Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 165 of 295
Found at i:56382357 original size:24 final size:24
Alignment explanation
Indices: 56382314--56382363 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
56382304 AATAAGATTT
*
56382314 AATATTAAATTTAATCTAATATTA
1 AATATTAAATTAAATCTAATATTA
* *
56382338 AATATTAGATTAAATTTAATATTA
1 AATATTAAATTAAATCTAATATTA
56382362 AA
1 AA
56382364 GTGATTTAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
AATATTAAATTAAATCTAATATTA
Found at i:56388191 original size:28 final size:26
Alignment explanation
Indices: 56388133--56388244 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
56388123 AGCATGGCTG
* *
56388133 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
56388159 CCAGAACAGATATATCGTAGCAGAGCCA
1 CCAGAACAGATA-AT-GTGGCAGAGCCA
*
56388187 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
56388214 CCAGATCAGTTAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
56388241 CCAG
1 CCAG
56388245 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 13 0.18
27 38 0.51
28 23 0.31
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:56396030 original size:27 final size:26
Alignment explanation
Indices: 56395994--56396087 Score: 116
Period size: 27 Copynumber: 3.5 Consensus size: 26
56395984 AGCATGGCTG
* *
56395994 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
56396020 CCAGATACAGATAATCATGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
56396048 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
56396075 CCAGATCAGATAA
1 CCAGAACAGATAA
56396088 AGGACGCTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.10
27 36 0.62
28 16 0.28
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:56404581 original size:12 final size:12
Alignment explanation
Indices: 56404560--56404591 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
56404550 AGAGACACAA
56404560 GCCCGTGTCTCT
1 GCCCGTGTCTCT
*
56404572 GCCTGTGTCTCT
1 GCCCGTGTCTCT
56404584 GCCCGTGT
1 GCCCGTGT
56404592 GGACAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.38, G:0.28, T:0.34
Consensus pattern (12 bp):
GCCCGTGTCTCT
Found at i:56416824 original size:43 final size:43
Alignment explanation
Indices: 56416777--56416902 Score: 148
Period size: 43 Copynumber: 3.0 Consensus size: 43
56416767 CATCAATTTG
*
56416777 TGATTTACATGTAAGACCATGTTTGGGACATTGGCATTGTATA
1 TGATTTACATGTAAGACCATGTCTGGGACATTGGCATTGTATA
* * * ** *
56416820 TGATTT-CATGTAAGACCCTGTCTGGAACAGTGGTTTTGATATT
1 TGATTTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATA
* *
56416863 TGA-TTACATGTAAGACCACGTCTGGGACGTTGGCATTGTA
1 TGATTTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
56416903 CGAGATTATG
Statistics
Matches: 67, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
42 30 0.45
43 37 0.55
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (43 bp):
TGATTTACATGTAAGACCATGTCTGGGACATTGGCATTGTATA
Found at i:56420317 original size:26 final size:26
Alignment explanation
Indices: 56420281--56420333 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
56420271 ATGTATATAT
56420281 AACATACATATTTATTTGACAAGAAG
1 AACATACATATTTATTTGACAAGAAG
56420307 AACATACATATTTATTTGACAAGAAG
1 AACATACATATTTATTTGACAAGAAG
56420333 A
1 A
56420334 TCTATCCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.30
Consensus pattern (26 bp):
AACATACATATTTATTTGACAAGAAG
Found at i:56423922 original size:181 final size:179
Alignment explanation
Indices: 56423626--56423950 Score: 442
Period size: 181 Copynumber: 1.8 Consensus size: 179
56423616 ATTTCATCTA
* * *
56423626 AAACTAGACTCATATATATTCTTACCATAAAATTTAAGATTTTTGGACTAGCCAATAAGTACAAT
1 AAACTAGACTCACATATACTCTTACCATAAAATTTAAGAATTTTGGACTAGCCAATAAGTACAAT
* * * *
56423691 TTATTCATTAAGTGTACCCCAGTTTCACTATTTGATTATTCCGACCTCTCTTCACTAAAAATTAT
66 TTATTCATTAAATATACCCCAGTTTCACTATTCGATCATTCCGACCTCTCTTCACTAAAAATTAT
56423756 TTATCTCATGGTACCGGACTCCAAATTGAGAACCGCTAATTTTACCCAG
131 TTATCTCATGGTACCGGACTCCAAATTGAGAACCGCTAATTTTACCCAG
** * *
56423805 AAACTAGACTCACATATACTCTTACCATAAAATTTTCATA-AATTTTGGTTTAGTCAATTAGTAC
1 AAACTAGACTCACATATACTCTTACCATAAAA-TTT-A-AGAATTTTGGACTAGCCAATAAGTAC
* * *
56423869 AGTTTATTCATTAAATATACCTCTA-TTTCACT-TTCCGA-CAGTTCTGACCTCTCTTCACTAAA
63 AATTTATTCATTAAATATACC-CCAGTTTCACTATT-CGATCA-TTCCGACCTCTCTTCACTAAA
56423931 AATTATTTATCTCATGGTAC
125 AATTATTTATCTCATGGTAC
56423951 AGCTCTCGGA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
179 30 0.24
180 6 0.05
181 87 0.69
182 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (179 bp):
AAACTAGACTCACATATACTCTTACCATAAAATTTAAGAATTTTGGACTAGCCAATAAGTACAAT
TTATTCATTAAATATACCCCAGTTTCACTATTCGATCATTCCGACCTCTCTTCACTAAAAATTAT
TTATCTCATGGTACCGGACTCCAAATTGAGAACCGCTAATTTTACCCAG
Found at i:56424579 original size:50 final size:50
Alignment explanation
Indices: 56424493--56424982 Score: 378
Period size: 50 Copynumber: 9.7 Consensus size: 50
56424483 ACCGAAGCTC
* * *
56424493 TCTGGTACGCATAGTAGCCTGCACTTAGTACAACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * * *
56424543 TCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
** * * **
56424593 TCTAATACACGTAATAGCCTCCACTTAGTACTACACACATGATCGAAGT-T-AA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACT--ACACATG--CGACCTATCAA
* * * *
56424645 T-GGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * * *
56424694 TCTGCTACACGTAGTAGCCTGCAGTTAGTACTACACACGTGACTTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * ** *
56424744 TCTGATACACGTAGTAGCTTGCACTTAGTACTACACAAGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAA
* * * * * *
56424796 -CGGGTACGCATAGTAGCCTGCACTTAGAACTACATATGCGACCTCTCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * * * ** *
56424845 TCTGCTACACGTAGTAGCCTCCACGTAGTACTAAACACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAA
* * * * *
56424897 T-GGGAACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* **
56424946 TCTGGTACACGTAATAGCCTGCACTTAACACTACACA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
56424983 CGTGACTCAC
Statistics
Matches: 332, Mismatches: 95, Indels: 26
0.73 0.21 0.06
Matches are distributed among these distances:
47 4 0.01
48 1 0.00
49 17 0.05
50 206 0.62
51 87 0.26
52 14 0.04
54 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
Found at i:56424769 original size:151 final size:151
Alignment explanation
Indices: 56424496--56424886 Score: 608
Period size: 151 Copynumber: 2.6 Consensus size: 151
56424486 GAAGCTCTCT
*
56424496 GGTACGCATAGTAGCCTGCACTTAGTACAACACATGCGACCTATCAATCTAG-TACACGTAGTAG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCT-GCTACACGTAGTAG
* *
56424560 CCTGCACTTAGTACTACACACGTGACTTAACCATCTAATACACGTAATAGCCTCCACTTAGTACT
65 CCTGCAGTTAGTACTACACACGTGACTTAACAATCTAATACACGTAATAGCCTCCACTTAGTACT
*
56424625 ACACACA-TGATCGAAGTTAATG
130 ACACA-AGTGATCGAAGTTAACG
*
56424647 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTGCTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGCTACACGTAGTAGC
* * * *
56424712 CTGCAGTTAGTACTACACACGTGACTTAACAATCTGATACACGTAGTAGCTTGCACTTAGTACTA
66 CTGCAGTTAGTACTACACACGTGACTTAACAATCTAATACACGTAATAGCCTCCACTTAGTACTA
56424777 CACAAGTGATCGAAGTTAACG
131 CACAAGTGATCGAAGTTAACG
* * *
56424798 GGTACGCATAGTAGCCTGCACTTAGAACTACATATGCGACCTCTCAATCTGCTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGCTACACGTAGTAGC
* *
56424863 CTCCACG-TAGTACTAAACACGTGA
66 CTGCA-GTTAGTACTACACACGTGA
56424887 TCGAAGTTAA
Statistics
Matches: 222, Mismatches: 15, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
150 2 0.01
151 219 0.99
152 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGCTACACGTAGTAGC
CTGCAGTTAGTACTACACACGTGACTTAACAATCTAATACACGTAATAGCCTCCACTTAGTACTA
CACAAGTGATCGAAGTTAACG
Found at i:56424810 original size:101 final size:101
Alignment explanation
Indices: 56424499--56424987 Score: 402
Period size: 101 Copynumber: 4.9 Consensus size: 101
56424489 GCTCTCTGGT
*
56424499 ACGCATAGTAGCCTGCACTTAGTACAACACATGCGACCTATCAATCT-AGTACACGTAGTAGCCT
1 ACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGA-TACACGTAGTAGCCT
* ** * **
56424563 GCACTTAGTACTACACACGTGA-CTTAA-CCATC-TAA
65 GCACTTAGTACTACACACGTGATC-GAAGTTAACGGGA
* * * * ** * * * *
56424598 TACACGTAATAGCCTCCACTTAGTACTACACACATGATCGAAGT-T-AAT-GGGTACGCATAGTA
1 -ACGCATAGTAGCCTGCACTTAGTACT--ACACATG--CGACCTATCAATCTGATACACGTAGTA
* * * ** * * **
56424660 GCCTACACTTAGTACTACACATGCGA-CCTA-TCAATCTGCT
61 GCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CGGGA
* * * * * * * *
56424700 ACACGTAGTAGCCTGCAGTTAGTACTACACACGTGACTTAACAATCTGATACACGTAGTAGCTTG
1 ACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACGTAGTAGCCTG
* *
56424765 CACTTAGTACTACACAAGTGATCGAAGTTAACGGGT
66 CACTTAGTACTACACACGTGATCGAAGTTAACGGGA
* * * * *
56424801 ACGCATAGTAGCCTGCACTTAGAACTACATATGCGACCTCTCAATCTGCTACACGTAGTAGCCTC
1 ACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACGTAGTAGCCTG
* * *
56424866 CACGTAGTACTAAACACGTGATCGAAGTTAATGGGA
66 CACTTAGTACTACACACGTGATCGAAGTTAACGGGA
* * *
56424902 ACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAATAGCCTG
1 ACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACGTAGTAGCCTG
**
56424967 CACTTAACACTACACACGTGA
66 CACTTAGTACTACACACGTGA
56424988 CTCACAACGA
Statistics
Matches: 306, Mismatches: 71, Indels: 23
0.76 0.18 0.06
Matches are distributed among these distances:
97 3 0.01
99 9 0.03
100 56 0.18
101 220 0.72
102 13 0.04
103 1 0.00
104 4 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
ACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACGTAGTAGCCTG
CACTTAGTACTACACACGTGATCGAAGTTAACGGGA
Found at i:56424953 original size:151 final size:147
Alignment explanation
Indices: 56424496--56424982 Score: 460
Period size: 151 Copynumber: 3.2 Consensus size: 147
56424486 GAAGCTCTCT
* *
56424496 GGTACGCATAGTAGCCTGCACTTAGTACAACACATGCGACCTATCAATCTAG-TACACGTAGTAG
1 GGTACGCATAGTAGCCTGCACTTAGAACTACACATGCGACCTATCAATCT-GCTACACGTAGTAG
* * *
56424560 CCTGCACTTAGTACTACACACGTGACTTAACCATCTAAT-ACACG-TAATAGCCTCCACTTAGTA
65 CCTGCACGTAGTACTACACACGTGACTT-A--AT-TAATGACACGCTAGTAGCCTGCACTTAGTA
*
56424623 CTACACACATGATCGAAGT-TAAT-G
126 CT--ACACATG--CGACGTATAATCG
* *
56424647 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTGCTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGAACTACACATGCGACCTATCAATCTGCTACACGTAGTAGC
* *
56424712 CTGCA-GTTAGTACTACACACGTGACTTAA-CAATCTGATACACG-TAGTAGCTTGCACTTAGTA
66 CTGCACG-TAGTACTACACACGTGACTTAATTAA--TG--ACACGCTAGTAGCCTGCACTTAGTA
*
56424774 CTACACAAGTGATCGAAGT-TAA-CG
126 CTACAC-A-TG--CGACGTATAATCG
* *
56424798 GGTACGCATAGTAGCCTGCACTTAGAACTACATATGCGACCTCTCAATCTGCTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGAACTACACATGCGACCTATCAATCTGCTACACGTAGTAGC
* * * *
56424863 CTCCACGTAGTACTAAACACGTGA-TCGAAGTTAATGGGA-ACGCATAGTAGCCTGCATTTAGTA
66 CTGCACGTAGTACTACACACGTGACT-TAA-TTAAT--GACACGC-TAGTAGCCTGCACTTAGTA
* *
56424926 CTACACATGCGACCTATCAATCT
126 CTACACATGCGACGTAT-AATCG
* * *
56424949 GGTACACGTAATAGCCTGCACTTA-ACACTACACA
1 GGTACGCATAGTAGCCTGCACTTAGA-ACTACACA
56424983 CGTGACTCAC
Statistics
Matches: 290, Mismatches: 24, Indels: 44
0.81 0.07 0.12
Matches are distributed among these distances:
146 2 0.01
148 6 0.02
149 5 0.02
150 12 0.04
151 238 0.82
152 24 0.08
153 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (147 bp):
GGTACGCATAGTAGCCTGCACTTAGAACTACACATGCGACCTATCAATCTGCTACACGTAGTAGC
CTGCACGTAGTACTACACACGTGACTTAATTAATGACACGCTAGTAGCCTGCACTTAGTACTACA
CATGCGACGTATAATCG
Found at i:56427963 original size:15 final size:14
Alignment explanation
Indices: 56427938--56427997 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 14
56427928 TATAGATAAC
*
56427938 AAGAAAACCAAGATT
1 AAGAAATCCAAGA-T
*
56427953 AAGAAGTCCAAGAT
1 AAGAAATCCAAGAT
*
56427967 AGATAAATCCAAGAT
1 A-AGAAATCCAAGAT
56427982 AAGGAAATCCAAGAT
1 AA-GAAATCCAAGAT
56427997 A
1 A
56427998 CAATATCTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
14 3 0.08
15 35 0.92
ACGTcount: A:0.55, C:0.13, G:0.17, T:0.15
Consensus pattern (14 bp):
AAGAAATCCAAGAT
Found at i:56433314 original size:38 final size:38
Alignment explanation
Indices: 56433271--56433346 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
56433261 TTCATCCTTT
56433271 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
56433309 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
56433347 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:56434627 original size:40 final size:40
Alignment explanation
Indices: 56434533--56434677 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
56434523 TACTCGAATG
*
56434533 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
56434574 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
56434614 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
56434654 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
56434678 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:56442637 original size:40 final size:40
Alignment explanation
Indices: 56442543--56442687 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
56442533 TACTCGAATG
*
56442543 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
56442584 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
56442624 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
56442664 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
56442688 CTTGTACGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:56460054 original size:44 final size:44
Alignment explanation
Indices: 56459996--56460143 Score: 146
Period size: 43 Copynumber: 3.4 Consensus size: 44
56459986 AATGTGATAT
*
56459996 TCGGGCCTC-GGCCTAGCAAGCTT-TAA-GCTGGTGA-ATAATATTA
1 TCGGGCTTCGGGCCTAGCAAGCTTATAATGCTGGTGAGAT-A-A-TA
*
56460039 TCGGGCTTCGGGCCTAGC-AGGTTATAATGCTGGTGAGATAATA
1 TCGGGCTTCGGGCCTAGCAAGCTTATAATGCTGGTGAGATAATA
* ** * *
56460082 TCGGGCTTCGGGCCTAGCAGGC-TATAATGCCAGTGAAATGATA
1 TCGGGCTTCGGGCCTAGCAAGCTTATAATGCTGGTGAGATAATA
**
56460125 TCGGGCTTCAAGCCTAGCA
1 TCGGGCTTCGGGCCTAGCA
56460144 GGTGAAATGC
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
43 66 0.73
44 13 0.14
45 9 0.10
46 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (44 bp):
TCGGGCTTCGGGCCTAGCAAGCTTATAATGCTGGTGAGATAATA
Found at i:56460084 original size:43 final size:42
Alignment explanation
Indices: 56460032--56460161 Score: 163
Period size: 43 Copynumber: 3.1 Consensus size: 42
56460022 GCTGGTGAAT
* *
56460032 AATATTATCGGGCTTCGGGCCTAGCAGGTTATAATGCTGGTG
1 AATAATATCGGGCTTCGGGCCTAGCAGGTTATAATGCCGGTG
* *
56460074 AGATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTG
1 A-ATAATATCGGGCTTCGGGCCTAGCAGGTTATAATGCCGGTG
* ** *
56460117 AAATGATATCGGGCTTCAAGCCTAGCAGGTGA-AATGCCGGTG
1 -AATAATATCGGGCTTCGGGCCTAGCAGGTTATAATGCCGGTG
56460159 AAT
1 AAT
56460162 GAGTTCAGAC
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
41 3 0.04
42 10 0.13
43 62 0.82
44 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (42 bp):
AATAATATCGGGCTTCGGGCCTAGCAGGTTATAATGCCGGTG
Found at i:56472793 original size:56 final size:56
Alignment explanation
Indices: 56472707--56472826 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
56472697 ACAAGGGATG
56472707 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
56472763 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
56472819 ATGGGCAA
1 ATGGGCAA
56472827 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:56474333 original size:40 final size:39
Alignment explanation
Indices: 56474249--56474433 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 39
56474239 TCGAATGATG
* * *
56474249 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
56474288 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
*
56474329 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
*
56474368 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
* *
56474407 AACCGGGCTATGACCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
56474434 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 36 0.29
40 79 0.64
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:56474385 original size:79 final size:81
Alignment explanation
Indices: 56474249--56474433 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
56474239 TCGAATGATG
* *
56474249 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
56474313 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
56474328 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
56474390 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
56474408 ACCGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
56474434 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:56474455 original size:79 final size:79
Alignment explanation
Indices: 56474302--56474466 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
56474292 GGACTAAGAT
* **
56474302 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
56474367 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
56474381 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGACCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
56474444 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
56474460 CCGAAGG
1 CCGAAGG
56474467 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:56480959 original size:56 final size:56
Alignment explanation
Indices: 56480892--56481010 Score: 213
Period size: 56 Copynumber: 2.1 Consensus size: 56
56480882 ACAAGGGATG
*
56480892 ATGGG-AAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTATTAATGGAAAAATAAAATAAGAAGC
*
56480947 ATGGGCAAAACATGTCATGAAACATGTTGTATTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTATTAATGGAAAAATAAAATAAGAAGC
56481003 ATGGGCAA
1 ATGGGCAA
56481011 TAAACTAATA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
55 5 0.08
56 56 0.92
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTATTAATGGAAAAATAAAATAAGAAGC
Found at i:56482528 original size:39 final size:41
Alignment explanation
Indices: 56482427--56482613 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 41
56482417 TCGAATGATG
* * *
56482427 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGA-T-ACTAATA
* *
56482467 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAATA
*
56482507 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAATA
* * *
56482546 TCCGGGTTAAGTCCCGAAGGCATTTGTGTACGAGTTACT-ATA
1 TCCGGGCTAAGACCCGAAGGCATTTGTG--CGAGATACTAATA
* *
56482588 ACCGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
56482614 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 13, Indels: 14
0.82 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 46 0.37
41 12 0.10
42 33 0.26
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:56482563 original size:79 final size:82
Alignment explanation
Indices: 56482427--56482613 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 82
56482417 TCGAATGATG
* *
56482427 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
56482491 TGTG-CGAGATACTA-A
66 TGTGACGAGATACTATA
* * * **
56482506 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
56482568 TTTGTGTACGAGTTACTATA
64 TTTGTG-ACGAGATACTATA
* *
56482588 ACCGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
56482614 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 1 0.01
79 40 0.43
80 18 0.20
81 18 0.20
82 15 0.16
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (82 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGACGAGATACTATA
Found at i:56485414 original size:44 final size:42
Alignment explanation
Indices: 56485365--56485469 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 42
56485355 TGTGATATCG
* * *
56485365 TGTAAGACCACGTCTGGGATGTTGGCATCGATTTGTGATTTACA
1 TGTAAGACCACGTCTGGGATATTGGCATCG-TATATGATTT-CA
* * *
56485409 TGTAAGACCATGTCTAGGATATTGGCATCGTATATGATTTCG
1 TGTAAGACCACGTCTGGGATATTGGCATCGTATATGATTTCA
56485451 TGTAAGACC-CTGTCTGGGA
1 TGTAAGACCAC-GTCTGGGA
56485470 CAGTGGCTAC
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
42 17 0.33
43 8 0.15
44 27 0.52
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGATATTGGCATCGTATATGATTTCA
Found at i:56488675 original size:27 final size:27
Alignment explanation
Indices: 56488609--56488726 Score: 82
Period size: 27 Copynumber: 4.4 Consensus size: 27
56488599 CGTATAATAG
* *
56488609 AATGAAAGCCCTTGTGGAAATCTATGA
1 AATGGAAGCCTTTGTGGAAATCTATGA
* * *
56488636 AATGGATGTCTTTGTGGCAATCTATGA
1 AATGGAAGCCTTTGTGGAAATCTATGA
* * **
56488663 AATTGAAGCCTTTTTGGTGTAT-T-TGA
1 AATGGAAGCCTTTGTGG-AAATCTATGA
* * *
56488689 AAAGGAAGCCTTTGTGGCATAT-T-CGA
1 AATGGAAGCCTTTGTGG-AAATCTATGA
56488715 AATGGAAGCCTT
1 AATGGAAGCCTT
56488727 CATGGAAACT
Statistics
Matches: 72, Mismatches: 18, Indels: 3
0.77 0.19 0.03
Matches are distributed among these distances:
26 34 0.47
27 36 0.50
28 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.33
Consensus pattern (27 bp):
AATGGAAGCCTTTGTGGAAATCTATGA
Found at i:56488696 original size:26 final size:26
Alignment explanation
Indices: 56488667--56488726 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
56488657 CTATGAAATT
* ** *
56488667 GAAGCCTTTTTGGTGTATTTGAAAAG
1 GAAGCCTTTGTGGCATATTCGAAAAG
*
56488693 GAAGCCTTTGTGGCATATTCGAAATG
1 GAAGCCTTTGTGGCATATTCGAAAAG
56488719 GAAGCCTT
1 GAAGCCTT
56488727 CATGGAAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (26 bp):
GAAGCCTTTGTGGCATATTCGAAAAG
Found at i:56492039 original size:20 final size:21
Alignment explanation
Indices: 56492003--56492050 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
56491993 ATTTTGATAT
*
56492003 ACATGATTTGATATGATATGC
1 ACATGATATGATATGATATGC
56492024 ACATGATATG-TATGATATGC
1 ACATGATATGATATGATATGC
56492044 ACATGAT
1 ACATGAT
56492051 GTATTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (21 bp):
ACATGATATGATATGATATGC
Found at i:56492175 original size:24 final size:25
Alignment explanation
Indices: 56492098--56492192 Score: 165
Period size: 25 Copynumber: 3.8 Consensus size: 25
56492088 GAGGAAGTGC
56492098 AAAAGGGCTTTGCCCCAGTTTACCGA
1 AAAAGGGCTTTGCCCCAGTTTACC-A
56492124 AAAA-GGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
56492148 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
56492173 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
56492193 ATTAAAAGAG
Statistics
Matches: 67, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
24 5 0.07
25 58 0.87
26 4 0.06
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:56492205 original size:24 final size:24
Alignment explanation
Indices: 56492097--56492205 Score: 139
Period size: 25 Copynumber: 4.4 Consensus size: 24
56492087 GGAGGAAGTG
* *
56492097 CAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAAGGCTTTGCCCCAGTTTAT
*
56492121 CGAAAAAGGCTTTGCCCCAGTTTAC
1 C-AAAAAGGCTTTGCCCCAGTTTAT
56492146 CAAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAA-GGCTTTGCCCCAGTTTAT
56492171 CAAAAAGGGCTTTGCCCCAG-TTAT
1 CAAAAA-GGCTTTGCCCCAGTTTAT
*
56492195 TAAAAGAGGCT
1 CAAAA-AGGCT
56492206 AGGCCTCCAG
Statistics
Matches: 79, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
24 18 0.23
25 61 0.77
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (24 bp):
CAAAAAGGCTTTGCCCCAGTTTAT
Found at i:56492475 original size:30 final size:32
Alignment explanation
Indices: 56492439--56492503 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 32
56492429 TGATATGAGT
56492439 TGTGAATTAT-AAAAGGCTTCGGCCCAGTA-A
1 TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
* *
56492469 TGTGAATTATGAAGAGGCTTTGGCCCAGTATA
1 TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
56492501 TGT
1 TGT
56492504 TGAGATTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 10 0.32
31 17 0.55
32 4 0.13
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (32 bp):
TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
Found at i:56507699 original size:46 final size:45
Alignment explanation
Indices: 56507649--56507824 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
56507639 TGTTTGGGCA
56507649 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
56507695 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
56507742 TCCGAGCTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
56507788 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56507825 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.63
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:56507804 original size:93 final size:93
Alignment explanation
Indices: 56507645--56507816 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
56507635 AGGATGTTTG
* *
56507645 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
56507710 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
56507738 GGCATCCGAGCTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
56507803 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
56507817 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:56510775 original size:15 final size:15
Alignment explanation
Indices: 56510755--56510823 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
56510745 GTATCTTGGG
56510755 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
56510770 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
56510785 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
56510800 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
56510815 TTTCTTTAT
1 TTTCTTTAT
56510824 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:56510824 original size:30 final size:30
Alignment explanation
Indices: 56510746--56510833 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
56510736 TATCGTATCG
* * * *
56510746 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
56510776 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
56510806 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
56510834 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:56513279 original size:46 final size:46
Alignment explanation
Indices: 56513226--56513401 Score: 155
Period size: 46 Copynumber: 3.8 Consensus size: 46
56513216 TGTTTGGGCA
56513226 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
56513272 TCTGAACTCGTTGAGTTGAGTCTGAGTT---TGA-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
** ** * *
56513317 CATCCGTGCTCGTTGAGTTGAGTTTGATTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
56513365 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56513402 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.07
45 1 0.01
46 58 0.57
47 23 0.23
48 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56513381 original size:93 final size:93
Alignment explanation
Indices: 56513222--56513392 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
56513212 AGGATGTTTG
* * *
56513222 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
56513287 TTGAGTCTGAGTTTGAGAGATGTAACTA
66 TTGAGTCCGAGTTTGAGAGATGTAACTA
** ** * *
56513315 GGCATCCGTGCTCGTTGAGTTGAGTTTGATTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
56513380 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
56513393 CACTTATGGG
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTTGAGAGATGTAACTA
Found at i:56523388 original size:44 final size:44
Alignment explanation
Indices: 56523326--56523409 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
56523316 TATGGGGCAA
*
56523326 CCGAGCTCATTGAATTGGTCCGAGTT-TATTATGGATGCGAGCAT
1 CCGAGCTCATTGAATTGGTCCAAGTTCT-TTATGGATGCGAGCAT
* *
56523370 CCGAGCTCGTTGAGTTGGTCCAAGTTCTTTATGGATGCGA
1 CCGAGCTCATTGAATTGGTCCAAGTTCTTTATGGATGCGA
56523410 TACATGTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 35 0.97
45 1 0.03
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (44 bp):
CCGAGCTCATTGAATTGGTCCAAGTTCTTTATGGATGCGAGCAT
Found at i:56530692 original size:27 final size:27
Alignment explanation
Indices: 56530619--56530956 Score: 435
Period size: 27 Copynumber: 12.6 Consensus size: 27
56530609 CCGAAATATA
* *
56530619 TGTAGGCTAGCATTACTGAAATACCCC
1 TGTAGGGTAGAATTACTGAAATACCCC
* *
56530646 TGTA-GGTAGAATTACCGAAATACTCC
1 TGTAGGGTAGAATTACTGAAATACCCC
* *
56530672 TATAGGGTAAAATTACTGAAATACCCC
1 TGTAGGGTAGAATTACTGAAATACCCC
* *
56530699 TGTAAGGTAGAATTATTGAAATACCCC
1 TGTAGGGTAGAATTACTGAAATACCCC
* *
56530726 TGTAAGGTAGAATTACCGAAATACCCC
1 TGTAGGGTAGAATTACTGAAATACCCC
* * *
56530753 TGTAAGGTAGAATTACTAAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCC
* * *
56530780 TGTAAGATAGAATTACCGAAATACCCC
1 TGTAGGGTAGAATTACTGAAATACCCC
* *
56530807 TGTAGGGTAGAATTACTAAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCC
* *
56530834 TGTAAGGTAGAATTACCGAAATACCCC
1 TGTAGGGTAGAATTACTGAAATACCCC
* *
56530861 TATAGGGTAGAATTATTGAAATACCCC
1 TGTAGGGTAGAATTACTGAAATACCCC
** *
56530888 TGTAGGGTAGAATTACCAAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCC
*
56530915 TGTAGGGTAGAAATACTGAAATACCCC
1 TGTAGGGTAGAATTACTGAAATACCCC
56530942 TGTAGGGTAGAATTA
1 TGTAGGGTAGAATTA
56530957 TCGAGATACC
Statistics
Matches: 266, Mismatches: 44, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 21 0.08
27 245 0.92
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
TGTAGGGTAGAATTACTGAAATACCCC
Found at i:56530965 original size:27 final size:27
Alignment explanation
Indices: 56530603--56530985 Score: 423
Period size: 27 Copynumber: 14.3 Consensus size: 27
56530593 ACTTCGGGCC
** *
56530603 GAATTACCGAAATA--TATGTAGGCTA
1 GAATTACCGAAATACCCCTGTAGGGTA
* *
56530628 GCATTACTGAAATACCCCTGTA-GGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
* *
56530654 GAATTACCGAAATACTCCTATAGGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
* * *
56530681 AAATTACTGAAATACCCCTGTAAGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
** *
56530708 GAATTATTGAAATACCCCTGTAAGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
*
56530735 GAATTACCGAAATACCCCTGTAAGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
** * * *
56530762 GAATTACTAAAATACCCTTGTAAGATA
1 GAATTACCGAAATACCCCTGTAGGGTA
56530789 GAATTACCGAAATACCCCTGTAGGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
** * *
56530816 GAATTACTAAAATACCCTTGTAAGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
*
56530843 GAATTACCGAAATACCCCTATAGGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
**
56530870 GAATTATTGAAATACCCCTGTAGGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
* *
56530897 GAATTACCAAAATACCCTTGTAGGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
* *
56530924 GAAATACTGAAATACCCCTGTAGGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
* * *
56530951 GAATTATCGAGATA-CCCTCGTGGGGTA
1 GAATTACCGAAATACCCCT-GTAGGGTA
*
56530978 AAATTACC
1 GAATTACC
56530986 ATTTTGCCTC
Statistics
Matches: 300, Mismatches: 54, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
25 12 0.04
26 25 0.08
27 263 0.88
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
GAATTACCGAAATACCCCTGTAGGGTA
Found at i:56531364 original size:22 final size:22
Alignment explanation
Indices: 56531332--56531390 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
56531322 CTCGTTATCG
*
56531332 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * *
56531354 ATGGCTTTGTGCCATCCTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
56531376 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
56531391 ACGTATTTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:56531578 original size:27 final size:26
Alignment explanation
Indices: 56531548--56531655 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 26
56531538 ATTTTGTTAA
* *
56531548 GTGGCTTTGCCACATTATCTGATTCTG
1 GTGGCTATGCCACAATATCTG-TTCTG
56531575 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTATGCCAC-AATATCTGTTCTG
* * *
56531602 ATGGCTCTGCCACAATATCTGTATCTA
1 GTGGCTATGCCACAATATCTGT-TCTG
* * *
56531629 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTATGCCACAATATCTGTTCTG
56531655 G
1 G
56531656 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 13 0.19
27 50 0.71
28 7 0.10
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCTGTTCTG
Found at i:56531607 original size:54 final size:53
Alignment explanation
Indices: 56531549--56531654 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 53
56531539 TTTTGTTAAG
* * * *
56531549 TGGCTTTGCCACATTATCTG-ATTCTGGTGGCTATGCCACAAATATCTGTTCTGA
1 TGGCTCTGCCACAATATCTGTA-TCTAGTGACTATGCCAC-AATATCTGTTCTGA
* *
56531603 TGGCTCTGCCACAATATCTGTATCTAGTGACTCTGTCACAATATCTGTTCTG
1 TGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCACAATATCTGTTCTG
56531655 GCAGCCATGC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
53 13 0.29
54 31 0.69
55 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.37
Consensus pattern (53 bp):
TGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCACAATATCTGTTCTGA
Found at i:56538361 original size:12 final size:12
Alignment explanation
Indices: 56538346--56538371 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
56538336 TGCTAGGTCG
56538346 TGTGCTAGGCTA
1 TGTGCTAGGCTA
56538358 TGTGCTAGGCTA
1 TGTGCTAGGCTA
56538370 TG
1 TG
56538372 CCAGAACTGT
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:0.15, C:0.15, G:0.35, T:0.35
Consensus pattern (12 bp):
TGTGCTAGGCTA
Found at i:56539517 original size:40 final size:40
Alignment explanation
Indices: 56539471--56539568 Score: 171
Period size: 40 Copynumber: 2.5 Consensus size: 40
56539461 ACTATCTCAA
56539471 ATCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCG-
1 ATCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGT
*
56539510 ATCCGCACAATAAGTGCCATATATAGCCGAAGCTATGTCGT
1 AT-CGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGT
56539551 ATCGCACACTAAGTGCCA
1 ATCGCACACTAAGTGCCA
56539569 CAAATAACCC
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
39 2 0.04
40 51 0.93
41 2 0.04
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (40 bp):
ATCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGT
Found at i:56547965 original size:26 final size:26
Alignment explanation
Indices: 56547934--56548002 Score: 138
Period size: 26 Copynumber: 2.7 Consensus size: 26
56547924 CATTCTGACC
56547934 CACAACTCGTGTGAGCAGGCCCATTT
1 CACAACTCGTGTGAGCAGGCCCATTT
56547960 CACAACTCGTGTGAGCAGGCCCATTT
1 CACAACTCGTGTGAGCAGGCCCATTT
56547986 CACAACTCGTGTGAGCA
1 CACAACTCGTGTGAGCA
56548003 TTGATGTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (26 bp):
CACAACTCGTGTGAGCAGGCCCATTT
Found at i:56551840 original size:29 final size:28
Alignment explanation
Indices: 56551809--56552166 Score: 241
Period size: 29 Copynumber: 12.6 Consensus size: 28
56551799 GACTGTCGAC
* *
56551809 TATGAAAAGGGATAGTGACGACCATCAA
1 TATGAAAAGGGATGGTGATGACCATCAA
*
56551837 CTATGAAAAGGGATGGT-AT---C--GAA
1 -TATGAAAAGGGATGGTGATGACCATCAA
** **
56551860 TATGAAAAGGGATAATTTTGACCATCAA
1 TATGAAAAGGGATGGTGATGACCATCAA
* ***
56551888 TTATGAAAAGGGATGATGGCAACCATCAA
1 -TATGAAAAGGGATGGTGATGACCATCAA
*
56551917 CTATGAAAAGGGATGGTGATGACCATTGAA
1 -TATGAAAAGGGATGGTGATGACCA-TCAA
*
56551947 TATGAAAAGGGATGGTGACGACGACCATCAA
1 TATGAAAAGGGATGGT---GATGACCATCAA
* *
56551978 CTATGAAAAGGGATGGTGACGACTATCGAA
1 -TATGAAAAGGGATGGTGATGACCATC-AA
* ** * ** *
56552008 TATGAAAAGGGATAGTTTTAATTATTGAA
1 TATGAAAAGGGATGGTGATGACCA-TCAA
**
56552037 TATGAAAAGGGATTTTGATGACCATCAA
1 TATGAAAAGGGATGGTGATGACCATCAA
* * *
56552065 CTATGAAAAGGGACGGTGATGACCAATGAT
1 -TATGAAAAGGGATGGTGATGACC-ATCAA
* *
56552095 TAATGAAAAGGAATGGT-TTCGACCATCAAA
1 T-ATGAAAAGGGATGGTGAT-GACCATC-AA
56552125 TATGAAAAGGGAT-G-G-TGACCATCGAA
1 TATGAAAAGGGATGGTGATGACCATC-AA
56552151 TATGAAAAGGGATGGT
1 TATGAAAAGGGATGGT
56552167 TTCGACCATT
Statistics
Matches: 259, Mismatches: 48, Indels: 45
0.74 0.14 0.13
Matches are distributed among these distances:
22 14 0.05
23 3 0.01
25 1 0.00
26 23 0.09
27 2 0.01
28 7 0.03
29 155 0.60
30 28 0.11
31 3 0.01
32 23 0.09
ACGTcount: A:0.40, C:0.11, G:0.26, T:0.23
Consensus pattern (28 bp):
TATGAAAAGGGATGGTGATGACCATCAA
Found at i:56551885 original size:51 final size:51
Alignment explanation
Indices: 56551804--56551902 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
56551794 GTTTCGACTG
* *
56551804 TCGACTATGAAAAGGGATAGTGACGACCATCAACTATGAAAAGGGATGGTA
1 TCGAATATGAAAAGGGATAATGACGACCATCAACTATGAAAAGGGATGGTA
*** *
56551855 TCGAATATGAAAAGGGATAATTTTGACCATCAATTATGAAAAGGGATG
1 TCGAATATGAAAAGGGATAATGACGACCATCAACTATGAAAAGGGATG
56551903 ATGGCAACCA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.23
Consensus pattern (51 bp):
TCGAATATGAAAAGGGATAATGACGACCATCAACTATGAAAAGGGATGGTA
Found at i:56552012 original size:90 final size:89
Alignment explanation
Indices: 56551879--56552143 Score: 261
Period size: 90 Copynumber: 3.0 Consensus size: 89
56551869 GGATAATTTT
* * * * * *
56551879 GACCATCAATTATGAAAAGGGATGATGGCAACCATC-AACTATGAAAAGGGATGGTGATGACCAT
1 GACCATCAACTATGAAAAGGGATGGTGACGACAATCGAA-TATGAAAAGGGATGGT-TTGACCAT
56551943 TGAATATGAAAAGGGATGGTGACGAC
64 TGAATATGAAAAGGGATGGTGACGAC
* * * **
56551969 GACCATCAACTATGAAAAGGGATGGTGACGACTATCGAATATGAAAAGGGATAGTTTTAATTATT
1 GACCATCAACTATGAAAAGGGATGGTGACGACAATCGAATATGAAAAGGGAT-GGTTTGACCATT
** *
56552034 GAATATGAAAAGGGAT--T-TTGAT
65 GAATATGAAAAGGGATGGTGACGAC
* * * *
56552056 GACCATCAACTATGAAAAGGGACGGTGATGACCAAT-GATTAATGAAAAGGAATGGTTTCGACCA
1 GACCATCAACTATGAAAAGGGATGGTGACGA-CAATCGAAT-ATGAAAAGGGATGGTTT-GACCA
**
56552120 TCAAATATGAAAAGGGATGGTGAC
63 TTGAATATGAAAAGGGATGGTGAC
56552144 CATCGAATAT
Statistics
Matches: 141, Mismatches: 26, Indels: 15
0.77 0.14 0.08
Matches are distributed among these distances:
87 38 0.27
88 33 0.23
90 66 0.47
91 4 0.03
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (89 bp):
GACCATCAACTATGAAAAGGGATGGTGACGACAATCGAATATGAAAAGGGATGGTTTGACCATTG
AATATGAAAAGGGATGGTGACGAC
Found at i:56552061 original size:148 final size:144
Alignment explanation
Indices: 56551809--56552168 Score: 432
Period size: 148 Copynumber: 2.5 Consensus size: 144
56551799 GACTGTCGAC
*
56551809 TATGAAAAGGGATAGTGACGACCATCAACTATGAAAAGGGA---TG--G-TATCGAATATGAAAA
1 TATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACGCTATCGAATATGAAAA
* * * *
56551868 GGGATAATTTTGACCATCAATTATGAAAAGGGATGATGGCAACCATCAACTATGAAAAGGGATGG
66 GGGATAGTTTTAACCATCAATTATGAAAAGGGATGATGACAACCATCAACTATGAAAAGGGACGG
*
56551933 TGATGACCATTGAA
131 TGATGACCAATGAA
56551947 TATGAAAAGGGATGGTGACGACGACCATCAACTATGAAAAGGGATGGTGACGACTATCGAATATG
1 TATGAAAAGGGATGGT---GACGACCATCAACTATGAAAAGGGATGGTGACG-CTATCGAATATG
** * ** **
56552012 AAAAGGGATAGTTTTAATTATTGAA-TATGAAAAGGGATTTTGATGACCATCAACTATGAAAAGG
62 AAAAGGGATAGTTTTAACCA-TCAATTATGAAAAGGGATGATGACAACCATCAACTATGAAAAGG
*
56552076 GACGGTGATGACCAATGAT
126 GACGGTGATGACCAATGAA
* ** *
56552095 TAATGAAAAGGAATGGTTTCGACCATCAAATATGAAAAGGGATGGTGAC-C-ATCGAATATGAAA
1 T-ATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACGCTATCGAATATGAAA
*
56552158 AGGGATGGTTT
65 AGGGATAGTTT
56552169 CGACCATTGA
Statistics
Matches: 191, Mismatches: 19, Indels: 19
0.83 0.08 0.08
Matches are distributed among these distances:
138 15 0.08
141 25 0.13
143 23 0.12
144 3 0.02
146 30 0.16
148 78 0.41
149 17 0.09
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (144 bp):
TATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACGCTATCGAATATGAAAA
GGGATAGTTTTAACCATCAATTATGAAAAGGGATGATGACAACCATCAACTATGAAAAGGGACGG
TGATGACCAATGAA
Found at i:56552174 original size:85 final size:85
Alignment explanation
Indices: 56551969--56552206 Score: 227
Period size: 85 Copynumber: 2.8 Consensus size: 85
56551959 TGGTGACGAC
* * * * * **
56551969 GACCATCAACTATGAAAAGGGATGGTGACGA-CTATCGAATAT-GAAAAGGGATAGTTTTAATTA
1 GACCATCAACTATGAAAAGGGACGGTGATGACCAAT-GAATATGGAAAA-GGATGGTTTCAACCA
**
56552032 TTGAATATGAAAAGGGATTTTGAT
64 TCAAATATGAAAAGGGA--TTGAT
* *
56552056 GACCATCAACTATGAAAAGGGACGGTGATGACCAATGATTAAT-GAAAAGGAATGGTTTCGACCA
1 GACCATCAACTATGAAAAGGGACGGTGATGACCAATGAAT-ATGGAAAAGG-ATGGTTTCAACCA
*
56552120 TCAAATATGAAAAGGGA-TGGT
64 TCAAATATGAAAAGGGATTGAT
* * *
56552141 GACCATCGAA-TATGAAAAGGGATGGT-TTCGACCATTGAATATGGAAAAGGATGGTTTCAACCA
1 GACCATC-AACTATGAAAAGGGACGGTGAT-GACCAATGAATATGGAAAAGGATGGTTTCAACCA
56552204 TCA
64 TCA
56552207 TTTAGCACAC
Statistics
Matches: 128, Mismatches: 17, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
84 18 0.14
85 41 0.32
86 2 0.02
87 34 0.27
88 33 0.26
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.25
Consensus pattern (85 bp):
GACCATCAACTATGAAAAGGGACGGTGATGACCAATGAATATGGAAAAGGATGGTTTCAACCATC
AAATATGAAAAGGGATTGAT
Found at i:56552183 original size:29 final size:29
Alignment explanation
Indices: 56551857--56552204 Score: 198
Period size: 29 Copynumber: 12.0 Consensus size: 29
56551847 GGATGGTATC
** *
56551857 GAATATGAAAAGGGATAATTTTGACCA-T
1 GAATATGAAAAGGGATGGTTTCGACCATT
* * ** *
56551885 CAATTATGAAAAGGGATGATGGCAACCA-T
1 GAA-TATGAAAAGGGATGGTTTCGACCATT
* *
56551914 CAACTATGAAAAGGGATGGTGAT-GACCATT
1 GAA-TATGAAAAGGGATGGT-TTCGACCATT
**
56551944 GAATATGAAAAGGGATGGTGACGACGACCA-T
1 GAATATGAAAAGGGATGGT---TTCGACCATT
* ** * *
56551975 CAACTATGAAAAGGGATGGTGACGACTATC
1 GAA-TATGAAAAGGGATGGTTTCGACCATT
* ** **
56552005 GAATATGAAAAGGGATAGTTTTAATTATT
1 GAATATGAAAAGGGATGGTTTCGACCATT
*
56552034 GAATATGAAAAGGGAT--TTTGATGACCA-T
1 GAATATGAAAAGGGATGGTTT--CGACCATT
* * * *
56552062 CAACTATGAAAAGGGACGGTGAT-GACCAAT
1 GAA-TATGAAAAGGGATGGT-TTCGACCATT
* * *
56552092 GATTAATGAAAAGGAATGGTTTCGACCATC
1 GAAT-ATGAAAAGGGATGGTTTCGACCATT
* *
56552122 AAATATGAAAAGGGATGG--T-GACCATC
1 GAATATGAAAAGGGATGGTTTCGACCATT
56552148 GAATATGAAAAGGGATGGTTTCGACCATT
1 GAATATGAAAAGGGATGGTTTCGACCATT
*
56552177 GAATATGGAAAA-GGATGGTTTCAACCAT
1 GAATAT-GAAAAGGGATGGTTTCGACCAT
56552205 CATTTAGCAC
Statistics
Matches: 254, Mismatches: 45, Indels: 41
0.75 0.13 0.12
Matches are distributed among these distances:
26 24 0.09
27 4 0.02
28 6 0.02
29 162 0.64
30 32 0.13
31 4 0.02
32 22 0.09
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (29 bp):
GAATATGAAAAGGGATGGTTTCGACCATT
Found at i:56555115 original size:17 final size:18
Alignment explanation
Indices: 56555081--56555116 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
56555071 TGAATTTCTA
56555081 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
56555099 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
56555116 T
1 T
56555117 AACTCATCTA
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:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:56563601 original size:12 final size:12
Alignment explanation
Indices: 56563584--56563608 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56563574 AACTCCCTAG
56563584 ATCTATAACACA
1 ATCTATAACACA
56563596 ATCTATAACACA
1 ATCTATAACACA
56563608 A
1 A
56563609 GGAAACAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (12 bp):
ATCTATAACACA
Found at i:56564159 original size:39 final size:39
Alignment explanation
Indices: 56564133--56564290 Score: 244
Period size: 39 Copynumber: 4.1 Consensus size: 39
56564123 GTCCAGCACG
* *
56564133 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTTGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
* *
56564172 TAGCCTGCGGACATGAAGTCCGAATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
* *
56564211 TAGCCTGCAGACCTGAAGTCCGGATATAATTCTCGCTTA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
* *
56564250 TAGCCTGCGGACTTGAAGTCCGGATATAATTCTCGCGTA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
56564289 TA
1 TA
56564291 TATATTCACA
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 108 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (39 bp):
TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
Found at i:56567455 original size:37 final size:37
Alignment explanation
Indices: 56567405--56567554 Score: 255
Period size: 37 Copynumber: 4.1 Consensus size: 37
56567395 GGAAATATAT
56567405 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
56567442 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
56567479 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
56567516 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
56567553 TC
1 TC
56567555 TGAGCTAAAG
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 108 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:56576407 original size:39 final size:39
Alignment explanation
Indices: 56576262--56576419 Score: 217
Period size: 39 Copynumber: 4.1 Consensus size: 39
56576252 GTCCAGCACG
*
56576262 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
* * *
56576301 TAGCCTGTGGACATGAAGTCCGGATATAATTCTCGCCTA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
* * * *
56576340 TAGCCTGCAGACTTGAAGTCCAGATATAATTCTCGCTTA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
* * *
56576379 TGGCCTGCGGACCTGAAGTCCGGATATAACTCTCGCGTA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
56576418 TA
1 TA
56576420 TATGTTCACA
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 103 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (39 bp):
TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
Found at i:56578802 original size:39 final size:39
Alignment explanation
Indices: 56578750--56578907 Score: 255
Period size: 39 Copynumber: 4.1 Consensus size: 39
56578740 TTATGTTACT
56578750 AGCAC-AAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAA-CCTGCGGGACTTTAGCCCGGATACATTTCC
*
56578789 AGCACGAAACCTGCGGGACTTTAGGCCGGATACATTTCC
1 AGCACGAAACCTGCGGGACTTTAGCCCGGATACATTTCC
*
56578828 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAACCTGCGGGACTTTAGCCCGGATACATTTCC
* * *
56578867 AGCGCGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCC
1 AGCACGAAACCTGCGGGACTTTAGCCCGGATACATTTCC
56578906 AG
1 AG
56578908 TGTCTTGCTT
Statistics
Matches: 113, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
39 110 0.97
40 3 0.03
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (39 bp):
AGCACGAAACCTGCGGGACTTTAGCCCGGATACATTTCC
Found at i:56585523 original size:39 final size:39
Alignment explanation
Indices: 56585479--56585560 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
56585469 AATTATGTTA
*
56585479 CCAGCACAAAGCCTGCGGGACTTTACCTCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTACCCCGGATACATTT
* *
56585518 CCAGCACGAAGCCTGCGGGTCTTTACCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTACCCCGGATACATTT
56585557 CCAG
1 CCAG
56585561 TGTCTTGCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (39 bp):
CCAGCACAAAGCCTGCGGGACTTTACCCCGGATACATTT
Found at i:56592131 original size:39 final size:39
Alignment explanation
Indices: 56592073--56592193 Score: 197
Period size: 39 Copynumber: 3.1 Consensus size: 39
56592063 AATTATGTTA
* *
56592073 CCAGCACAAAGCCTACGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
56592112 CCAGCACGAAGCCTGCGGGACTTTACCCCGGATACGTTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
56592151 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
56592190 CCAG
1 CCAG
56592194 TGTCTTGCTT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.23, C:0.32, G:0.24, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:56597643 original size:38 final size:39
Alignment explanation
Indices: 56597571--56597704 Score: 98
Period size: 38 Copynumber: 3.5 Consensus size: 39
56597561 ACCAGTTTGG
* ** *
56597571 CACCCAGTGCCTCATCGAA--TAGTTTGAAGCAAAGTTGA
1 CACCCAGTGTCTCATCGAACCTAG-CCGAAGTAAAGTTGA
* *
56597609 CACCCAGTGTCTCATCG-GCCTAGCCGAAGTAAAG-TGG
1 CACCCAGTGTCTCATCGAACCTAGCCGAAGTAAAGTTGA
* * * * *
56597646 TACCCAGTATCTCATCGAATCTATCCGAAGTAAAATAGTGA
1 CACCCAGTGTCTCATCGAACCTAGCCGAAGTAAAGT--TGA
56597687 CACCCTA-TGTCTCATCGA
1 CACCC-AGTGTCTCATCGA
56597705 CTCGAGGTCG
Statistics
Matches: 74, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
37 17 0.23
38 37 0.50
39 3 0.04
41 16 0.22
42 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (39 bp):
CACCCAGTGTCTCATCGAACCTAGCCGAAGTAAAGTTGA
Found at i:56598363 original size:17 final size:18
Alignment explanation
Indices: 56598329--56598364 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
56598319 TGAATTTCTA
56598329 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
56598347 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
56598364 T
1 T
56598365 AACTCATCTA
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:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:56600907 original size:40 final size:40
Alignment explanation
Indices: 56600852--56600964 Score: 163
Period size: 40 Copynumber: 2.8 Consensus size: 40
56600842 CTCACAAGAT
* *
56600852 GTAACTACTTGGGCTGCTCACACAAGCTGATAGTCAGGAC
1 GTAACTACTTGGGCTGCTCACACAAGCTGACAGTCAGAAC
*
56600892 GTAACTACTTGGGCTGCTTACACAAGCTGACAGTCAGAAC
1 GTAACTACTTGGGCTGCTCACACAAGCTGACAGTCAGAAC
* ** *
56600932 GTAACTACTCGGGCTGCTTGCACAAGTTGACAG
1 GTAACTACTTGGGCTGCTCACACAAGCTGACAG
56600965 GTACTCGCAA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (40 bp):
GTAACTACTTGGGCTGCTCACACAAGCTGACAGTCAGAAC
Found at i:56605621 original size:17 final size:17
Alignment explanation
Indices: 56605599--56605634 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
56605589 ATAAAAATCT
*
56605599 CTATGTTACGCCCCACA
1 CTATGTTACCCCCCACA
56605616 CTATGTTACCCCCCACA
1 CTATGTTACCCCCCACA
56605633 CT
1 CT
56605635 TTTGATAACA
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:0.22, C:0.44, G:0.08, T:0.25
Consensus pattern (17 bp):
CTATGTTACCCCCCACA
Found at i:56605969 original size:15 final size:15
Alignment explanation
Indices: 56605946--56605986 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
56605936 TCTCCTCTTC
*
56605946 TTCTGCCTCTTCACT
1 TTCTTCCTCTTCACT
*
56605961 TTCTTCCTCTTCATT
1 TTCTTCCTCTTCACT
*
56605976 TTCCTCCTCTT
1 TTCTTCCTCTT
56605987 TTTCTTCTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.05, C:0.39, G:0.02, T:0.54
Consensus pattern (15 bp):
TTCTTCCTCTTCACT
Found at i:56613302 original size:27 final size:27
Alignment explanation
Indices: 56613272--56613422 Score: 97
Period size: 27 Copynumber: 5.6 Consensus size: 27
56613262 ATATTGAGCC
* * *
56613272 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
56613299 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
56613326 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
56613354 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
56613381 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
56613408 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56613423 GTACAATTTA
Statistics
Matches: 101, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
27 79 0.78
28 22 0.22
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:56621207 original size:28 final size:27
Alignment explanation
Indices: 56621114--56621263 Score: 122
Period size: 27 Copynumber: 5.5 Consensus size: 27
56621104 ATATTGAGCC
* * * *
56621114 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCCACATAATCAACT
* *
56621141 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACATAATCAACT
* * *
56621168 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCCACATAATCA-ACT
* ** *
56621196 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACATAATCAACT
* * **
56621223 CGCACGCTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CATAATCAACT
56621250 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56621264 TGTACAATTT
Statistics
Matches: 98, Mismatches: 22, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
26 1 0.01
27 75 0.77
28 22 0.22
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCCACATAATCAACT
Found at i:56626885 original size:15 final size:15
Alignment explanation
Indices: 56626865--56626919 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
56626855 TTAATTGACA
56626865 TTTTTCTTCATAAAC
1 TTTTTCTTCATAAAC
56626880 TTTTTCTTCAGT---C
1 TTTTTCTTCA-TAAAC
***
56626893 CCATTCTTCATAAAC
1 TTTTTCTTCATAAAC
56626908 TTTTTCTTCATA
1 TTTTTCTTCATA
56626920 GATTTCAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
12 1 0.03
13 8 0.27
15 20 0.67
16 1 0.03
ACGTcount: A:0.22, C:0.24, G:0.02, T:0.53
Consensus pattern (15 bp):
TTTTTCTTCATAAAC
Found at i:56628102 original size:48 final size:48
Alignment explanation
Indices: 56628031--56628130 Score: 182
Period size: 48 Copynumber: 2.1 Consensus size: 48
56628021 GCGTCATTAA
*
56628031 GGTTGCAAGGGATCCTGGGTTCAAGTCTTGGCTCTTACAATTTATTTT
1 GGTTGCAAGGGAGCCTGGGTTCAAGTCTTGGCTCTTACAATTTATTTT
*
56628079 GGTTGCAAGGGAGCTTGGGTTCAAGTCTTGGCTCTTACAATTTATTTT
1 GGTTGCAAGGGAGCCTGGGTTCAAGTCTTGGCTCTTACAATTTATTTT
56628127 GGTT
1 GGTT
56628131 TTACTTTTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.18, C:0.15, G:0.27, T:0.40
Consensus pattern (48 bp):
GGTTGCAAGGGAGCCTGGGTTCAAGTCTTGGCTCTTACAATTTATTTT
Found at i:56628718 original size:28 final size:28
Alignment explanation
Indices: 56628678--56628741 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
56628668 TGGGAAGTAG
*
56628678 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGAGA
*
56628706 TTGGGCCTGATGGGCCATGTGAATGAGA
1 TTGGGCCTGATGGGCCATATGAATGAGA
56628734 TTGGGCCT
1 TTGGGCCT
56628742 AAAGGGGCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.19, C:0.16, G:0.38, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGAGA
Found at i:56629162 original size:53 final size:52
Alignment explanation
Indices: 56629058--56630032 Score: 948
Period size: 53 Copynumber: 18.3 Consensus size: 52
56629048 TAATAAAGAG
* *
56629058 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
1 AAATTAC-AAAATACCCTCGA-TTGTAAAATTACTGAAATACCCTCGATTTGTA
* * *
56629112 AAATTATCAAAATACCCTCGATTGTGAAATTACTGAAATACCCCCAATTTGTA
1 AAATTA-CAAAATACCCTCGATTGTAAAATTACTGAAATACCCTCGATTTGTA
* **
56629165 AAATTATCAAAATACCCTCGATTGTAAAATTA-TCGAAATACCCTC-AATTGCG
1 AAATTA-CAAAATACCCTCGATTGTAAAATTACT-GAAATACCCTCGATTTGTA
* * ** * *
56629217 AAATTGCTGAAATACCCTTAATTTGTATAATTACAGAAATACCCTCGATTTGTA
1 AAATTAC-AAAATACCCTCGA-TTGTAAAATTACTGAAATACCCTCGATTTGTA
* *
56629271 AAATTACCAAAATACCCTCGATTTTGAAATTACTGAAATACCCTCGATTTGTA
1 AAATTA-CAAAATACCCTCGATTGTAAAATTACTGAAATACCCTCGATTTGTA
* * * *
56629324 AAATTATCGAAATACCCTCGATTGTTAAATAACTAAAATACCCTCGATTTGTA
1 AAATTA-CAAAATACCCTCGATTGTAAAATTACTGAAATACCCTCGATTTGTA
* ** *
56629377 AAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGA-TTGTG
1 AAATTA-CAAAATACCCTCGA-TTGTAAAATTACTGAAATACCCTCGATTTGTA
** * *
56629430 AAATTACTAAAATACCCTAAATTTGTAAAATTA-TCAAAATACCCTTGA-TTGTA
1 AAATTAC-AAAATACCCTCGA-TTGTAAAATTACT-GAAATACCCTCGATTTGTA
* * * *
56629483 AAATTACTGAAATACCCTCAATTGTGAAATTACTGAAATACCCTTGATTTGTA
1 AAATTAC-AAAATACCCTCGATTGTAAAATTACTGAAATACCCTCGATTTGTA
* * *
56629536 TAATTACAGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGATTTGTA
1 AAATTACA-AAATACCCTCGA-TTGTAAAATTACTGAAATACCCTCGATTTGTA
* * *
56629590 AAATTACCAAAATACCCTCGATTGTGAAATTACTAAAATACCC-CAAATTTGTA
1 AAATTA-CAAAATACCCTCGATTGTAAAATTACTGAAATACCCTC-GATTTGTA
* * *
56629643 AAATTATCAAAATACCCTTGATTGTAAAATTACTGAAATACCCTC-AATTGTG
1 AAATTA-CAAAATACCCTCGATTGTAAAATTACTGAAATACCCTCGATTTGTA
* * * * *
56629695 AAATTACTGAAATACCCTTGATTTGTATAATTACAGAAATACCTTCGATTTGTA
1 AAATTAC-AAAATACCCTCGA-TTGTAAAATTACTGAAATACCCTCGATTTGTA
* *
56629749 AAATTACCAAAATACCCTCGATTTTGAAATTACTGAAATACCCTCGATTTGTA
1 AAATTA-CAAAATACCCTCGATTGTAAAATTACTGAAATACCCTCGATTTGTA
* * * *
56629802 AAATTATCGAAATACCCTCGATTATTAAATTACTAAAATACCCTCGATTTGTA
1 AAATTA-CAAAATACCCTCGATTGTAAAATTACTGAAATACCCTCGATTTGTA
* ** * *
56629855 AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGA-TAGTG
1 AAATTAC-AAAATACCCTCGA-TTGTAAAATTACTGAAATACCCTCGATTTGTA
* * * * * *
56629908 AAATTACTGAAATACCCCCAATTTGTAAAATTA-TCAAAACACCCTTGATTTGTA
1 AAATTAC-AAAATACCCTCGA-TTGTAAAATTACT-GAAATACCCTCGATTTGTA
* * * *
56629962 AAATT-CTGAAATACCCTCAAATTGTAAAATTA-TCGAAATACCCTTG-TAGTGTA
1 AAATTAC-AAAATACCCTC-GATTGTAAAATTACT-GAAATACCCTCGAT-TTGTA
*
56630015 AAATTACTGAAATACCCT
1 AAATTAC-AAAATACCCT
56630033 TGTAGTGTAA
Statistics
Matches: 794, Mismatches: 99, Indels: 56
0.84 0.10 0.06
Matches are distributed among these distances:
51 2 0.00
52 68 0.09
53 544 0.69
54 175 0.22
55 5 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (52 bp):
AAATTACAAAATACCCTCGATTGTAAAATTACTGAAATACCCTCGATTTGTA
Found at i:56629366 original size:133 final size:132
Alignment explanation
Indices: 56629058--56630032 Score: 1055
Period size: 133 Copynumber: 7.3 Consensus size: 132
56629048 TAATAAAGAG
**
56629058 AAATTA-CTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCA-
1 AAATTATC-GAAATACCCTCGA-TTGTAAAATTACTAAAATACCCTCGATTTGT-AAATTA-CAG
* ** * * *
56629121 AAATACCCTCGA-TTGTGAAATTACTGAAATACCCCCAATTTGTAAAATTA-TCAAAATACCCTC
62 AAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTT-TAAAATTACT-GAAATACCCTC
56629184 GA-TTGTA
125 GATTTGTA
* ** * * **
56629191 AAATTATCGAAATACCCTCAATTGCGAAATTGCTGAAATACCCTTAATTTGTATAATTACAGAAA
1 AAATTATCGAAATACCCTCGATTGTAAAATTACTAAAATACCCTCGATTTGTA-AATTACAGAAA
*
56629256 TACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTTGAAATTACTGAAATACCCTCGATTT
65 TACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTTAAAATTACTGAAATACCCTCGATTT
56629321 GTA
130 GTA
* * *
56629324 AAATTATCGAAATACCCTCGATTGTTAAATAACTAAAATACCCTCGATTTGTAAAATTACCGAAA
1 AAATTATCGAAATACCCTCGATTGTAAAATTACTAAAATACCCTCGATTTGT-AAATTACAGAAA
* * * **
56629389 TACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTGTGAAATTACTAAAATACCCTAAATTT
65 TACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTTAAAATTACTGAAATACCCTCGATTT
56629454 GTA
130 GTA
* * * * *
56629457 AAATTATCAAAATACCCTTGATTGTAAAATTACTGAAATACCCTC-AATTGTGAAATTACTGAAA
1 AAATTATCGAAATACCCTCGATTGTAAAATTACTAAAATACCCTCGATTTGT-AAATTACAGAAA
* * * *
56629521 TACCCTTGATTTGTATAATTA-CAGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGAT
65 TACCCTCGATTTGTAAAATTACCA-AAATACCCTCGATTT-TAAAATTACTGAAATACCCTCGAT
56629585 TTGTA
128 TTGTA
* * * *
56629590 AAATTACCAAAATACCCTCGATTGTGAAATTACTAAAATACCC-CAAATTTGTAAAATTATCA-A
1 AAATTATCGAAATACCCTCGATTGTAAAATTACTAAAATACCCTC-GATTTGT-AAATTA-CAGA
* ** * * * *
56629653 AATACCCTTGA-TTGTAAAATTACTGAAATACCCTCAATTGTGAAATTACTGAAATACCCTTGAT
63 AATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTTAAAATTACTGAAATACCCTCGAT
56629717 TTGTA
128 TTGTA
* * * *
56629722 TAATTA-CAGAAATACCTTCGATTTGTAAAATTACCAAAATACCCTCGATTT-TGAAATTACTGA
1 AAATTATC-GAAATACCCTCGA-TTGTAAAATTACTAAAATACCCTCGATTTGT-AAATTACAGA
* * *
56629785 AATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTATT-AAATTACTAAAATACCCTCGA
63 AATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATT-TTAAAATTACTGAAATACCCTCGA
56629849 TTTGTA
127 TTTGTA
* * *
56629855 AAATTA-CTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGA-TAGTGAAATTACTGA
1 AAATTATC-GAAATACCCTCGA-TTGTAAAATTACTAAAATACCCTCGATTTGT-AAATTACAGA
* * * * * *
56629918 AATACCCCCAATTTGTAAAATTATCAAAACACCCTTGATTTGTAAAATT-CTGAAATACCCTCAA
63 AATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTT-TAAAATTACTGAAATACCCTCGA
*
56629982 ATTGTA
127 TTTGTA
* * *
56629988 AAATTATCGAAATACCCTTGTAGTGTAAAATTACTGAAATACCCT
1 AAATTATCGAAATACCCTCG-ATTGTAAAATTACTAAAATACCCT
56630033 TGTAGTGTAA
Statistics
Matches: 730, Mismatches: 88, Indels: 48
0.84 0.10 0.06
Matches are distributed among these distances:
131 7 0.01
132 174 0.24
133 514 0.70
134 34 0.05
135 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (132 bp):
AAATTATCGAAATACCCTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAATTACAGAAAT
ACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTTAAAATTACTGAAATACCCTCGATTTG
TA
Found at i:56629380 original size:186 final size:184
Alignment explanation
Indices: 56629058--56630032 Score: 1029
Period size: 186 Copynumber: 5.2 Consensus size: 184
56629048 TAATAAAGAG
* * *
56629058 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTA-TCAA
1 AAATTACAGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTT-TAAAATTACT-GA
* * *
56629122 AATACCCTCG-ATTGTGAAATTACTGAAATACCCCCAATTTGTAAAATTA-TCAAAATACCCTCG
64 AATACCCTCGAATTGTGAAATTACTGAAATACCCTCGA-TTGTTAAATTACT-AAAATACCCTCG
* * ** * **
56629185 A-TTGTAAAATTATCGAAATACCCTCAATTGCGAAATTGCTGAAATACCCTTAATTTGT
127 ATTTGTAAAATTACCGAAATACCCTCATTTGTAAAATTACTGAAATACCCTCGA-TTGT
*
56629243 ATAATTACAGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTTGAAATTACTGAA
1 A-AATTACAGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTTAAAATTACTGAA
* * *
56629308 ATACCCTCGATTTGTAAAATTA-TCGAAATACCCTCGATTGTTAAATAACTAAAATACCCTCGAT
65 ATACCCTCGAATTGTGAAATTACT-GAAATACCCTCGATTGTTAAATTACTAAAATACCCTCGAT
**
56629372 TTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTGT
129 TTGTAAAATTACCGAAATACCCTC-ATTTGTAAAATTACTGAAATACCCTCGATTGT
** * * *
56629429 GAAATTACTA-AAATACCCTAAATTTGTAAAATTATCAAAATACCCTTGATTGTAAAATTACTGA
1 -AAATTAC-AGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTTAAAATTACTGA
*
56629493 AATACCCTC-AATTGTGAAATTACTGAAATACCCTTGATT-TGTATAATTAC-AGAAATACCCTC
64 AATACCCTCGAATTGTGAAATTACTGAAATACCCTCGATTGT-TA-AATTACTA-AAATACCCTC
* **
56629555 GATTTGTAAAATTACCGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCGATTGT
126 GATTTGTAAAATTACCGAAATACCC-TCATTTGTAAAATTACTGAAATACCCTCGATTGT
* * * *
56629615 GAAATTACTA-AAATACCC-CAAATTTGTAAAATTATCAAAATACCCTTGATTGTAAAATTACTG
1 -AAATTAC-AGAAATACCCTC-GATTTGTAAAATTACCAAAATACCCTCGATTTTAAAATTACTG
* *
56629678 AAATACCCTC-AATTGTGAAATTACTGAAATACCCTTGATT-TGTATAATTAC-AGAAATACCTT
63 AAATACCCTCGAATTGTGAAATTACTGAAATACCCTCGATTGT-TA-AATTACTA-AAATACCCT
* *
56629740 CGATTTGTAAAATTACCAAAATACCCTCGATTT-TGAAATTACTGAAATACCCTCGATTTGT
125 CGATTTGTAAAATTACCGAAATACCCTC-ATTTGTAAAATTACTGAAATACCCTCGA-TTGT
*
56629801 AAAATTATC-GAAATACCCTCGATTAT-T-AAATTACTAAAATACCCTCGATTTGTAAAATTACT
1 -AAATTA-CAGAAATACCCTCGATT-TGTAAAATTACCAAAATACCCTCGATTT-TAAAATTACT
* * ** * * * * *
56629863 GAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATAGTGAAATTACTGAAATACCCCCA
62 GAAATACCCTCGAATTGTGAAATTACTGAAATACCCTCGATTGTTAAATTACTAAAATACCCTCG
* * * * *
56629928 ATTTGTAAAATTATCAAAACACCCTTGATTTGTAAAATT-CTGAAATACCCTCAAATTGT
127 ATTTGTAAAATTACCGAAATACCC-TCATTTGTAAAATTACTGAAATACCCTC-GATTGT
* * **
56629987 AAAATTATC-GAAATACCCTTG-TAGTGTAAAATTACTGAAATACCCT
1 -AAATTA-CAGAAATACCCTCGAT-TTGTAAAATTACCAAAATACCCT
56630033 TGTAGTGTAA
Statistics
Matches: 697, Mismatches: 62, Indels: 60
0.85 0.08 0.07
Matches are distributed among these distances:
184 1 0.00
185 113 0.16
186 506 0.73
187 76 0.11
188 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (184 bp):
AAATTACAGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTTAAAATTACTGAAA
TACCCTCGAATTGTGAAATTACTGAAATACCCTCGATTGTTAAATTACTAAAATACCCTCGATTT
GTAAAATTACCGAAATACCCTCATTTGTAAAATTACTGAAATACCCTCGATTGT
Found at i:56630045 original size:27 final size:27
Alignment explanation
Indices: 56629058--56630032 Score: 1059
Period size: 27 Copynumber: 36.7 Consensus size: 27
56629048 TAATAAAGAG
56629058 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
56629085 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
56629112 AAATTA-TCAAAATACCCTCGA-TTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
56629138 AAATTACTGAAATACCCCCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
56629165 AAATTA-TCAAAATACCCTCGA-TTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* **
56629191 AAATTA-TCGAAATACCCTC-AATTGCG
1 AAATTACT-GAAATACCCTCGATTTGTA
* **
56629217 AAATTGCTGAAATACCCTTAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
56629244 TAATTACAGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
56629271 AAATTACCAAAATACCCTCGATTT-TG
1 AAATTACTGAAATACCCTCGATTTGTA
56629297 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
56629324 AAATTA-TCGAAATACCCTCGA-TTGTT
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
56629350 AAATAACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
56629377 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
56629404 AAATTACCAAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* **
56629430 AAATTACTAAAATACCCTAAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
56629457 AAATTA-TCAAAATACCCTTGA-TTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
56629483 AAATTACTGAAATACCCTC-AATTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
*
56629509 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
56629536 TAATTACAGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
56629563 AAATTACCGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
56629590 AAATTACCAAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
56629616 AAATTACTAAAATACCC-CAAATTTGTA
1 AAATTACTGAAATACCCTC-GATTTGTA
* *
56629643 AAATTA-TCAAAATACCCTTGA-TTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
56629669 AAATTACTGAAATACCCTC-AATTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
*
56629695 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
56629722 TAATTACAGAAATACCTTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
56629749 AAATTACCAAAATACCCTCGATTT-TG
1 AAATTACTGAAATACCCTCGATTTGTA
56629775 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
56629802 AAATTA-TCGAAATACCCTCGATTAT-T-
1 AAATTACT-GAAATACCCTCGATT-TGTA
*
56629828 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
56629855 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** * *
56629882 AAATTACCAAAATACCCTCGA-TAGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
56629908 AAATTACTGAAATACCCCCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
56629935 AAATTA-TCAAAACACCCTTGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
56629962 AAATT-CTGAAATACCCTCAAATTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
56629988 AAATTA-TCGAAATACCCTTG-TAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
56630015 AAATTACTGAAATACCCT
1 AAATTACTGAAATACCCT
56630033 TGTAGTGTAA
Statistics
Matches: 802, Mismatches: 110, Indels: 72
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.01
26 322 0.40
27 473 0.59
28 2 0.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:56630056 original size:27 final size:27
Alignment explanation
Indices: 56629984--56630075 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
56629974 ACCCTCAAAT
* *
56629984 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* *
56630011 TGTAAAATTACTGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
*
56630038 TGTAAAATGACCGACATA-CCTCTGTAG
1 TGTAAAATGACCGAAATACCCT-TGTAG
*
56630065 GGTAAAATGAC
1 TGTAAAATGAC
56630076 TGTTTTGCCG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 3 0.05
27 55 0.95
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.29
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTGTAG
Found at i:56630057 original size:54 final size:54
Alignment explanation
Indices: 56629851--56630077 Score: 162
Period size: 53 Copynumber: 4.2 Consensus size: 54
56629841 ACCCTCGATT
* ** * *
56629851 TGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACC-CTCGATAG
1 TGTAAAATTACTGAAATACCCTCAAAGTGTAAAATGACCGAAATACCTCT-G-TAG
* ** * * * * *
56629906 TG--AAATTACTGAAATACCCCCAATTTGTAAAATTATCAAAACACC-CT-TGATT
1 TGTAAAATTACTGAAATACCCTCAAAGTGTAAAATGACCGAAATACCTCTGT-A-G
* * *
56629958 TGTAAAATT-CTGAAATACCCTCAAATTGTAAAATTATCGAAATACC-CTTGTAG
1 TGTAAAATTACTGAAATACCCTCAAAGTGTAAAATGACCGAAATACCTC-TGTAG
*** *
56630011 TGTAAAATTACTGAAATACCCTTGTAGTGTAAAATGACCGACATACCTCTGTAG
1 TGTAAAATTACTGAAATACCCTCAAAGTGTAAAATGACCGAAATACCTCTGTAG
* *
56630065 GGTAAAATGACTG
1 TGTAAAATTACTG
56630078 TTTTGCCGTT
Statistics
Matches: 145, Mismatches: 19, Indels: 17
0.80 0.10 0.09
Matches are distributed among these distances:
50 1 0.01
51 1 0.01
52 2 0.01
53 84 0.58
54 53 0.37
55 4 0.03
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.30
Consensus pattern (54 bp):
TGTAAAATTACTGAAATACCCTCAAAGTGTAAAATGACCGAAATACCTCTGTAG
Found at i:56638563 original size:46 final size:46
Alignment explanation
Indices: 56638468--56638572 Score: 131
Period size: 46 Copynumber: 2.3 Consensus size: 46
56638458 CATCTCATAC
* * *
56638468 CCGATGCATGCCCCAAACATGTCTTACATTAGCCTAAATCTCGAGG
1 CCGATGCATGTCCCAAACATGTCTTACACTAGCCTAAATCTCAAGG
** *
56638514 CCGATGCATGTCCCAAACATGTCTTACACTAGCTCT-CGTCTCAATG
1 CCGATGCATGTCCCAAACATGTCTTACACTAGC-CTAAATCTCAAGG
56638560 CCGATGCCATGTC
1 CCGATG-CATGTC
56638573 AATGAGGGGT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
46 43 0.84
47 8 0.16
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (46 bp):
CCGATGCATGTCCCAAACATGTCTTACACTAGCCTAAATCTCAAGG
Found at i:56641093 original size:29 final size:29
Alignment explanation
Indices: 56641059--56641131 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
56641049 AATCAACCGT
*
56641059 GCACACTTAGTGCCATGTACTTT-AAACTC
1 GCACACTTAGTGCCATGCA-TTTCAAACTC
**
56641088 GCACACTTAGTGCCATGCATTTCAAGTTC
1 GCACACTTAGTGCCATGCATTTCAAACTC
*
56641117 GCACACCTAGTGCCA
1 GCACACTTAGTGCCA
56641132 ATCTCACAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 36 0.92
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCATTTCAAACTC
Found at i:56649021 original size:27 final size:26
Alignment explanation
Indices: 56648977--56649027 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
56648967 CTCGCTACAA
*
56648977 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
56649004 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
56649028 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:56649096 original size:26 final size:27
Alignment explanation
Indices: 56649067--56649126 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
56649057 CCACATATAT
*
56649067 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
56649093 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
56649120 ATATCTG
1 ATATCTG
56649127 GCAGCTTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:56650609 original size:40 final size:40
Alignment explanation
Indices: 56650572--56650763 Score: 212
Period size: 40 Copynumber: 4.8 Consensus size: 40
56650562 GGATATAGCT
* * *
56650572 ACTCGCTCAAATGCCTTCGGGACATAGCCTGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
56650612 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* * *
56650652 ACTCGCTCCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* * *
56650691 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTA
* *
56650731 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGG
56650764 ATATCATTCG
Statistics
Matches: 128, Mismatches: 16, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.23
40 67 0.52
41 26 0.20
42 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:56650695 original size:79 final size:79
Alignment explanation
Indices: 56650556--56650764 Score: 246
Period size: 79 Copynumber: 2.6 Consensus size: 79
56650546 CCTTCAGAAT
* * *
56650556 TTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCAC
1 TTAACCGGATATAG-TACTCGCTCAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCAC
56650620 AAATGCCTTCGGGA-C
65 AAATGCCTTC-GGATC
* *
56650635 TTAACCCGGATTTAGTAACTCGCTCCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
1 TTAA-CCGGATATAGT-ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
56650698 CAAATGCCTTCGGATC
64 CAAATGCCTTCGGATC
* * * *
56650714 TTAGTCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 TTA-ACCGGATATAGT-AC-TCGCTCAAATGCCTTCGGGACTTAGCCCGGA
56650765 TATCATTCGA
Statistics
Matches: 111, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.03
79 52 0.47
80 45 0.41
81 11 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
TTAACCGGATATAGTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACA
AATGCCTTCGGATC
Found at i:56656348 original size:39 final size:40
Alignment explanation
Indices: 56656303--56656468 Score: 117
Period size: 39 Copynumber: 4.2 Consensus size: 40
56656293 CGGGGTTTAG
* *
56656303 CCGGATATAAC-CACTCGCACAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACTCACTAGCACAAGGCCTTCGGGACTTAAC
* * * *
56656342 CCGGATAT-GCTCACTAGCATAATGCCTTCGGGACTTAGC
1 CCGGATATAACTCACTAGCACAAGGCCTTCGGGACTTAAC
* * * **
56656381 CCGGATAT-AGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACTCACTAGCAC-AAGGCCTTCGGGA-CTTAAC
* * * * * *
56656421 CCGGATGTAGCGC-TTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACTCACTAGCAC-AAGGCCTTCGGGACTTAAC
56656461 CCGGATAT
1 CCGGATAT
56656469 CATCGAGTAA
Statistics
Matches: 103, Mismatches: 19, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 50 0.49
40 48 0.47
41 4 0.04
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACTCACTAGCACAAGGCCTTCGGGACTTAAC
Found at i:56656419 original size:40 final size:40
Alignment explanation
Indices: 56656326--56656468 Score: 168
Period size: 40 Copynumber: 3.6 Consensus size: 40
56656316 CTCGCACAAG
* * * *
56656326 GCCTTCGGGTCTTAACCCGGATAT-GCTCACTAGCA-TAAT
1 GCCTTCGGGACTTAGCCCGGATATAG-TCGCTAGCACAAAT
56656365 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
56656405 GCCTTC-GGATCTTAGTCCGGATGTAG-CGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
56656445 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
56656469 CATCGAGTAA
Statistics
Matches: 90, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
39 36 0.40
40 51 0.57
41 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:56657686 original size:38 final size:38
Alignment explanation
Indices: 56657644--56657719 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
56657634 CAAGAACTCC
* *
56657644 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTACTTCCTTAGAATTTTAGGCCAAAAGAAATGAA
56657682 TTCCTACTTCCTTAGAATTTTAGGCCAAAAGAAATGAA
1 TTCCTACTTCCTTAGAATTTTAGGCCAAAAGAAATGAA
56657720 AAATGATGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTACTTCCTTAGAATTTTAGGCCAAAAGAAATGAA
Found at i:56660360 original size:43 final size:43
Alignment explanation
Indices: 56660264--56660428 Score: 174
Period size: 43 Copynumber: 3.9 Consensus size: 43
56660254 AAAGTGATAT
* * * * *
56660264 TCGGGCCTC-GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTG-A-AATAATA
*
56660307 TCGGGCTTCGGGCGTAGCAGGCTATAATGCCGGTGAAATAATA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
* * *
56660350 TTGGGCTTCGGGCCTAGTAGGCTATAATGCCGGTGAAATGATA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
** * *
56660393 TCGGGCTTCAAGCCTAGCGGGC-AAAATGCCGGTGAA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA
56660429 TGAGTTCAGA
Statistics
Matches: 104, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 13 0.12
43 70 0.67
44 15 0.14
45 6 0.06
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (43 bp):
TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
Found at i:56673744 original size:28 final size:28
Alignment explanation
Indices: 56673696--56673800 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 28
56673686 CTGCCAGAAT
* *
56673696 AGATAA-TGTGACAGAGTCACCAGATAC
1 AGATAATTGTGGCAGAGCCACCAGATAC
*
56673723 AGATAATCGTGGCAGAGCCACCAGA-AC
1 AGATAATTGTGGCAGAGCCACCAGATAC
* *
56673750 AGA-AATATATGGTAGAGCCACCAGAT-C
1 AGATAAT-TGTGGCAGAGCCACCAGATAC
*
56673777 AGATAATTGTGGCATAGCCACCAG
1 AGATAATTGTGGCAGAGCCACCAG
56673801 GACGCTTCCT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 3 0.05
27 44 0.68
28 18 0.28
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (28 bp):
AGATAATTGTGGCAGAGCCACCAGATAC
Found at i:56676385 original size:16 final size:16
Alignment explanation
Indices: 56676348--56676378 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56676338 TAGCGAGTTC
*
56676348 ATTAGTCTGTGAGCTA
1 ATTAGTCAGTGAGCTA
56676364 ATTAGTCAGTGAGCT
1 ATTAGTCAGTGAGCT
56676379 CGTTAGTTCT
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:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (16 bp):
ATTAGTCAGTGAGCTA
Found at i:56684112 original size:21 final size:20
Alignment explanation
Indices: 56684088--56684128 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
56684078 ACTTGTATAA
56684088 CTATCATCAAACATTCAAAAT
1 CTATCATCAAACA-TCAAAAT
56684109 CTATCATCAAACATCAAAAT
1 CTATCATCAAACATCAAAAT
56684129 AATCATGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (20 bp):
CTATCATCAAACATCAAAAT
Found at i:56687158 original size:21 final size:20
Alignment explanation
Indices: 56687132--56687172 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
56687122 TCATGTGTGA
56687132 CTATCATCAAACATTCAAAAT
1 CTATCATCAAACA-TCAAAAT
56687153 CTATCATCAAACATCAAAAT
1 CTATCATCAAACATCAAAAT
56687173 ACTCATGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (20 bp):
CTATCATCAAACATCAAAAT
Found at i:56688919 original size:163 final size:164
Alignment explanation
Indices: 56688629--56688957 Score: 552
Period size: 163 Copynumber: 2.0 Consensus size: 164
56688619 AAACATGCAA
* *
56688629 TTGAAACGGTTCGGGACAAAACCGGGAACATTAAAATTTTTTCGAATACTTAGACAAATCAAAAC
1 TTGAAACGGTTCGGGACAAAACCGGGAACATTAAAAATTTTCCGAATACTTAGACAAATCAAAAC
**
56688694 AATTTATTTCATTATTCCTTATAAAACTGCCCAGTTGCGTCATAGTCACTAAATAAATCATAACT
66 AATTTATTTCATTATTCCTTATAAAACTGCCCACATGCGTCATAGTCACTAAATAAATCATAACT
* * *
56688759 CGAGTCACAAAACTCAATATTTAAATTCATGAAT
131 AGAGTCACAAAACTCAAAATTTAAATTCACGAAT
* * **
56688793 TTGAAATGGTTTGGGACCTAACCGGGAACATTAAAAATTTTCCGAATACTTAGACAAATCAAAA-
1 TTGAAACGGTTCGGGACAAAACCGGGAACATTAAAAATTTTCCGAATACTTAGACAAATCAAAAC
56688857 AATTTATTTCATTATTCCTTATAAAACTGCCCACATGCGTCATAGTCACTAAATAAATCATAACT
66 AATTTATTTCATTATTCCTTATAAAACTGCCCACATGCGTCATAGTCACTAAATAAATCATAACT
56688922 AGAGTCACAAAACTCAAAATTTAAATTCACGAAT
131 AGAGTCACAAAACTCAAAATTTAAATTCACGAAT
56688956 TT
1 TT
56688958 TCCCTGAAAC
Statistics
Matches: 154, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
163 96 0.62
164 58 0.38
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (164 bp):
TTGAAACGGTTCGGGACAAAACCGGGAACATTAAAAATTTTCCGAATACTTAGACAAATCAAAAC
AATTTATTTCATTATTCCTTATAAAACTGCCCACATGCGTCATAGTCACTAAATAAATCATAACT
AGAGTCACAAAACTCAAAATTTAAATTCACGAAT
Found at i:56690050 original size:16 final size:17
Alignment explanation
Indices: 56690023--56690055 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
56690013 ACTTACTTAA
56690023 TACTTGATAATCTCAAT
1 TACTTGATAATCTCAAT
56690040 TACTT-ATAATCTCAAT
1 TACTTGATAATCTCAAT
56690056 ATTAAATAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.42
Consensus pattern (17 bp):
TACTTGATAATCTCAAT
Found at i:56690346 original size:54 final size:54
Alignment explanation
Indices: 56690169--56690425 Score: 293
Period size: 54 Copynumber: 4.8 Consensus size: 54
56690159 AAGTTACCAT
* * * * *
56690169 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAA
* * ** * *
56690222 TGTCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAAGTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCC-TTACCTTATAG-AACTCATCAA
* * * *
56690277 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTACTTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAA
* * *
56690331 TGCCATGCCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAA
* * *
56690385 TGCCATGACTTGGCATGGTCTTACATGATATCCTTATCTTA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTA
56690426 CCAAATGCCA
Statistics
Matches: 174, Mismatches: 26, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
52 2 0.01
53 33 0.19
54 96 0.55
55 41 0.24
56 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAA
Found at i:56690453 original size:47 final size:47
Alignment explanation
Indices: 56690398--56690519 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
56690388 CATGACTTGG
*
56690398 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
56690445 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCTATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
56690492 CATGGTATTATATGGTATCCTTATCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
56690520 GTGCCAATGC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:56692343 original size:43 final size:43
Alignment explanation
Indices: 56692296--56692450 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 43
56692286 TGTGTTCTCA
56692296 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTTATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTTATTACG
* * * * *
56692339 TGTAAGACCATGTCTGGGACATTGACAT-GGTAT-TTGATT-TG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTT-ATTACG
** * *
56692380 TGTAAGACC-CTGTCTCAGACAG-TGGCATCGATATGTGA-TAGCA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTTATTA-CG
* *
56692423 TGTAAGACCACATTTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
56692451 TGTACAATAT
Statistics
Matches: 85, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
41 25 0.29
42 13 0.15
43 46 0.54
44 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTTATTACG
Found at i:56693966 original size:15 final size:14
Alignment explanation
Indices: 56693946--56693978 Score: 57
Period size: 14 Copynumber: 2.3 Consensus size: 14
56693936 CGATTGAGCA
56693946 TCTTCTTCTTCTTTT
1 TCTTCTTC-TCTTTT
56693961 TCTTCTTCTCTTTT
1 TCTTCTTCTCTTTT
56693975 TCTT
1 TCTT
56693979 TGAAGGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (14 bp):
TCTTCTTCTCTTTT
Found at i:56703141 original size:34 final size:34
Alignment explanation
Indices: 56703098--56703187 Score: 119
Period size: 34 Copynumber: 2.6 Consensus size: 34
56703088 TTGTATGTTG
*
56703098 TACTGAAATGGGCTAAGGCCAAGACTGCCT-CTGT
1 TACTGAAATGGGCTAAGGCCAAGACTG-ATACTGT
*
56703132 TACTGAAATGGGCTCAGGCCAAGACTGATACTGT
1 TACTGAAATGGGCTAAGGCCAAGACTGATACTGT
*
56703166 TACTGAAAAATAGGCTAAGGCC
1 TACTG--AAATGGGCTAAGGCC
56703188 CTAACCGAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
33 1 0.02
34 35 0.71
36 13 0.27
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (34 bp):
TACTGAAATGGGCTAAGGCCAAGACTGATACTGT
Found at i:56705409 original size:44 final size:46
Alignment explanation
Indices: 56705278--56705448 Score: 133
Period size: 46 Copynumber: 3.7 Consensus size: 46
56705268 GAGGAGTGCT
* *
56705278 AGTGTAAGA-CATGTCTAGGACAT-GC-TGCGGCCT-CGAGACATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCAT-CGG-CTACGA-A-ATATGCC
* *
56705324 AGTGTAAGA-CAAGTCGGGGACAT-GCATCGGCTACGAAATATGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAAATATGCC
* *
56705368 AGTGTAAGACCATGTCTGGGACGTGGCATCGG-TAC-AGATATGCTAGAAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAAATATGC-----C
*
56705417 TTGTGTAAGACCATGTCTGGGACATGGCATCG
1 -AGTGTAAGACCATGTCTGGGACATGGCATCG
56705449 ATACCTAACC
Statistics
Matches: 105, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
44 22 0.21
45 17 0.16
46 35 0.33
47 1 0.01
49 1 0.01
50 29 0.28
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAAATATGCC
Found at i:56708775 original size:38 final size:38
Alignment explanation
Indices: 56708733--56708808 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
56708723 TTCATCCTTT
56708733 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
56708771 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
56708809 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:56710092 original size:40 final size:39
Alignment explanation
Indices: 56709995--56710135 Score: 164
Period size: 40 Copynumber: 3.6 Consensus size: 39
56709985 TACTCGAATG
*
56709995 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGAC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGAC
*
56710035 -TA--CGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGAC
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGAC
* *
56710071 TATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 -ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGA-C
* *
56710112 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
56710136 CTTGTGCGAG
Statistics
Matches: 87, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
36 6 0.07
37 24 0.28
38 3 0.03
39 3 0.03
40 50 0.57
41 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGAC
Found at i:56716798 original size:37 final size:38
Alignment explanation
Indices: 56716757--56716831 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
56716747 TTCATCCTTT
56716757 TTCATTTCTTTTGGCCG-AAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
56716794 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
56716832 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 17 0.46
38 20 0.54
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:56716840 original size:37 final size:37
Alignment explanation
Indices: 56716762--56716840 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 37
56716752 CCTTTTTCAT
* *
56716762 TTCTTTTGGCCGAAATTCTAAGGAAGGAGGAATTCAT
1 TTCTTTTGGCCGAAATTCTAAGGAAGGAGGAATGCAG
*
56716799 TTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA-GGAG
1 TTCTTTTGGCCG-AAATTCTAAGGAAGGAGGAATGCAG
56716836 TTCTT
1 TTCTT
56716841 GCTTCATGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 18 0.47
38 20 0.53
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.32
Consensus pattern (37 bp):
TTCTTTTGGCCGAAATTCTAAGGAAGGAGGAATGCAG
Found at i:56718090 original size:28 final size:29
Alignment explanation
Indices: 56718032--56718091 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
56718022 GGGCTAAGTC
*
56718032 CCGAAGGCTTTTGTGCTAAGCGACTACAT
1 CCGAAGGCATTTGTGCTAAGCGACTACAT
*
56718061 CCGAAGGCATTTGTGCT-AGCGACTATAT
1 CCGAAGGCATTTGTGCTAAGCGACTACAT
56718089 CCG
1 CCG
56718092 GGCTAAGTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (29 bp):
CCGAAGGCATTTGTGCTAAGCGACTACAT
Found at i:56718118 original size:40 final size:40
Alignment explanation
Indices: 56718061--56718148 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
56718051 GCGACTACAT
* * *
56718061 CCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTATGCTAGCGACCATATCCGGGCTAAGAC
* *
56718101 CCGAAGGCATTTATGCTAGTGACCATATCCGGGTTAAGAC
1 CCGAAGGCATTTATGCTAGCGACCATATCCGGGCTAAGAC
56718141 CCGAAGGC
1 CCGAAGGC
56718149 CTTGTGCGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGAAGGCATTTATGCTAGCGACCATATCCGGGCTAAGAC
Found at i:56728017 original size:38 final size:38
Alignment explanation
Indices: 56727975--56728069 Score: 127
Period size: 38 Copynumber: 2.5 Consensus size: 38
56727965 ACTAAGTCTG
*
56727975 CTAGGCACAAAGCCCGAATATCACCGGCACGAAGCCTA
1 CTAGGCACAAAGCCCGAATATCACCAGCACGAAGCCTA
** * * *
56728013 CTAGGCACAAAGCTTGAATATTATCAGCACGAAGCCTG
1 CTAGGCACAAAGCCCGAATATCACCAGCACGAAGCCTA
*
56728051 TTAGGCACAAAGCCCGAAT
1 CTAGGCACAAAGCCCGAAT
56728070 TAACGATAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.35, C:0.28, G:0.21, T:0.16
Consensus pattern (38 bp):
CTAGGCACAAAGCCCGAATATCACCAGCACGAAGCCTA
Found at i:56728837 original size:10 final size:10
Alignment explanation
Indices: 56728822--56728846 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
56728812 CTTTTCATTC
56728822 TTTAATTTTG
1 TTTAATTTTG
56728832 TTTAATTTTG
1 TTTAATTTTG
56728842 TTTAA
1 TTTAA
56728847 ACTTTCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (10 bp):
TTTAATTTTG
Found at i:56730965 original size:16 final size:16
Alignment explanation
Indices: 56730941--56730976 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
56730931 GTAGCCAAAC
*
56730941 TTTCGGCTTTTCAGCA
1 TTTCAGCTTTTCAGCA
*
56730957 TTTCAGCTTTTCCGCA
1 TTTCAGCTTTTCAGCA
56730973 TTTC
1 TTTC
56730977 GGGATTTGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.28, G:0.14, T:0.47
Consensus pattern (16 bp):
TTTCAGCTTTTCAGCA
Found at i:56739390 original size:29 final size:29
Alignment explanation
Indices: 56739335--56739401 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
56739325 CACTAGGCCT
* *
56739335 AATCTCATTCATATGGCCTATTAGGCCCA
1 AATCACATTCATATGGCCCATTAGGCCCA
*
56739364 AATCACATTCATATGGCCCATCT-GGCCCG
1 AATCACATTCATATGGCCCAT-TAGGCCCA
56739393 AATCA-ATTC
1 AATCACATTC
56739402 CAAGCCATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 4 0.12
29 29 0.85
30 1 0.03
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (29 bp):
AATCACATTCATATGGCCCATTAGGCCCA
Found at i:56740348 original size:47 final size:48
Alignment explanation
Indices: 56740290--56740386 Score: 187
Period size: 47 Copynumber: 2.0 Consensus size: 48
56740280 AGGTTTATTC
56740290 GATTAAAATAGGGAAGAAAAGATCAAGAGTTTGGCTTAAAGAAAAGAG
1 GATTAAAATAGGGAAGAAAAGATCAAGAGTTTGGCTTAAAGAAAAGAG
56740338 GATT-AAATAGGGAAGAAAAGATCAAGAGTTTGGCTTAAAGAAAAGAG
1 GATTAAAATAGGGAAGAAAAGATCAAGAGTTTGGCTTAAAGAAAAGAG
56740385 GA
1 GA
56740387 GATAAAAGGT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 45 0.92
48 4 0.08
ACGTcount: A:0.49, C:0.04, G:0.28, T:0.19
Consensus pattern (48 bp):
GATTAAAATAGGGAAGAAAAGATCAAGAGTTTGGCTTAAAGAAAAGAG
Found at i:56744120 original size:43 final size:43
Alignment explanation
Indices: 56744072--56744216 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
56744062 AGCCTGTACA
** *
56744072 ATGCCAACGTCCCAGACGCGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACAAGGTCTTACACGTAATCAAATATCG
* * *
56744115 ATGCC-ACTATCCCAGACAAGGTCTTACACGAAATCAATTA-CG
1 ATGCCAAC-GTCCCAGACAAGGTCTTACACGTAATCAAATATCG
* * *
56744157 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCTCAAA-AT-G
1 ATGCCAACGTCCCAGACAAGGTCTTACACGT-AA--TCAAATATCG
*
56744201 GTGCCAACGTCCCAGA
1 ATGCCAACGTCCCAGA
56744217 TGTGGTTAGA
Statistics
Matches: 82, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
42 29 0.35
43 34 0.41
44 15 0.18
45 4 0.05
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAAGGTCTTACACGTAATCAAATATCG
Found at i:56750736 original size:53 final size:53
Alignment explanation
Indices: 56750673--56750778 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
56750663 AGCCCGTGTG
56750673 CCACTCACACGGCCAGTAGACACACCCGTGTGTCTAGGCATTGCTCAAGACTA
1 CCACTCACACGGCCAGTAGACACACCCGTGTGTCTAGGCATTGCTCAAGACTA
56750726 CCACTCACACGGCCAGTAGACACACCCGTGTGTCTAGGCATTGCTCAAGACTA
1 CCACTCACACGGCCAGTAGACACACCCGTGTGTCTAGGCATTGCTCAAGACTA
56750779 ACTTTTAATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.26, C:0.34, G:0.21, T:0.19
Consensus pattern (53 bp):
CCACTCACACGGCCAGTAGACACACCCGTGTGTCTAGGCATTGCTCAAGACTA
Found at i:56751926 original size:42 final size:42
Alignment explanation
Indices: 56751869--56751997 Score: 127
Period size: 44 Copynumber: 3.0 Consensus size: 42
56751859 AATGCCACTA
* * * * *
56751869 TCCCAGAAAAGGTCTTACATGAAA-TCAATTATGATG-CAGATG
1 TCCCAGACATGGTCTTACACGAAACTCAAAT-TGATGCCA-ACG
56751911 TCCCAGACATGGTCTTACACGTAAATCTCAAATTGATGCCAACG
1 TCCCAGACATGGTCTTACACG-AAA-CTCAAATTGATGCCAACG
* *
56751955 TCTCAGACATGGTCTTACACGAAAATCTCAAATCGATGCCAAC
1 TCCCAGACATGGTCTTACACG-AAA-CTCAAATTGATGCCAAC
56751998 TTCCTAGATG
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
42 18 0.24
43 3 0.04
44 47 0.63
45 7 0.09
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAACTCAAATTGATGCCAACG
Found at i:56752014 original size:44 final size:44
Alignment explanation
Indices: 56751914--56751997 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
56751904 GCAGATGTCC
* *
56751914 CAGACATGGTCTTACACGTAAATCTCAAATTGATGCCAACGTCT
1 CAGACATGGTCTTACACGAAAATCTCAAATCGATGCCAACGTCT
56751958 CAGACATGGTCTTACACGAAAATCTCAAATCGATGCCAAC
1 CAGACATGGTCTTACACGAAAATCTCAAATCGATGCCAAC
56751998 TTCCTAGATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (44 bp):
CAGACATGGTCTTACACGAAAATCTCAAATCGATGCCAACGTCT
Found at i:56757454 original size:40 final size:41
Alignment explanation
Indices: 56757377--56757637 Score: 380
Period size: 40 Copynumber: 6.6 Consensus size: 41
56757367 AAACCAAGTA
* * * *
56757377 CCTTCGGAATTTAG-CCGGA-TATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATTATAG-TAACTCGCACAAATG
56757416 CCTTCGGGACTTAGCCC-GATTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATG
56757456 CCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATG
56757496 CCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATG
56757536 CCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATG
* * *
56757576 CCTTCGGG-CTTAGCCCGGAAT-TAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATG
56757615 CCTTCGGGACTTAGCCCGG-TTAT
1 CCTTCGGGACTTAGCCCGGATTAT
56757638 CATCCGAATA
Statistics
Matches: 206, Mismatches: 7, Indels: 17
0.90 0.03 0.07
Matches are distributed among these distances:
39 51 0.25
40 153 0.74
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATG
Found at i:56765573 original size:40 final size:40
Alignment explanation
Indices: 56765529--56765795 Score: 403
Period size: 40 Copynumber: 6.7 Consensus size: 40
56765519 GCTACTTGCT
56765529 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
56765569 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
56765609 CAAATGCCTTCGGAACTTAGCCCGGATATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
56765649 CAAATGCCTTTGAGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
56765689 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** * * * *
56765729 CAAATGCCTTCGGG-CTTAGCCC-GAAATTGTCATTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
56765767 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
56765796 CATCTGAATG
Statistics
Matches: 205, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
38 25 0.12
39 16 0.08
40 164 0.80
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:56765723 original size:120 final size:119
Alignment explanation
Indices: 56765496--56765795 Score: 428
Period size: 120 Copynumber: 2.5 Consensus size: 119
56765486 AAACCAAGTA
* *
56765496 CCTTCGGAATTTAG-CCGGATATAGCTACTTGCT-CAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGAACTTAGCCCGGATATAG-TACTAG-TACAAATGCCTTCGGGACTTAGCCCGGTTATA
*
56765559 GTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCACAAATG
64 GTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
56765615 CCTTCGGAACTTAGCCCGGATATAGTAACTCGTACAAATGCCTTTGAGACTTAGCCCGGTTATAG
1 CCTTCGGAACTTAGCCCGGATATAGT-ACTAGTACAAATGCCTTCGGGACTTAGCCCGGTTATAG
*
56765680 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
65 TAACTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
56765735 CCTTCGG-GCTTAGCCC-GAAATTGTCATTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGAACTTAGCCCGGATATAGT-ACTAGTACAAATGCCTTCGGGACTTAGCCCGGTTAT
56765796 CATCTGAATG
Statistics
Matches: 163, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
118 37 0.23
119 23 0.14
120 103 0.63
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (119 bp):
CCTTCGGAACTTAGCCCGGATATAGTACTAGTACAAATGCCTTCGGGACTTAGCCCGGTTATAGT
AACTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:56772313 original size:30 final size:30
Alignment explanation
Indices: 56772279--56772336 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
56772269 TTTTCGAACA
*
56772279 TAGGGGTAAAATGGTCATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTCATTTTGCCAAAGTT
*
56772309 TAGGGGCAAAATGGTCATTTTTCCAAAG
1 TAGGGGCAAAATGGTCATTTTGCCAAAG
56772337 ATGTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTGCCAAAGTT
Found at i:56776917 original size:47 final size:47
Alignment explanation
Indices: 56776863--56776956 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
56776853 AAAGAAAAGA
56776863 GAAAAGCTAATTTTGAAGCTAGAGATTCTAGAAGGATATTGATGAAT
1 GAAAAGCTAATTTTGAAGCTAGAGATTCTAGAAGGATATTGATGAAT
*
56776910 GAAAAGCTAATTTTGAAGCTAGAGATTCTAGAAGGATGTTGATGAAT
1 GAAAAGCTAATTTTGAAGCTAGAGATTCTAGAAGGATATTGATGAAT
56776957 AAACCCTATC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.30
Consensus pattern (47 bp):
GAAAAGCTAATTTTGAAGCTAGAGATTCTAGAAGGATATTGATGAAT
Found at i:56781151 original size:19 final size:19
Alignment explanation
Indices: 56781118--56781168 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
56781108 TTAAGAGAAA
*
56781118 TTGAATGGAGATCTTTAGTC
1 TTGAA-GGAGATCTTCAGTC
*
56781138 TTGAAGGAGCTCTTCAGTC
1 TTGAAGGAGATCTTCAGTC
56781157 TTGAAGGAGATC
1 TTGAAGGAGATC
56781169 CTACTTCCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 23 0.82
20 5 0.18
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.33
Consensus pattern (19 bp):
TTGAAGGAGATCTTCAGTC
Found at i:56799471 original size:27 final size:27
Alignment explanation
Indices: 56799437--56799610 Score: 197
Period size: 27 Copynumber: 6.4 Consensus size: 27
56799427 TAAATTGTAC
56799437 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56799464 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56799490 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
56799518 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56799546 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56799573 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56799600 AGCACTGAGTG
1 AGCACTAAGTG
56799611 AGCGGACTCA
Statistics
Matches: 125, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Done.