
10314921 TTTTAATAAATTAA
1 TTTTAATAATTTAA
10314935 ATTTTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 16 0.48
23 5 0.15
24 12 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTAATAATTTAATAATTAATA
Found at i:10318544 original size:10 final size:10
Alignment explanation
Indices: 10318529--10318567 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
10318519 TAACTCAACC
10318529 TTTCTTTTTT
1 TTTCTTTTTT
*
10318539 TTTCTTTTCT
1 TTTCTTTTTT
10318549 TTTCTTTTTT
1 TTTCTTTTTT
10318559 TTT-TTTTTT
1 TTTCTTTTTT
10318568 GGGGGGTGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
9 6 0.22
10 21 0.78
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:10320218 original size:35 final size:34
Alignment explanation
Indices: 10320157--10320237 Score: 83
Period size: 35 Copynumber: 2.4 Consensus size: 34
10320147 TTCAAGGTTG
* *
10320157 AGGGTTCATGGTCTAAAGTCTTAGGTTCAGAGTC
1 AGGGTTCAAGGTCTAAAGTCTAAGGTTCAGAGTC
* * *
10320191 AAGGGTTCAAGGTC-CAAGTTCTAAGGTTTAGGGTC
1 -AGGGTTCAAGGTCTAAAG-TCTAAGGTTCAGAGTC
*
10320226 AGGGTTTAAGGT
1 AGGGTTCAAGGT
10320238 TGAGAGTTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
34 14 0.36
35 25 0.64
ACGTcount: A:0.25, C:0.12, G:0.32, T:0.31
Consensus pattern (34 bp):
AGGGTTCAAGGTCTAAAGTCTAAGGTTCAGAGTC
Found at i:10329891 original size:31 final size:31
Alignment explanation
Indices: 10329817--10329891 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
10329807 AATAATGAGT
* *
10329817 ATTTTCAAAAAAAAATTAAGAGCTTAATTAAA
1 ATTTTC-AAAAAAAATTAAAAGATTAATTAAA
10329849 ATTTTCAAAAAAAATTAAAAGA-TATATTGAAA
1 ATTTTCAAAAAAAATTAAAAGATTA-ATT-AAA
*
10329881 ATTTCCAAAAA
1 ATTTTCAAAAA
10329892 TTTTGGGGAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 2 0.05
31 17 0.45
32 19 0.50
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.31
Consensus pattern (31 bp):
ATTTTCAAAAAAAATTAAAAGATTAATTAAA
Found at i:10332932 original size:27 final size:26
Alignment explanation
Indices: 10332863--10332922 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
10332853 TCGACATCAT
* *
10332863 AAATAGTCCAT-TAGGACATTAAACCA
1 AAATAGTCCGTCT-GGACAATAAACCA
*
10332889 AGATAGTCCGTCTGGACAATAAACACA
1 AAATAGTCCGTCTGGACAATAAAC-CA
10332916 AAATAGT
1 AAATAGT
10332923 TCGTTGGGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 19 0.68
27 9 0.32
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (26 bp):
AAATAGTCCGTCTGGACAATAAACCA
Found at i:10334311 original size:27 final size:27
Alignment explanation
Indices: 10334281--10334381 Score: 89
Period size: 27 Copynumber: 3.6 Consensus size: 27
10334271 CCGAAAAACG
*
10334281 TAGGATAGAGTACGATTGGCATGCCAA
1 TAGGTTAGAGTACGATTGGCATGCCAA
** *
10334308 TAGGTTATG-GTGCACGCGGA-TGTAAAGCCAA
1 TAGGTTA-GAGT--A--C-GATTGGCATGCCAA
*
10334339 TAGGTTAGAGTACAATTGGCATGCCAA
1 TAGGTTAGAGTACGATTGGCATGCCAA
10334366 TAGGTTAGAGTACGAT
1 TAGGTTAGAGTACGAT
10334382 GATTCCTAAC
Statistics
Matches: 57, Mismatches: 9, Indels: 16
0.70 0.11 0.20
Matches are distributed among these distances:
26 1 0.02
27 32 0.56
28 1 0.02
29 2 0.04
30 1 0.02
31 18 0.32
32 2 0.04
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.25
Consensus pattern (27 bp):
TAGGTTAGAGTACGATTGGCATGCCAA
Found at i:10335910 original size:7 final size:7
Alignment explanation
Indices: 10335898--10335922 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10335888 ATATAATAAT
10335898 TCTGGTA
1 TCTGGTA
10335905 TCTGGTA
1 TCTGGTA
10335912 TCTGGTA
1 TCTGGTA
10335919 TCTG
1 TCTG
10335923 ATAATCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.16, G:0.28, T:0.44
Consensus pattern (7 bp):
TCTGGTA
Found at i:10351124 original size:25 final size:25
Alignment explanation
Indices: 10351068--10351124 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
10351058 AGACTTACAT
* *
10351068 GGCGATGCAGCAGAGGAGTATCGAT
1 GGCGATGCAGCAGAGGAGTATCAAC
* *
10351093 GGTGATG-AGGCAGAGGAGTGTCAAC
1 GGCGATGCA-GCAGAGGAGTATCAAC
10351118 GGCGATG
1 GGCGATG
10351125 TTGCAAAAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.26, C:0.14, G:0.44, T:0.16
Consensus pattern (25 bp):
GGCGATGCAGCAGAGGAGTATCAAC
Found at i:10352560 original size:7 final size:7
Alignment explanation
Indices: 10352548--10352573 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10352538 GAATTCGAAC
10352548 TCAAATG
1 TCAAATG
10352555 TCAAATG
1 TCAAATG
10352562 TCAAATG
1 TCAAATG
10352569 TCAAA
1 TCAAA
10352574 ATTTAAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (7 bp):
TCAAATG
Found at i:10352735 original size:21 final size:22
Alignment explanation
Indices: 10352709--10352756 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
10352699 GGTGTTTGAA
*
10352709 TGTCTCGAGA-CAAAGATCACT
1 TGTCTCGAGACCAAAGATCAAT
*
10352730 TGTCTCGAGACCTAAGATCAAT
1 TGTCTCGAGACCAAAGATCAAT
10352752 TGTCT
1 TGTCT
10352757 TAAGAACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (22 bp):
TGTCTCGAGACCAAAGATCAAT
Found at i:10353813 original size:170 final size:170
Alignment explanation
Indices: 10353527--10353852 Score: 492
Period size: 170 Copynumber: 1.9 Consensus size: 170
10353517 CTCGAGATCT
* *
10353527 AAACTGTAATGTTTACAAAATTTTAGGTTGACGTCGCGAAGTTATAGGGTTCCTCGTCGCGACAC
1 AAACTGTAATGTTTACAAAATTTTAGGTTGACATCACGAAGTTATAGGGTTCCTCGTCGCGACAC
* * * *
10353592 AACATACTAGCTAGCTTTCATCTCAACAACCTATGCTTGACATCGCGTCGTGGCATAGTGGCCTG
66 AACATACTAGCTAGCTCTCATCTCAACAACCCATGCTCGACATCACGTCGTGGCATAGTGGCCTG
* *
10353657 ATCTCGTCGCGATGATCTACACTCGACATCGCGACATGAC
131 ATCTCATCGCGACGATCTACACTCGACATCGCGACATGAC
*
10353697 AAACTGTAATGTTTACAAAATTTTAGGTTGACATCATGAAGTTAT-GAGGTTCCTCGTCGCGACA
1 AAACTGTAATGTTTACAAAATTTTAGGTTGACATCACGAAGTTATAG-GGTTCCTCGTCGCGACA
* * * * *
10353761 CAACATACTAGTTAGGTCTCATCTCAACAACCCATGCTCGACATTACGTCGTGGCATGGTGGCTT
65 CAACATACTAGCTAGCTCTCATCTCAACAACCCATGCTCGACATCACGTCGTGGCATAGTGGCCT
* *
10353826 GATCTCATTGCGACGATTTACACTCGA
130 GATCTCATCGCGACGATCTACACTCGA
10353853 TGTCGCAATG
Statistics
Matches: 139, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
169 1 0.01
170 138 0.99
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (170 bp):
AAACTGTAATGTTTACAAAATTTTAGGTTGACATCACGAAGTTATAGGGTTCCTCGTCGCGACAC
AACATACTAGCTAGCTCTCATCTCAACAACCCATGCTCGACATCACGTCGTGGCATAGTGGCCTG
ATCTCATCGCGACGATCTACACTCGACATCGCGACATGAC
Found at i:10356562 original size:28 final size:28
Alignment explanation
Indices: 10356522--10356578 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
10356512 TAAGCCATTG
10356522 ATACCATAACATTATCAATCATTTACAT
1 ATACCATAACATTATCAATCATTTACAT
10356550 ATACCATAACATTATCAATCATTTACAT
1 ATACCATAACATTATCAATCATTTACAT
10356578 A
1 A
10356579 CTTATCAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (28 bp):
ATACCATAACATTATCAATCATTTACAT
Found at i:10362725 original size:6 final size:6
Alignment explanation
Indices: 10362710--10362746 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
10362700 CCTTTGTTTC
10362710 TATA-T TATATT TATATT TATATT TATATT TATATT TA
1 TATATT TATATT TATATT TATATT TATATT TATATT TA
10362747 ATCCAGTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TATATT
Found at i:10369970 original size:13 final size:12
Alignment explanation
Indices: 10369952--10370006 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 12
10369942 GAAAATTGAT
10369952 AAATATTCAATAA
1 AAATATT-AATAA
10369965 AAATA-TAAT-A
1 AAATATTAATAA
10369975 AAATATTAA-AA
1 AAATATTAATAA
10369986 ATATATATTTAATAA
1 A-A-ATA-TTAATAA
10370001 AAATAT
1 AAATAT
10370007 ATATTAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
10 6 0.17
11 8 0.22
12 3 0.08
13 11 0.31
14 5 0.14
15 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (12 bp):
AAATATTAATAA
Found at i:10370243 original size:16 final size:18
Alignment explanation
Indices: 10370209--10370246 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
10370199 GGTCCCTATA
10370209 TTTTTTCGTTTTGAGTAT
1 TTTTTTCGTTTTGAGTAT
*
10370227 TTTTTTC-TTTT-ATTAT
1 TTTTTTCGTTTTGAGTAT
10370243 TTTT
1 TTTT
10370247 AACTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 4 0.21
18 7 0.37
ACGTcount: A:0.11, C:0.05, G:0.08, T:0.76
Consensus pattern (18 bp):
TTTTTTCGTTTTGAGTAT
Found at i:10373756 original size:21 final size:21
Alignment explanation
Indices: 10373717--10373756 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10373707 TTTATTTAAA
*
10373717 AATATAAATGATATAGAATAT
1 AATATAAATGAAATAGAATAT
*
10373738 AATATAAATGAAATGGAAT
1 AATATAAATGAAATAGAAT
10373757 TACTGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
AATATAAATGAAATAGAATAT
Found at i:10375608 original size:117 final size:117
Alignment explanation
Indices: 10375397--10375686 Score: 517
Period size: 117 Copynumber: 2.5 Consensus size: 117
10375387 ATTTGACAAA
*
10375397 TAAAACCATGGTTGGACCATGGCAGTGTTTATATATAAGACCATAGTTGGGCTATGACATTAATG
1 TAAAACCATGGTTGGACCATGGCAGTGTTTATATATAAGACCATAGCTGGGCTATGACATTAATG
* *
10375462 TAAAGGATGAATTGACGGATAAGATCATAACTGGGTTATGGTACTCTAAACG
66 TAAAGGATGAATTGACGGATAAGACCATAACTGGGTTATGGTACTATAAACG
* *
10375514 TAAAACCATGGTTAGACCATGGCAGTGTTTATATATAAGACCGTAGCTGGGCTATGACATTAATG
1 TAAAACCATGGTTGGACCATGGCAGTGTTTATATATAAGACCATAGCTGGGCTATGACATTAATG
10375579 TAAAGGATGAATTGACGGATAAGACCATAACTGGGTTATGGTACTATAAACG
66 TAAAGGATGAATTGACGGATAAGACCATAACTGGGTTATGGTACTATAAACG
* *
10375631 TAAAACCATGGTTGGACCATGGCAGTGTATATATGTAAGACCATAGCTGGGCTATG
1 TAAAACCATGGTTGGACCATGGCAGTGTTTATATATAAGACCATAGCTGGGCTATG
10375687 GAATTCTGAT
Statistics
Matches: 164, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 164 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (117 bp):
TAAAACCATGGTTGGACCATGGCAGTGTTTATATATAAGACCATAGCTGGGCTATGACATTAATG
TAAAGGATGAATTGACGGATAAGACCATAACTGGGTTATGGTACTATAAACG
Found at i:10376797 original size:21 final size:21
Alignment explanation
Indices: 10376768--10376807 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10376758 TTAGGGGTGT
*
10376768 TACACATTTCATATGTGCATG
1 TACAAATTTCATATGTGCATG
10376789 TACAAATTTCATATGTGCA
1 TACAAATTTCATATGTGCA
10376808 ATTTATTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (21 bp):
TACAAATTTCATATGTGCATG
Found at i:10378674 original size:2 final size:2
Alignment explanation
Indices: 10378661--10378702 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
10378651 TGCCCCTTAC
*
10378661 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10378703 TTTATATTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10394050 original size:46 final size:46
Alignment explanation
Indices: 10393996--10394320 Score: 402
Period size: 46 Copynumber: 7.0 Consensus size: 46
10393986 GTGTACTCTC
* * *
10393996 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
10394042 TAATATGAAATGCGTAAGACCATGGTTGAAAGATACCATGGTAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
10394088 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
10394134 TGATA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
10394180 TGACATGAAATGAATACGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
10394226 TGACGGGAAAATGAATAAGAACATGGTTGAAAGATACCATGGCAACA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
10394273 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
10394319 TG
1 TG
10394321 TCAAAGATAA
Statistics
Matches: 251, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.00
46 208 0.83
47 42 0.17
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:10394622 original size:16 final size:17
Alignment explanation
Indices: 10394601--10394633 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10394591 ATGATGGAGC
*
10394601 ATGAAAT-ATTTATATA
1 ATGAAATGATTGATATA
10394617 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
10394634 TACTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:10395866 original size:20 final size:19
Alignment explanation
Indices: 10395832--10395871 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
10395822 AGTATAAGTG
10395832 ATATACAAAACAATATATAT
1 ATATACAAAACAATA-ATAT
10395852 ATATACAAATA-AATAATAT
1 ATATACAAA-ACAATAATAT
10395871 A
1 A
10395872 CACAAAATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 13 0.68
21 1 0.05
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (19 bp):
ATATACAAAACAATAATAT
Found at i:10395999 original size:14 final size:14
Alignment explanation
Indices: 10395980--10396012 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10395970 AAAACAGAAT
10395980 GAAAATATACAA-AA
1 GAAAATA-ACAACAA
10395994 GAAAATAACAACAA
1 GAAAATAACAACAA
10396008 GAAAA
1 GAAAA
10396013 AATTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.73, C:0.09, G:0.09, T:0.09
Consensus pattern (14 bp):
GAAAATAACAACAA
Found at i:10396471 original size:17 final size:16
Alignment explanation
Indices: 10396449--10396500 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
10396439 CATGGTGGCA
10396449 AGTGGGGTAATGGAGTT
1 AGTGGGGT-ATGGAGTT
*
10396466 AGTGGGG--TGG-TTT
1 AGTGGGGTATGGAGTT
10396479 AGTGGGGTGATGGAGTT
1 AGTGGGGT-ATGGAGTT
10396496 AGTGG
1 AGTGG
10396501 CAAGTAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 9 0.31
14 3 0.10
16 3 0.10
17 14 0.48
ACGTcount: A:0.17, C:0.00, G:0.52, T:0.31
Consensus pattern (16 bp):
AGTGGGGTATGGAGTT
Found at i:10400335 original size:21 final size:21
Alignment explanation
Indices: 10400311--10400352 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
10400301 GAATGAGTAT
10400311 GTTTTTAGATTATTGTATCTA
1 GTTTTTAGATTATTGTATCTA
10400332 GTTTTTAGATTATTGTATCTA
1 GTTTTTAGATTATTGTATCTA
10400353 TAAGACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (21 bp):
GTTTTTAGATTATTGTATCTA
Found at i:10402080 original size:22 final size:21
Alignment explanation
Indices: 10402055--10402134 Score: 71
Period size: 22 Copynumber: 4.0 Consensus size: 21
10402045 AAGCCTGCTA
*
10402055 GGCATTAAGCCTGAATAACACT
1 GGCACTAAGCCTGAATAACA-T
*
10402077 GGCACTAAGCCTG-CT---A-
1 GGCACTAAGCCTGAATAACAT
10402093 GGCACTAAGCCTGAATAACAT
1 GGCACTAAGCCTGAATAACAT
* *
10402114 CAGCATTAAGCCTGAATAACA
1 -GGCACTAAGCCTGAATAACA
10402135 CTGTATTTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
16 13 0.28
17 1 0.02
18 1 0.02
20 1 0.02
21 1 0.02
22 30 0.64
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (21 bp):
GGCACTAAGCCTGAATAACAT
Found at i:10402124 original size:38 final size:38
Alignment explanation
Indices: 10402045--10402127 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
10402035 CATTGGCTGA
* *
10402045 AAGCCTGCTAGGCATTAAGCCTGAATAACACTGGCACT
1 AAGCCTGCTAGGCACTAAGCCTGAATAACACTAGCACT
*
10402083 AAGCCTGCTAGGCACTAAGCCTGAATAACA-TCAGCATT
1 AAGCCTGCTAGGCACTAAGCCTGAATAACACT-AGCACT
10402121 AAGCCTG
1 AAGCCTG
10402128 AATAACACTG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
37 1 0.02
38 40 0.98
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (38 bp):
AAGCCTGCTAGGCACTAAGCCTGAATAACACTAGCACT
Found at i:10405716 original size:18 final size:17
Alignment explanation
Indices: 10405677--10405730 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
10405667 TATTATATCT
**
10405677 ATAAATAATTTAAAAATT
1 ATAAAT-ATTTAAAAAAA
10405695 ATAAATATTTAAATAAAA
1 ATAAATATTTAAA-AAAA
*
10405713 ATAAA-AATTAAAAAAA
1 ATAAATATTTAAAAAAA
10405729 AT
1 AT
10405731 TTAAAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 6 0.19
17 13 0.41
18 13 0.41
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAATATTTAAAAAAA
Found at i:10405735 original size:18 final size:19
Alignment explanation
Indices: 10405687--10405736 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
10405677 ATAAATAATT
*
10405687 TAAAAATTATAAATATTTAAA
1 TAAAAATT-TAAA-AATTAAA
10405708 TAAAAA--TAAAAATTAAA
1 TAAAAATTTAAAAATTAAA
10405725 -AAAAATTTAAAA
1 TAAAAATTTAAAA
10405737 TATACATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 5 0.19
17 6 0.23
18 9 0.35
21 6 0.23
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAAATTTAAAAATTAAA
Found at i:10406908 original size:24 final size:24
Alignment explanation
Indices: 10406876--10406923 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
10406866 ATCTGAAGAA
*
10406876 AACTATGCTGTTGTAATAACTATG
1 AACTATGCTGCTGTAATAACTATG
10406900 AACTATGCTGCTGTAATAACTATG
1 AACTATGCTGCTGTAATAACTATG
10406924 TTTTGTCGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (24 bp):
AACTATGCTGCTGTAATAACTATG
Found at i:10417362 original size:24 final size:24
Alignment explanation
Indices: 10417335--10417402 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
10417325 TTCCTCTTCT
10417335 AAGTACATTTG-TATTTTTTATTTC
1 AAGT-CATTTGTTATTTTTTATTTC
**
10417359 AAGTTTTTTGTTATTTTTTATTTC
1 AAGTCATTTGTTATTTTTTATTTC
**
10417383 AAGTTTTTTGTTATTTTTTA
1 AAGTCATTTGTTATTTTTTA
10417403 ATTAATGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.10
24 37 0.90
ACGTcount: A:0.21, C:0.04, G:0.09, T:0.66
Consensus pattern (24 bp):
AAGTCATTTGTTATTTTTTATTTC
Found at i:10417367 original size:14 final size:14
Alignment explanation
Indices: 10417348--10417391 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
10417338 TACATTTGTA
10417348 TTTTTTATTTCAAG
1 TTTTTTATTTCAAG
*
10417362 TTTTTT-GTT--A-
1 TTTTTTATTTCAAG
10417372 TTTTTTATTTCAAG
1 TTTTTTATTTCAAG
10417386 TTTTTT
1 TTTTTT
10417392 GTTATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
10 6 0.25
11 3 0.12
13 3 0.12
14 12 0.50
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.73
Consensus pattern (14 bp):
TTTTTTATTTCAAG
Found at i:10417414 original size:24 final size:24
Alignment explanation
Indices: 10417342--10417402 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
10417332 TCTAAGTACA
10417342 TTTG-TATTTTTTATTTCAAGTTT
1 TTTGTTATTTTTTATTTCAAGTTT
10417365 TTTGTTATTTTTTATTTCAAGTTT
1 TTTGTTATTTTTTATTTCAAGTTT
10417389 TTTGTTATTTTTTA
1 TTTGTTATTTTTTA
10417403 ATTAATGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 4 0.11
24 33 0.89
ACGTcount: A:0.16, C:0.03, G:0.08, T:0.72
Consensus pattern (24 bp):
TTTGTTATTTTTTATTTCAAGTTT
Found at i:10417415 original size:13 final size:13
Alignment explanation
Indices: 10417397--10417421 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10417387 TTTTTGTTAT
10417397 TTTTTAATTAATG
1 TTTTTAATTAATG
10417410 TTTTTAATTAAT
1 TTTTTAATTAAT
10417422 AAATATAGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:10421063 original size:51 final size:49
Alignment explanation
Indices: 10420946--10421411 Score: 233
Period size: 51 Copynumber: 9.8 Consensus size: 49
10420936 GAATTTGTCA
* ** *
10420946 CTTTAATCTGCTTCACTGCAACTTCAATGAGATAAGA-TT-A---GTAG
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTCACTTGTAG
* * * * *
10420990 CTTCAATTTGCTCCATTACAACTTCAGGGAGATAAGATTTGCAACTTGTAG
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTT-C-ACTTGTAG
* * * *
10421041 CTTTAATCTGTTCTACTGCAACTTCAGGGCAATAAGA-TTCAC--ATA-
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTCACTTGTAG
* * * * *
10421086 -TTCAATATGCTCCACTACAAATTCAGGGAAATAAGATTTGTAACTTGTAG
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGA-TT-TCACTTGTAG
* * * * * *
10421136 CTTTAATCTGTTCCACTACAACTTAAGGGAAGTAAGA-TTCGC---TAT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTCACTTGTAG
* * * * * *
10421181 CTTTAATATGCTCCACTGTAACTACAGGGAAATAATA-TTCGC---TAT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTCACTTGTAG
* * * *
10421226 CTTTAATATGCTCCACTGAAACTTTAGGGAGAA-AAGATTTGTAACTTGTAG
1 CTTTAATCTGCTCCACTGCAACTTCAGGGA-AATAAGA-TT-TCACTTGTAG
* ** * * *
10421277 CATTAATCTG-TTTAGCTGCAACTTCAGGAAAATAA-AATTCA-TT-AAG
1 CTTTAATCTGCTCCA-CTGCAACTTCAGGGAAATAAGATTTCACTTGTAG
* * * * *
10421323 -TTCAATCTACTCTACTGCAACTTCAGGGCAATAAGATTTGTAACTTGTAG
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGA-TT-TCACTTGTAG
** * *
10421373 CTTTAATCTATTCCAATGCAACTTCAAGGAAATAAGATT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATT
10421412 CGCTATCTTC
Statistics
Matches: 318, Mismatches: 74, Indels: 54
0.71 0.17 0.12
Matches are distributed among these distances:
44 59 0.19
45 95 0.30
46 11 0.03
47 7 0.02
48 11 0.03
49 7 0.02
50 11 0.03
51 117 0.37
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (49 bp):
CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTCACTTGTAG
Found at i:10421065 original size:95 final size:94
Alignment explanation
Indices: 10420946--10421215 Score: 287
Period size: 95 Copynumber: 2.8 Consensus size: 94
10420936 GAATTTGTCA
* * * *
10420946 CTTTAATCTGCTTCACTGCAACTTCAATG-AGATAAGATT-A-GTAGCTTCAATTTGCTCCATTA
1 CTTTAATCTG-TTCACTGCAACTTCAAGGCA-ATAAGATTCACATA--TTCAATATGCTCCACTA
* *
10421008 CAACTTCAGGGAGATAAGATTTGCAACTTGTAG
62 CAAATTCAGGGAAATAAGATTTGCAACTTGTAG
*
10421041 CTTTAATCTGTTCTACTGCAACTTCAGGGCAATAAGATTCACATATTCAATATGCTCCACTACAA
1 CTTTAATCTGTTC-ACTGCAACTTCAAGGCAATAAGATTCACATATTCAATATGCTCCACTACAA
*
10421106 ATTCAGGGAAATAAGATTTGTAACTTGTAG
65 ATTCAGGGAAATAAGATTTGCAACTTGTAG
* * * * * **
10421136 CTTTAATCTGTTCCACTACAACTT-AAGGGAAGTAAGATTCGCTATCTTTAATATGCTCCACTGT
1 CTTTAATCTGTT-CACTGCAACTTCAAGGCAA-TAAGATTCAC-ATATTCAATATGCTCCACTAC
* *
10421200 AACTACAGGGAAATAA
63 AAATTCAGGGAAATAA
10421216 TATTCGCTAT
Statistics
Matches: 150, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
94 8 0.05
95 106 0.71
96 34 0.23
97 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (94 bp):
CTTTAATCTGTTCACTGCAACTTCAAGGCAATAAGATTCACATATTCAATATGCTCCACTACAAA
TTCAGGGAAATAAGATTTGCAACTTGTAG
Found at i:10421255 original size:45 final size:45
Alignment explanation
Indices: 10421136--10421264 Score: 156
Period size: 45 Copynumber: 2.9 Consensus size: 45
10421126 TAACTTGTAG
* * *
10421136 CTTTAATCTGTTCCACT-ACAACTTAAGGGAAGTAAGATTCGCTAT
1 CTTTAATATGCTCCACTGA-AACTTAAGGGAAATAAGATTCGCTAT
* *
10421181 CTTTAATATGCTCCACTGTAAC-TACAGGGAAATAATATTCGCTAT
1 CTTTAATATGCTCCACTGAAACTTA-AGGGAAATAAGATTCGCTAT
*
10421226 CTTTAATATGCTCCACTGAAACTTTAGGGAGAA-AAGATT
1 CTTTAATATGCTCCACTGAAACTTAAGGGA-AATAAGATT
10421265 TGTAACTTGT
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
44 2 0.03
45 67 0.93
46 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (45 bp):
CTTTAATATGCTCCACTGAAACTTAAGGGAAATAAGATTCGCTAT
Found at i:10421350 original size:141 final size:140
Alignment explanation
Indices: 10421052--10421360 Score: 345
Period size: 141 Copynumber: 2.2 Consensus size: 140
10421042 TTTAATCTGT
10421052 TCTACTGCAACTTCAGGGCAATAAGATTCACATATTCAATATGCTCCACTACAAATTCAGGGAAA
1 TCTACTGCAACTTCAGGGCAATAAGATTCACATATTCAATATGCTCCACTACAAATTCAGGGAAA
* * * * * *
10421117 TAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTACAACTTAAGGGAAGTAAGATTCGCTATC
66 TAAGATTTGTAACTTGTAGCATTAATCTGTTCCACTACAACTTAAGGAAAATAAAATTCACTAAC
* *
10421182 TTTAATATGC
131 TTCAATATAC
* * * * * * * * * *
10421192 TCCACTGTAACTACAGGGAAATAATATTCGCTATCTTTAATATGCTCCACTGA-AACTTTAGGGA
1 TCTACTGCAACTTCAGGGCAATAAGATTCAC-ATATTCAATATGCTCCACT-ACAAATTCAGGGA
* * * *
10421256 GAA-AAGATTTGTAACTTGTAGCATTAATCTGTT-TAGCTGCAACTTCAGGAAAATAAAATTCAT
64 -AATAAGATTTGTAACTTGTAGCATTAATCTGTTCCA-CTACAACTTAAGGAAAATAAAATTCAC
* *
10421319 TAAGTTCAATCTAC
127 TAACTTCAATATAC
10421333 TCTACTGCAACTTCAGGGCAATAAGATT
1 TCTACTGCAACTTCAGGGCAATAAGATT
10421361 TGTAACTTGT
Statistics
Matches: 136, Mismatches: 29, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
140 26 0.19
141 107 0.79
142 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (140 bp):
TCTACTGCAACTTCAGGGCAATAAGATTCACATATTCAATATGCTCCACTACAAATTCAGGGAAA
TAAGATTTGTAACTTGTAGCATTAATCTGTTCCACTACAACTTAAGGAAAATAAAATTCACTAAC
TTCAATATAC
Found at i:10421489 original size:96 final size:95
Alignment explanation
Indices: 10421208--10421492 Score: 306
Period size: 96 Copynumber: 3.0 Consensus size: 95
10421198 GTAACTACAG
* * * * * * *
10421208 GGAAATAATATTCGCTATCTTTAATATGCTCCACTGA-AACTTTAGGGAGAAAAGATTTGTAACT
1 GGAAATAAAATTCGCTATCTTCAATCTGCTCTA-TTACAACTTCAGGGAGATAAGATTTGTAACT
* *
10421272 TGTAGCATTAATCTGTTTAGCTGCAACTTCA
65 TGTAGCTTTAATCTATTTAGCTGCAACTTCA
** ** * * *
10421303 GGAAAATAAAATTCATTAAGTTCAATCTACTCTACTGCAACTTCAGGGCA-ATAAGATTTGTAAC
1 GG-AAATAAAATTCGCTATCTTCAATCTGCTCTATTACAACTTCAGGG-AGATAAGATTTGTAAC
* *
10421367 TTGTAGCTTTAATCTATTCCA-ATGCAACTTCAA
64 TTGTAGCTTTAATCTATT-TAGCTGCAACTTC-A
* * *
10421400 GGAAATAAGATTCGCTATCTTCAATCTGCTCTATTACAAATTCAGTGAGATAAGATTTGTAACTT
1 GGAAATAAAATTCGCTATCTTCAATCTGCTCTATTACAACTTCAGGGAGATAAGATTTGTAACTT
*
10421465 GTAGCTTTAATCTATTTTGCTGCAACTT
66 GTAGCTTTAATCTATTTAGCTGCAACTT
10421493 TAGGGAGATG
Statistics
Matches: 152, Mismatches: 31, Indels: 13
0.78 0.16 0.07
Matches are distributed among these distances:
95 3 0.02
96 144 0.95
97 5 0.03
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (95 bp):
GGAAATAAAATTCGCTATCTTCAATCTGCTCTATTACAACTTCAGGGAGATAAGATTTGTAACTT
GTAGCTTTAATCTATTTAGCTGCAACTTCA
Found at i:10427874 original size:18 final size:20
Alignment explanation
Indices: 10427853--10427904 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
10427843 ACAATTTTTT
10427853 TAAAATTATACATAATA-ATAA
1 TAAAATTAT--ATAATATATAA
*
10427874 -ATAATTATATAATATATAA
1 TAAAATTATATAATATATAA
*
10427893 TAAAATAATATA
1 TAAAATTATATA
10427905 GTGAACAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 6 0.23
19 4 0.15
20 16 0.62
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATTATATAATATATAA
Found at i:10427904 original size:22 final size:22
Alignment explanation
Indices: 10427859--10427901 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
10427849 TTTTTAAAAT
10427859 TATACATAATAATAAATAATTA
1 TATACATAATAATAAATAATTA
10427881 TATA-ATATATAATAAAATAAT
1 TATACATA-ATAAT-AAATAAT
10427902 ATAGTGAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 3 0.16
22 9 0.47
23 7 0.37
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
TATACATAATAATAAATAATTA
Found at i:10428308 original size:30 final size:30
Alignment explanation
Indices: 10428274--10428332 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
10428264 TATAATGGTC
* *
10428274 ATTAGGACTAAATTGAAACAAAAATAAAAG
1 ATTAGGACCAAATTAAAACAAAAATAAAAG
* * *
10428304 ATTAGGGCCGAATTAAAATAAAAATAAAA
1 ATTAGGACCAAATTAAAACAAAAATAAAA
10428333 TGTAATTGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.20
Consensus pattern (30 bp):
ATTAGGACCAAATTAAAACAAAAATAAAAG
Found at i:10429588 original size:44 final size:44
Alignment explanation
Indices: 10429533--10430102 Score: 675
Period size: 44 Copynumber: 13.0 Consensus size: 44
10429523 ATAGAGACGT
* * *
10429533 CAAATCAGCTATCCTT-GATCTGCTCTCTGACAATACAGAAACGC
1 CAAATCTGCTAT-CTTCGATCTGCTCTCTGACAATACAGAGATGC
* * *
10429577 CAAATCTGCTATCTTCGATCTGCTCTCTGAGAATATAGAGATGT
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
*
10429621 CAAATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
* * * * * *
10429665 CAAATCCGCTATCTTTGATATGCTATCTGACAATACAGAGACGG
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
* *
10429709 CAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
* *
10429753 CAAATCTACTATCTTCGATCTGCTCACTGACAATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
* *
10429797 CAAATCTGCTATCTTTGATCTGCTCTCTGTCAATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
* * * * *
10429841 CAGA--TGTTATCCTCGATCTGCTCTCTGTCAATACAGAAATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
* * * * *
10429883 CAAATCTGCTATCTTTGATCTACTCTCCGTCAATACAGAAATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
* * * * *
10429927 CAGATGT-C-ATCTTCGATCTGCTCTCTGTCAATACAGAGACGT
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
* * **
10429969 CAAATCTGCTATCTTCGATCTGCTCTTTGACAATATAGAGACAC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
* *
10430013 AAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
* * * * *
10430057 CAAATCTACTATCTTTGATCTGTTTTCCGTA-AATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTG-ACAATACAGAGATGC
10430101 CA
1 CA
10430103 GTCGATCTGC
Statistics
Matches: 454, Mismatches: 66, Indels: 12
0.85 0.12 0.02
Matches are distributed among these distances:
42 70 0.15
43 5 0.01
44 378 0.83
45 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (44 bp):
CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
Found at i:10430110 original size:33 final size:33
Alignment explanation
Indices: 10430088--10430168 Score: 153
Period size: 33 Copynumber: 2.5 Consensus size: 33
10430078 GTTTTCCGTA
*
10430088 AATACAGAGATGCCAGTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAGTCGATCTGCTCTCTGTC
10430121 AATACAGAGACGCCAGTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAGTCGATCTGCTCTCTGTC
10430154 AATACAGAGACGCCA
1 AATACAGAGACGCCA
10430169 AATCTGCTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (33 bp):
AATACAGAGACGCCAGTCGATCTGCTCTCTGTC
Found at i:10442266 original size:18 final size:20
Alignment explanation
Indices: 10442245--10442291 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
10442235 ACAATTTTTG
10442245 TAAAATTATACATAATA-ATAA
1 TAAAATTAT--ATAATATATAA
*
10442266 -ATAATTATATAATATATAA
1 TAAAATTATATAATATATAA
10442285 TAAAATT
1 TAAAATT
10442292 CGAGGGACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
18 6 0.27
19 4 0.18
20 12 0.55
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAAATTATATAATATATAA
Found at i:10449333 original size:21 final size:20
Alignment explanation
Indices: 10449296--10449337 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
10449286 TACTCAAGGA
*
10449296 AAGCCGATTGATCCATCTAAG
1 AAGCCGATTCATCCATC-AAG
10449317 AAGCCGGATTCAT-CATCAAG
1 AAGCC-GATTCATCCATCAAG
10449337 A
1 A
10449338 CTGAAGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (20 bp):
AAGCCGATTCATCCATCAAG
Found at i:10453791 original size:25 final size:26
Alignment explanation
Indices: 10453759--10453816 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
10453749 CACTTTTTTC
10453759 TTTA-TTTATCTT-CTTCAAGTACTA-
1 TTTATTTTATCTTCCTTCAA-TACTAT
* *
10453783 TTTATTTTATTTTCCTTTAATACTAT
1 TTTATTTTATCTTCCTTCAATACTAT
10453809 TTTATTTT
1 TTTATTTT
10453817 TAGGTTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 4 0.14
25 12 0.41
26 13 0.45
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTATTTTATCTTCCTTCAATACTAT
Found at i:10458666 original size:13 final size:13
Alignment explanation
Indices: 10458648--10458675 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10458638 ATAAAAGTGT
10458648 TATTAATTAAAAA
1 TATTAATTAAAAA
10458661 TATTAATTAAAAA
1 TATTAATTAAAAA
10458674 TA
1 TA
10458676 AAAAAATTGA
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATTAATTAAAAA
Done.