Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 115 of 438
Found at i:33452681 original size:17 final size:17
Alignment explanation
Indices: 33452659--33452696 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
33452649 ACAAAAATTC
33452659 AAATAGCTCATAATATG
1 AAATAGCTCATAATATG
33452676 AAATAGCTCATAATATG
1 AAATAGCTCATAATATG
33452693 AAAT
1 AAAT
33452697 TTTTTTGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.29
Consensus pattern (17 bp):
AAATAGCTCATAATATG
Found at i:33453123 original size:51 final size:50
Alignment explanation
Indices: 33453046--33453176 Score: 176
Period size: 49 Copynumber: 2.6 Consensus size: 50
33453036 CGGATACTCG
* *
33453046 GTGGCCTGCACATAGTACCACCCTTGTAGTCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTAGTCAAAGCTACC-TCTTCACAAA
* * * *
33453097 GTGGCCTTCACATAGTACCACACTTGT-GACCAAGCTATCTCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTAGTCAAAGCTACCTCTTCACAAA
*
33453146 GTGGCCTTCACAGAGTACCACACTTG-AGTCA
1 GTGGCCTTCACATAGTACCACACTTGTAGTCA
33453177 CTAGTGACAT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
49 36 0.51
50 9 0.13
51 25 0.36
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.26
Consensus pattern (50 bp):
GTGGCCTTCACATAGTACCACACTTGTAGTCAAAGCTACCTCTTCACAAA
Found at i:33455741 original size:46 final size:45
Alignment explanation
Indices: 33455515--33455740 Score: 353
Period size: 46 Copynumber: 4.9 Consensus size: 45
33455505 TGTCATGTTA
** * *
33455515 CCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-GTTG
**
33455561 CCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-GTTG
*
33455607 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-GTTG
33455653 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGATTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG-TTG
33455699 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
33455741 AGAGCACACT
Statistics
Matches: 172, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
45 1 0.01
46 171 0.99
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (45 bp):
CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGTTG
Found at i:33456479 original size:44 final size:44
Alignment explanation
Indices: 33456429--33456516 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
33456419 TAACTGAGAT
* * *
33456429 TATTCATATCGTCCCTTAAATGAACCCTCGAGGCCTAATATGGG
1 TATTCATATCATCCCTTAAATGAACCCTCAAGCCCTAATATGGG
33456473 TATTCATATCATCCCTTAAATGAACCCTCAAGCCCTAATATGGG
1 TATTCATATCATCCCTTAAATGAACCCTCAAGCCCTAATATGGG
33456517 CATTAGGATC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (44 bp):
TATTCATATCATCCCTTAAATGAACCCTCAAGCCCTAATATGGG
Found at i:33460823 original size:47 final size:46
Alignment explanation
Indices: 33460754--33460974 Score: 182
Period size: 47 Copynumber: 4.7 Consensus size: 46
33460744 ATTTGTTTGT
*
33460754 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACATTGAGACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGAC-TCGAGACGA
33460801 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGACTCGAGAC-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATC-GACTCGAGACGA
* * * * * * *
33460846 TAAACCAATATAAGACATGTCTGGGACAT-GCATCGGCTACGAGATGA
1 -GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACT-CGAGACGA
* * * * * * *
33460893 TAG-TCAGTGTAAGACCATGTTTAGGACATGTCATTGAC-CTGAGATGT
1 GAGCT-AGTGTAAGA-CATGTCTGGGACATGGCATCGACTC-GAGACGA
* *
33460940 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATC
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATC
33460975 AGCACTTTAC
Statistics
Matches: 141, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
45 4 0.03
46 53 0.38
47 79 0.56
48 5 0.04
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACTCGAGACGA
Found at i:33460953 original size:93 final size:93
Alignment explanation
Indices: 33460751--33460974 Score: 224
Period size: 93 Copynumber: 2.4 Consensus size: 93
33460741 GTCATTTGTT
* *
33460751 TGTGAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGAC
1 TGTGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACATCGAGACGAGAGCTAGTGTAAGAC
*
33460816 ATGTCTGGGACATGCATCGGACTCGAGA
66 ATGTCTAGGACATGCATCGGACTCGAGA
** * * * * * * *
33460844 CATAAACCAATATAAGACATGTCTGGGACAT-GCATCGGC-TACGAGATGATAG-TCAGTGTAAG
1 TGTGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACAT-CGAGACGAGAGCT-AGTGTAAG
* *
33460906 ACCATGTTTAGGACATGTCAT-TGAC-CTGAGA
64 A-CATGTCTAGGACATG-CATCGGACTC-GAGA
*
33460937 TGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATC
1 TGTGAGCCAGTGTAAGA-CATGTCTGGGACATGGCATC
33460975 AGCACTTTAC
Statistics
Matches: 103, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
91 2 0.02
92 25 0.24
93 55 0.53
94 16 0.16
95 5 0.05
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (93 bp):
TGTGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACATCGAGACGAGAGCTAGTGTAAGAC
ATGTCTAGGACATGCATCGGACTCGAGA
Found at i:33467055 original size:23 final size:23
Alignment explanation
Indices: 33467029--33467078 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
33467019 TTGGAGGTCC
33467029 TTAAATGGTAATTAGACCATTGG
1 TTAAATGGTAATTAGACCATTGG
33467052 TTAAATGGTAATTAGACCATTGG
1 TTAAATGGTAATTAGACCATTGG
33467075 TTAA
1 TTAA
33467079 GTTGGTGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (23 bp):
TTAAATGGTAATTAGACCATTGG
Found at i:33467876 original size:23 final size:25
Alignment explanation
Indices: 33467828--33467877 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
33467818 GGTAAGTTCG
*
33467828 TATGTTTAATATGCATTAAATTATA
1 TATGTATAATATGCATTAAATTATA
33467853 TATGTATAA-ATGC-TT-AATTGATA
1 TATGTATAATATGCATTAAATT-ATA
33467876 TA
1 TA
33467878 ATTGTGGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 4 0.17
23 7 0.30
24 4 0.17
25 8 0.35
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (25 bp):
TATGTATAATATGCATTAAATTATA
Found at i:33468121 original size:43 final size:42
Alignment explanation
Indices: 33468036--33468144 Score: 173
Period size: 43 Copynumber: 2.6 Consensus size: 42
33468026 TAAGATTATG
33468036 TGTAAGACCATATCTGGGATATGGCATCGATACGAGACTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATACGAGACTTCA
* * * *
33468078 TGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATACGAGACTTCA
33468121 TGTAAGACCATATCTGGGATATGG
1 TGTAAGACCATATCTGGGATATGG
33468145 AATTGGAATG
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 22 0.37
43 38 0.63
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATACGAGACTTCA
Found at i:33469914 original size:40 final size:40
Alignment explanation
Indices: 33469869--33469998 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
33469859 CGGAATACAA
33469869 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
33469909 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
33469949 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
33469989 CCGGATATAA
1 CCGGATATAA
33469999 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:33470013 original size:40 final size:40
Alignment explanation
Indices: 33469869--33470032 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
33469859 CGGAATACAA
* **
33469869 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
33469909 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
33469949 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
33469989 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
33470029 CCGG
1 CCGG
33470033 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:33474201 original size:10 final size:10
Alignment explanation
Indices: 33474186--33474220 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
33474176 ATTAGTGAAA
33474186 GGAATAATAT
1 GGAATAATAT
33474196 GGAAT-A-AT
1 GGAATAATAT
33474204 GGAATAATAT
1 GGAATAATAT
33474214 GGAATAA
1 GGAATAA
33474221 ATTGAGTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 7 0.30
9 2 0.09
10 14 0.61
ACGTcount: A:0.51, C:0.00, G:0.23, T:0.26
Consensus pattern (10 bp):
GGAATAATAT
Found at i:33474209 original size:18 final size:18
Alignment explanation
Indices: 33474186--33474220 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
33474176 ATTAGTGAAA
33474186 GGAATAATATGGAATAAT
1 GGAATAATATGGAATAAT
33474204 GGAATAATATGGAATAA
1 GGAATAATATGGAATAA
33474221 ATTGAGTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.23, T:0.26
Consensus pattern (18 bp):
GGAATAATATGGAATAAT
Found at i:33479463 original size:23 final size:23
Alignment explanation
Indices: 33479424--33479468 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
33479414 GAAATATGGA
* *
33479424 TGTGTAATGATTATTGATTTATG
1 TGTGTAATGAGTATTGAATTATG
33479447 TGTGT-ATGAGTATTTGAATTAT
1 TGTGTAATGAGTA-TTGAATTAT
33479469 ACCCGGGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (23 bp):
TGTGTAATGAGTATTGAATTATG
Found at i:33479651 original size:40 final size:40
Alignment explanation
Indices: 33479592--33479799 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
33479582 CAATTGAATG
* * * *
33479592 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
33479632 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
33479672 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
33479712 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
33479752 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
33479792 ATATCCGG
1 ATATCCGG
33479800 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:33479730 original size:80 final size:80
Alignment explanation
Indices: 33479594--33479799 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
33479584 ATTGAATGAT
* * ** * * *
33479594 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
33479658 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
33479674 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
33479739 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
33479754 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
33479800 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:33485577 original size:80 final size:80
Alignment explanation
Indices: 33485493--33485641 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
33485483 TATGGTAACC
* * * *
33485493 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
33485557 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
33485573 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
33485638 CCGG
66 CCGG
33485642 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:33485583 original size:40 final size:38
Alignment explanation
Indices: 33485534--33485641 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
33485524 ATCACGATTT
*
33485534 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
33485574 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
33485614 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
33485642 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:33493749 original size:40 final size:39
Alignment explanation
Indices: 33493612--33493754 Score: 139
Period size: 40 Copynumber: 3.6 Consensus size: 39
33493602 CCGCACCAAG
* * * * *
33493612 GCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAAT
1 GCCTTCGGGTCTTAACCCGGATAT-AGCAACTAGCAC-AAT
* * *
33493652 GCCTTCGGGTCTTAGCCCGG--ATAGAAACTCGCACGAAT
1 GCCTTCGGGTCTTAACCCGGATATAGCAACTAGCAC-AAT
* *
33493690 GCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGATATAGCAACTAGCACAA-T
33493730 GCCTTCGGGTCTTAACCCGGATATA
1 GCCTTCGGGTCTTAACCCGGATATA
33493755 ATTTCCAGCA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
37 1 0.01
38 31 0.36
39 2 0.02
40 53 0.61
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGTCTTAACCCGGATATAGCAACTAGCACAAT
Found at i:33493770 original size:40 final size:38
Alignment explanation
Indices: 33493647--33493793 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 38
33493637 ACGATTTGCA
* *
33493647 CAAATGCCTTCGGGTCTTAGCCCGGATAGAAACTCGCA-
1 CAAATGCCTTCGGGTCTTAGCCCGGATATAATCTC-CAG
* ** * *
33493685 CGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAG
1 CAAATGCCTTCGGGTCTTAGCCCGGATATAATCTCCAG
* *
33493723 CACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAG
1 CA-AA-TGCCTTCGGGTCTTAGCCCGGATATAATCTCCAG
* *
33493763 CATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 CA-AA-TGCCTTCGGGTCTTAGCCCGGATAT
33493794 CATTCAATTT
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
37 1 0.01
38 31 0.35
39 2 0.02
40 55 0.62
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (38 bp):
CAAATGCCTTCGGGTCTTAGCCCGGATATAATCTCCAG
Found at i:33500773 original size:40 final size:39
Alignment explanation
Indices: 33500728--33500855 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 39
33500718 CGGAATACAA
*
33500728 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTA-GCAC-AATGCCTTCGGGTCTTAGC
* ** *
33500768 CCGGATGTGGTCACTAGCACAATGGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAT-GCCTTCGGGTCTTAGC
* * * *
33500808 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAATCACTAGCA-CAATGCCTTCGGGTCTTAGC
33500848 CCGGATAT
1 CCGGATAT
33500856 CATTCAATTG
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
39 3 0.04
40 65 0.90
41 4 0.06
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:33506115 original size:43 final size:46
Alignment explanation
Indices: 33506063--33506190 Score: 172
Period size: 51 Copynumber: 2.7 Consensus size: 46
33506053 TGTAGCATTC
33506063 GAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCG-A-G-CATCT
1 GAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGTATGACATCT
*
33506106 GAGCTCGTTGAGAGGTCCGAGTTCATGATGGATGCGATTCATGTAACATCT
1 GAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCG--T-ATG--ACATCT
*
33506157 GAGCTCGTTGAGAGGTTCGAGTTCATTATGGATG
1 GAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
33506191 TGTTACATGT
Statistics
Matches: 74, Mismatches: 3, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
43 35 0.47
47 1 0.01
48 1 0.01
51 37 0.50
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (46 bp):
GAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGTATGACATCT
Found at i:33514501 original size:18 final size:18
Alignment explanation
Indices: 33514468--33514567 Score: 66
Period size: 18 Copynumber: 5.8 Consensus size: 18
33514458 TTGGCCAAAG
*
33514468 TGGGAATGTGGG-CCACA
1 TGGGCATGTGGGCCCACA
33514485 TGGGCATGTGGGCCCACA
1 TGGGCATGTGGGCCCACA
* * * *
33514503 TGAGCA---AGGCCAACC
1 TGGGCATGTGGGCCCACA
*
33514518 TGGGCGTGTGGG-CCACA
1 TGGGCATGTGGGCCCACA
** *
33514535 TGGGTGTGTAGGCCCACA
1 TGGGCATGTGGGCCCACA
* *
33514553 CGAGCATGTGGGCCC
1 TGGGCATGTGGGCCC
33514568 TTAATTTTAA
Statistics
Matches: 61, Mismatches: 17, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
15 10 0.16
17 24 0.39
18 27 0.44
ACGTcount: A:0.19, C:0.26, G:0.39, T:0.16
Consensus pattern (18 bp):
TGGGCATGTGGGCCCACA
Found at i:33515916 original size:43 final size:44
Alignment explanation
Indices: 33515834--33515917 Score: 125
Period size: 43 Copynumber: 1.9 Consensus size: 44
33515824 CCAAGTTAAG
33515834 TCTCACTCTGTGCGATCCTTTGAGAGCATGAGCTATTGTGAGCA
1 TCTCACTCTGTGCGATCCTTTGAGAGCATGAGCTATTGTGAGCA
* * * *
33515878 TCTCACTCTGTGCGCTCC-TTGAGAGTATGGGCTTTTGTGA
1 TCTCACTCTGTGCGATCCTTTGAGAGCATGAGCTATTGTGA
33515918 TATTCGTGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 19 0.53
44 17 0.47
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.35
Consensus pattern (44 bp):
TCTCACTCTGTGCGATCCTTTGAGAGCATGAGCTATTGTGAGCA
Found at i:33517867 original size:41 final size:41
Alignment explanation
Indices: 33517795--33517875 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
33517785 GTTTACTGAT
* * ** * *
33517795 TAATGTATATCTGATACTGTTACTCTGATGGGCTTAGGCCC
1 TAATGCATATCTAATACTGAAACTCTAATGGGCTAAGGCCC
*
33517836 TAATGCATATCTAATACTGAAACTTTAATGGGCTAAGGCC
1 TAATGCATATCTAATACTGAAACTCTAATGGGCTAAGGCC
33517876 TGAACTGCTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (41 bp):
TAATGCATATCTAATACTGAAACTCTAATGGGCTAAGGCCC
Found at i:33517919 original size:33 final size:33
Alignment explanation
Indices: 33517850--33517976 Score: 173
Period size: 34 Copynumber: 3.8 Consensus size: 33
33517840 GCATATCTAA
**
33517850 TACTGAAACTTTAATGGGCTAAGGCCTGAACTGC
1 TACTGAAACTGAAATGGGCTAAGGCC-GAACTGC
*
33517884 TACTAAAACTGAAATGGGCTAAGGCCGAACTGC
1 TACTGAAACTGAAATGGGCTAAGGCCGAACTGC
* *
33517917 TACTGAAACTGAAATGGTCTAAAGCCCGAACTGC
1 TACTGAAACTGAAATGGGCT-AAGGCCGAACTGC
* *
33517951 TACTGAAACTGAAGTGGGCTTAGGCC
1 TACTGAAACTGAAATGGGCTAAGGCC
33517977 CAGACTGCAT
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
33 29 0.35
34 53 0.65
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.22
Consensus pattern (33 bp):
TACTGAAACTGAAATGGGCTAAGGCCGAACTGC
Found at i:33517960 original size:67 final size:67
Alignment explanation
Indices: 33517850--33517976 Score: 182
Period size: 67 Copynumber: 1.9 Consensus size: 67
33517840 GCATATCTAA
** * *
33517850 TACTGAAACTTTAATGGGCTAAGGCCTGAACTGCTACTAAAACTGAAATGGGCTAAGGCCGAACT
1 TACTGAAACTGAAATGGGCTAAAGCCCGAACTGCTACTAAAACTGAAATGGGCTAAGGCCGAACT
33517915 GC
66 GC
* * * *
33517917 TACTGAAACTGAAATGGTCTAAAGCCCGAACTGCTACTGAAACTGAAGTGGGCTTAGGCC
1 TACTGAAACTGAAATGGGCTAAAGCCCGAACTGCTACTAAAACTGAAATGGGCTAAGGCC
33517977 CAGACTGCAT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
67 52 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.22
Consensus pattern (67 bp):
TACTGAAACTGAAATGGGCTAAAGCCCGAACTGCTACTAAAACTGAAATGGGCTAAGGCCGAACT
GC
Found at i:33525178 original size:34 final size:34
Alignment explanation
Indices: 33525057--33525171 Score: 167
Period size: 34 Copynumber: 3.4 Consensus size: 34
33525047 GAAACTATAT
33525057 TGGGCTAAGGCCCGAACTGCTACTGAAACTGAAA
1 TGGGCTAAGGCCCGAACTGCTACTGAAACTGAAA
** * *
33525091 TGGGCTAAGGATCAAACTGCTACTAAAACTGAAA
1 TGGGCTAAGGCCCGAACTGCTACTGAAACTGAAA
* *
33525125 TGGGCTAAGGCCCGAACTGCTACTGAAACCGAAG
1 TGGGCTAAGGCCCGAACTGCTACTGAAACTGAAA
*
33525159 TGGGCTTAGGCCC
1 TGGGCTAAGGCCC
33525172 AGACTGCATT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 70 1.00
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.18
Consensus pattern (34 bp):
TGGGCTAAGGCCCGAACTGCTACTGAAACTGAAA
Found at i:33527864 original size:11 final size:10
Alignment explanation
Indices: 33527850--33527915 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 10
33527840 ATTTATGATT
33527850 TGAATATGAAA
1 TGAA-ATGAAA
33527861 TGAAATTGAAA
1 TGAAA-TGAAA
33527872 TGAAAATGAAAA
1 TG-AAATG-AAA
* *
33527884 TAAGAATGATA
1 TGA-AATGAAA
33527895 TGAAAATGGAAA
1 TG-AAAT-GAAA
33527907 TGAAATGAA
1 TGAAATGAA
33527916 TTATAGAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
10 4 0.09
11 24 0.53
12 17 0.38
ACGTcount: A:0.58, C:0.00, G:0.20, T:0.23
Consensus pattern (10 bp):
TGAAATGAAA
Found at i:33527870 original size:6 final size:5
Alignment explanation
Indices: 33527850--33527915 Score: 51
Period size: 6 Copynumber: 11.8 Consensus size: 5
33527840 ATTTATGATT
* *
33527850 TGAATA TGAAA TGAAA TTGAAA TGAAAA TGAAAA TAAGAA TGATA TGAAAA
1 TGAA-A TGAAA TGAAA -TGAAA TG-AAA TG-AAA TGA-AA TGAAA TG-AAA
33527901 TGGAAA TGAAA TGAA
1 T-GAAA TGAAA TGAA
33527916 TTATAGAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
5 20 0.39
6 30 0.59
7 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.20, T:0.23
Consensus pattern (5 bp):
TGAAA
Found at i:33527878 original size:17 final size:17
Alignment explanation
Indices: 33527849--33527882 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
33527839 GATTTATGAT
33527849 TTGAATATGAAATGAAA
1 TTGAATATGAAATGAAA
33527866 TTGAA-ATGAAAATGAAA
1 TTGAATATG-AAATGAAA
33527883 ATAAGAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (17 bp):
TTGAATATGAAATGAAA
Found at i:33528589 original size:3 final size:3
Alignment explanation
Indices: 33528581--33528620 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
33528571 GTTAGTTAGT
*
33528581 TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
33528621 TTTGTTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:33530807 original size:27 final size:26
Alignment explanation
Indices: 33530772--33530883 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
33530762 AGCATGGCTG
* *
33530772 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
33530798 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
33530826 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
33530853 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
33530880 CCAG
1 CCAG
33530884 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:33530864 original size:54 final size:54
Alignment explanation
Indices: 33530772--33530883 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
33530762 AGCATGGCTG
* *
33530772 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
33530826 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
33530880 CCAG
1 CCAG
33530884 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:33532326 original size:24 final size:24
Alignment explanation
Indices: 33532299--33532369 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
33532289 CTAGATTTCC
**
33532299 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
33532323 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
33532347 ACCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
33532370 CTCCTGCCAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.27, C:0.38, G:0.01, T:0.34
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:33532790 original size:18 final size:19
Alignment explanation
Indices: 33532769--33532804 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
33532759 CCTATATGTT
33532769 ATGCAAA-CCCTATGTGAC
1 ATGCAAAGCCCTATGTGAC
*
33532787 ATGCAAAGCCCTTTGTGA
1 ATGCAAAGCCCTATGTGA
33532805 ACCCTATGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (19 bp):
ATGCAAAGCCCTATGTGAC
Found at i:33538005 original size:29 final size:29
Alignment explanation
Indices: 33537963--33538044 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
33537953 TTATTTTTTT
33537963 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
33537992 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
33538021 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCATGCACACTTAGTGCC
33538045 TATCTCGTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:33553222 original size:8 final size:8
Alignment explanation
Indices: 33553207--33553239 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
33553197 TCTCTACTAA
33553207 CGAGATGT
1 CGAGATGT
*
33553215 CAAGATGT
1 CGAGATGT
33553223 CGAGATGT
1 CGAGATGT
33553231 CGAGATGT
1 CGAGATGT
33553239 C
1 C
33553240 CTTGCTTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.24
Consensus pattern (8 bp):
CGAGATGT
Found at i:33554473 original size:39 final size:39
Alignment explanation
Indices: 33554419--33554495 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
33554409 GGTAAGGTTG
* *
33554419 AAACACCTTTTTCAAATCAATATCAAACAAAGGAAGTAA
1 AAACACCTTATTCAAATCAATATCAAACAAAGAAAGTAA
*
33554458 AAACACCTTATTCAAATCAATATCAGACAAAGAAAGTA
1 AAACACCTTATTCAAATCAATATCAAACAAAGAAAGTA
33554496 CACTTCTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.52, C:0.18, G:0.08, T:0.22
Consensus pattern (39 bp):
AAACACCTTATTCAAATCAATATCAAACAAAGAAAGTAA
Found at i:33556377 original size:22 final size:21
Alignment explanation
Indices: 33556344--33556384 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
33556334 AAATGAAATA
*
33556344 AAAGAAATGAAAAAGAGAAAC
1 AAAGAAACGAAAAAGAGAAAC
*
33556365 AAAGCAAACGAAACAGAGAA
1 AAAG-AAACGAAAAAGAGAA
33556385 GAACAGGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.68, C:0.10, G:0.20, T:0.02
Consensus pattern (21 bp):
AAAGAAACGAAAAAGAGAAAC
Found at i:33557507 original size:6 final size:6
Alignment explanation
Indices: 33557496--33557522 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
33557486 TGTGTACCGC
33557496 TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TAC
33557523 CCTTACGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:33558988 original size:33 final size:33
Alignment explanation
Indices: 33558946--33559011 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
33558936 GAAAAGGAGT
33558946 AAGCATAAAGCTTAGTAAGTTGCATATAAATAA
1 AAGCATAAAGCTTAGTAAGTTGCATATAAATAA
33558979 AAGCATAAAGCTTAGTAAGTTGCATATAAATAA
1 AAGCATAAAGCTTAGTAAGTTGCATATAAATAA
33559012 TTATACAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.27
Consensus pattern (33 bp):
AAGCATAAAGCTTAGTAAGTTGCATATAAATAA
Found at i:33559338 original size:47 final size:48
Alignment explanation
Indices: 33559269--33559478 Score: 174
Period size: 46 Copynumber: 4.5 Consensus size: 48
33559259 TAAGGTGCCA
* *
33559269 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCA-AGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCATAGCCG
* *
33559316 ATGCCATGTCCCAGATATGGTCTTACACTGACTATCATCTTATAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCATAGCCG
* * *
33559364 AT-ACATGTCCCAGACAT-GTCTTACACT-AGCT-TACGTCTCGA-GGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CTAT-CATCTC-ATAGCCG
* *
33559410 ATG-CATGTCCCAAACAT-GTCTTACACT-AGC-ACTCGTCTCGAT-GCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CTA-TCATCTC-ATAGCCG
**
33559456 ATGCCATGTCTTAGACATGGTCT
1 ATGCCATGTCCCAGACATGGTCT
33559479 GATGTATGCC
Statistics
Matches: 139, Mismatches: 13, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
45 2 0.01
46 65 0.47
47 62 0.45
48 10 0.07
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCATAGCCG
Found at i:33559464 original size:93 final size:93
Alignment explanation
Indices: 33559264--33559474 Score: 207
Period size: 93 Copynumber: 2.3 Consensus size: 93
33559254 TGGAGTAAGG
* * * *
33559264 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCA
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCACATCTCAAGCCGATGCCATGTCCCA
* * *
33559329 GATATGGTCTTACACTGACTATCATCTTA
65 AACATGGTCTTACACTGACTATCATCTGA
* * * *
33559358 TAGCCGAT-ACATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGAGGCCGATG-CATGTCCC
1 T-GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCACATCTC-AAGCCGATGCCATGTCCC
*
33559421 AAACAT-GTCTTACACT-AGC-ACTCGTCTCGA
64 AAACATGGTCTTACACTGA-CTA-TCATCT-GA
**
33559451 TGCCGATGCCATGTCTTAGACATG
1 TGCCGATGCCATGTCCCAGACATG
33559475 GTCTGATGTA
Statistics
Matches: 96, Mismatches: 15, Indels: 13
0.77 0.12 0.10
Matches are distributed among these distances:
91 2 0.02
92 22 0.23
93 45 0.47
94 22 0.23
95 5 0.05
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (93 bp):
TGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCACATCTCAAGCCGATGCCATGTCCCAA
ACATGGTCTTACACTGACTATCATCTGA
Found at i:33565596 original size:30 final size:30
Alignment explanation
Indices: 33565560--33565620 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
33565550 TCTCCAAGAC
*
33565560 TTGGACAAATTTAAAACTTTTTCAAACTTA
1 TTGGACAAATTTAAAACTTTCTCAAACTTA
33565590 TTGGACAAATTTAAAACTTTCTCAAACTTA
1 TTGGACAAATTTAAAACTTTCTCAAACTTA
33565620 T
1 T
33565621 CAACATGTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (30 bp):
TTGGACAAATTTAAAACTTTCTCAAACTTA
Found at i:33566989 original size:47 final size:47
Alignment explanation
Indices: 33566919--33567092 Score: 171
Period size: 47 Copynumber: 3.7 Consensus size: 47
33566909 GAGTAAGGTA
*
33566919 CCGATGCCATGTCCCAAACATGGTCTTACACTGACTCATATCTCAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATATCTCAAG
* * *
33566966 TCGATGCCATGTCCCAGACATGGTCTTACACTAACT-ATCATCTCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCAT-ATCTC-AAG
* *
33567014 CCGATG-CATGTCCCA-AGCAT-GTCTTACATTAGCACTC--GTCTCAATG
1 CCGATGCCATGTCCCAGA-CATGGTCTTACACT-G-ACTCATATCTCAA-G
* * *
33567060 CCGATGCTATTTCTCAGACATGGTCTTACACTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTG
33567093 GCTCTCATAA
Statistics
Matches: 104, Mismatches: 13, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
45 1 0.01
46 23 0.22
47 60 0.58
48 20 0.19
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.29
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATATCTCAAG
Found at i:33567087 original size:94 final size:94
Alignment explanation
Indices: 33566919--33567091 Score: 226
Period size: 94 Copynumber: 1.8 Consensus size: 94
33566909 GAGTAAGGTA
*
33566919 CCGATGCCATGTCCCAAACATGGTCTTACACTGACTCATATCTCAAGTCGATGCCATGTCCCAGA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGACTCA-ATCTCAAGCCGATGCCATGTCCCAGA
33566984 CATGGTCTTACACTAACTATCATCTCGTAG
65 CATGGTCTTACACTAACTATCATCTCGTAG
* * * * * *
33567014 CCGATG-CATGTCCCAAGCAT-GTCTTACATTAGCACTC-GTCTCAATGCCGATGCTATTTCTCA
1 CCGATGCCATGTCCCAAACATGGTCTTACACT-G-ACTCAATCTCAA-GCCGATGCCATGTCCCA
33567076 GACATGGTCTTACACT
63 GACATGGTCTTACACT
33567092 GGCTCTCATA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
93 15 0.22
94 43 0.63
95 10 0.15
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (94 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGACTCAATCTCAAGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAACTATCATCTCGTAG
Found at i:33568936 original size:31 final size:31
Alignment explanation
Indices: 33568886--33568949 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
33568876 TTACAAAATG
*
33568886 GTCACTAAACTACTGGAAAGTTTTCATTTAA
1 GTCACTAAACTACTCGAAAGTTTTCATTTAA
* *
33568917 GTCAGTAAACTATTCGAAAGTTTTCATTTAA
1 GTCACTAAACTACTCGAAAGTTTTCATTTAA
33568948 GT
1 GT
33568950 AATTGGGTTG
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:0.14, G:0.14, T:0.38
Consensus pattern (31 bp):
GTCACTAAACTACTCGAAAGTTTTCATTTAA
Found at i:33569874 original size:12 final size:13
Alignment explanation
Indices: 33569852--33569884 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
33569842 TTATTATAAA
*
33569852 TATTTTAATTAAT
1 TATTATAATTAAT
33569865 TA-TATAATTAAT
1 TATTATAATTAAT
33569877 TATTATAA
1 TATTATAA
33569885 AAATCTACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTATAATTAAT
Found at i:33575242 original size:27 final size:27
Alignment explanation
Indices: 33575180--33575242 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
33575170 TGGTAAGTTG
* * *
33575180 AATATTTTTCATAAAAATAATTTATTTC
1 AATA-TTTTAATAAAAAAAATTAATTTC
*
33575208 AATTTTTTAATAAAATAAAATTAATTT-
1 AATATTTTAATAAAA-AAAATTAATTTC
33575235 AATATTTT
1 AATATTTT
33575243 CTACATTAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 17 0.59
28 12 0.41
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (27 bp):
AATATTTTAATAAAAAAAATTAATTTC
Found at i:33581154 original size:22 final size:23
Alignment explanation
Indices: 33581129--33581171 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
33581119 ACCTAAATTT
33581129 TTAAA-TTAAAAAAATAAAAACA
1 TTAAATTTAAAAAAATAAAAACA
**
33581151 TTAAATTTCTAAAAATAAAAA
1 TTAAATTTAAAAAAATAAAAA
33581172 TATAATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (23 bp):
TTAAATTTAAAAAAATAAAAACA
Found at i:33581464 original size:10 final size:10
Alignment explanation
Indices: 33581444--33581490 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
33581434 GGATTTTACT
33581444 TAAATAAATTA
1 TAAA-AAATTA
33581455 TAAAAAATTA
1 TAAAAAATTA
*
33581465 TAAAAAGTTA
1 TAAAAAATTA
*
33581475 -AAAATATTA
1 TAAAAAATTA
33581484 CTAAAAA
1 -TAAAAA
33581491 TAGTAAAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 7 0.23
10 15 0.50
11 8 0.27
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:33588025 original size:30 final size:30
Alignment explanation
Indices: 33587990--33588050 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
33587980 TTTCTGAGCC
* *
33587990 TAGGGGAAAAATCATAATTTTGCAAAGGTT
1 TAGGGGAAAAATCATAATTTTGAAAAAGTT
* **
33588020 TAGGGGCAAAATTGTAATTTTGAAAAAGTT
1 TAGGGGAAAAATCATAATTTTGAAAAAGTT
33588050 T
1 T
33588051 GAGTTAGGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (30 bp):
TAGGGGAAAAATCATAATTTTGAAAAAGTT
Found at i:33588936 original size:42 final size:42
Alignment explanation
Indices: 33588889--33588971 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
33588879 ACCATGCCAA
33588889 GGCATGACATTGATAAGTTCTATAAGGCAAGGAAATCATGTT
1 GGCATGACATTGATAAGTTCTATAAGGCAAGGAAATCATGTT
* *
33588931 GGCATGGCGTTGATAAGTTCTATAAGGCAAGGAAATCATGT
1 GGCATGACATTGATAAGTTCTATAAGGCAAGGAAATCATGT
33588972 AAGACCATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.28
Consensus pattern (42 bp):
GGCATGACATTGATAAGTTCTATAAGGCAAGGAAATCATGTT
Found at i:33589086 original size:53 final size:55
Alignment explanation
Indices: 33588933--33589099 Score: 180
Period size: 55 Copynumber: 3.1 Consensus size: 55
33588923 ATCATGTTGG
* * * *
33588933 CATGGCGTTGATAAGTT-CTATAAGGCAAGGAAATCATGTAAGACCATGTCAAGA
1 CATGGCATTGATAAGTTAATATAAGGCAAGGATACCATGTAAGACCATGTCAAGA
* * * *
33588987 CATGGCATTGATAAGTTAATATAAGGAAAAGG-TCCCATGTAAGACCATGCCAAGG
1 CATGGCATTGATAAGTTAATATAAGG-CAAGGATACCATGTAAGACCATGTCAAGA
* * * *
33589042 CATGGCATTGGTGAG-T-GTATAAGGCAAGGATACCACGTAAGACCATGTCAAGA
1 CATGGCATTGATAAGTTAATATAAGGCAAGGATACCATGTAAGACCATGTCAAGA
*
33589095 GATGG
1 CATGG
33589100 AAATGGTAAG
Statistics
Matches: 93, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
52 4 0.04
53 30 0.32
54 17 0.18
55 38 0.41
56 4 0.04
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (55 bp):
CATGGCATTGATAAGTTAATATAAGGCAAGGATACCATGTAAGACCATGTCAAGA
Found at i:33591986 original size:41 final size:41
Alignment explanation
Indices: 33591941--33592058 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
33591931 TGAAAGATAA
33591941 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
33591982 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
33592012 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
33592053 ATGTAG
1 ATGTAG
33592059 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:33591998 original size:71 final size:71
Alignment explanation
Indices: 33591909--33592214 Score: 603
Period size: 71 Copynumber: 4.3 Consensus size: 71
33591899 GAGATGTATC
33591909 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
33591974 AGGACA
66 AGGACA
33591980 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
33592045 AGGACA
66 AGGACA
*
33592051 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTAA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
33592116 AGGACA
66 AGGACA
33592122 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
33592187 AGGACA
66 AGGACA
33592193 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
33592215 AGACAAATCG
Statistics
Matches: 233, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 233 1.00
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:33599655 original size:68 final size:70
Alignment explanation
Indices: 33599583--33599780 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
33599573 ACACCCTGTA
* * * *
33599583 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
33599645 ATAAAT
65 ATAAAT
*
33599651 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
33599716 ATAAAT
65 ATAAAT
*
33599722 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
33599781 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:33599694 original size:41 final size:41
Alignment explanation
Indices: 33599649--33599766 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
33599639 TGAAAGATAA
33599649 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
33599690 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
33599720 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
33599761 ATGTAG
1 ATGTAG
33599767 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:33599706 original size:71 final size:71
Alignment explanation
Indices: 33599617--33599780 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
33599607 GAGATGTATC
33599617 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
33599682 AGGACA
66 AGGACA
33599688 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
33599753 AGGACA
66 AGGACA
33599759 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
33599781 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:33626761 original size:13 final size:13
Alignment explanation
Indices: 33626743--33626776 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
33626733 TATCACATTT
33626743 ATATCATCGAAAC
1 ATATCATCGAAAC
33626756 ATATCATCGAAAC
1 ATATCATCGAAAC
33626769 ATATCATC
1 ATATCATC
33626777 AAAGTATCAT
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:0.44, C:0.24, G:0.06, T:0.26
Consensus pattern (13 bp):
ATATCATCGAAAC
Found at i:33626938 original size:2 final size:2
Alignment explanation
Indices: 33626931--33626958 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
33626921 AACACATGTT
33626931 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33626959 CCAAACCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33630776 original size:21 final size:21
Alignment explanation
Indices: 33630747--33630799 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
33630737 TAAGGTGGTA
*
33630747 TTAAAGTTTCGTTGAAAAATT
1 TTAAAGTTTCGCTGAAAAATT
* *
33630768 TTAATGTTTCACTGAAAAATT
1 TTAAAGTTTCGCTGAAAAATT
*
33630789 TTAACGTTTCG
1 TTAAAGTTTCG
33630800 ATAGTTAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.43
Consensus pattern (21 bp):
TTAAAGTTTCGCTGAAAAATT
Found at i:33631557 original size:32 final size:33
Alignment explanation
Indices: 33631491--33631557 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
33631481 GCTTAGCCAG
* *
33631491 AATTTAATTTAAATAATAAAAAAATATTATTTA
1 AATTTAATTTAAATAATAAAAAAATATCAATTA
*
33631524 AATTTAA-TTATAA-AATATAAAAATATCAATTA
1 AATTTAATTTA-AATAATAAAAAAATATCAATTA
33631556 AA
1 AA
33631558 AATATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 21 0.70
33 9 0.30
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
AATTTAATTTAAATAATAAAAAAATATCAATTA
Found at i:33634738 original size:40 final size:40
Alignment explanation
Indices: 33634681--33634901 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
33634671 TCGAATGATG
* * *
33634681 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
33634721 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
33634761 TCCGGG-TAAGTCCCGAAGGCATTTGTGC-AGTTACT-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
33634798 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33634836 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
33634877 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33634902 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 8, Indels: 18
0.86 0.04 0.09
Matches are distributed among these distances:
36 6 0.04
37 25 0.15
38 24 0.15
39 30 0.18
40 69 0.42
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33645145 original size:40 final size:39
Alignment explanation
Indices: 33644917--33645138 Score: 265
Period size: 40 Copynumber: 5.6 Consensus size: 39
33644907 CGAATGATGT
* * *
33644917 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
*
33644957 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33644996 TCCGGGTTAAGT-CCGAAGGCATTTGTGC-AGTTACTAATT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
33645035 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33645073 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
33645114 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
33645139 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 14, Indels: 18
0.83 0.07 0.09
Matches are distributed among these distances:
38 33 0.21
39 36 0.23
40 80 0.50
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33654485 original size:16 final size:15
Alignment explanation
Indices: 33654460--33654489 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
33654450 TTCTCAAAAT
33654460 ATTAATTAATTAATA
1 ATTAATTAATTAATA
33654475 ATTATATTAATTAAT
1 ATTA-ATTAATTAAT
33654490 TTTACACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTAATTAATTAATA
Found at i:33656555 original size:16 final size:17
Alignment explanation
Indices: 33656523--33656556 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33656513 GTGGATGTCA
33656523 TTTGTTTGATGTTTATT
1 TTTGTTTGATGTTTATT
*
33656540 TTTGTTTGGT-TTTATT
1 TTTGTTTGATGTTTATT
33656556 T
1 T
33656557 CATAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.09, C:0.00, G:0.18, T:0.74
Consensus pattern (17 bp):
TTTGTTTGATGTTTATT
Found at i:33658688 original size:24 final size:24
Alignment explanation
Indices: 33658656--33658703 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
33658646 CCCCAAAATG
33658656 AAAGATCCTGAAAGCTTTAGTATC
1 AAAGATCCTGAAAGCTTTAGTATC
33658680 AAAGATCCTGAAAGCTTTAGTATC
1 AAAGATCCTGAAAGCTTTAGTATC
33658704 CCATGTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (24 bp):
AAAGATCCTGAAAGCTTTAGTATC
Found at i:33660035 original size:21 final size:21
Alignment explanation
Indices: 33660011--33660051 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33660001 TCAAAGGTGC
33660011 ATGATGGCAATATT-TTTAGAT
1 ATGATGG-AATATTCTTTAGAT
*
33660032 ATGATTGAATATTCTTTAGA
1 ATGATGGAATATTCTTTAGA
33660052 GGTTTTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (21 bp):
ATGATGGAATATTCTTTAGAT
Found at i:33661876 original size:22 final size:22
Alignment explanation
Indices: 33661851--33661915 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
33661841 TGAAGGACTC
* *
33661851 ACACACCCGTGTGCTCCAAGGG
1 ACACGCCCGTGTGGTCCAAGGG
33661873 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGTCCAAGGG
33661895 ACACGCCCGTGTGGTCCAAGG
1 ACACGCCCGTGTGGTCCAAGG
33661916 ACTCCTTTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.20, C:0.34, G:0.32, T:0.14
Consensus pattern (22 bp):
ACACGCCCGTGTGGTCCAAGGG
Found at i:33662681 original size:25 final size:25
Alignment explanation
Indices: 33662643--33662692 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
33662633 GACTAGTAGA
*
33662643 TAGTGTGACGATGCTCCAGTGATCT
1 TAGTGTGACAATGCTCCAGTGATCT
33662668 TAGTGTGACAATGCTCCAGTGATCT
1 TAGTGTGACAATGCTCCAGTGATCT
33662693 CCAACCCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (25 bp):
TAGTGTGACAATGCTCCAGTGATCT
Found at i:33663441 original size:25 final size:25
Alignment explanation
Indices: 33663403--33663453 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
33663393 AATCGGGACT
*
33663403 TACCCTTTTATCATCATTTCAAGCA
1 TACCCCTTTATCATCATTTCAAGCA
*
33663428 TACCCCTTTGTCATCATTTCAAGCA
1 TACCCCTTTATCATCATTTCAAGCA
33663453 T
1 T
33663454 GTATTCAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.25, C:0.29, G:0.06, T:0.39
Consensus pattern (25 bp):
TACCCCTTTATCATCATTTCAAGCA
Found at i:33665534 original size:20 final size:20
Alignment explanation
Indices: 33665509--33665547 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
33665499 TGTATTCCTA
*
33665509 AAATTTTAGAATTTTTCATC
1 AAATTTTAAAATTTTTCATC
33665529 AAATTTTAAAATTTTTCAT
1 AAATTTTAAAATTTTTCAT
33665548 TTTAGTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (20 bp):
AAATTTTAAAATTTTTCATC
Found at i:33678286 original size:24 final size:24
Alignment explanation
Indices: 33678259--33678343 Score: 152
Period size: 24 Copynumber: 3.5 Consensus size: 24
33678249 TATTATGTTA
33678259 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
*
33678283 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
*
33678307 ACACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
33678331 GCACACATAGTGC
1 GCACACATAGTGC
33678344 ATTTGAGATT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.21
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAATC
Found at i:33689274 original size:42 final size:42
Alignment explanation
Indices: 33689215--33689295 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
33689205 TTTAGATACA
33689215 TAGCACAATAAGTTAATTTACACATGTATAGTATCAACACAT
1 TAGCACAATAAGTTAATTTACACATGTATAGTATCAACACAT
33689257 TAGCACAATAAGTTAATTTACACATGTATAGTATCAACA
1 TAGCACAATAAGTTAATTTACACATGTATAGTATCAACA
33689296 TATTTCAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (42 bp):
TAGCACAATAAGTTAATTTACACATGTATAGTATCAACACAT
Found at i:33694499 original size:18 final size:19
Alignment explanation
Indices: 33694476--33694513 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
33694466 GTTCTCCCAA
* *
33694476 TATGATTCT-ATTTTATCT
1 TATGATACTCATTATATCT
33694494 TATGATACTCATTATATCT
1 TATGATACTCATTATATCT
33694513 T
1 T
33694514 CCTTCAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.55
Consensus pattern (19 bp):
TATGATACTCATTATATCT
Found at i:33707303 original size:29 final size:28
Alignment explanation
Indices: 33707233--33707307 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
33707223 ATACTCGATT
* *
33707233 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
33707261 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
33707290 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
33707308 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:33707324 original size:29 final size:29
Alignment explanation
Indices: 33707291--33707364 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
33707281 CCTTCGAGCT
33707291 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
33707320 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
33707349 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
33707365 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:33715174 original size:29 final size:28
Alignment explanation
Indices: 33715104--33715178 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
33715094 ATACTCGATT
* *
33715104 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
33715132 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
33715161 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
33715179 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:33715195 original size:29 final size:29
Alignment explanation
Indices: 33715162--33715235 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
33715152 CCTTCGAGCT
33715162 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
33715191 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
33715220 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
33715236 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:33720022 original size:34 final size:34
Alignment explanation
Indices: 33719934--33720022 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 34
33719924 TTTCAGTTAA
* * *
33719934 GGGCCTTAGCCCCTCTTTCAATAGTAGTAGCAATCT
1 GGGCCTTAG--CCTATTTCAGTAATAGTAGCAATCT
* * *
33719970 GGG-CTTGAGCCCATTTCAGTAATAGTGGCAGTCT
1 GGGCCTT-AGCCTATTTCAGTAATAGTAGCAATCT
33720004 GGGCCTTAGCCTATTTCAG
1 GGGCCTTAGCCTATTTCAG
33720023 ACCAGTATGC
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
34 33 0.75
35 6 0.14
36 5 0.11
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (34 bp):
GGGCCTTAGCCTATTTCAGTAATAGTAGCAATCT
Found at i:33723799 original size:40 final size:40
Alignment explanation
Indices: 33723585--33723799 Score: 254
Period size: 40 Copynumber: 5.4 Consensus size: 40
33723575 TCTTTGGAAT
* ** *
33723585 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTCGCACAAATGCCTTCGGGTC
* * * * *
33723624 TTAACCCGGATTTAGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTCGCACAAATGCCTTCGGGTC
* *
33723664 TTAGCCCGGATATAACCACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTCGCACAAATGCCTTCGGGTC
*
33723704 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTCGCACAAATGCCTTCGGGTC
* * * *
33723744 TTAGCCCGGATATAATCATTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTCGCACAAATGCCTTCGGGTC
*
33723784 TTAGCCCGGGTATAAT
1 TTAGCCCGGATATAAT
33723800 TCAAATGCTC
Statistics
Matches: 152, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 4 0.03
40 147 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTCGCACAAATGCCTTCGGGTC
Found at i:33727394 original size:49 final size:49
Alignment explanation
Indices: 33727212--33727395 Score: 201
Period size: 49 Copynumber: 3.8 Consensus size: 49
33727202 TTGAGACGAG
* * * * * *
33727212 AGCTAGCGTAAGACATGTCTAGGATAT-GCATCAGCTTCGAGATAT-ACA
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCAACTTCGATATATGA-A
* * *** * * *
33727260 AGCTAGTGTAAGACCTGTCTGGGACATAGCATCGACAGAGGTAGATGAG
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCAACTTCGATATATGAA
* *
33727309 AGCCAGTGTAAGACCTGTCTGGGACACGGCATCAACTTCGATATATGAA
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCAACTTCGATATATGAA
33727358 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCAACTT
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCAACTT
33727396 TGATGTGCTA
Statistics
Matches: 109, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
48 23 0.21
49 85 0.78
50 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (49 bp):
AGCTAGTGTAAGACCTGTCTGGGACATGGCATCAACTTCGATATATGAA
Found at i:33728748 original size:21 final size:21
Alignment explanation
Indices: 33728724--33728764 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33728714 CAAAAAGGCC
* *
33728724 ATACGGGCTTGTCGCCTTTCT
1 ATACGAGCGTGTCGCCTTTCT
33728745 ATACGAGCGTGTCGCCTTTC
1 ATACGAGCGTGTCGCCTTTC
33728765 CACACGAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.29, G:0.24, T:0.34
Consensus pattern (21 bp):
ATACGAGCGTGTCGCCTTTCT
Found at i:33738206 original size:19 final size:20
Alignment explanation
Indices: 33738169--33738206 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
33738159 GTAAAGTTTG
* *
33738169 TAAAATAAATGGCACTTTTA
1 TAAAATAAATGGAAATTTTA
33738189 TAAAAT-AATGGAAATTTT
1 TAAAATAAATGGAAATTTT
33738207 GGGTTGCTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (20 bp):
TAAAATAAATGGAAATTTTA
Found at i:33738737 original size:46 final size:44
Alignment explanation
Indices: 33738642--33738763 Score: 140
Period size: 46 Copynumber: 2.7 Consensus size: 44
33738632 TGATATGTGT
*
33738642 GCTAGTGTAAGACATGTCTGGGACATCCATCGGCCACATTATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTATGAAA
*
33738688 GCTAGTGTAAGACATGTTTGGGACATGCATCGG-CATTGA-GACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATT-ATGA--A-A
**
33738734 GCTAGTGTAAGACACATCTGGGACATGCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCAT
33738764 TAGCCTCGAG
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
43 6 0.09
44 1 0.01
45 1 0.01
46 59 0.88
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATTATGAAA
Found at i:33742664 original size:37 final size:37
Alignment explanation
Indices: 33742614--33742726 Score: 172
Period size: 37 Copynumber: 3.1 Consensus size: 37
33742604 CTTTAGCTCA
* *
33742614 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
33742651 GACAAAATCTCCACACGTTGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* * *
33742688 AACATAATCTCCACACGTAGTCATCGGGTCTCACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
33742725 GA
1 GA
33742727 ATATATTTCC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:33742941 original size:47 final size:47
Alignment explanation
Indices: 33742889--33743168 Score: 434
Period size: 47 Copynumber: 6.0 Consensus size: 47
33742879 TTTCACACTA
* * * * *
33742889 GCCATTCAGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
33742936 GCCATTCGGCCTTATCACACATATGCATGCTCACGTTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
33742983 GCCATTCGGCCTTATCACATATATGCATGTTCACGTTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
33743030 GCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
33743077 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* **
33743124 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
33743169 AAAATCCTAA
Statistics
Matches: 215, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 215 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:33742953 original size:25 final size:25
Alignment explanation
Indices: 33742925--33743000 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
33742915 ATGTTCATAT
33742925 TCACCACATTGGCCATTCGGCCTTA
1 TCACCACATTGGCCATTCGGCCTTA
* * *
33742950 TCA-CACATAT-G-CATGC-TCACGT-
1 TCACCACAT-TGGCCATTCGGC-CTTA
*
33742972 TCATCACATTGGCCATTCGGCCTTA
1 TCACCACATTGGCCATTCGGCCTTA
33742997 TCAC
1 TCAC
33743001 ATATATGCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 14
0.64 0.12 0.24
Matches are distributed among these distances:
22 5 0.14
23 12 0.32
24 12 0.32
25 8 0.22
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.29
Consensus pattern (25 bp):
TCACCACATTGGCCATTCGGCCTTA
Found at i:33745152 original size:27 final size:28
Alignment explanation
Indices: 33745096--33745165 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
33745086 AAATTTGTAC
33745096 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
33745124 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
33745151 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33745166 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:33745176 original size:27 final size:27
Alignment explanation
Indices: 33745096--33745177 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
33745086 AAATTTGTAC
* *
33745096 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
33745124 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
33745151 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
33745178 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:33747565 original size:14 final size:14
Alignment explanation
Indices: 33747546--33747573 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33747536 AGACTACTAG
33747546 ATTCTACTAGCCAC
1 ATTCTACTAGCCAC
33747560 ATTCTACTAGCCAC
1 ATTCTACTAGCCAC
33747574 TCATTGCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.36, G:0.07, T:0.29
Consensus pattern (14 bp):
ATTCTACTAGCCAC
Found at i:33751046 original size:47 final size:47
Alignment explanation
Indices: 33750995--33751453 Score: 679
Period size: 47 Copynumber: 9.8 Consensus size: 47
33750985 TTTAGGATTT
*
33750995 AATGTGATGAATGTGAACA-TGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCC
* * *
33751042 AATGTGATGAATGTGAACA-TGCATATGTGTGATAAGGCCTAATGGCC
1 AATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCC
* *
33751089 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
*
33751136 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCC
1 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
* *
33751183 CATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
33751230 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
* * * * *
33751277 CATGTGATGAATGTGGAAGCGTATATATGTGATAAGGCCTAATGGCT
1 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
* * *
33751324 GATGTGATGAACGTGAAAGTGTATATAAGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
* * *
33751371 AATGTGATGAATGTGAAAGTGTATATATGTGGTAGGGCCGAGTGGCC
1 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
* * *
33751418 AACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGATGAATGTGAAAGTGTATATATGTGATAAG
33751454 TTCCGAAGGG
Statistics
Matches: 375, Mismatches: 36, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
46 1 0.00
47 374 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
Found at i:33754094 original size:16 final size:17
Alignment explanation
Indices: 33754073--33754106 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
33754063 TTACCATGCA
33754073 TATAACAT-TTAAATGT
1 TATAACATATTAAATGT
33754089 TATAACATAATTAAATGT
1 TATAACAT-ATTAAATGT
33754107 AAATTTACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (17 bp):
TATAACATATTAAATGT
Found at i:33755090 original size:12 final size:12
Alignment explanation
Indices: 33755073--33755098 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33755063 AATGTTGCTT
33755073 ACCTAACATCAA
1 ACCTAACATCAA
33755085 ACCTAACATCAA
1 ACCTAACATCAA
33755097 AC
1 AC
33755099 ATACATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (12 bp):
ACCTAACATCAA
Found at i:33768300 original size:28 final size:29
Alignment explanation
Indices: 33768235--33768335 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
33768225 ATAGTGAATC
*
33768235 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA-CTATTCAAACT
33768264 CGCACACTTAGTGCTATA-TATTCAAACT
1 CGCACACTTAGTGCTATACTATTCAAACT
* * * *
33768292 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATACTA-TTCAAACT
33768322 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33768336 CAATCTTGTC
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
27 5 0.08
28 21 0.32
29 19 0.29
30 20 0.31
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACTATTCAAACT
Found at i:33772895 original size:28 final size:29
Alignment explanation
Indices: 33772830--33772930 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
33772820 ATAGTGAATC
*
33772830 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA-CTATTCAAACT
33772859 CGCACACTTAGTGCTATA-TATTCAAACT
1 CGCACACTTAGTGCTATACTATTCAAACT
* * * *
33772887 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATACTA-TTCAAACT
33772917 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33772931 CAATCTTGTC
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
27 5 0.08
28 21 0.32
29 19 0.29
30 20 0.31
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACTATTCAAACT
Found at i:33777487 original size:28 final size:28
Alignment explanation
Indices: 33777422--33777522 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
33777412 ATAGTGAATC
*
33777422 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
33777451 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33777479 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
33777509 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33777523 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33792945 original size:29 final size:29
Alignment explanation
Indices: 33792911--33793042 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
33792901 TACTCGATTT
** * *
33792911 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
33792940 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
33792969 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
33792998 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
33793027 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
33793043 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:33800692 original size:40 final size:40
Alignment explanation
Indices: 33800565--33800714 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
33800555 GGATATACGT
* *
33800565 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
* ** *
33800604 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
33800644 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* *
33800684 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
33800715 CATTCAATTT
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 19 0.21
40 73 0.79
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:33808566 original size:40 final size:40
Alignment explanation
Indices: 33808521--33808687 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
33808511 CGGAATATAA
*
33808521 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
33808561 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
33808601 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
33808641 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
33808680 CCGGATAT
1 CCGGATAT
33808688 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 13 0.13
40 89 0.86
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:33812140 original size:7 final size:7
Alignment explanation
Indices: 33812128--33812154 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
33812118 CCCCTAAAAA
33812128 TTTATTC
1 TTTATTC
33812135 TTTATTC
1 TTTATTC
33812142 TTTATTC
1 TTTATTC
33812149 TTTATT
1 TTTATT
33812155 GTGATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTATTC
Found at i:33813868 original size:26 final size:26
Alignment explanation
Indices: 33813814--33813884 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 26
33813804 CATACCTTAG
* * *
33813814 CTCTTATGAGCATCCC-ATTACATGG
1 CTCTTATGAGCTTCCCGATTACAAGA
33813839 CTCTTCATGAGCTTCCCGATTA-AAGA
1 CTCTT-ATGAGCTTCCCGATTACAAGA
* *
33813865 CTCTTTGTGAGCTTCTCGAT
1 CTC-TTATGAGCTTCCCGAT
33813885 AATGGCTCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
25 5 0.13
26 27 0.71
27 6 0.16
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (26 bp):
CTCTTATGAGCTTCCCGATTACAAGA
Found at i:33813928 original size:25 final size:24
Alignment explanation
Indices: 33813873--33813928 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
33813863 GACTCTTTGT
*
33813873 GAGCTTCTCGATAATGGCTCACTT
1 GAGCTTCTCGATAATGGCTCACTA
*
33813897 GAACTTCTCGATATATGGCT-ATCTA
1 GAGCTTCTCGATA-ATGGCTCA-CTA
33813922 GAGCTTC
1 GAGCTTC
33813929 CCATTAATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (24 bp):
GAGCTTCTCGATAATGGCTCACTA
Found at i:33813996 original size:23 final size:24
Alignment explanation
Indices: 33813970--33814024 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
33813960 GGCTCGCACT
*
33813970 AGCTTCCCG-ACATGGCTCTCATG
1 AGCTTCCCGTACATGGCTCACATG
*
33813993 AGCTTCCTGTTACATGGCTCACATG
1 AGCTTCCCG-TACATGGCTCACATG
33814018 AGCTTCC
1 AGCTTCC
33814025 TGATTATGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 8 0.29
25 20 0.71
ACGTcount: A:0.18, C:0.33, G:0.20, T:0.29
Consensus pattern (24 bp):
AGCTTCCCGTACATGGCTCACATG
Found at i:33814010 original size:25 final size:25
Alignment explanation
Indices: 33813979--33814026 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
33813969 TAGCTTCCCG
*
33813979 ACATGGCTCTCATGAGCTTCCTGTT
1 ACATGGCTCACATGAGCTTCCTGTT
33814004 ACATGGCTCACATGAGCTTCCTG
1 ACATGGCTCACATGAGCTTCCTG
33814027 ATTATGTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (25 bp):
ACATGGCTCACATGAGCTTCCTGTT
Found at i:33818470 original size:33 final size:35
Alignment explanation
Indices: 33818418--33818507 Score: 114
Period size: 34 Copynumber: 2.6 Consensus size: 35
33818408 TTGCATACTA
33818418 TACT-AAAGTGGGCTAAGG-CCAGACTGCCACTGT
1 TACTGAAAGTGGGCTAAGGCCCAGACTGCCACTGT
* *
33818451 TACTGAAA-TGGGCTCAGGCCCAGACTGCTACTGT
1 TACTGAAAGTGGGCTAAGGCCCAGACTGCCACTGT
* *
33818485 TACTGAAAGAGGGGCTAAAGCCC
1 TACTGAAAG-TGGGCTAAGGCCC
33818508 CTAACTGGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
33 13 0.27
34 25 0.52
36 10 0.21
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.20
Consensus pattern (35 bp):
TACTGAAAGTGGGCTAAGGCCCAGACTGCCACTGT
Found at i:33831155 original size:40 final size:40
Alignment explanation
Indices: 33831089--33831239 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
33831079 AAATTGAATG
* * *
33831089 ATATCCGGGCTAA-TCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
33831128 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
33831168 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
33831208 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
33831240 ACATGGTTAT
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 15 0.17
40 72 0.81
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:33831253 original size:40 final size:40
Alignment explanation
Indices: 33831126--33831255 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
33831116 ATGCTGGAAA
* * * *
33831126 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
33831166 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
33831206 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
33831246 TTATATCCGG
1 TTATATCCGG
33831256 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:33839171 original size:40 final size:40
Alignment explanation
Indices: 33839105--33839255 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
33839095 AAATTGAATG
* *
33839105 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
33839144 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
33839184 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
33839224 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
33839256 ACATGGTTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 16 0.18
40 72 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:33839239 original size:80 final size:79
Alignment explanation
Indices: 33839107--33839255 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
33839097 ATTGAATGAT
*
33839107 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAATT
1 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
33839172 GTGCTAGTGGCTAC
66 GTGCTAGTGGCTAC
* * * *
33839186 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGCA
*
33839249 TTTGTGC
63 ATTGTGC
33839256 ACATGGTTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 16 0.26
80 45 0.74
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (79 bp):
ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
GTGCTAGTGGCTAC
Found at i:33839270 original size:80 final size:79
Alignment explanation
Indices: 33839105--33839271 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 79
33839095 AAATTGAATG
*
33839105 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
33839170 TTGTGCTAGTGGCT
66 TTGTGCTAATGGCT
* * * * *
33839184 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
33839247 CATTTGTGC-ACATGGTT
63 CAATTGTGCTA-ATGGCT
33839264 ATATCCGG
1 ATATCCGG
33839272 TTATATTCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
79 18 0.24
80 56 0.76
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAATGGCT
Found at i:33841164 original size:55 final size:54
Alignment explanation
Indices: 33841032--33841164 Score: 140
Period size: 55 Copynumber: 2.4 Consensus size: 54
33841022 AGGATACTAA
* * * * * *
33841032 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGACAAAGAAACCAT
* *** * **
33841086 GTAAGACCATGTCAAGATGTGGCATTGATAAACTACTATAAGACAAAGATCCCAT
1 GTAAGACCATGCCAAGGCATGGCATTGAT-AACTACTACAAGACAAAGAAACCAT
33841141 GTAAGACCATGCCAAGGCATGGCA
1 GTAAGACCATGCCAAGGCATGGCA
33841165 ATGGTGAGTT
Statistics
Matches: 61, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
54 24 0.39
55 37 0.61
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (54 bp):
GTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGACAAAGAAACCAT
Found at i:33842003 original size:16 final size:16
Alignment explanation
Indices: 33841982--33842015 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
33841972 TTTTTATTTT
33841982 TAGATTCCTTAATGAG
1 TAGATTCCTTAATGAG
33841998 TAGATTCCTTAATGAG
1 TAGATTCCTTAATGAG
33842014 TA
1 TA
33842016 TACTTTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (16 bp):
TAGATTCCTTAATGAG
Found at i:33848688 original size:53 final size:53
Alignment explanation
Indices: 33848499--33848700 Score: 208
Period size: 53 Copynumber: 3.8 Consensus size: 53
33848489 AGGGTTTAAG
* * * * *
33848499 GATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTCTACAAGGCAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAA
* * * * * * *
33848552 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGCAA
* * * * *
33848606 AATCCCATGTAAGACCATGCCAAGGCATGGTAATGGTGAGTTC-ATAAGGCAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAA
* *
33848658 GGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 -GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
33848701 TAAAAAGAAA
Statistics
Matches: 118, Mismatches: 29, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
52 9 0.08
53 68 0.58
54 41 0.35
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAA
Found at i:33849999 original size:27 final size:27
Alignment explanation
Indices: 33849969--33850030 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
33849959 GAAAACAATC
* * *
33849969 ATTTTACCCTATAGGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTATTTCAGTA
*
33849996 ATTTTACACTACAAGGGTATTTTAGTA
1 ATTTTACACTACAAGGGTATTTCAGTA
33850023 ATTTTACA
1 ATTTTACA
33850031 AATCGGGGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.42
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCAGTA
Found at i:33854006 original size:47 final size:48
Alignment explanation
Indices: 33853873--33854011 Score: 174
Period size: 48 Copynumber: 2.9 Consensus size: 48
33853863 TACCACGGTT
* * * *
33853873 ATACGTGTAATGTGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATCG
* *
33853921 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATCG
* * *
33853969 ACT-CAT-TAACGTGGTGCTAAGTGGATATAACATGGTTAAACAT
1 A-TACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACAT
33854012 GTAACGTGGT
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
47 32 0.41
48 46 0.58
49 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATCG
Found at i:33854044 original size:38 final size:38
Alignment explanation
Indices: 33853975--33854051 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
33853965 ATCGACTCAT
* * *
33853975 TAACGTGGTGCTAAGTGGATATAACATGGTTAAACATG
1 TAACGTGGTGCTAAATGGATACAACACGGTTAAACATG
** *
33854013 TAACGTGGTGCTAAATGGATACGCCACGGTTACACATG
1 TAACGTGGTGCTAAATGGATACAACACGGTTAAACATG
33854051 T
1 T
33854052 TAATTTGGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (38 bp):
TAACGTGGTGCTAAATGGATACAACACGGTTAAACATG
Found at i:33857323 original size:16 final size:17
Alignment explanation
Indices: 33857298--33857334 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
33857288 GTGAAACTGT
33857298 AAAGGCTGAAAAGCT-G
1 AAAGGCTGAAAAGCTGG
*
33857314 AAAGGTTGAAAAGCTGG
1 AAAGGCTGAAAAGCTGG
33857331 AAAG
1 AAAG
33857335 TGGGTTGTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.46, C:0.08, G:0.32, T:0.14
Consensus pattern (17 bp):
AAAGGCTGAAAAGCTGG
Done.