Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 103 of 343
Found at i:34429795 original size:15 final size:16
Alignment explanation
Indices: 34429777--34429806 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34429767 AATTGTTTTA
34429777 TTACA-AATTTCACTC
1 TTACATAATTTCACTC
34429792 TTACATAATTTCACT
1 TTACATAATTTCACT
34429807 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TTACATAATTTCACTC
Found at i:34430138 original size:50 final size:49
Alignment explanation
Indices: 34430018--34430147 Score: 154
Period size: 50 Copynumber: 2.6 Consensus size: 49
34430008 CTGGTACGCA
* * *
34430018 TAGTATCCTGCACTTAGTACTACACATGTAACCAACAATCCAGTACACG
1 TAGTAACCTGCACTTAGTACTACACACGTGACCAACAATCCAGTACACG
* * * *
34430067 TAGTAACATGCACTTAGTACTACACACGTGACCTAACCAT-CTGATACATG
1 TAGTAACCTGCACTTAGTACTACACACGTGACC-AACAATCCAG-TACACG
* *
34430117 TAGTAGCCTGCACTTAATACTACACACGTGA
1 TAGTAACCTGCACTTAGTACTACACACGTGA
34430148 TTGAAATTGT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
49 31 0.45
50 38 0.55
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (49 bp):
TAGTAACCTGCACTTAGTACTACACACGTGACCAACAATCCAGTACACG
Found at i:34430229 original size:49 final size:50
Alignment explanation
Indices: 34429994--34430238 Score: 201
Period size: 49 Copynumber: 4.9 Consensus size: 50
34429984 TACCACCGTT
* * * *
34429994 GTAACCGAAGCTATCTGGTACGCATAGTATCCTGCACTTAGTACTACACAT
1 GTAACCTAA-CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACAC
* ** * * *
34430045 GTAACC-AACAATCCAGTACACGTAGTAACATGCACTTAGTACTACACAC
1 GTAACCTAACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACAC
* * * ** *
34430094 GTGACCTAACCATCTGATACATGTAGTAGCCTGCACTTAATACTACACAC
1 GTAACCTAACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACAC
* * * * *
34430144 GTGA-TTGAAAT-TGTTGGGTACACATAGTAGCCTGCACTTAGT-CTACACAT
1 GTAACCT-AACTAT-CT-GGTACACATAGTAGCCTGCACTTAGTACTACACAC
* * * *
34430194 GCAACCTAACTATCTGGTACACCTAGTAGCTTGCACATAGTACTA
1 GTAACCTAACTATCTGGTACACATAGTAGCCTGCACTTAGTACTA
34430239 TACCTGTGTT
Statistics
Matches: 153, Mismatches: 34, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
49 63 0.41
50 60 0.39
51 30 0.20
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (50 bp):
GTAACCTAACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACAC
Found at i:34436557 original size:20 final size:20
Alignment explanation
Indices: 34436532--34436571 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
34436522 GCTTGTACAA
34436532 GTTTGCACTTCGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
* *
34436552 GTTTGCACTTTGTTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
34436572 ATAGCACTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.28, G:0.23, T:0.45
Consensus pattern (20 bp):
GTTTGCACTTCGGTGCCTCT
Found at i:34439821 original size:50 final size:50
Alignment explanation
Indices: 34439611--34439988 Score: 337
Period size: 50 Copynumber: 7.8 Consensus size: 50
34439601 GGGTTATTGT
34439611 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-C-ATTAT--GA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCGA-TATGCGA
* * * *
34439657 GAGCTAGTGTAAGACCATTTCTGGGACATGGCATTGGCATTGAGA--CGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGCGA
* * * * *
34439705 GAGCTAGTGTAAGA-AATGTCTGGGACAT-GCATTGGCCTCG-TAAAG-TA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAT-ATGCGA
* * * *
34439752 -AACCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATAGATATGCGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGCGA
* *
34439801 GAGCTCA-TGTAAGACCATGTCTGGGACATGACATCGGCA-CGAATATACGA
1 GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCG-ATATGCGA
*** *
34439851 GAGCTAGTGTAAGGTAATGTCTGGGACATGGCATCGACA-CGAATATGC-A
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCG-ATATGCGA
* * *
34439900 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCTGCTTC-A-ATGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATG-CGA
*
34439949 TAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
34439989 TACACCCTAT
Statistics
Matches: 272, Mismatches: 40, Indels: 37
0.78 0.11 0.11
Matches are distributed among these distances:
46 36 0.13
47 44 0.16
48 38 0.14
49 73 0.27
50 80 0.29
51 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (50 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGCGA
Found at i:34439873 original size:100 final size:96
Alignment explanation
Indices: 34439611--34439988 Score: 346
Period size: 94 Copynumber: 3.9 Consensus size: 96
34439601 GGGTTATTGT
34439611 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-ACAT-TATGAGAGCTAGTGTAAGACCA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCGA-ATATA-GAGAGCTAGTGTAAGACCA
* * *
34439674 TTTCTGGGACATGGCATTGGCATTGAGA--CGA
64 TGTCTGGGACATGGCATTGGCATAGATATGCGA
* * *** * * *
34439705 GAGCTAGTGTAAGAAATGTCTGGGACATGCATTGGCCTCGTAAAGTA-AACCAGTGTAAGACCAT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCGAATATAG-AGAGCTAGTGTAAGACCAT
34439769 GTCTGGGACATGGCATTGGCATAGATATGCGA
65 GTCTGGGACATGGCATTGGCATAGATATGCGA
*
34439801 GAGCTCA-TGTAAGACCATGTCTGGGACATGACATCGGCACGAATATACGAGAGCTAGTGTAAGG
1 GAGCT-AGTGTAAGA-CATGTCTGGGACATG-CATCGGC-CGAATATA-GAGAGCTAGTGTAAGA
** * * *
34439865 TAATGTCTGGGACATGGCATCGACA-CGAATATGC-A
61 CCATGTCTGGGACATGGCATTGGCATAG-ATATGCGA
* * * *
34439900 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCTGCTTC-AATGA-CGATAG-TCAGTGTAAG
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--CGAAT-ATAGAGAGCT-AGTGTAAG
*
34439962 ACCATGTCTGGGACATGGCATCGGCAT
60 ACCATGTCTGGGACATGGCATTGGCAT
34439989 TACACCCTAT
Statistics
Matches: 233, Mismatches: 33, Indels: 31
0.78 0.11 0.10
Matches are distributed among these distances:
94 76 0.33
95 2 0.01
96 15 0.06
97 16 0.07
98 41 0.18
99 42 0.18
100 41 0.18
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (96 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCGAATATAGAGAGCTAGTGTAAGACCATG
TCTGGGACATGGCATTGGCATAGATATGCGA
Found at i:34443562 original size:22 final size:22
Alignment explanation
Indices: 34443534--34443579 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
34443524 CGAAACCGTT
*
34443534 ACTCGGTAGCAATTCATGTTTA
1 ACTCGGTAGCAATTCATATTTA
34443556 ACTCGGTAGCAATTCATATTTA
1 ACTCGGTAGCAATTCATATTTA
34443578 AC
1 AC
34443580 AAGTAGTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (22 bp):
ACTCGGTAGCAATTCATATTTA
Found at i:34450748 original size:22 final size:22
Alignment explanation
Indices: 34450720--34450765 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
34450710 TGAAACCGTT
*
34450720 ACTCGGTAGCAATTCATGTTTA
1 ACTCGGTAGCAATTCATATTTA
34450742 ACTCGGTAGCAATTCATATTTA
1 ACTCGGTAGCAATTCATATTTA
34450764 AC
1 AC
34450766 AAGTAGTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (22 bp):
ACTCGGTAGCAATTCATATTTA
Found at i:34454198 original size:48 final size:48
Alignment explanation
Indices: 34454126--34454220 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
34454116 ATAGCACAAC
* * *
34454126 TATGGTCTTATACATTATAGTCTCATGTTTACAGTCCTGGCAGACTTT
1 TATGGTCTTACACATTATAATCTCATGTTTACAGTCCTGACAGACTTT
*
34454174 TATGGTCTTACACATTATAATCTCATGTTTACTGTCCTGACAGACTT
1 TATGGTCTTACACATTATAATCTCATGTTTACAGTCCTGACAGACTT
34454221 CATATGCTGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (48 bp):
TATGGTCTTACACATTATAATCTCATGTTTACAGTCCTGACAGACTTT
Found at i:34465039 original size:17 final size:17
Alignment explanation
Indices: 34465019--34465051 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34465009 ACTAATCATT
*
34465019 AAAATGCGATGACAATA
1 AAAATGCAATGACAATA
34465036 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
34465052 GTGCACTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.18
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:34468392 original size:62 final size:62
Alignment explanation
Indices: 34468291--34468414 Score: 194
Period size: 62 Copynumber: 2.0 Consensus size: 62
34468281 TCATTGCATA
* *
34468291 CCTTGAATAAATATAGCTCGTTCCAATGATACTTCACTACTTCACGAAGAAATATTTCTTTT
1 CCTTGAATAAATACAGCTCATTCCAATGATACTTCACTACTTCACGAAGAAATATTTCTTTT
* * * *
34468353 CCTTGAATAAATACAGCTCATTCCAATGATACTTTACTACTTCATGAAGAAATCTTTTTTTT
1 CCTTGAATAAATACAGCTCATTCCAATGATACTTCACTACTTCACGAAGAAATATTTCTTTT
34468415 TATGGTCTGT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (62 bp):
CCTTGAATAAATACAGCTCATTCCAATGATACTTCACTACTTCACGAAGAAATATTTCTTTT
Found at i:34472548 original size:37 final size:37
Alignment explanation
Indices: 34472498--34472576 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
34472488 TTATTACGAA
* *
34472498 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
34472535 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
34472572 GTCTT
1 GTCTT
34472577 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:34472773 original size:47 final size:47
Alignment explanation
Indices: 34472695--34473265 Score: 787
Period size: 47 Copynumber: 12.4 Consensus size: 47
34472685 CCCTTCGGGA
* * * * * * *
34472695 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34472742 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34472789 CTTA-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34472835 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34472882 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
34472929 CTTATCACAT-TCAT-CACATAT-AC--T-A-CACAT--GCC-TTCGGA
1 CTTATCACATAT-ATACAC-TTTCACATTCATCACATCGGCCATTAGGC
* * * *
34472968 CTTATCACATTTAT-CACTTTCACA-TCATCACGTTGGCCA-TCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34473012 C-T-TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34473057 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34473104 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34473151 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34473200 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34473247 CTTATCACATATATACACT
1 CTTATCACATATATACACT
34473266 GTCTTGGCTG
Statistics
Matches: 476, Mismatches: 30, Indels: 36
0.88 0.06 0.07
Matches are distributed among these distances:
38 2 0.00
39 21 0.04
40 4 0.01
41 1 0.00
42 18 0.04
43 12 0.03
44 21 0.04
45 5 0.01
46 53 0.11
47 293 0.62
49 46 0.10
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34497353 original size:39 final size:40
Alignment explanation
Indices: 34497290--34497397 Score: 166
Period size: 39 Copynumber: 2.7 Consensus size: 40
34497280 TATTCGGATG
*
34497290 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
34497330 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
34497369 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
34497398 AACAAGTAGC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
39 35 0.57
40 26 0.43
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:34497419 original size:39 final size:40
Alignment explanation
Indices: 34497294--34497430 Score: 149
Period size: 39 Copynumber: 3.5 Consensus size: 40
34497284 CGGATGATAA
*
34497294 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATA-T
* *
34497334 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATAT
**
34497373 CCGGGCTAAGTCCCGAAGGCATTTGAACAAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATAT
* *
34497413 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
34497431 TACTTGGTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
39 48 0.57
40 36 0.43
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATAT
Found at i:34517660 original size:39 final size:39
Alignment explanation
Indices: 34517603--34517684 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
34517593 TGGCAATGAG
* *
34517603 ATGTGGAAGTGCTGACAAATCTGCTGTAGAGTAGCATCA
1 ATGTGGAAGTGCTAACAAATCTGCTGTAAAGTAGCATCA
*
34517642 ATGTGGAAGTGCTAACAAATCTGCTGTAAAGTAGCATTA
1 ATGTGGAAGTGCTAACAAATCTGCTGTAAAGTAGCATCA
34517681 ATGT
1 ATGT
34517685 TATCGAAGTG
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:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (39 bp):
ATGTGGAAGTGCTAACAAATCTGCTGTAAAGTAGCATCA
Found at i:34527930 original size:19 final size:19
Alignment explanation
Indices: 34527906--34527974 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
34527896 TATGGCGGAG
34527906 ACATGGGGTTGAAGAGGCC
1 ACATGGGGTTGAAGAGGCC
* *
34527925 ACAT-GGG-AGCAGA-G--
1 ACATGGGGTTGAAGAGGCC
34527939 ACATGGGGTTGAAGAGGCC
1 ACATGGGGTTGAAGAGGCC
34527958 ACATGGGAGCTTGAAGA
1 ACATGGG-G-TTGAAGA
34527975 AATCATGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
14 4 0.10
15 3 0.08
16 5 0.13
17 5 0.13
18 3 0.08
19 11 0.28
20 1 0.03
21 7 0.18
ACGTcount: A:0.30, C:0.14, G:0.41, T:0.14
Consensus pattern (19 bp):
ACATGGGGTTGAAGAGGCC
Found at i:34527945 original size:33 final size:33
Alignment explanation
Indices: 34527903--34527967 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
34527893 TGTTATGGCG
34527903 GAGACATGGGGTTGAAGAGGCCACATGGGAGCA
1 GAGACATGGGGTTGAAGAGGCCACATGGGAGCA
34527936 GAGACATGGGGTTGAAGAGGCCACATGGGAGC
1 GAGACATGGGGTTGAAGAGGCCACATGGGAGC
34527968 TTGAAGAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.15, G:0.43, T:0.12
Consensus pattern (33 bp):
GAGACATGGGGTTGAAGAGGCCACATGGGAGCA
Found at i:34541527 original size:46 final size:46
Alignment explanation
Indices: 34541451--34541759 Score: 433
Period size: 46 Copynumber: 6.7 Consensus size: 46
34541441 TGATGTCATA
* * * * *
34541451 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATATCATGTTGCCATG
* ** *
34541497 GTATCTTTCAACCATAGTCTTATTCATTTTC-TCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACA-TTTCAT-ATCATGTTGCCATG
** * *
34541544 GTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
34541590 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
*
34541636 GTATCTTTCAACTATGGTCTTACACATTTCATATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
* *
34541682 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
34541728 GTATCTTTCAACCATGGTCTTACACATTTCAT
1 GTATCTTTCAACCATGGTCTTACACATTTCAT
34541760 TTCAGAGAGC
Statistics
Matches: 245, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
46 205 0.84
47 40 0.16
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
Found at i:34543862 original size:21 final size:21
Alignment explanation
Indices: 34543812--34543867 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
34543802 TATATATACA
34543812 CATATGTATTTATATTTAAAT
1 CATATGTATTTATATTTAAAT
* * * *
34543833 AATAAGTATTATTTATTT-ATT
1 CATATGTATT-TATATTTAAAT
34543854 CATATGTATATTAT
1 CATATGTAT-TTAT
34543868 TAGTACATTT
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.54
Consensus pattern (21 bp):
CATATGTATTTATATTTAAAT
Found at i:34546034 original size:45 final size:48
Alignment explanation
Indices: 34545888--34546245 Score: 289
Period size: 47 Copynumber: 7.6 Consensus size: 48
34545878 TTTAAGCTAC
* *
34545888 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATCATG-AGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATC-GCCTCGA-GATGTAGAGCCAG
* * * * *
34545934 TGTAAGACCATG-CTTGGGACATGGCATCGGCATTGAGACG-AGTGCTAG
1 TGTAAGACCATGTC-TGGGACATGGCATC-GCCTCGAGATGTAGAGCCAG
*
34545982 TGTAAGA-CATGTCTGGTACAT-GCATCGCCTCGAGATGTA-AGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGCCTCGAGATGTAGAGCCAG
* *
34546027 TGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGT---GTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGCCT-CGAGATGTAGAGCCAG
* * * *
34546071 TGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGTGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATC-GCCTCGAGATGT-AGAGCCAG
* * * * * *
34546121 TGTAAGACCATATCTGGGACATGACGTTAGCCTCGATGATG-ATAGTCAG
1 TGTAAGACCATGTCTGGGACATGGC-ATCGCCTCGA-GATGTAGAGCCAG
* ** * *
34546170 TGTAAGACCATGTTTGGGACATGGCATCGAGTTGAGATAT-GAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGCCTCGAGATGTAGAGCCAG
*
34546217 TGTAAGACCATGTCTAGGACATGGCATCG
1 TGTAAGACCATGTCTGGGACATGGCATCG
34546246 ACAACTTATC
Statistics
Matches: 250, Mismatches: 45, Indels: 33
0.76 0.14 0.10
Matches are distributed among these distances:
44 11 0.04
45 54 0.22
46 33 0.13
47 60 0.24
48 29 0.12
49 28 0.11
50 31 0.12
51 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGCCTCGAGATGTAGAGCCAG
Found at i:34546175 original size:99 final size:92
Alignment explanation
Indices: 34545980--34546239 Score: 253
Period size: 99 Copynumber: 2.8 Consensus size: 92
34545970 GACGAGTGCT
* * *
34545980 AGTGTAAGA-CATGTCTGGTACAT-GCATC-GCCTCGAGATGTAAGCCAGTGTAAGACATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGTAAGCCAGTGTAAGACATATCTG
* *
34546042 GGACATGCATCGGCTACGAGATGTGTC
66 GGACATGCATAGCCTACGAGATGTGTC
* * *
34546069 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGTGAGAGCTAGTGTAAGACCATAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGT-A-AGCCAGTGTAAGA-CATAT
*
34546134 CTGGGACATGACGTTAGCCT-CGATGATGATAGTC
63 CTGGGACATG-C-ATAGCCTACGA-GATG-T-GTC
* * * * *
34546168 AGTGTAAGACCATGTTTGGGACATGGCATC-G-AGTTGAGATATGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TCGAGATGTAAGCCAGTGTAAGA-CATATC
*
34546231 TAGGACATG
64 TGGGACATG
34546240 GCATCGACAA
Statistics
Matches: 142, Mismatches: 17, Indels: 17
0.81 0.10 0.10
Matches are distributed among these distances:
89 9 0.06
90 13 0.09
91 5 0.04
92 9 0.06
93 1 0.01
94 12 0.08
95 14 0.10
96 30 0.21
97 9 0.06
98 8 0.06
99 32 0.23
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (92 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGTAAGCCAGTGTAAGACATATCTG
GGACATGCATAGCCTACGAGATGTGTC
Found at i:34553777 original size:45 final size:48
Alignment explanation
Indices: 34553632--34553987 Score: 226
Period size: 49 Copynumber: 7.6 Consensus size: 48
34553622 TATGAGCTAC
* * * * * *
34553632 TGTAAGA-CATGTCTGGGACAT-GCATCAGCCACAACATG-AGAGCCAG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGATGTAGAG-TAG
* * * * * *
34553678 TGTAAGACCATGAT-TGGGACATGGCATTGGCATTGAGACG-AGTGCTAG
1 TGTAAGACCATG-TCTAGGACATGGCATCGGCCTCGAGATGTAGAG-TAG
*
34553726 TGTAAGA-CATGTCTAGGACAT-GCATCGGCCTTGAGATGTA-AGTAG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGATGTAGAGTAG
* *
34553771 TGTAAGA-CATGTCTGGGACAT-GCATCGG-ATACGAGATGT---GTCAG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCCT-CGAGATGTAGAGT-AG
* *
34553815 TGTAAGACCATGTCTAGGACATGGCATC-GCAC-AGATATGTGAGAGGTAG
1 TGTAAGACCATGTCTAGGACATGGCATCGGC-CTCGAGATGT-AGA-GTAG
* * *
34553864 TGTAAGACCATGTCTGGGACATGGCATCGACCTCGATGATG-ATAGTCAG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCCTCGA-GATGTAGAGT-AG
* * * * * * **
34553913 TGTAAGACCATGTCTAGGACATAGCAT-TGACTTGAGATATAAACCAG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGATGTAGAGTAG
* *
34553960 TGTAAGACCATATCTGGGACATGGCATC
1 TGTAAGACCATGTCTAGGACATGGCATC
34553988 AACACCATAC
Statistics
Matches: 248, Mismatches: 40, Indels: 42
0.75 0.12 0.13
Matches are distributed among these distances:
43 2 0.01
44 10 0.04
45 57 0.23
46 28 0.11
47 53 0.21
48 31 0.12
49 59 0.24
50 5 0.02
51 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGATGTAGAGTAG
Found at i:34553922 original size:98 final size:90
Alignment explanation
Indices: 34553724--34553939 Score: 262
Period size: 98 Copynumber: 2.3 Consensus size: 90
34553714 GACGAGTGCT
*
34553724 AGTGTAAGA-CATGTCTAGGACATGCATCGGCCTTGAGATGTAAGTAGTGTAAGACATGTCTGGG
1 AGTGTAAGACCATGTCTAGGACATGCATCGGCCTAGAGATGTAAGTAGTGTAAGACATGTCTGGG
34553788 ACATGCATCGGATACGAGATGTGTC
66 ACATGCATCGGATACGAGATGTGTC
*
34553813 AGTGTAAGACCATGTCTAGGACATGGCATC-GCAC-AGATATGTGAGAGGTAGTGTAAGACCATG
1 AGTGTAAGACCATGTCTAGGACAT-GCATCGGC-CTAGAGATGT-A-A-GTAGTGTAAGA-CATG
34553876 TCTGGGACATGGCATC-GACCT-CGATGATGATAGTC
60 TCTGGGACAT-GCATCGGA--TACGA-GATG-T-GTC
34553911 AGTGTAAGACCATGTCTAGGACATAGCAT
1 AGTGTAAGACCATGTCTAGGACAT-GCAT
34553940 TGACTTGAGA
Statistics
Matches: 111, Mismatches: 3, Indels: 17
0.85 0.02 0.13
Matches are distributed among these distances:
89 9 0.08
90 22 0.20
91 7 0.06
92 1 0.01
93 11 0.10
94 16 0.14
95 8 0.07
96 5 0.05
97 1 0.01
98 31 0.28
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (90 bp):
AGTGTAAGACCATGTCTAGGACATGCATCGGCCTAGAGATGTAAGTAGTGTAAGACATGTCTGGG
ACATGCATCGGATACGAGATGTGTC
Found at i:34555094 original size:31 final size:31
Alignment explanation
Indices: 34555035--34555098 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
34555025 TTTAGGTTTG
*
34555035 CATTTAGAATTATTTCCACACGACTGGAGGA
1 CATTTAGAATTATTTCCACACAACTGGAGGA
* *
34555066 CATTTAGAATTATTTCCACATAAGTGGAGGA
1 CATTTAGAATTATTTCCACACAACTGGAGGA
34555097 CA
1 CA
34555099 CGGGCGTGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (31 bp):
CATTTAGAATTATTTCCACACAACTGGAGGA
Found at i:34555207 original size:20 final size:21
Alignment explanation
Indices: 34555169--34555207 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34555159 TCGAATTGGT
*
34555169 CACACGTGCGTGTTGCCCTTC
1 CACACGAGCGTGTTGCCCTTC
34555190 CACACGAGCGTG-TGCCCT
1 CACACGAGCGTGTTGCCCT
34555208 ATTTCAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.13, C:0.38, G:0.26, T:0.23
Consensus pattern (21 bp):
CACACGAGCGTGTTGCCCTTC
Found at i:34566796 original size:66 final size:66
Alignment explanation
Indices: 34566702--34566838 Score: 211
Period size: 66 Copynumber: 2.1 Consensus size: 66
34566692 AATGTGAGGT
* * * *
34566702 ACACAGCCGTGTCCCAGCCCGTGTCCTTACTCGTGTAACTCTCTAACTTGGGTCACACAGCCAAC
1 ACACGGCCATGTCCCAGCCCGTATCCTTACCCGTGTAACTCTCTAACTTGGGTCACACAGCCAAC
34566767 C
66 C
** *
34566768 ACACGGCCATGTCCCAGCTTGTATCCTTACCCGTGTAACTCTCTAACTTGGGTCACACGGCCAAC
1 ACACGGCCATGTCCCAGCCCGTATCCTTACCCGTGTAACTCTCTAACTTGGGTCACACAGCCAAC
34566833 C
66 C
34566834 ACACG
1 ACACG
34566839 TCTGTGTGCT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (66 bp):
ACACGGCCATGTCCCAGCCCGTATCCTTACCCGTGTAACTCTCTAACTTGGGTCACACAGCCAAC
C
Found at i:34568126 original size:45 final size:46
Alignment explanation
Indices: 34568048--34568135 Score: 117
Period size: 45 Copynumber: 1.9 Consensus size: 46
34568038 TGAGCCATGT
* *
34568048 ATCAGGAAGCTTATTTAGGCTAAACAGGAAACTCAT-AAGAGTTTTA
1 ATCAGGAAGCTCATTGAGGCTAAACAGGAAACTC-TGAAGAGTTTTA
* *
34568094 ATCAGGAAGCTCATTGA-GCTTAACAGGTAACTCTGAAGAGTT
1 ATCAGGAAGCTCATTGAGGCTAAACAGGAAACTCTGAAGAGTT
34568136 ATTATTAAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 1 0.03
45 21 0.57
46 15 0.41
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (46 bp):
ATCAGGAAGCTCATTGAGGCTAAACAGGAAACTCTGAAGAGTTTTA
Found at i:34573597 original size:28 final size:28
Alignment explanation
Indices: 34573541--34573604 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
34573531 ATTCTCGAGA
* **
34573541 TATTTTCTCAGAACCCGTCTTGTCAAAAT
1 TATTTT-TCAGAACCCATCTCATCAAAAT
*
34573570 TATTTTTCAGAACCCATCTCATCTAAAT
1 TATTTTTCAGAACCCATCTCATCAAAAT
*
34573598 CATTTTT
1 TATTTTT
34573605 TCAAAACTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 24 0.80
29 6 0.20
ACGTcount: A:0.28, C:0.23, G:0.06, T:0.42
Consensus pattern (28 bp):
TATTTTTCAGAACCCATCTCATCAAAAT
Found at i:34573735 original size:18 final size:18
Alignment explanation
Indices: 34573712--34573749 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
34573702 CCAAAACTCT
*
34573712 AATT-AATAAACACTTAAA
1 AATTAAATAAA-ACATAAA
34573730 AATTAAATAAAACATAAA
1 AATTAAATAAAACATAAA
34573748 AA
1 AA
34573750 CCATAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (18 bp):
AATTAAATAAAACATAAA
Found at i:34573812 original size:22 final size:22
Alignment explanation
Indices: 34573747--34573816 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
34573737 TAAAACATAA
* *
34573747 AAACCATAATTTAATAAACACT
1 AAACCCTAATTTAATAAACCCT
* *
34573769 AAGCCCTAA-TT-A-AAACCAT
1 AAACCCTAATTTAATAAACCCT
34573788 AAACCCTAATTTAATAAACCCT
1 AAACCCTAATTTAATAAACCCT
34573810 AAACCCT
1 AAACCCT
34573817 TAAAAAACAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 13 0.33
20 3 0.08
21 3 0.08
22 20 0.51
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.24
Consensus pattern (22 bp):
AAACCCTAATTTAATAAACCCT
Found at i:34574272 original size:19 final size:19
Alignment explanation
Indices: 34574248--34574293 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
34574238 GAAATTCCTC
34574248 TAATATATTAT-TATATACA
1 TAATATATTATGTATATA-A
34574267 TAATATATTATGTATATAA
1 TAATATATTATGTATATAA
34574286 TAATATAT
1 TAATATAT
34574294 AAATACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
TAATATATTATGTATATAA
Found at i:34574634 original size:41 final size:42
Alignment explanation
Indices: 34574586--34574664 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
34574576 TTCATCAACC
* *
34574586 AATTTTAAATGAGAT-AATATTGTTAACAATAAAAATACCAA
1 AATTTTAAATGAAATCAATATTATTAACAATAAAAATACCAA
* * *
34574627 AATTTTAAATTAAATCAATTTTATTAGCAATAAAAATA
1 AATTTTAAATGAAATCAATATTATTAACAATAAAAATA
34574665 TTCAAATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 13 0.41
42 19 0.59
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.35
Consensus pattern (42 bp):
AATTTTAAATGAAATCAATATTATTAACAATAAAAATACCAA
Found at i:34581767 original size:200 final size:201
Alignment explanation
Indices: 34581424--34581833 Score: 734
Period size: 200 Copynumber: 2.0 Consensus size: 201
34581414 CTTTTTTGCT
*
34581424 ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAGAAGCT
1 ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAAAAGCT
*
34581489 GGCTTCACCACTTCAATCAAGCTGTCTTTTTTGTCGCCTAGCATTGAAGCCCAAAATGCATTGGC
66 GGCTTCACCACTTCAATCAAGCTGTCTTTTTTGTCGCCTAGCATTGAAGACCAAAATGCATTGGC
34581554 GCGAGGGCCCATTTAAAATCTATGTTGCTTAGA-CTTCATTTTTCATGAAGTACCCGTATCTGAC
131 GCGAGGGCCCATTTAAAATCTATGTTGCTTAGACCTTCATTTTTCATGAAGTACCCGTATCTGAC
34581618 ACACGG
196 ACACGG
34581624 ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAAAAGCT
1 ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAAAAGCT
34581689 GGCTTCACCACTTCAATCAAGCTAG-CTTTTTTGTCGCCTAGCATTGAAGACCAAAATGCATTGG
66 GGCTTCACCACTTCAATCAAGCT-GTCTTTTTTGTCGCCTAGCATTGAAGACCAAAATGCATTGG
* * *
34581753 CGCGAGGGCCCATTTAGAATCTATGTTGCTTAGACTCTTCATTTTTCATGAAGTGCCTGTATCTG
130 CGCGAGGGCCCATTTAAAATCTATGTTGCTTAGAC-CTTCATTTTTCATGAAGTACCCGTATCTG
34581818 ACACACGG
194 ACACACGG
*
34581826 ATATGTGG
1 ATAAGTGG
34581834 ATATGACCTC
Statistics
Matches: 201, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
200 158 0.79
201 1 0.00
202 42 0.21
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (201 bp):
ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAAAAGCT
GGCTTCACCACTTCAATCAAGCTGTCTTTTTTGTCGCCTAGCATTGAAGACCAAAATGCATTGGC
GCGAGGGCCCATTTAAAATCTATGTTGCTTAGACCTTCATTTTTCATGAAGTACCCGTATCTGAC
ACACGG
Found at i:34594036 original size:20 final size:20
Alignment explanation
Indices: 34594008--34594045 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34593998 CTAGGAACTA
34594008 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
* *
34594028 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
34594046 TATATGTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:34598310 original size:21 final size:21
Alignment explanation
Indices: 34598279--34598338 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
34598269 AATGTAAACA
34598279 AGGGC-ACATGCCCGTGTGGG
1 AGGGCAACATGCCCGTGTGGG
34598299 AGGGCAACATGCCCGTGTGGG
1 AGGGCAACATGCCCGTGTGGG
34598320 AGGGCAACATTG-CCGTGTG
1 AGGGCAACA-TGCCCGTGTG
34598339 TCCTCTTAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
20 5 0.13
21 31 0.82
22 2 0.05
ACGTcount: A:0.18, C:0.23, G:0.42, T:0.17
Consensus pattern (21 bp):
AGGGCAACATGCCCGTGTGGG
Found at i:34599629 original size:48 final size:48
Alignment explanation
Indices: 34599573--34599980 Score: 494
Period size: 48 Copynumber: 8.5 Consensus size: 48
34599563 CGTGTCTCAG
*
34599573 ACATGGTCTTACACTGGCTCTGATATAAATGCCGATGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* *
34599621 ACATGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* * *
34599669 ATATGGTCTTACACTAGCTCTCATATAAATGCCGATGCTATGTTCCAA
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* * ** * * *
34599717 ACATGGTCTTACATTGGCTCACATATCGAGGCCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* * *
34599765 ACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* ** * *
34599813 ACATGGTCTTACACTGGC-CACATATCGAGGCCGATGCCATGTCCCAA
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* **
34599860 ACATGGTCTTACACTGGCTCTCATATAAATACTAATGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* ** * * ** * *
34599908 ACATGGTCTTACACTGGCTCACATATTGAGGCTGATTTCATGTCCCAT
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* *
34599956 ACATGGTTTTACATTGGCTCTCATA
1 ACATGGTCTTACACTGGCTCTCATA
34599981 ACCCTAGTAT
Statistics
Matches: 306, Mismatches: 53, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
47 40 0.13
48 266 0.87
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (48 bp):
ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
Found at i:34599723 original size:96 final size:96
Alignment explanation
Indices: 34599558--34599980 Score: 578
Period size: 96 Copynumber: 4.4 Consensus size: 96
34599548 GTAAGATGCT
* * * * *
34599558 GATGCCGTGTCTCAGACATGGTCTTACACTGGCTCTGATATAAATGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAAC
* * ** *
34599623 ATGGTCTTACACTAGCTCTCATATAAATGCC
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
* * * * * *
34599654 AATGCCATGTTCCAAATATGGTCTTACACTAGCTCTCATATAAATGCCGATGCTATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAAC
*
34599719 ATGGTCTTACATTGGCTCACATATCGAGGCC
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
* * *
34599750 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAAC
34599815 ATGGTCTTACACTGGC-CACATATCGAGGCC
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
* *
34599845 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAATACTAATGCCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAAC
* *
34599910 ATGGTCTTACACTGGCTCACATATTGAGGCT
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
** * * *
34599941 GATTTCATGTCCCATACATGGTTTTACATTGGCTCTCATA
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA
34599981 ACCCTAGTAT
Statistics
Matches: 289, Mismatches: 37, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
95 90 0.31
96 199 0.69
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (96 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAAC
ATGGTCTTACACTGGCTCACATATCGAGGCC
Found at i:34599928 original size:191 final size:192
Alignment explanation
Indices: 34599558--34599980 Score: 605
Period size: 191 Copynumber: 2.2 Consensus size: 192
34599548 GTAAGATGCT
* * * * * *
34599558 GATGCCGTGTCTCAGACATGGTCTTACACTGGCTCTGATATAAATGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAAC
* * * *
34599623 ATGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGTTCCAAATATGGTCTTACACTAGCT
66 ATGGTCTTACACTAGCTCACATATAAAGGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCT
* * * *
34599688 CTCATATAAATGCCGATGCTATGTTCCAAACATGGTCTTACATTGGCTCACATATCGAGGCC
131 CTCATATAAATACCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCC
34599750 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAAC
* ** * *
34599815 ATGGTCTTACACTGGC-CACATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT
66 ATGGTCTTACACTAGCTCACATATAAAGGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCT
* * *
34599879 CTCATATAAATACTAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGCT
131 CTCATATAAATACCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCC
** * *
34599941 GATTTCATGTCCCATACATGGTTTTACATTGGCTCTCATA
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATA
34599981 ACCCTAGTAT
Statistics
Matches: 205, Mismatches: 26, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
191 131 0.64
192 74 0.36
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (192 bp):
GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAAC
ATGGTCTTACACTAGCTCACATATAAAGGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCT
CTCATATAAATACCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCC
Found at i:34612090 original size:50 final size:50
Alignment explanation
Indices: 34612036--34612151 Score: 128
Period size: 50 Copynumber: 2.3 Consensus size: 50
34612026 ATTCCATTGA
** *
34612036 TGAAGTCACGACATCAAGCTGTTGTCTCCATAGACGCGACATTCCCCTAT
1 TGAAGTCACGACATCAAGCTACTGTCTCCATAGACGCAACATTCCCCTAT
** * *
34612086 TGAAGCTGCA--ACATCAAGCTACTGTCTCCATAGTTGCAACATTTCCTTAT
1 TGAAG-T-CACGACATCAAGCTACTGTCTCCATAGACGCAACATTCCCCTAT
*
34612136 TGAACTCACGACATCA
1 TGAAGTCACGACATCA
34612152 TGATATTGCT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
48 2 0.04
49 1 0.02
50 48 0.89
51 1 0.02
52 2 0.04
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (50 bp):
TGAAGTCACGACATCAAGCTACTGTCTCCATAGACGCAACATTCCCCTAT
Found at i:34613447 original size:17 final size:18
Alignment explanation
Indices: 34613425--34613459 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
34613415 TTACATTGAA
34613425 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
34613442 GTGTTTTCATTGAAAACC
1 GTGTTTTCAGTGAAAACC
34613460 CTTCTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:34614551 original size:29 final size:30
Alignment explanation
Indices: 34614483--34614591 Score: 120
Period size: 29 Copynumber: 3.8 Consensus size: 30
34614473 ACCCCTACAT
* *
34614483 ACATGCATATGGCCCA-CTGGGCCCAA-TC
1 ACATTCATATGGCCCATCTAGGCCCAATTC
* * *
34614511 CCGTTCATATGGCCCATCT-GGCCCAGTTC
1 ACATTCATATGGCCCATCTAGGCCCAATTC
* *
34614540 ATATTCTTATGGCCCA-CTAGGCCCAATTC
1 ACATTCATATGGCCCATCTAGGCCCAATTC
34614569 ACATTCATATGGCCCAT-TAGGCC
1 ACATTCATATGGCCCATCTAGGCC
34614592 TAAGTCATAT
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
28 21 0.32
29 45 0.68
ACGTcount: A:0.22, C:0.34, G:0.18, T:0.26
Consensus pattern (30 bp):
ACATTCATATGGCCCATCTAGGCCCAATTC
Found at i:34614600 original size:58 final size:57
Alignment explanation
Indices: 34614490--34614602 Score: 149
Period size: 58 Copynumber: 2.0 Consensus size: 57
34614480 CATACATGCA
* * * *
34614490 TATGGCCCACTGGGCCCAATCCCGTTCATATGGCCCATCTGGCCCAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCACATTCATATGGCCCATCTGGCCAAGTTCATATTCT
34614547 TATGGCCCACTAGGCCCAATTCACATTCATATGGCCCAT-TAGGCCTAAG-TCATATT
1 TATGGCCCACTAGGCCCAA-TCACATTCATATGGCCCATCT-GGCC-AAGTTCATATT
34614603 ATACTCATGC
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
57 19 0.39
58 28 0.57
59 2 0.04
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCACATTCATATGGCCCATCTGGCCAAGTTCATATTCT
Found at i:34622003 original size:15 final size:17
Alignment explanation
Indices: 34621973--34622004 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
34621963 GATTATGGGT
34621973 TGCATGCTACTGATTCA
1 TGCATGCTACTGATTCA
34621990 TGCATGC-A-TGATTCA
1 TGCATGCTACTGATTCA
34622005 ATAGTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (17 bp):
TGCATGCTACTGATTCA
Found at i:34625248 original size:16 final size:16
Alignment explanation
Indices: 34625227--34625258 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34625217 GGTGTAATGC
34625227 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
34625243 CCCAAAAATCCTGAAA
1 CCCAAAAATCCCGAAA
34625259 TCCTGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:34629220 original size:30 final size:30
Alignment explanation
Indices: 34629178--34629234 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
34629168 ACTATAGATG
34629178 ATTAGACTTTTTGAATGGTTT-TTAATATGA
1 ATTAGACTTTTTG-ATGGTTTCTTAATATGA
*
34629208 ATTA-ACTGTTTTGATGTTTTCTTAATA
1 ATTAGACT-TTTTGATGGTTTCTTAATA
34629235 AGATCCATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (30 bp):
ATTAGACTTTTTGATGGTTTCTTAATATGA
Found at i:34630277 original size:26 final size:25
Alignment explanation
Indices: 34630245--34630298 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
34630235 TCAGCAAATT
*
34630245 TTTGATGACTTTACCCTTGGTACAAA
1 TTTGATGACTTTACCCTTGATA-AAA
* *
34630271 TTTGATGATTTTGCCCTTGATAAAA
1 TTTGATGACTTTACCCTTGATAAAA
34630296 TTT
1 TTT
34630299 CAAGAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (25 bp):
TTTGATGACTTTACCCTTGATAAAA
Found at i:34631539 original size:24 final size:24
Alignment explanation
Indices: 34631512--34631568 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
34631502 CTATCCAGAC
* *
34631512 CTTCCCGATATAGTTTTTTGTGAA
1 CTTCCCGATATAGTTATTTATGAA
* *
34631536 CTTCCCAATATGGTTATTTATGAA
1 CTTCCCGATATAGTTATTTATGAA
34631560 CTTCCCGAT
1 CTTCCCGAT
34631569 TATGGCTCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (24 bp):
CTTCCCGATATAGTTATTTATGAA
Found at i:34631607 original size:23 final size:25
Alignment explanation
Indices: 34631552--34631612 Score: 92
Period size: 23 Copynumber: 2.6 Consensus size: 25
34631542 AATATGGTTA
*
34631552 TTTATGAACTTCCCGATTATGGCTC
1 TTTATGAGCTTCCCGATTATGGCTC
34631577 -TTATGAGCTTCCCGA-TA-GGCTC
1 TTTATGAGCTTCCCGATTATGGCTC
34631599 TTTATGAGCTTCCC
1 TTTATGAGCTTCCC
34631613 AAAATAGTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
22 5 0.15
23 15 0.44
24 14 0.41
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (25 bp):
TTTATGAGCTTCCCGATTATGGCTC
Found at i:34633056 original size:28 final size:29
Alignment explanation
Indices: 34633035--34633128 Score: 113
Period size: 29 Copynumber: 3.3 Consensus size: 29
34633025 GCCCATTCAT
34633035 ATTCATATGGCCCATTAGGCCCAAATCATC
1 ATTCATATGGCCCATTAGGCCCAAATCA-C
*
34633065 -TGT-ATATGGCCCATTAGACCCAAATCAC
1 AT-TCATATGGCCCATTAGGCCCAAATCAC
* * *
34633093 ATTTATATGGCCCGTTAGGCCC-AGTCAC
1 ATTCATATGGCCCATTAGGCCCAAATCAC
34633121 ATTCATAT
1 ATTCATAT
34633129 TCATGCTCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
28 14 0.25
29 41 0.73
30 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (29 bp):
ATTCATATGGCCCATTAGGCCCAAATCAC
Found at i:34634778 original size:30 final size:30
Alignment explanation
Indices: 34634742--34634804 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
34634732 TCTTCTGTTA
* *
34634742 TTGTTAAGTTTGTTATTCTTTTAAAGACAT
1 TTGTTAAGTTTGGTATTATTTTAAAGACAT
* *
34634772 TTGTTAATTTTGGTATTATTTTAGAGACAT
1 TTGTTAAGTTTGGTATTATTTTAAAGACAT
34634802 TTG
1 TTG
34634805 CTTGTTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.05, G:0.16, T:0.54
Consensus pattern (30 bp):
TTGTTAAGTTTGGTATTATTTTAAAGACAT
Found at i:34634958 original size:12 final size:12
Alignment explanation
Indices: 34634928--34634960 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
34634918 TTTATTTTGT
34634928 AAAATT-ATATA
1 AAAATTAATATA
34634939 AAAA-TAATATA
1 AAAATTAATATA
34634950 AAAATTAATAT
1 AAAATTAATAT
34634961 GGGCGGGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:34637047 original size:28 final size:29
Alignment explanation
Indices: 34636958--34637082 Score: 164
Period size: 29 Copynumber: 4.4 Consensus size: 29
34636948 TGAAAGCATG
*
34636958 CATATGAATGTGATTTGGGCCTAATGGGC
1 CATATGAATGTGATTTGGGCCTAATGGGT
*
34636987 CGTATGAATGTGATTTGGGCCTAATGGGT
1 CATATGAATGTGATTTGGGCCTAATGGGT
* *
34637016 CATACGAATGTGATTT-GGTCTAATGGGT
1 CATATGAATGTGATTTGGGCCTAATGGGT
* * *
34637044 CATATGAATGAGA-TTGGGCCTAGTGGGC
1 CATATGAATGTGATTTGGGCCTAATGGGT
*
34637072 CATATGCATGT
1 CATATGAATGT
34637083 ATGTAGACTT
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
27 2 0.02
28 40 0.48
29 41 0.49
ACGTcount: A:0.24, C:0.13, G:0.31, T:0.32
Consensus pattern (29 bp):
CATATGAATGTGATTTGGGCCTAATGGGT
Found at i:34637052 original size:57 final size:57
Alignment explanation
Indices: 34636958--34637075 Score: 157
Period size: 57 Copynumber: 2.1 Consensus size: 57
34636948 TGAAAGCATG
* * * *
34636958 CATATGAATGTGATTTGGGCCTAATGGGCCGTATGAATGTGATTTGGGCCTAATGGGT
1 CATACGAATGTGATTTGGGCCTAATGGGCCATATGAATGAGA-TTGGGCCTAATGGGC
* * *
34637016 CATACGAATGTGATTT-GGTCTAATGGGTCATATGAATGAGATTGGGCCTAGTGGGC
1 CATACGAATGTGATTTGGGCCTAATGGGCCATATGAATGAGATTGGGCCTAATGGGC
34637072 CATA
1 CATA
34637076 TGCATGTATG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
56 17 0.32
57 21 0.40
58 15 0.28
ACGTcount: A:0.25, C:0.13, G:0.31, T:0.31
Consensus pattern (57 bp):
CATACGAATGTGATTTGGGCCTAATGGGCCATATGAATGAGATTGGGCCTAATGGGC
Found at i:34640505 original size:68 final size:65
Alignment explanation
Indices: 34640351--34640567 Score: 175
Period size: 68 Copynumber: 3.3 Consensus size: 65
34640341 ATACAGATGG
* *
34640351 TATGTAGCTAGGTCACATGTATGGTG--CTGAGTGCACATCATGT-GTACAAGAGAGCTACAAGA
1 TATGTAGCTAGGTCACATGCATGGTGTACTGAGTG-ACACCATGTAG-ACAAGAGAGCTAC--GA
*
34640413 CATTA
62 GA-TA
*
34640418 TGATGTAGCTAGGTCGCATG---GGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTACGA
1 T-ATGTAGCTAGGTCACATGCATGGTG-TACTGA-GTG-ACACCATGTAGACAAGAGAGCTACGA
34640479 GATA
62 GATA
* * *
34640483 TATGTAGCTAGGTCACATGCATGGTTTTAGGTGAAG-GACACCATGTAGACAAGATAGCTACGAG
1 TATGTAGCTAGGTCACATGCATGG-TGTA-CTG-AGTGACACCATGTAGACAAGAGAGCTACGAG
34640547 ATA
63 ATA
*
34640550 AACTG--GCTAGGTCACATG
1 TA-TGTAGCTAGGTCACATG
34640568 GGTGGTACTA
Statistics
Matches: 127, Mismatches: 9, Indels: 29
0.77 0.05 0.18
Matches are distributed among these distances:
64 17 0.13
65 7 0.06
66 16 0.13
67 36 0.28
68 48 0.38
69 2 0.02
70 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (65 bp):
TATGTAGCTAGGTCACATGCATGGTGTACTGAGTGACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:34645485 original size:13 final size:13
Alignment explanation
Indices: 34645469--34645502 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
34645459 ATGATTTTTT
34645469 GAAAATTTCATTC
1 GAAAATTTCATTC
34645482 GAAAATTTCATTC
1 GAAAATTTCATTC
34645495 GAAAATTT
1 GAAAATTT
34645503 TGACGTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (13 bp):
GAAAATTTCATTC
Found at i:34648644 original size:79 final size:80
Alignment explanation
Indices: 34648502--34648723 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 80
34648492 TATTCGAATG
* * * * ** *
34648502 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGAGC-GAGTTACTATATCCGGGTTAAGTTCCGAAGGC
34648567 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
* * *
34648583 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGAGCGAGTTACTAAATCCGGGTTAAGTTCTGAAGGC
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCGGGTTAAGTTCCGAAGGC
34648646 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
* * *
34648662 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CTATATCCGGGTTAAGTTCCGAAGG
34648724 TATGTGATTC
Statistics
Matches: 121, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
79 67 0.55
80 42 0.35
81 12 0.10
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCGGGTTAAGTTCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:34648704 original size:40 final size:40
Alignment explanation
Indices: 34648502--34648709 Score: 235
Period size: 40 Copynumber: 5.2 Consensus size: 40
34648492 TATTCGAATG
* * *
34648502 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
*
34648543 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
* *
34648583 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGAGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
34648622 AAATCCGGGTTAAGTTCTGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
34648662 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
34648702 ATATCCGG
1 ATATCCGG
34648710 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 20, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
39 36 0.26
40 76 0.54
41 28 0.20
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:34652741 original size:40 final size:40
Alignment explanation
Indices: 34652686--34652765 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
34652676 GTTATGATGA
34652686 GTCTAAGCTTAGAAAAGTATGAATAAAAGTTCATGACATT
1 GTCTAAGCTTAGAAAAGTATGAATAAAAGTTCATGACATT
34652726 GTCTAAGCTTAGAAAAGTATGAATAAAAGTTCATGACATT
1 GTCTAAGCTTAGAAAAGTATGAATAAAAGTTCATGACATT
34652766 TACTTGATGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (40 bp):
GTCTAAGCTTAGAAAAGTATGAATAAAAGTTCATGACATT
Found at i:34670616 original size:13 final size:13
Alignment explanation
Indices: 34670584--34670618 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
34670574 CCAGGTCTTT
*
34670584 GGACACAGGTTCG
1 GGACACGGGTTCG
34670597 GGACACGGGTTCG
1 GGACACGGGTTCG
34670610 GGACACGGG
1 GGACACGGG
34670619 CGTGTCCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.20, C:0.23, G:0.46, T:0.11
Consensus pattern (13 bp):
GGACACGGGTTCG
Found at i:34674028 original size:15 final size:15
Alignment explanation
Indices: 34674008--34674080 Score: 60
Period size: 15 Copynumber: 5.0 Consensus size: 15
34673998 AATGGTTTAT
34674008 GTTTTAGGATTTAGG
1 GTTTTAGGATTTAGG
*
34674023 GTTTTAGGGTTTAGG
1 GTTTTAGGATTTAGG
*** * *
34674038 G-CCAATGATTTA-T
1 GTTTTAGGATTTAGG
*
34674051 GTTTTAGGATTGAGG
1 GTTTTAGGATTTAGG
*
34674066 GTTTTAGGGTTTAGG
1 GTTTTAGGATTTAGG
34674081 ATTTAAGGGT
Statistics
Matches: 41, Mismatches: 15, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
13 1 0.02
14 12 0.29
15 28 0.68
ACGTcount: A:0.19, C:0.03, G:0.34, T:0.44
Consensus pattern (15 bp):
GTTTTAGGATTTAGG
Found at i:34674029 original size:43 final size:43
Alignment explanation
Indices: 34673978--34674080 Score: 163
Period size: 43 Copynumber: 2.4 Consensus size: 43
34673968 TTAAGGGTTA
** * *
34673978 AGGG-TTTAGGGTTTAGGGTTAATGGTTTATGTTTTAGGATTT
1 AGGGTTTTAGGGTTTAGGGCCAATGATTTATGTTTTAGGATTG
34674020 AGGGTTTTAGGGTTTAGGGCCAATGATTTATGTTTTAGGATTG
1 AGGGTTTTAGGGTTTAGGGCCAATGATTTATGTTTTAGGATTG
34674063 AGGGTTTTAGGGTTTAGG
1 AGGGTTTTAGGGTTTAGG
34674081 ATTTAAGGGT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
42 4 0.07
43 52 0.93
ACGTcount: A:0.19, C:0.02, G:0.35, T:0.44
Consensus pattern (43 bp):
AGGGTTTTAGGGTTTAGGGCCAATGATTTATGTTTTAGGATTG
Found at i:34674038 original size:7 final size:7
Alignment explanation
Indices: 34673883--34674038 Score: 116
Period size: 7 Copynumber: 22.0 Consensus size: 7
34673873 GAGTTACTAT
*
34673883 TTTAAGG
1 TTTAGGG
*
34673890 TTTATGG
1 TTTAGGG
* *
34673897 ATTATGG
1 TTTAGGG
34673904 TTTAAGGG
1 TTT-AGGG
34673912 -TTAGGG
1 TTTAGGG
*
34673918 TTTAAGG
1 TTTAGGG
34673925 TTTAGGG
1 TTTAGGG
*
34673932 GTTAGGG
1 TTTAGGG
*
34673939 GTTAGGGG
1 TTTA-GGG
* *
34673947 TTAAAGG
1 TTTAGGG
*
34673954 TTAAGGG
1 TTTAGGG
*
34673961 TTAAGGG
1 TTTAGGG
*
34673968 TTAAGGG
1 TTTAGGG
*
34673975 TTAAGGG
1 TTTAGGG
34673982 TTTAGGG
1 TTTAGGG
34673989 TTTAGGG
1 TTTAGGG
* *
34673996 TTAATGG
1 TTTAGGG
* *
34674003 TTTATGT
1 TTTAGGG
*
34674010 TTTAGGA
1 TTTAGGG
34674017 TTTAGGG
1 TTTAGGG
34674024 TTTTAGGG
1 -TTTAGGG
34674032 TTTAGGG
1 TTTAGGG
34674039 CCAATGATTT
Statistics
Matches: 126, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
6 4 0.03
7 107 0.85
8 15 0.12
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.40
Consensus pattern (7 bp):
TTTAGGG
Found at i:34678026 original size:42 final size:43
Alignment explanation
Indices: 34677979--34678125 Score: 206
Period size: 43 Copynumber: 3.4 Consensus size: 43
34677969 AAATATTTTT
* * * *
34677979 TAAAGGTCAT-ATTTTTAGCGGCGCTTGTGAGAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGCGAGAAAAGCGCCGC
* *
34678021 TAAAGGTCATGGTCTTTAGCGGCTTTTGCCAGAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGCGAGAAAAGCGCCGC
* * *
34678064 TAAAAGTCATGGTCTTTAGCGGCGTTTGCGGGAAAAGCGTCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGCGAGAAAAGCGCCGC
34678107 TAAAGGTCATGGTCTTTAG
1 TAAAGGTCATGGTCTTTAG
34678126 TAGCATTTTT
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 10 0.11
43 82 0.89
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.27
Consensus pattern (43 bp):
TAAAGGTCATGGTCTTTAGCGGCGTTTGCGAGAAAAGCGCCGC
Found at i:34685767 original size:40 final size:40
Alignment explanation
Indices: 34685704--34685995 Score: 313
Period size: 40 Copynumber: 7.3 Consensus size: 40
34685694 TTTTCGGAAT
* * * *
34685704 TTAG-CCGGATATAACCACACGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* *
34685743 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* * * *
34685783 TTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATAGCAACTCGCACAAATGCCTTCGGGTC
* *
34685823 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
*
34685863 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* * * * *
34685903 TTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGAT-ATAGCAACTCGCACAAATGCCTTCGGGTC
* * * * * *
34685943 TTAGCTCGGATAAAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGAT-ATAGCAACTCGCACAAATGCCTTCGGGTC
34685983 TTAGCCCGGATAT
1 TTAGCCCGGATAT
34685996 CATTCAAATG
Statistics
Matches: 221, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
39 7 0.03
40 207 0.94
41 7 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
Found at i:34685809 original size:80 final size:80
Alignment explanation
Indices: 34685724--34685991 Score: 369
Period size: 80 Copynumber: 3.4 Consensus size: 80
34685714 ATAACCACAC
*
34685724 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
34685789 CGGATAAAATCACTA
66 CGGATAAAATCACTA
*
34685804 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* *
34685869 CGGAT-ATATCAACTC
66 CGGATAAAATC-ACTA
* * * * * * *
34685884 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
*
34685948 TCGGATAAAATCACTA
65 CCGGATAAAATCACTA
* * *
34685964 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
34685992 ATATCATTCA
Statistics
Matches: 170, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
79 4 0.02
80 159 0.94
81 7 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATAAAATCACTA
Found at i:34685936 original size:120 final size:120
Alignment explanation
Indices: 34685708--34685995 Score: 398
Period size: 120 Copynumber: 2.4 Consensus size: 120
34685698 CGGAATTTAG
* * * * * *
34685708 CCGGATATAACCACACGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATG
1 CCGGATAAAAGCACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATG
* *
34685773 CCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAAC
66 CCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAAC
* * *
34685828 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAAT
1 CCGGATAAAAGC-ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAAT
* *
34685892 GCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGC
65 GCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAAC
* * * * *
34685948 TCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCGGATAAAAGCACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
34685996 CATTCAAATG
Statistics
Matches: 146, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
119 2 0.01
120 141 0.97
121 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
CCGGATAAAAGCACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATG
CCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAAC
Found at i:34691873 original size:40 final size:40
Alignment explanation
Indices: 34691809--34692020 Score: 232
Period size: 40 Copynumber: 5.3 Consensus size: 40
34691799 TCTTCGGAAT
* * * *
34691809 TTAG-CCGGATATAACCACACGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* *
34691848 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
*
34691888 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* * * * *
34691928 TTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGAT-ATAGCAACTCGCACAAATGCCTTCGGGTC
* * * * *
34691968 TTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGAT-ATAGCAACTCGCACAAATGCCTTCGGGTC
34692008 TTAGCCCGGATAT
1 TTAGCCCGGATAT
34692021 CATTCAAATG
Statistics
Matches: 157, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 4 0.03
40 149 0.95
41 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
Found at i:34692927 original size:28 final size:28
Alignment explanation
Indices: 34692895--34693022 Score: 166
Period size: 29 Copynumber: 4.5 Consensus size: 28
34692885 ATAGTAAGTC
*
34692895 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
34692923 CGCACACTTAGTGCTTACATAATTAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
34692952 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
34692980 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
34693009 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34693023 CAATCTCATA
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 43 0.49
29 44 0.51
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:34692959 original size:57 final size:57
Alignment explanation
Indices: 34692894--34693022 Score: 197
Period size: 57 Copynumber: 2.3 Consensus size: 57
34692884 CATAGTAAGT
*
34692894 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATTAAAC
* * * *
34692951 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATTAAAC
34693008 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
34693023 CAATCTCATA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 62 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATTAAAC
Found at i:34696423 original size:21 final size:21
Alignment explanation
Indices: 34696397--34696440 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
34696387 TGTGTGTCCC
*
34696397 CAGCAT-CTTAAAATTTAGAAA
1 CAGCATGCTCAAAATTT-GAAA
*
34696418 CAGCATGCTCAGAATTTGAAA
1 CAGCATGCTCAAAATTTGAAA
34696439 CA
1 CA
34696441 TGAGCGGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (21 bp):
CAGCATGCTCAAAATTTGAAA
Found at i:34699455 original size:40 final size:40
Alignment explanation
Indices: 34699312--34699471 Score: 207
Period size: 40 Copynumber: 4.0 Consensus size: 40
34699302 TGGATGATAA
* * * *
34699312 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TAT
* *
34699352 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
34699392 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * *
34699432 CCGGACTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
34699472 TCGGTTATGT
Statistics
Matches: 109, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
39 3 0.03
40 106 0.97
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:34701908 original size:47 final size:47
Alignment explanation
Indices: 34701852--34702101 Score: 383
Period size: 47 Copynumber: 5.3 Consensus size: 47
34701842 TACAAGTATA
* * *
34701852 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * * *
34701899 TATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
34701946 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
34701993 TATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
34702040 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
34702087 TATAAATGTGATAAG
1 TATATATGTGATAAG
34702102 TCCCGAAGGG
Statistics
Matches: 188, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 188 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:34708845 original size:13 final size:14
Alignment explanation
Indices: 34708820--34708858 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
34708810 TTATTTTACT
34708820 GAAAATAACTTTCAA
1 GAAAATAA-TTTCAA
34708835 -AAAATAATTTCAA
1 GAAAATAATTTCAA
34708848 GAAAATAATTT
1 GAAAATAATTT
34708859 ACTTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (14 bp):
GAAAATAATTTCAA
Found at i:34709211 original size:23 final size:24
Alignment explanation
Indices: 34709183--34709227 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
34709173 AGACTTAATT
34709183 TTTAAATT-TTAAAAATAAAAAAA
1 TTTAAATTCTTAAAAATAAAAAAA
34709206 TTTAAATTCTTAAAAATAAAAA
1 TTTAAATTCTTAAAAATAAAAA
34709228 TACAAAGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
TTTAAATTCTTAAAAATAAAAAAA
Found at i:34709321 original size:15 final size:15
Alignment explanation
Indices: 34709301--34709352 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
34709291 ACTACAAAAC
34709301 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
34709316 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
34709335 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
34709350 ATT
1 ATT
34709353 AATATCAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:34709449 original size:22 final size:22
Alignment explanation
Indices: 34709405--34709464 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
34709395 TTAAAATAAA
* *
34709405 ATTAAAATATTAA-ATA-ATTT
1 ATTAAAATAATAATTTATATTT
34709425 ATTAAAATAATAATTTATATTT
1 ATTAAAATAATAATTTATATTT
* *
34709447 ATTATATTAATAATTTAT
1 ATTAAAATAATAATTTAT
34709465 TATATGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.35
21 2 0.06
22 20 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTAAAATAATAATTTATATTT
Found at i:34714011 original size:11 final size:11
Alignment explanation
Indices: 34713997--34714041 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
34713987 TATATATAAT
34713997 TTTTTAAAATA
1 TTTTTAAAATA
34714008 TTTTTAAAATAA
1 TTTTTAAAAT-A
34714020 TTTTTATAAA-A
1 TTTTTA-AAATA
34714031 -TTTTAAAATA
1 TTTTTAAAATA
34714041 T
1 T
34714042 ATAATTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 3 0.10
10 6 0.20
11 11 0.37
12 7 0.23
13 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TTTTTAAAATA
Found at i:34714012 original size:12 final size:13
Alignment explanation
Indices: 34713992--34714031 Score: 57
Period size: 11 Copynumber: 3.2 Consensus size: 13
34713982 TATGATATAT
34713992 ATAATTTTTTAAA
1 ATAATTTTTTAAA
34714005 AT-A-TTTTTAAA
1 ATAATTTTTTAAA
34714016 ATAATTTTTATAAA
1 ATAATTTTT-TAAA
34714030 AT
1 AT
34714032 TTTAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 10 0.42
12 2 0.08
13 6 0.25
14 6 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATAATTTTTTAAA
Found at i:34714058 original size:21 final size:22
Alignment explanation
Indices: 34714009--34714060 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
34713999 TTTAAAATAT
**
34714009 TTTTAAAATAATTTTTATAAAA
1 TTTTAAAATAATAATTATAAAA
34714031 TTTTAAAATATATAATTAT-AAA
1 TTTTAAAATA-ATAATTATAAAA
*
34714053 TTTAAAAA
1 TTTTAAAA
34714061 ATTCAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TTTTAAAATAATAATTATAAAA
Found at i:34714915 original size:13 final size:13
Alignment explanation
Indices: 34714897--34714930 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
34714887 CCGTGCCCTT
*
34714897 CACACGGTTGAGA
1 CACACGGTTAAGA
*
34714910 CACACGGCTAAGA
1 CACACGGTTAAGA
34714923 CACACGGT
1 CACACGGT
34714931 CGTGTCTCTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.26, T:0.12
Consensus pattern (13 bp):
CACACGGTTAAGA
Found at i:34716406 original size:46 final size:46
Alignment explanation
Indices: 34716339--34716506 Score: 182
Period size: 46 Copynumber: 3.6 Consensus size: 46
34716329 TGTAACCCGC
* *
34716339 CCATAAGTGAACTTGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
34716385 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * *
34716435 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
34716478 TCATAAGTGAACTCGGACTCAACTCAACG
1 CCATAAGTGAACTCGGACTCAACTCAACG
34716507 TGTTCAGATG
Statistics
Matches: 102, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 55 0.54
47 27 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:34716517 original size:93 final size:93
Alignment explanation
Indices: 34716347--34716518 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
34716337 GCCCATAAGT
* * * *
34716347 GAACTTGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
34716412 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCAGATGCCTAGTTACATCTCAC
* *
34716440 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATTCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
34716505 CGTGTTCAGATGCC
66 CGAGCTCAGATGCC
34716519 CAAATATCCC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCAC
Found at i:34718142 original size:40 final size:40
Alignment explanation
Indices: 34718064--34718287 Score: 274
Period size: 40 Copynumber: 5.5 Consensus size: 40
34718054 ACCCAAGTAT
* * *
34718064 CTTCGGGATTTAG-CTGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
34718103 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
34718143 CTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATAC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
34718183 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
34718226 CTTCGGAACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
34718266 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
34718288 CATCCGAATA
Statistics
Matches: 159, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
39 12 0.08
40 112 0.70
41 1 0.01
43 34 0.21
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:34718260 original size:83 final size:80
Alignment explanation
Indices: 34718079--34718287 Score: 276
Period size: 83 Copynumber: 2.6 Consensus size: 80
34718069 GGATTTAGCT
* * * **
34718079 GGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGCC
1 GGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
* *
34718144 TTTGGGACTTAGCCC
66 TTCGGAACTTAGCCC
* * *
34718159 GGATATAGTCACTAGCACAAATACCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAA
1 GGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAA
34718223 TGCCTTCGGAACTTAGCCC
62 TGCCTTCGGAACTTAGCCC
*
34718242 GGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 GGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
34718288 CATCCGAATA
Statistics
Matches: 111, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 1 0.01
80 46 0.41
83 64 0.58
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (80 bp):
GGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
TTCGGAACTTAGCCC
Found at i:34724891 original size:17 final size:18
Alignment explanation
Indices: 34724857--34724902 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
34724847 CCGTTATGTC
34724857 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
34724872 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
34724889 CGCGACCGCGACCG
1 CGCGACCGCGACCG
34724903 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:34733079 original size:64 final size:61
Alignment explanation
Indices: 34733002--34733174 Score: 181
Period size: 59 Copynumber: 2.8 Consensus size: 61
34732992 CATTATGATG
* * *
34733002 TAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATATATT
1 TAGCTAGGTCGCATGGGTGGTACTA-GTGT-CACCATGTAGACAAGAGAGCTACGAGATA-AAT
* * * *
34733066 TAGCTAGGTCGCATGTGTGGTTCCAG-GTGA--ATGTAGACAAGAGAGCTACGAGATAAAT
1 TAGCTAGGTCGCATGGGTGGTACTAGTGTCACCATGTAGACAAGAGAGCTACGAGATAAAT
* * * *
34733124 TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGTGGACAGGAGAGC
1 TAGCTAGGTCGCATGGGTGGTACT-AGTG-TCACCATGTAGACAAGAGAGC
34733175 CGAACTATAT
Statistics
Matches: 89, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
58 21 0.24
59 26 0.29
60 1 0.01
61 3 0.03
62 2 0.02
63 15 0.17
64 21 0.24
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.25
Consensus pattern (61 bp):
TAGCTAGGTCGCATGGGTGGTACTAGTGTCACCATGTAGACAAGAGAGCTACGAGATAAAT
Found at i:34738453 original size:74 final size:74
Alignment explanation
Indices: 34738353--34738512 Score: 266
Period size: 74 Copynumber: 2.2 Consensus size: 74
34738343 GGGAGGGGTA
* *
34738353 ACACACCCGTGTGACCATTCCAACATGGTCGTGCTAATGGCCCATGTGTCTCACACGGCCTAAGC
1 ACACGCCCGTGTGACCATTCCAACATGGCCGTGCTAATGGCCCATGTGTCTCACACGGCCTAAGC
34738418 AAAACAGGG
66 AAAACAGGG
* * * *
34738427 ACACGCCCGTGTGACCATTCTAACATGGCCGTGCTAATGGCCCGTGTGTTTTACACGGCCTAAGC
1 ACACGCCCGTGTGACCATTCCAACATGGCCGTGCTAATGGCCCATGTGTCTCACACGGCCTAAGC
34738492 AAAACAGGG
66 AAAACAGGG
34738501 ACACGCCCGTGT
1 ACACGCCCGTGT
34738513 CCTCTACCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 80 1.00
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.20
Consensus pattern (74 bp):
ACACGCCCGTGTGACCATTCCAACATGGCCGTGCTAATGGCCCATGTGTCTCACACGGCCTAAGC
AAAACAGGG
Found at i:34739727 original size:46 final size:46
Alignment explanation
Indices: 34739677--34739797 Score: 154
Period size: 46 Copynumber: 2.6 Consensus size: 46
34739667 CGTACCAACG
* *
34739677 CATGTCCTAGACATGTCTTACACTGGC-TTACGTCTCAAGGCCGATA
1 CATGTCCTAGACATGTCTTACACTAGCACT-CGTCTCAAGGCCGATA
* * * *
34739723 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGTCGATG
1 CATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAAGGCCGATA
34739769 CTATGTCCTAGACATGATCTTACACTAGC
1 C-ATGTCCTAGACATG-TCTTACACTAGC
34739798 TCTCACAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 39 0.60
47 14 0.22
48 12 0.18
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (46 bp):
CATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAAGGCCGATA
Found at i:34743022 original size:63 final size:63
Alignment explanation
Indices: 34742910--34743080 Score: 180
Period size: 63 Copynumber: 2.7 Consensus size: 63
34742900 GCAAGCCATG
* * * * * * *
34742910 TAACTCACTGTTTTAGTTTTAGGGTCACACGGGCTAGGGAAATAGGCGTGTGTACAGGCCGTC
1 TAACTCACTGTTTTGGATTTAGGGTCACACAGGCTAGGGATACAAGCGTGTATACAGGCCGTC
* * * * *
34742973 TAACTCACTATTTTGGCTTTAGGGTCACACAGGCTAGGGATACAAGCGTGTATCCAGTCCGTG
1 TAACTCACTGTTTTGGATTTAGGGTCACACAGGCTAGGGATACAAGCGTGTATACAGGCCGTC
* * * * * *
34743036 TAATTCAATGTTTTGGATTTAGAGTCATACAGACTAGAGATACAA
1 TAACTCACTGTTTTGGATTTAGGGTCACACAGGCTAGGGATACAA
34743081 CTATGTGTCC
Statistics
Matches: 89, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 89 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (63 bp):
TAACTCACTGTTTTGGATTTAGGGTCACACAGGCTAGGGATACAAGCGTGTATACAGGCCGTC
Found at i:34744477 original size:16 final size:16
Alignment explanation
Indices: 34744458--34744488 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34744448 CTTCTTCACT
34744458 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
34744474 TACTTACTTACTTAA
1 TACTCACTTACTTAA
34744489 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:34744494 original size:20 final size:20
Alignment explanation
Indices: 34744455--34744494 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
34744445 AAACTTCTTC
* *
34744455 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
34744475 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
34744495 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:34744605 original size:23 final size:24
Alignment explanation
Indices: 34744567--34744611 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
34744557 TTTGCTCTTC
*
34744567 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
34744591 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
34744612 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:34744882 original size:55 final size:54
Alignment explanation
Indices: 34744727--34744934 Score: 224
Period size: 55 Copynumber: 3.8 Consensus size: 54
34744717 ATCCTTTTGA
* * *
34744727 AACTTACCATTGCCATGTCTTGACATGGTTTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
34744780 AACTCACCAATGCCATGCCCT-AGCATGGCCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGA-CATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
34744834 TAACTTATCAAAGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
*
34744888 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
34744935 AAACCCTAAT
Statistics
Matches: 124, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
52 1 0.01
53 44 0.35
54 8 0.06
55 70 0.56
56 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:34749042 original size:37 final size:37
Alignment explanation
Indices: 34748986--34749066 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 37
34748976 TTTCTATGAT
34748986 TGATGTTGTTGTGATTAGCCAAATG-TAT-TGGCTTATAA
1 TGAT-TTGTTGTGATTAGCC--ATGATATGTGGCTTATAA
34749024 TGATTTGTTGT-ATGTAGCCATGATATGTGGCTTATAA
1 TGATTTGTTGTGAT-TAGCCATGATATGTGGCTTATAA
34749061 TGATTT
1 TGATTT
34749067 TGGCTTGTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
35 3 0.08
36 5 0.12
37 28 0.70
38 4 0.10
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.44
Consensus pattern (37 bp):
TGATTTGTTGTGATTAGCCATGATATGTGGCTTATAA
Found at i:34760172 original size:69 final size:70
Alignment explanation
Indices: 34760040--34760172 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
34760030 TAGTTTATTA
* * * * *
34760040 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
34760105 CTTAG
66 CTTAG
34760110 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
34760173 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:34762021 original size:48 final size:48
Alignment explanation
Indices: 34761950--34762189 Score: 399
Period size: 48 Copynumber: 5.0 Consensus size: 48
34761940 CACAAGATAA
34761950 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
34761998 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
34762046 GGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
*
34762096 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * *
34762144 AGATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAGTATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
34762190 GGAGGTGTGG
Statistics
Matches: 182, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
48 135 0.74
49 4 0.02
50 43 0.24
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:34762205 original size:98 final size:96
Alignment explanation
Indices: 34761950--34762189 Score: 399
Period size: 98 Copynumber: 2.5 Consensus size: 96
34761940 CACAAGATAA
34761950 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
34762015 AAAGCCGAATGGCTAATGTGAAATATGTATG
66 AAAGCCGAATGGCTAATGTGAAATATGTATG
* *
34762046 GGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTG
*
34762111 GTAAAGCCGAATGGCTAGTGTGAAATATGTATG
64 GTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * *
34762144 AGATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAGTATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
34762190 GGAGGTGTGG
Statistics
Matches: 133, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
96 41 0.31
97 4 0.03
98 88 0.66
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (96 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:34762375 original size:37 final size:37
Alignment explanation
Indices: 34762325--34762439 Score: 169
Period size: 37 Copynumber: 3.1 Consensus size: 37
34762315 ACATGAAACT
*
34762325 TGGAAATATATTCCGGGTAAGACCCAATGACTACGTG
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
34762362 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
* * * *
34762399 TGGAGAT-TTTGTCCGGGTAAGACCCGATAACTTCGTG
1 TGGAAATATAT-TCCGGGTAAGACCCGATGACTACGTG
34762436 TGGA
1 TGGA
34762440 GATTTCATCT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 2 0.03
37 70 0.97
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (37 bp):
TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
Found at i:34763760 original size:40 final size:40
Alignment explanation
Indices: 34763705--34763936 Score: 353
Period size: 40 Copynumber: 5.8 Consensus size: 40
34763695 AGTTAGATAC
*
34763705 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
*
34763745 CCGGGCTAAGTCCCGAAGAGCATTCGAGTTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
* * * *
34763785 CCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
34763825 CCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
* *
34763865 CCGGGCTAGGTCTCGAAGAGCATTCGAGCTGGTG-T-TAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
*
34763903 CCGGGCTAAGTCTCGAAGAGCATTC-ATGCTGGTG
1 CCGGGCTAAGTCCCGAAGAGCATTCGA-GCTGGTG
34763937 ATGTGTATTC
Statistics
Matches: 177, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
37 1 0.01
38 34 0.19
39 1 0.01
40 141 0.80
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
Found at i:34763950 original size:120 final size:120
Alignment explanation
Indices: 34763705--34763938 Score: 400
Period size: 120 Copynumber: 2.0 Consensus size: 120
34763695 AGTTAGATAC
*
34763705 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTC
1 CCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTC
* *
34763770 GAGTTGGTGTTATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATATAT
66 GAGCTGGTGTTATATCCGGGCTAAGTCTCGAAGAGCATTCATGCTAGTGATATAT
* *
34763825 CCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTATATCCGGGCTAGGTCTCGAAGAGCATTC
1 CCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTC
*
34763890 GAGCTGGTG-T-TATCCGGGCTAAGTCTCGAAGAGCATTCATGCTGGTGAT
66 GAGCTGGTGTTATATCCGGGCTAAGTCTCGAAGAGCATTCATGCTAGTGAT
34763939 GTGTATTCGG
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
118 37 0.34
119 1 0.01
120 70 0.65
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTC
GAGCTGGTGTTATATCCGGGCTAAGTCTCGAAGAGCATTCATGCTAGTGATATAT
Found at i:34766362 original size:69 final size:70
Alignment explanation
Indices: 34766230--34766362 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
34766220 TAGTTTATTA
* * * * *
34766230 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
34766295 CTTAG
66 CTTAG
34766300 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
34766363 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:34768195 original size:48 final size:48
Alignment explanation
Indices: 34768140--34768377 Score: 388
Period size: 48 Copynumber: 5.0 Consensus size: 48
34768130 CACAAGATAA
*
34768140 AGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
34768188 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
34768236 GGATATGTATATGTGGTAAAGCCGAATGGCT-ATGTGAAATAATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT-ATGTATG
*
34768284 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * *
34768332 AGATACGTATATGTGGTAAAGCCGAAGGGCTACTGTGAAGTATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
34768378 GGAGGTGTGG
Statistics
Matches: 178, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 9 0.05
48 161 0.90
49 8 0.04
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:34768586 original size:37 final size:37
Alignment explanation
Indices: 34768511--34768624 Score: 169
Period size: 37 Copynumber: 3.1 Consensus size: 37
34768501 ACATGAAACT
34768511 TGGAAATATATTCCGGGTAAGACCC-ATGACTACGTG
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
34768547 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
* * * *
34768584 TGGAGAT-TTTGTCCGGGTAAGACCCGATAACTTCGTG
1 TGGAAATATAT-TCCGGGTAAGACCCGATGACTACGTG
34768621 TGGA
1 TGGA
34768625 GATTTCATCT
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
36 27 0.38
37 45 0.62
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (37 bp):
TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
Found at i:34770797 original size:11 final size:11
Alignment explanation
Indices: 34770769--34770811 Score: 61
Period size: 10 Copynumber: 3.9 Consensus size: 11
34770759 AAATGATTTT
34770769 TATTATTTAA-
1 TATTATTTAAC
34770779 TATTATTTAAC
1 TATTATTTAAC
*
34770790 TTTTATTTAAC
1 TATTATTTAAC
34770801 ATATTATTTAA
1 -TATTATTTAA
34770812 AACAATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 10 0.34
11 10 0.34
12 9 0.31
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (11 bp):
TATTATTTAAC
Found at i:34783492 original size:13 final size:13
Alignment explanation
Indices: 34783474--34783498 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34783464 TAATGGTATA
34783474 TTGAATCCATGAT
1 TTGAATCCATGAT
34783487 TTGAATCCATGA
1 TTGAATCCATGA
34783499 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:34785406 original size:25 final size:25
Alignment explanation
Indices: 34785378--34785456 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
34785368 CTAATGGCCG
34785378 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * * *
34785403 ATGTGAT-AAGGCCGAATG-GCA-A-
1 ATGTGATGAATG-TGAAAGTGTATAT
34785425 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
34785450 ATGTGAT
1 ATGTGAT
34785457 AAGGCCTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 11 0.27
23 6 0.15
24 6 0.15
25 18 0.44
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:34785406 original size:47 final size:47
Alignment explanation
Indices: 34785353--34785506 Score: 272
Period size: 47 Copynumber: 3.3 Consensus size: 47
34785343 ACAAGATATG
34785353 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* **
34785400 TATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
34785447 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
34785494 TATATGTGATAAG
1 TATATGTGATAAG
34785507 TCCCGAAGGA
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 100 1.00
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:34786679 original size:13 final size:13
Alignment explanation
Indices: 34786661--34786687 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34786651 AGTTTACATT
34786661 TTATCCCTGGCTG
1 TTATCCCTGGCTG
34786674 TTATCCCTGGCTG
1 TTATCCCTGGCTG
34786687 T
1 T
34786688 GTTTAGTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.30, G:0.22, T:0.41
Consensus pattern (13 bp):
TTATCCCTGGCTG
Found at i:34787422 original size:40 final size:40
Alignment explanation
Indices: 34787367--34787641 Score: 252
Period size: 40 Copynumber: 6.9 Consensus size: 40
34787357 TTCAGTGAGT
* * *
34787367 TATATCCGGGCTAAGTCCCGAAGGGCATTTGTGCCGATGC
1 TATATCCGGGTTAAGTCCCGAAGAGCATTCGTGCCGATGC
* * * *
34787407 TATATCCGGGTTAAGTCCCGAAGAGCATTCATGCTGGTGT
1 TATATCCGGGTTAAGTCCCGAAGAGCATTCGTGCCGATGC
* * * *
34787447 TATACCCGGGTTAAGACCCGAAGAGCATTCGTGCTGGTGC
1 TATATCCGGGTTAAGTCCCGAAGAGCATTCGTGCCGATGC
* * * *
34787487 TATACCCGGGTTAAGACCAGAAGAGCATTCGTG-C-AAGC
1 TATATCCGGGTTAAGTCCCGAAGAGCATTCGTGCCGATGC
* * * *
34787525 GTTATATCTGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 --TATATCCGGGTTAAGTCCCGAAGAGCATTCGTGCCGATGC
* * * * *
34787567 TATACCCGGGTTAAGACCCG-AGAGCATTTGTG-CTAGTGT
1 TATATCCGGGTTAAGTCCCGAAGAGCATTCGTGCCGA-TGC
* * *
34787606 TATATCAGAGCTAAGTCCCGAAGAGCATTCGTGCCG
1 TATATCCGGGTTAAGTCCCGAAGAGCATTCGTGCCG
34787642 GTGATGTGTA
Statistics
Matches: 191, Mismatches: 37, Indels: 13
0.79 0.15 0.05
Matches are distributed among these distances:
38 2 0.01
39 29 0.15
40 158 0.83
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TATATCCGGGTTAAGTCCCGAAGAGCATTCGTGCCGATGC
Found at i:34787498 original size:80 final size:80
Alignment explanation
Indices: 34787365--34787644 Score: 364
Period size: 80 Copynumber: 3.5 Consensus size: 80
34787355 AGTTCAGTGA
* * * * *
34787365 GTTATATCCGGGCTAAGTCCCGAAGGGCATTTGTGCCGATGCTATATCCGGGTTAAGTCCCGAAG
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCCGGTGCTATACCCGGGTTAAGACCCGAAG
* *
34787430 AGCATTCATGCTGGT
66 AGCATTCGTGCTAGT
* * * * *
34787445 GTTATACCCGGGTTAAGACCCGAAGAGCATTCGTGCTGGTGCTATACCCGGGTTAAGACCAGAAG
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCCGGTGCTATACCCGGGTTAAGACCCGAAG
* *
34787510 AGCATTCGTGCAAGC
66 AGCATTCGTGCTAGT
* * * *
34787525 GTTATATCTGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATACCCGGGTTAAGACCCG-AG
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCCGGTGCTATACCCGGGTTAAGACCCGAAG
*
34787589 AGCATTTGTGCTAGT
66 AGCATTCGTGCTAGT
* *
34787604 GTTATATCAGAGCTAAGTCCCGAAGAGCATTCGTGCCGGTG
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCCGGTG
34787645 ATGTGTATTC
Statistics
Matches: 174, Mismatches: 26, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
79 51 0.29
80 123 0.71
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (80 bp):
GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCCGGTGCTATACCCGGGTTAAGACCCGAAG
AGCATTCGTGCTAGT
Found at i:34787585 original size:120 final size:119
Alignment explanation
Indices: 34787407--34787639 Score: 358
Period size: 120 Copynumber: 1.9 Consensus size: 119
34787397 GTGCCGATGC
34787407 TATATCCGGGTTAAGTCCCGAAGAGCATTCATGCTGGTGTTATACCCGGGTTAAGACCCGAAGAG
1 TATATCCGGGTTAAGTCCCGAAGAGCATTCATGCTGGTGTTATACCCGGGTTAAGACCCG-AGAG
* * * *
34787472 CATTCGTGCTGGTGCTATACCCGGGTTAAGACCAGAAGAGCATTCGTGCAAGCGT
65 CATTCGTGCTAGTGCTATACCAGAGCTAAGACCAGAAGAGCATTCGTGCAAGCGT
* *
34787527 TATATCTGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATACCCGGGTTAAGACCCGAGAGC
1 TATATCCGGGTTAAGTCCCGAAGAGCATTCATGCTGGTGTTATACCCGGGTTAAGACCCGAGAGC
* * * * *
34787592 ATTTGTGCTAGTGTTATATCAGAGCTAAGTCCCGAAGAGCATTCGTGC
66 ATTCGTGCTAGTGCTATACCAGAGCTAAGACCAGAAGAGCATTCGTGC
34787640 CGGTGATGTG
Statistics
Matches: 102, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
119 44 0.43
120 58 0.57
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TATATCCGGGTTAAGTCCCGAAGAGCATTCATGCTGGTGTTATACCCGGGTTAAGACCCGAGAGC
ATTCGTGCTAGTGCTATACCAGAGCTAAGACCAGAAGAGCATTCGTGCAAGCGT
Found at i:34787695 original size:43 final size:43
Alignment explanation
Indices: 34787632--34787715 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
34787622 CCCGAAGAGC
* * *
34787632 ATTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
1 ATTCGTGCCGGTGATATGTATTCAGGCCTTCATGCCTAGCAGG
*
34787675 ATTCGTGCCGGTGATATGTATTCAGGCTTTCATGCCTAGCA
1 ATTCGTGCCGGTGATATGTATTCAGGCCTTCATGCCTAGCA
34787716 AGCTTAATGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.15, C:0.23, G:0.30, T:0.32
Consensus pattern (43 bp):
ATTCGTGCCGGTGATATGTATTCAGGCCTTCATGCCTAGCAGG
Found at i:34787731 original size:43 final size:43
Alignment explanation
Indices: 34787637--34787732 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
34787627 AGAGCATTCG
* * * * **
34787637 TGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGATTCG
1 TGCCGGTGATATGTATTCAGGCCTTCATGCCTAGCAAGATTAA
* *
34787680 TGCCGGTGATATGTATTCAGGCTTTCATGCCTAGCAAGCTTAA
1 TGCCGGTGATATGTATTCAGGCCTTCATGCCTAGCAAGATTAA
*
34787723 TGCTGGTGAT
1 TGCCGGTGAT
34787733 CTGAGCAAAG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.17, C:0.21, G:0.30, T:0.32
Consensus pattern (43 bp):
TGCCGGTGATATGTATTCAGGCCTTCATGCCTAGCAAGATTAA
Found at i:34787923 original size:54 final size:57
Alignment explanation
Indices: 34787864--34787983 Score: 165
Period size: 58 Copynumber: 2.1 Consensus size: 57
34787854 ATGAATAAGG
* *
34787864 GCACTATGTGTGTGA-AT-GAT-TTGAGGCATTGTGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGGGTGAGATCGATATTGAGGCACTGTGTGTGCAAATTCCTTTAACCGA
* *
34787918 GCACTATGTGGGTGAGATCGATAATTGAGGCACTGTGTGTGCGAATTTCTTTAACCGA
1 GCACTATGTGGGTGAGATCGAT-ATTGAGGCACTGTGTGTGCAAATTCCTTTAACCGA
*
34787976 GTACTATG
1 GCACTATG
34787984 AGTGCAAGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
54 14 0.25
55 2 0.04
56 3 0.05
58 38 0.67
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (57 bp):
GCACTATGTGGGTGAGATCGATATTGAGGCACTGTGTGTGCAAATTCCTTTAACCGA
Found at i:34787994 original size:58 final size:58
Alignment explanation
Indices: 34787884--34787997 Score: 156
Period size: 58 Copynumber: 2.0 Consensus size: 58
34787874 TGTGAATGAT
* * **
34787884 TTGAGGCATTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGGGTGAGATCGATAA
1 TTGAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGAGGGCAAGATCGATAA
* * * *
34787942 TTGAGGCACTGTGTGTGCGAATTTCTTTAACCGAGTACTATGAGTGCAAGATCGAT
1 TTGAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGAGGGCAAGATCGAT
34787998 CAGTGGGCAC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 48 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (58 bp):
TTGAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGAGGGCAAGATCGATAA
Found at i:34790156 original size:13 final size:13
Alignment explanation
Indices: 34790138--34790162 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34790128 TAATGGTATA
34790138 TTGAATCCATGAT
1 TTGAATCCATGAT
34790151 TTGAATCCATGA
1 TTGAATCCATGA
34790163 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:34792065 original size:25 final size:25
Alignment explanation
Indices: 34792037--34792162 Score: 86
Period size: 25 Copynumber: 5.3 Consensus size: 25
34792027 CTAATGGCCG
*
34792037 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCGAAAGTGTATAT
* * *
34792062 ATGTGAT-AAGGCCGAATG-GCA-A-
1 ATGTGATGAATG-CGAAAGTGTATAT
*
34792084 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCGAAAGTGTATAT
* * ****
34792109 ATGTGAT-AAGGCCAAA-TG-GCCG
1 ATGTGATGAATGCGAAAGTGTATAT
*
34792131 ATGTGATGAATGGGAAAGTGTATAT
1 ATGTGATGAATGCGAAAGTGTATAT
34792156 ATGTGAT
1 ATGTGAT
34792163 AAGTCCCGAA
Statistics
Matches: 71, Mismatches: 22, Indels: 16
0.65 0.20 0.15
Matches are distributed among these distances:
22 18 0.25
23 14 0.20
24 14 0.20
25 25 0.35
ACGTcount: A:0.35, C:0.06, G:0.30, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGCGAAAGTGTATAT
Found at i:34792065 original size:47 final size:47
Alignment explanation
Indices: 34792012--34792165 Score: 263
Period size: 47 Copynumber: 3.3 Consensus size: 47
34792002 ACAAGATATG
*
34792012 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTA
* **
34792059 TATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTA
*
34792106 TATATGTGATAAGGCCAAATGGCCGATGTGATGAATGGGAAAGTGTA
1 TATATGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTA
34792153 TATATGTGATAAG
1 TATATGTGATAAG
34792166 TCCCGAAGGA
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 100 1.00
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:34820370 original size:47 final size:47
Alignment explanation
Indices: 34820301--34820394 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
34820291 ACCTTCATAA
34820301 TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
1 TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
34820348 TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
1 TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
34820395 GTTAAACCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.28
Consensus pattern (47 bp):
TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
Done.