Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 218 of 356
Found at i:71332651 original size:16 final size:16
Alignment explanation
Indices: 71332621--71332664 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
71332611 TATGAATCGA
*
71332621 CAAAA-GCCAAAATGC
1 CAAAATGCCGAAATGC
71332636 CAAAATGCCGAAATGC
1 CAAAATGCCGAAATGC
**
71332652 TGAAATGCCGAAA
1 CAAAATGCCGAAA
71332665 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 5 0.20
16 20 0.80
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (16 bp):
CAAAATGCCGAAATGC
Found at i:71332656 original size:8 final size:8
Alignment explanation
Indices: 71332630--71332664 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
71332620 ACAAAAGCCA
*
71332630 AAATGCCA
1 AAATGCCG
71332638 AAATGCCG
1 AAATGCCG
*
71332646 AAATGCTG
1 AAATGCCG
71332654 AAATGCCG
1 AAATGCCG
71332662 AAA
1 AAA
71332665 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (8 bp):
AAATGCCG
Found at i:71332930 original size:29 final size:28
Alignment explanation
Indices: 71332875--71332986 Score: 118
Period size: 29 Copynumber: 3.9 Consensus size: 28
71332865 GTAAGCATGA
* * * *
71332875 ATATGAATGTGACTGGGCCTGACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
71332903 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
*
71332932 ATATACAA-GTGATTTGGGCCTAATGGGTC
1 ATATA-AATGTGA-TTGGGCCTAATGGGCC
* * *
71332961 ATATGAATATGATTGGGCTTAATGGG
1 ATATAAATGTGATTGGGCCTAATGGG
71332987 TCAGATACAG
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 26 0.36
29 45 0.62
30 2 0.03
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:71336859 original size:32 final size:32
Alignment explanation
Indices: 71336785--71336860 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
71336775 TGATATTGAA
* * * * *
71336785 ATGGGCTAGGCCCAATTGATATTGGTTCTGAT
1 ATGGGCTAGGCCAAACTGATATTGATTCTAAG
*
71336817 ATGCGCTAGGCCAAACTGATATTGATTCTAAG
1 ATGGGCTAGGCCAAACTGATATTGATTCTAAG
*
71336849 ATGGGATAGGCC
1 ATGGGCTAGGCC
71336861 CAATTGAGTC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (32 bp):
ATGGGCTAGGCCAAACTGATATTGATTCTAAG
Found at i:71350991 original size:42 final size:42
Alignment explanation
Indices: 71350927--71351076 Score: 185
Period size: 42 Copynumber: 3.5 Consensus size: 42
71350917 TGAGATTACG
* *
71350927 TGTAAGACCATATCTGGAATATGGCATCGATATAAGACTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
* * *
71350969 CGTAAGACCATATCTGGGATATGGCATCGATGTGAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
* * * *
71351011 TGTAAGACCATAGCTAGGCTATTGGCATCGATACGAGA-TTACA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACTT-CA
*
71351054 TGTAAGGCCATATCTGGGATATG
1 TGTAAGACCATATCTGGGATATG
71351077 ACATTGGTAC
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
42 58 0.64
43 32 0.36
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
Found at i:71351065 original size:85 final size:84
Alignment explanation
Indices: 71350917--71351076 Score: 209
Period size: 85 Copynumber: 1.9 Consensus size: 84
71350907 TTAGGGTTAC
* *
71350917 TGAGATTACGTGTAAGACCATATCTGGAATATGGCATCGATATAAGACTTCACGTAAGACCATAT
1 TGAGATTACGTGTAAGACCATAGCTGGAATATGGCATCGATACAAGACTTCACGTAAGACCATAT
71350982 CTGGGATATGGCATCGATG
66 CTGGGATATGGCATCGATG
* * * *
71351001 TGAGACTT-CGTGTAAGACCATAGCTAGG-CTATTGGCATCGATACGAGA-TTACATGTAAGGCC
1 TGAGA-TTACGTGTAAGACCATAGCT-GGAATA-TGGCATCGATACAAGACTT-CACGTAAGACC
71351063 ATATCTGGGATATG
62 ATATCTGGGATATG
71351077 ACATTGGTAC
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
84 25 0.38
85 41 0.62
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (84 bp):
TGAGATTACGTGTAAGACCATAGCTGGAATATGGCATCGATACAAGACTTCACGTAAGACCATAT
CTGGGATATGGCATCGATG
Found at i:71365834 original size:35 final size:35
Alignment explanation
Indices: 71365788--71365857 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
71365778 GAGAAAGTAA
*
71365788 ACGAATCGCCGTGGATATCTAGTCATCGACCACTT
1 ACGAATAGCCGTGGATATCTAGTCATCGACCACTT
*
71365823 ACGAATAGCCGTGGATATCTAGTCGTCGACCACTT
1 ACGAATAGCCGTGGATATCTAGTCATCGACCACTT
71365858 CCGAGGTAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (35 bp):
ACGAATAGCCGTGGATATCTAGTCATCGACCACTT
Found at i:71371560 original size:8 final size:7
Alignment explanation
Indices: 71371537--71371568 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
71371527 GGACCCTATA
71371537 CCTAAAC
1 CCTAAAC
71371544 CCTAAAC
1 CCTAAAC
71371551 CCTAAAAC
1 CCT-AAAC
71371559 CCTAAAC
1 CCTAAAC
71371566 CCT
1 CCT
71371569 CGTTCAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.41, C:0.44, G:0.00, T:0.16
Consensus pattern (7 bp):
CCTAAAC
Found at i:71371560 original size:15 final size:15
Alignment explanation
Indices: 71371540--71371568 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
71371530 CCCTATACCT
71371540 AAACCCTAAACCCTA
1 AAACCCTAAACCCTA
71371555 AAACCCTAAACCCT
1 AAACCCTAAACCCT
71371569 CGTTCAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.41, G:0.00, T:0.14
Consensus pattern (15 bp):
AAACCCTAAACCCTA
Found at i:71380240 original size:40 final size:40
Alignment explanation
Indices: 71380182--71380448 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
71380172 AGCATTGGAT
71380182 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
71380222 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
71380262 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
71380302 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
71380342 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
71380382 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
71380422 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
71380449 ATGTGTTTGC
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:71382465 original size:46 final size:45
Alignment explanation
Indices: 71382398--71382758 Score: 266
Period size: 46 Copynumber: 7.8 Consensus size: 45
71382388 TGTAACCCGC
* * *
71382398 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCAT
* * * *
71382444 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCAT
* * * * *
71382490 ACATTTCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCAT
* * *
71382537 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCAT
* * * ** *
71382583 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGTACATTTGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCAT
* * *
71382630 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCAT
* * * * *
71382676 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCAT
*
71382723 CCATAAGTGAACTCGGCCTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
71382759 ATGCTCAACC
Statistics
Matches: 241, Mismatches: 53, Indels: 42
0.72 0.16 0.12
Matches are distributed among these distances:
45 9 0.04
46 127 0.53
47 96 0.40
48 9 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCAT
Found at i:71382516 original size:47 final size:47
Alignment explanation
Indices: 71382452--71382710 Score: 293
Period size: 47 Copynumber: 5.6 Consensus size: 47
71382442 ATCCATAGGT
71382452 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * * *
71382499 GAACTCGGACTCAACTCAATGAGTTCGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--TTCA-C
71382545 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * * * *
71382592 GAACTCGGACTCAACTCAACGAGTTC-G-T-AC-ATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--TTCA-C
71382638 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
71382685 GAACTCGGACTCAACTCAACGAGTTC
1 GAACTCGGACTCAACTCAACGAGTTC
71382711 AGACATTCGC
Statistics
Matches: 174, Mismatches: 22, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.01
43 10 0.06
44 2 0.01
45 5 0.03
46 55 0.32
47 81 0.47
48 5 0.03
49 2 0.01
50 10 0.06
51 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:71382564 original size:93 final size:93
Alignment explanation
Indices: 71382405--71382762 Score: 626
Period size: 93 Copynumber: 3.8 Consensus size: 93
71382395 CGCCCATAAG
* * * * *
71382405 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71382470 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
71382498 CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71382563 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* *
71382591 CGAACTCGGACTCAACTCAACGAGTTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71382656 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* *
71382684 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGCCTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71382749 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
71382763 TCAACCATCC
Statistics
Matches: 254, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 254 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:71385177 original size:15 final size:15
Alignment explanation
Indices: 71385147--71385196 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
71385137 CAAAGATAAC
*
71385147 AAGAAAACCA-AATA
1 AAGAAATCCAGAATA
71385161 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
71385176 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
71385191 AAGAAA
1 AAGAAA
71385197 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 9 0.29
15 22 0.71
ACGTcount: A:0.62, C:0.12, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:71385205 original size:15 final size:15
Alignment explanation
Indices: 71385147--71385205 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
71385137 CAAAGATAAC
*
71385147 AAGAAAACCAA-ATA
1 AAGAAATCCAAGATA
71385161 AAGAAATCC-AGAATA
1 AAGAAATCCAAG-ATA
* *
71385176 AAGAGATCCAGGATA
1 AAGAAATCCAAGATA
*
71385191 AAGAAACCCAAGATA
1 AAGAAATCCAAGATA
71385206 CAATACTATG
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
13 1 0.03
14 8 0.22
15 26 0.72
16 1 0.03
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:71388205 original size:46 final size:45
Alignment explanation
Indices: 71388138--71388299 Score: 168
Period size: 46 Copynumber: 3.5 Consensus size: 45
71388128 GTAACCCGCC
* * *
71388138 CCATAAGCGAACTCGGACTCAACTCAATGAGATCTGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCAT
* *
71388184 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--T
* * *
71388230 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCAT
71388277 CCATAAGTGAACTCGGACTCAAC
1 CCATAAGTGAACTCGGACTCAAC
71388300 CATCCTAGTG
Statistics
Matches: 94, Mismatches: 13, Indels: 18
0.75 0.10 0.14
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 4 0.04
46 48 0.51
47 31 0.33
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
Found at i:71392479 original size:41 final size:42
Alignment explanation
Indices: 71392410--71392499 Score: 105
Period size: 41 Copynumber: 2.1 Consensus size: 42
71392400 AAATAGCAAC
* *
71392410 AAGTGTGCGATGTGGAATAGCTTTGGCTATAT-GA-GGCACT
1 AAGTGTGCGATCTGGAATAGCTTCGGCTATATAGATGGCACT
*
71392450 AAGTGTGCGATACT-GAGATAGCTTCGGCTATTTGAGATGGCACT
1 AAGTGTGCGAT-CTGGA-ATAGCTTCGGCTATAT-AGATGGCACT
71392494 AAGTGT
1 AAGTGT
71392500 ATGGGATCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
40 13 0.31
41 15 0.36
43 2 0.05
44 12 0.29
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.30
Consensus pattern (42 bp):
AAGTGTGCGATCTGGAATAGCTTCGGCTATATAGATGGCACT
Found at i:71418429 original size:19 final size:19
Alignment explanation
Indices: 71418405--71418442 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
71418395 TGGGCCACAT
71418405 TGGGCCAAAATGGGC-CGTG
1 TGGGCC-AAATGGGCTCGTG
*
71418424 TGGGCCCAATGGGCTCGTG
1 TGGGCCAAATGGGCTCGTG
71418443 AGCCCCACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.16, C:0.24, G:0.42, T:0.18
Consensus pattern (19 bp):
TGGGCCAAATGGGCTCGTG
Found at i:71418708 original size:27 final size:27
Alignment explanation
Indices: 71418663--71418822 Score: 171
Period size: 27 Copynumber: 5.9 Consensus size: 27
71418653 TATCTGGCCG
71418663 TAATGCCCCTGTAGGGTAAAATGACCA
1 TAATGCCCCTGTAGGGTAAAATGACCA
* ** *
71418690 TAATGCCCCTATAATGTAAAATGATCA
1 TAATGCCCCTGTAGGGTAAAATGACCA
* * *
71418717 TAATGCCCTTGTAGGGTGAAATGACCG
1 TAATGCCCCTGTAGGGTAAAATGACCA
* * * *
71418744 TAATAG-TCCTGTAAGGTAGAATGACCG
1 TAAT-GCCCCTGTAGGGTAAAATGACCA
*
71418771 TAATGTCCCTGTAGGGTAAAATGA-CA
1 TAATGCCCCTGTAGGGTAAAATGACCA
*
71418797 GTAATGCCCCTATAGGGTAAAATGAC
1 -TAATGCCCCTGTAGGGTAAAATGAC
71418823 GATTGTGCCC
Statistics
Matches: 107, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
26 2 0.02
27 104 0.97
28 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.26
Consensus pattern (27 bp):
TAATGCCCCTGTAGGGTAAAATGACCA
Found at i:71418802 original size:81 final size:81
Alignment explanation
Indices: 71418670--71418822 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
71418660 CCGTAATGCC
* * * * *
71418670 CCTGTAGGGTAAAATGACCATAATGCCCCTATAATGTAAAATGATCATAATGCCCTTGTAGGGTG
1 CCTGTAAGGTAAAATGACCATAATGCCCCTATAAGGTAAAATGATCATAATGCCCCTATAGGGTA
71418735 AAATGACCGTAATAGT
66 AAATGACCGTAATAGT
* * * * *
71418751 CCTGTAAGGTAGAATGACCGTAATGTCCCTGTAGGGTAAAATGA-CAGTAATGCCCCTATAGGGT
1 CCTGTAAGGTAAAATGACCATAATGCCCCTATAAGGTAAAATGATCA-TAATGCCCCTATAGGGT
71418815 AAAATGAC
65 AAAATGAC
71418823 GATTGTGCCC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
80 2 0.03
81 59 0.97
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (81 bp):
CCTGTAAGGTAAAATGACCATAATGCCCCTATAAGGTAAAATGATCATAATGCCCCTATAGGGTA
AAATGACCGTAATAGT
Found at i:71418956 original size:27 final size:27
Alignment explanation
Indices: 71418913--71418982 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
71418903 ATGGAGGTGA
* *
71418913 CTATGTCAC-ATTCACTATTACTAGAGG
1 CTATGCCACAATT-ACTAATACTAGAGG
* *
71418940 CTATGCCACAATTACTAATACTGGTGG
1 CTATGCCACAATTACTAATACTAGAGG
* *
71418967 CTTTGCCACATTTACT
1 CTATGCCACAATTACT
71418983 GTTTCTGGCA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
27 33 0.92
28 3 0.08
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (27 bp):
CTATGCCACAATTACTAATACTAGAGG
Found at i:71419095 original size:21 final size:21
Alignment explanation
Indices: 71419071--71419137 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
71419061 TATCCCCACA
71419071 TGGTGTGTTGGTTGGTATGGG
1 TGGTGTGTTGGTTGGTATGGG
*
71419092 TGGTGTGTTGGTTGGTATGGA
1 TGGTGTGTTGGTTGGTATGGG
* * *
71419113 TAGTGTGTTGGCTGGATTTGGG
1 TGGTGTGTTGGTTGG-TATGGG
71419135 TGG
1 TGG
71419138 GATGCATAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 33 0.85
22 6 0.15
ACGTcount: A:0.07, C:0.01, G:0.49, T:0.42
Consensus pattern (21 bp):
TGGTGTGTTGGTTGGTATGGG
Found at i:71426280 original size:40 final size:40
Alignment explanation
Indices: 71426232--71426456 Score: 391
Period size: 40 Copynumber: 5.7 Consensus size: 40
71426222 GCAAACACAT
* *
71426232 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
71426272 TTGCCTTCGGGTCTTAGCCCGGATATATC-ACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
71426311 -TGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
71426350 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
71426390 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
71426430 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
71426457 ATCCAATGCT
Statistics
Matches: 175, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
38 27 0.15
39 20 0.11
40 128 0.73
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:71426362 original size:78 final size:80
Alignment explanation
Indices: 71426232--71426456 Score: 409
Period size: 78 Copynumber: 2.8 Consensus size: 80
71426222 GCAAACACAT
* * *
71426232 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
71426297 TATCA-CTCGCATAA
66 TATCATCTCGCATAA
71426311 -TGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
71426375 TATCATCTCGCATAA
66 TATCATCTCGCATAA
71426390 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
71426455 TA
66 TA
71426457 ATCCAATGCT
Statistics
Matches: 141, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
78 66 0.47
79 9 0.06
80 66 0.47
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (80 bp):
TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
TATCATCTCGCATAA
Found at i:71432460 original size:40 final size:40
Alignment explanation
Indices: 71432405--71432749 Score: 431
Period size: 40 Copynumber: 8.5 Consensus size: 40
71432395 TATTCGGATG
71432405 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
71432445 ATATCCAGGCTAAGTCCCAAAGGCATTTGTACGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
71432488 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
71432528 ATATCCGGGATAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
71432568 ATATCCGGGCTAAGTCCCAAAGGCATTTGTACGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
71432611 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
71432651 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
71432691 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
71432731 ATATCC-GGCTAAATCCCGA
1 ATATCCGGGCTAAGTCCCGA
71432750 GGATACTTGG
Statistics
Matches: 263, Mismatches: 36, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
39 11 0.04
40 181 0.69
41 2 0.01
43 69 0.26
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:71432551 original size:83 final size:80
Alignment explanation
Indices: 71432405--71432749 Score: 428
Period size: 83 Copynumber: 4.2 Consensus size: 80
71432395 TATTCGGATG
* * * *
71432405 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCAGGCTAAGTCCCAAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
71432470 TTTGTACGAGTAGTTGCT
66 TTTGT--GAG-AGTTGCT
* *
71432488 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGATAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
*
71432553 TTTGTGCA-AGTTACT
66 TTTGTG-AGAGTTGCT
* * *
71432568 ATATCCGGGCTAAGTCCCAAAGGCATTTGTACGAGTAGTTG-CTATACCCGGGCTAAGTCCCGAA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGT--G-CTAG-TGACTATATCCGGGCTAAGTCCCGAA
**
71432632 GGCATTTGTGCTAG-TGACT
62 GGCATTTGTGAGAGTTG-CT
** *
71432651 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
*
71432716 TTTGTGCGAGTTGCT
66 TTTGTGAGAGTTGCT
*
71432731 ATATCC-GGCTAAATCCCGA
1 ATATCCGGGCTAAGTCCCGA
71432750 GGATACTTGG
Statistics
Matches: 231, Mismatches: 22, Indels: 22
0.84 0.08 0.08
Matches are distributed among these distances:
79 14 0.06
80 79 0.34
81 4 0.02
82 3 0.01
83 129 0.56
84 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGAGAGTTGCT
Found at i:71432624 original size:123 final size:123
Alignment explanation
Indices: 71432405--71432749 Score: 563
Period size: 123 Copynumber: 2.8 Consensus size: 123
71432395 TATTCGGATG
*
71432405 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCAGGCTAAGTCCCAAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCAAAGGCA
71432470 TTTGTACGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
66 TTTGTACGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
71432528 ATATCCGGGATAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCAAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCAAAGGCA
71432593 TTTGTACGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
66 TTTGTACGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
** * * * *
71432651 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCAAAGGCA
* * *
71432716 TTTGT--GCG-AGTTGCTATATCC-GGCTAAATCCCGA
66 TTTGTACGAGTAGTTGCTATACCCGGGCTAAGTCCCGA
71432750 GGATACTTGG
Statistics
Matches: 210, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
119 12 0.06
120 12 0.06
121 2 0.01
123 184 0.88
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (123 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCAAAGGCA
TTTGTACGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:71435903 original size:33 final size:33
Alignment explanation
Indices: 71435856--71435922 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
71435846 TCTTGGATGA
**
71435856 TAGTAAATTATAAGCTTGTAGTCTTTTAGCAAT
1 TAGTAAATTATAAGCTCATAGTCTTTTAGCAAT
*
71435889 TAGTCAATTATAAGCTCATAGTCTTTTAGCAAT
1 TAGTAAATTATAAGCTCATAGTCTTTTAGCAAT
71435922 T
1 T
71435923 CTAACCATCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (33 bp):
TAGTAAATTATAAGCTCATAGTCTTTTAGCAAT
Found at i:71455645 original size:29 final size:29
Alignment explanation
Indices: 71455612--71455685 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
71455602 GTTGTGAGAT
* *
71455612 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* * *
71455641 TGGCACTAAGTGTTCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
71455670 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
71455686 CGGTTGATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 6 0.16
29 32 0.84
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:71463780 original size:29 final size:29
Alignment explanation
Indices: 71463747--71463820 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
71463737 GTTGTGAGAT
* *
71463747 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* * *
71463776 TGGCACTAAGTGTGAGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
71463805 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
71463821 CGGTTGATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 6 0.16
29 32 0.84
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:71466432 original size:25 final size:25
Alignment explanation
Indices: 71466404--71466461 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
71466394 GTATGCTCTC
*
71466404 ACGAGCTGCAG-ATCGGTAAGATCAT
1 ACGAGCTG-AGAATAGGTAAGATCAT
* *
71466429 ACGAGTTGAGAATAGGTAAGCTCAT
1 ACGAGCTGAGAATAGGTAAGATCAT
71466454 ACGAGCTG
1 ACGAGCTG
71466462 TGGTGTGTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 2 0.07
25 26 0.93
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (25 bp):
ACGAGCTGAGAATAGGTAAGATCAT
Found at i:71468906 original size:18 final size:19
Alignment explanation
Indices: 71468862--71468908 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
71468852 AAAGGTCAGT
**
71468862 AATGTAAATTGTTAAATAA
1 AATGTAAATTAATAAATAA
71468881 AA-GATAAATTAATAAA-AA
1 AATG-TAAATTAATAAATAA
71468899 AATGTAAATT
1 AATGTAAATT
71468909 TTCTTCATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.32
Consensus pattern (19 bp):
AATGTAAATTAATAAATAA
Found at i:71475139 original size:29 final size:30
Alignment explanation
Indices: 71475070--71475193 Score: 125
Period size: 29 Copynumber: 4.3 Consensus size: 30
71475060 ACCCCTACAT
* *
71475070 ATATGCATATGGCCTA-CTAGGCCCAA-TC
1 ATATTCATATGGCCCATCTAGGCCCAATTC
* *
71475098 TTATTCAAATGGCCCATCT-GGCCCAATTC
1 ATATTCATATGGCCCATCTAGGCCCAATTC
* *
71475127 ATATTCTTATGGCCCA-CTATGCCCAATTC
1 ATATTCATATGGCCCATCTAGGCCCAATTC
* * *
71475156 ACATTCATATGACCCAT-TAGGCCCAAATC
1 ATATTCATATGGCCCATCTAGGCCCAATTC
71475185 ATATT-ATAT
1 ATATTCATAT
71475194 TCATGCTCAC
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
28 25 0.32
29 53 0.68
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (30 bp):
ATATTCATATGGCCCATCTAGGCCCAATTC
Found at i:71475140 original size:57 final size:58
Alignment explanation
Indices: 71475077--71475189 Score: 140
Period size: 58 Copynumber: 2.0 Consensus size: 58
71475067 CATATATGCA
* ** * *
71475077 TATGGCCTACTAGGCCCAA-TCTTATTCAAATGGCCCATCT-GGCCCAATTCATATTCT
1 TATGGCCCACTAGGCCCAATTCACATTCAAATGACCCAT-TAGGCCCAAATCATATTCT
* *
71475134 TATGGCCCACTATGCCCAATTCACATTCATATGACCCATTAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAATTCACATTCAAATGACCCATTAGGCCCAAATCATATT
71475190 ATATTCATGC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
57 18 0.38
58 29 0.62
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.30
Consensus pattern (58 bp):
TATGGCCCACTAGGCCCAATTCACATTCAAATGACCCATTAGGCCCAAATCATATTCT
Found at i:71475295 original size:19 final size:19
Alignment explanation
Indices: 71475261--71475308 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
71475251 ATGGGCCCAA
*
71475261 TAGCCCA-TCAGGCCCATT
1 TAGCCCATTCTGGCCCATT
71475279 TAGCCCATTCTGGCCCATT
1 TAGCCCATTCTGGCCCATT
* *
71475298 TGGCCAATTCT
1 TAGCCCATTCT
71475309 CAACCCAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.19, C:0.35, G:0.17, T:0.29
Consensus pattern (19 bp):
TAGCCCATTCTGGCCCATT
Found at i:71476698 original size:16 final size:16
Alignment explanation
Indices: 71476677--71476708 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
71476667 GAAAAATTCA
*
71476677 AGATTTTGGGATTTTT
1 AGATTTCGGGATTTTT
71476693 AGATTTCGGGATTTTT
1 AGATTTCGGGATTTTT
71476709 GGGCGTTACA
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:0.19, C:0.03, G:0.25, T:0.53
Consensus pattern (16 bp):
AGATTTCGGGATTTTT
Found at i:71490137 original size:39 final size:39
Alignment explanation
Indices: 71490090--71490233 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
71490080 TGTGTGAGAT
*
71490090 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGATG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
*
71490129 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
* * **
71490168 TTATATCCAGGCTAAATCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
71490207 TTATATCCGGGCTAAGTCCCAAAGGCA
1 TTATATCCGGGCTAAGTCCCAAAGGCA
71490234 ATTGTGTTGG
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 96 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
Found at i:71492262 original size:40 final size:40
Alignment explanation
Indices: 71492169--71492393 Score: 249
Period size: 40 Copynumber: 5.7 Consensus size: 40
71492159 GCTCCTCGTT
* * * *
71492169 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
71492209 C-AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
71492248 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
71492288 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
71492328 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
71492369 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
71492394 CAGCATTCAA
Statistics
Matches: 161, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 36 0.22
40 114 0.71
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:71492402 original size:41 final size:41
Alignment explanation
Indices: 71492325--71492402 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
71492315 TTAGTATCTC
* * *
71492325 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
71492366 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
71492403 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:71500137 original size:39 final size:39
Alignment explanation
Indices: 71500052--71500269 Score: 196
Period size: 39 Copynumber: 5.6 Consensus size: 39
71500042 TCCTCGTTCA
* * * *
71500052 AATGCCTTCGGG-CATAGCCCGG-TTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
*
71500089 AATGCCTTCGGGAC-TAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
*
71500127 GAATGCCTTCGGGACTTAACCCGGATTT-ATATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
71500166 AAATGCCTTCGGGACTTAACCCGGA-TTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* ** * * * *
71500205 AAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
71500246 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
71500270 CAGCATTCAA
Statistics
Matches: 154, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
37 19 0.12
38 18 0.12
39 75 0.49
40 34 0.22
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:71500202 original size:78 final size:79
Alignment explanation
Indices: 71500050--71500269 Score: 222
Period size: 78 Copynumber: 2.8 Consensus size: 79
71500040 GCTCCTCGTT
* * *
71500050 CAAATGCCTTCGGG-CATAGCCCGG-TTTAGTAACTCACAC-AATGCCTTCGGGAC-TAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTA-TATCTCGCACAAATGCCTTCGGGACTTAACCCGG
71500111 ATTTAACAACTCGCA
65 ATTTAACAACTCGCA
* *
71500126 CGAATGCCTTCGGGACTTAACCCGGATTTATATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTATATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
** *
71500191 -TTAGTATCTCGCA
66 TTTAACAACTCGCA
* * * * *
71500204 CAAAGGCCTTC-GGATCTTAGTCCGGATATAT-TCACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTATAT--C-TCGCACAAATGCCTTCGGGACTTAACC
71500266 CGGA
62 CGGA
71500270 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
76 13 0.11
77 20 0.17
78 50 0.41
79 30 0.25
80 8 0.07
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTATATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
TTTAACAACTCGCA
Found at i:71500278 original size:41 final size:41
Alignment explanation
Indices: 71500201--71500278 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
71500191 TTAGTATCTC
* * *
71500201 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
71500242 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
71500279 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:71515072 original size:39 final size:38
Alignment explanation
Indices: 71515029--71515147 Score: 148
Period size: 39 Copynumber: 3.1 Consensus size: 38
71515019 TCCTCGTTCA
* *
71515029 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACATAACCCGG-TTTAGTAACTCGCAC
**
71515068 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACATAACCCGG-TTTAGTAACTCGCAC
* * *
71515107 GAATGCCTTCGGGACTTAACCCGGATTAGTATCTCGCAC
1 -AATGCCTTCGGGACATAACCCGGTTTAGTAACTCGCAC
71515146 AA
1 AA
71515148 CCTCGCACAA
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
38 2 0.03
39 45 0.65
40 22 0.32
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (38 bp):
AATGCCTTCGGGACATAACCCGGTTTAGTAACTCGCAC
Found at i:71515167 original size:49 final size:49
Alignment explanation
Indices: 71515096--71515197 Score: 152
Period size: 49 Copynumber: 2.1 Consensus size: 49
71515086 CCCGGATTTA
* *
71515096 ACAACTCGCACGAATGCCTTCGGGACTTAACCCG-GATTAGTATCTCGC
1 ACAACTCGCACAAATGCCTTCGGGACTTAACCCGAAATTAGTATCTCGC
* *
71515144 ACAACCTCGCACAAATGCCTTCGGGGCTTAACCCGAAATTTGTATCTCGC
1 ACAA-CTCGCACAAATGCCTTCGGGACTTAACCCGAAATTAGTATCTCGC
71515194 ACAA
1 ACAA
71515198 ATGCCTTCGG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 4 0.08
49 28 0.58
50 16 0.33
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (49 bp):
ACAACTCGCACAAATGCCTTCGGGACTTAACCCGAAATTAGTATCTCGC
Found at i:71515269 original size:41 final size:41
Alignment explanation
Indices: 71515192--71515269 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
71515182 TTTGTATCTC
* * *
71515192 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
71515233 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
71515270 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:71523052 original size:40 final size:40
Alignment explanation
Indices: 71522952--71523214 Score: 252
Period size: 39 Copynumber: 6.7 Consensus size: 40
71522942 GCTCCTCGTT
* * * * *
71522952 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* ** *
71522992 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
*
71523031 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCG-A
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* * *
71523070 CAAAGGCCTTCGGGGCTTAACCCAGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCC-GGATTTAGTATCTCGCA
* *
71523110 CAAATGCCTTCGGGGCTTAACCCGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
** * * *
71523149 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-ATC-TCGCA
*
71523190 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
71523215 CAGCATTCAA
Statistics
Matches: 193, Mismatches: 22, Indels: 16
0.84 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 100 0.52
40 79 0.41
41 12 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
Found at i:71523055 original size:79 final size:79
Alignment explanation
Indices: 71522952--71523161 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 79
71522942 GCTCCTCGTT
* * * * *
71522952 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCC-GG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCACACAATGCCTTCGGGACATAACCCAGA
71523016 ATTTAACAACTCGCA
66 ATTT-ACAACTCGCA
* * * *
71523031 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGACA-AAGGCCTTCGGGGCTTAACCCAG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTC-ACACAATGCCTTCGGGACATAACCCAG
** *
71523095 AATTTGTATCTCGCA
65 AATTTACAACTCGCA
* * *
71523110 CAAATGCCTTCGGGGCTTAACCCGAATTT-GTATCTCGCACAAATGCCTTCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCACAC-AATGCCTTCGG
71523162 ATCTTAGTCC
Statistics
Matches: 110, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
77 2 0.02
78 7 0.06
79 93 0.85
80 8 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCACACAATGCCTTCGGGACATAACCCAGA
ATTTACAACTCGCA
Found at i:71523223 original size:41 final size:41
Alignment explanation
Indices: 71523146--71523223 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
71523136 TTTGTATCTC
* * *
71523146 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
71523187 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
71523224 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:71528587 original size:43 final size:44
Alignment explanation
Indices: 71528438--71528596 Score: 134
Period size: 43 Copynumber: 3.7 Consensus size: 44
71528428 TATGTGTTCT
* *
71528438 CGTGTAAGACCACGTCTGGGA-TGTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACAGTTGGCATCGA-TATTTGA-TTA
* * * * * * *
71528482 CGTGTAAGACCATGTCTAGGACA-TCGACATTG-TACTTGATTT
1 CGTGTAAGACCACGTCTGGGACAGTTGGCATCGATATTTGATTA
* *
71528524 TGTGTAAGACC-CTGTTTGGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGACAGTTGGCATCGATATTTGATTA
*
71528567 CATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 CGTGTAAGACCACGTCTGGGACAGTTGGCAT
71528597 TGTACGAGCT
Statistics
Matches: 87, Mismatches: 21, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
42 27 0.31
43 34 0.39
44 26 0.30
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACAGTTGGCATCGATATTTGATTA
Found at i:71532880 original size:9 final size:9
Alignment explanation
Indices: 71532866--71532898 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
71532856 GAATTATTCA
71532866 AATCGAGTT
1 AATCGAGTT
71532875 AATCGAGTT
1 AATCGAGTT
*
71532884 AATCGAATT
1 AATCGAGTT
71532893 AATCGA
1 AATCGA
71532899 ATCAACTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:71534534 original size:40 final size:40
Alignment explanation
Indices: 71534486--71534633 Score: 242
Period size: 40 Copynumber: 3.7 Consensus size: 40
71534476 GCAAACACAT
* * * *
71534486 TTGCCTTCGGGTCTTAACCCAGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
71534526 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
71534566 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
71534606 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
71534634 TCCAATGCTC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 101 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:71537452 original size:5 final size:5
Alignment explanation
Indices: 71537442--71537467 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
71537432 GAACAAATAT
71537442 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
71537468 ATCCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:71539898 original size:18 final size:17
Alignment explanation
Indices: 71539877--71539915 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
71539867 GAAAAGAAAG
71539877 GAAAACAATGGATAAAAA
1 GAAAACAATGGA-AAAAA
*
71539895 GAAAAGAATGGAAAAAA
1 GAAAACAATGGAAAAAA
71539912 -AAAA
1 GAAAA
71539916 AGAAAAGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 5 0.25
18 11 0.55
ACGTcount: A:0.72, C:0.03, G:0.18, T:0.08
Consensus pattern (17 bp):
GAAAACAATGGAAAAAA
Found at i:71539916 original size:17 final size:18
Alignment explanation
Indices: 71539878--71539919 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
71539868 AAAAGAAAGG
* *
71539878 AAAACAATGGATAAAAAG
1 AAAAGAATGGATAAAAAA
71539896 AAAAGAATGGA-AAAAAA
1 AAAAGAATGGATAAAAAA
71539913 AAAAGAA
1 AAAAGAA
71539920 AAGGAAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAATGGATAAAAAA
Found at i:71539921 original size:28 final size:28
Alignment explanation
Indices: 71539862--71539928 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
71539852 TAATGACAAA
* *** *
71539862 AAAAAGAAAAGAAAGGAAAACAATGGAT
1 AAAAAGAAAAGAAAGGAAAAAAAAAAAG
*
71539890 AAAAAGAAAAGAATGGAAAAAAAAAAAG
1 AAAAAGAAAAGAAAGGAAAAAAAAAAAG
*
71539918 AAAAGGAAAAG
1 AAAAAGAAAAG
71539929 TAAATATTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.73, C:0.01, G:0.21, T:0.04
Consensus pattern (28 bp):
AAAAAGAAAAGAAAGGAAAAAAAAAAAG
Found at i:71542519 original size:21 final size:22
Alignment explanation
Indices: 71542490--71542531 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
71542480 AATAACATAA
71542490 TTTTAACTTTTAAC-TTAATAG
1 TTTTAACTTTTAACTTTAATAG
*
71542511 TTTTGACTTTTAACTTTAATA
1 TTTTAACTTTTAACTTTAATA
71542532 AAAGTAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.55
Consensus pattern (22 bp):
TTTTAACTTTTAACTTTAATAG
Found at i:71545264 original size:25 final size:25
Alignment explanation
Indices: 71545236--71545285 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
71545226 CTCAAAGCTC
*
71545236 TTTTTAATTA-AATTATTTTCTTTAT
1 TTTTTAAATAGAATTATTTT-TTTAT
*
71545261 TTTTTAAATAGTATTATTTTTTTAT
1 TTTTTAAATAGAATTATTTTTTTAT
71545286 AATTTCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (25 bp):
TTTTTAAATAGAATTATTTTTTTAT
Found at i:71546985 original size:18 final size:18
Alignment explanation
Indices: 71546962--71547004 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
71546952 TGCCAAGTGC
**
71546962 GTATCCTAGTCCTTATAT
1 GTATCCTAACCCTTATAT
71546980 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
71546998 GTTTCCT
1 GTATCCT
71547005 TTTCCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:71549815 original size:40 final size:40
Alignment explanation
Indices: 71549778--71549963 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
71549768 GCTACTCGTT
* *
71549778 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
71549818 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
71549858 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
71549898 CAAATGCCTTC-GGATCTTAATCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
71549939 CAAA-GCCTTCGGGACTTATCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
71549964 CATCATTCAA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:71549882 original size:80 final size:78
Alignment explanation
Indices: 71549745--71549963 Score: 255
Period size: 80 Copynumber: 2.7 Consensus size: 78
71549735 AAATCACGTA
* * * * *
71549745 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAG
1 CCTTCGGGACTTAACCGGATATAG-TACTCGTACAAATGCCTTCGGGACTTAACCCGGATT-TAG
71549809 TAACTCGCACAAATG
64 TAACTCGCACAAATG
*
71549824 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACTTAACCCGGATTTAG
1 CCTTCGGGACTTAA-CCGGATATAGT-ACTCGTACAAATGCCTTCGGGACTTAACCCGGATTTAG
71549889 TAACTCGCACAAATG
64 TAACTCGCACAAATG
* * * *
71549904 CCTTC-GGATCTTAATCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTATCCCGGA
1 CCTTCGGGA-CTTAA-CCGGATATAGT-AC-TCGTACAAATGCCTTCGGGACTTAACCCGGA
71549964 CATCATTCAA
Statistics
Matches: 122, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
79 16 0.13
80 97 0.80
81 9 0.07
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (78 bp):
CCTTCGGGACTTAACCGGATATAGTACTCGTACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
ACTCGCACAAATG
Found at i:71552585 original size:126 final size:126
Alignment explanation
Indices: 71552356--71552714 Score: 438
Period size: 126 Copynumber: 2.8 Consensus size: 126
71552346 ACGTGGAAGA
* * * *
71552356 TTTTTCAGTAATTTTGCTGATAGTGCATCCTGCTTGAAGCATTTTTGACACTATTTTTTTAGAAC
1 TTTTTCAGTAATTTTGCTGATAGTGCATCCTGCTTGAAGTATTTTTGAAACTACTTTTTCAGAAC
* *
71552421 CGTCTTCTCAAAATTATTTTTTCAGGAACTACAGTAGAAAAAGAGCGTCAATGTGGGAGCTT
66 CGTCTTCTCAAAATTATTTTTTCAGGAACTACAGTAGAAAAAGAGCGTCAATGTGAGA-CCT
* * *
71552483 TTTTTCAGTAATTTTGTTGACAATGCATCCTGCTTGAAGTATTTTTGAAACT-CTTTTTCAGAAC
1 TTTTTCAGTAATTTTGCTGATAGTGCATCCTGCTTGAAGTATTTTTGAAACTACTTTTTCAGAAC
* ** * *
71552547 CGTCTTCTCAAAATTATTTTTTTAGGAACTATGGTAGAAAAAGAGTGTCCATGTGAGACCT
66 CGTCTTCTCAAAATTATTTTTTCAGGAACTACAGTAGAAAAAGAGCGTCAATGTGAGACCT
* * * * *
71552608 TTTTTCAATAATTTTGCTGATAGTGCATCCTACTTGAAGTGTTTTTGATATTA-TCTTTTCACG-
1 TTTTTCAGTAATTTTGCTGATAGTGCATCCTGCTTGAAGTATTTTTGAAACTACT-TTTTCA-GA
* * * * *
71552671 ACCATCTTCTTAAAATTAATTTTTCTA-CAACTACTGTAGAAAAA
64 ACCGTCTTCTCAAAATTATTTTTTC-AGGAACTACAGTAGAAAAA
71552715 AATAAAATAA
Statistics
Matches: 199, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
125 47 0.24
126 103 0.52
127 49 0.25
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (126 bp):
TTTTTCAGTAATTTTGCTGATAGTGCATCCTGCTTGAAGTATTTTTGAAACTACTTTTTCAGAAC
CGTCTTCTCAAAATTATTTTTTCAGGAACTACAGTAGAAAAAGAGCGTCAATGTGAGACCT
Found at i:71552869 original size:41 final size:41
Alignment explanation
Indices: 71552790--71552869 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
71552780 TTTTTTAAAA
*
71552790 CTAAACCCTAATTTAATTAATTTTCTTAAAAACTCTAAACT
1 CTAAACCCTAATTTAATTAATTTTCTTAAAAACCCTAAACT
* * *
71552831 CTAAACTCTAATTTAATTTATTTAT-TTAAAACCCCTAAA
1 CTAAACCCTAATTTAATTAATTT-TCTTAAAAACCCTAAA
71552870 ACCTAATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 33 0.97
42 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.40
Consensus pattern (41 bp):
CTAAACCCTAATTTAATTAATTTTCTTAAAAACCCTAAACT
Found at i:71552903 original size:34 final size:34
Alignment explanation
Indices: 71552786--71552903 Score: 82
Period size: 34 Copynumber: 3.3 Consensus size: 34
71552776 TTATTTTTTT
*
71552786 AAAA-CTAAACCCTAATTTAATTAATTTTCTTAAAA
1 AAAATCTAAAACCTAATTTAATT-ATTTT-TTAAAA
71552821 ACTCTAAACTCT-AAACTCTAATTTAATTTATTTATTT--AA
1 A----AAA-TCTAAAAC-CTAATTTAA-TTATTT-TTTAAAA
***
71552860 AACCCCTAAAACCTAATTTAATTATTTTTTAAAA
1 AAAATCTAAAACCTAATTTAATTATTTTTTAAAA
71552894 AAAATCTAAA
1 AAAATCTAAA
71552904 CCTTGATTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 25
0.67 0.07 0.26
Matches are distributed among these distances:
32 3 0.05
33 6 0.09
34 20 0.31
35 6 0.09
39 6 0.09
40 3 0.05
41 17 0.27
42 3 0.05
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (34 bp):
AAAATCTAAAACCTAATTTAATTATTTTTTAAAA
Found at i:71553438 original size:30 final size:26
Alignment explanation
Indices: 71553376--71553466 Score: 116
Period size: 26 Copynumber: 3.5 Consensus size: 26
71553366 ATGTAAAATG
71553376 TTTATAAATAAATATTAATAATTTTA
1 TTTATAAATAAATATTAATAATTTTA
71553402 TTTATAAATAAATATTAATAATTTTA
1 TTTATAAATAAATATTAATAATTTTA
* *
71553428 -TT-TAAATATAAT-TGAATAATAATTA
1 TTTATAAATA-AATATTAATAAT-TTTA
*
71553453 ATTATAAATAAATA
1 TTTATAAATAAATA
71553467 CTAAAGCTTA
Statistics
Matches: 58, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
24 13 0.22
25 8 0.14
26 31 0.53
27 6 0.10
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (26 bp):
TTTATAAATAAATATTAATAATTTTA
Found at i:71553522 original size:22 final size:22
Alignment explanation
Indices: 71553474--71553516 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
71553464 ATACTAAAGC
71553474 TTAAATCATAAATTGTAAATCA
1 TTAAATCATAAATTGTAAATCA
*
71553496 TTAAATTCA-AAATTTTAAATC
1 TTAAA-TCATAAATTGTAAATC
71553517 TGTAAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (22 bp):
TTAAATCATAAATTGTAAATCA
Found at i:71561351 original size:55 final size:54
Alignment explanation
Indices: 71561243--71561481 Score: 224
Period size: 55 Copynumber: 4.5 Consensus size: 54
71561233 ATTAGGGTTT
* * * * * * *
71561243 AAGGGTACCATTTAAGACTATGCCAAGGCATGGAAATTGTTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACAT-GACATTGGTAA-GTTTCATAAGGC
* * *
71561298 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGGTAAGTTTC-ATAAGGC
* * * * *
71561353 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAG-TTCATAAAGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGACATTGGTAAGTTTCATAAGGC
* *
71561406 AAGGATACCATGTAAGACCATGTCGAGACATGACAATGGTAAGTTTC--AA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGGTAAGTTTCATAAGGC
*
71561455 AAGGATACCATGTAAGACCATGACAAG
1 AAGGATACCATGTAAGACCATGTCAAG
71561482 TCAAGGCAAT
Statistics
Matches: 154, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
49 25 0.16
52 6 0.04
53 43 0.28
54 14 0.09
55 62 0.40
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGACATTGGTAAGTTTCATAAGGC
Found at i:71561449 original size:108 final size:110
Alignment explanation
Indices: 71561250--71561452 Score: 277
Period size: 108 Copynumber: 1.9 Consensus size: 110
71561240 TTTAAGGGTA
* * * * *
71561250 CCATTTAAGACTATGCCAAGGCATGGAAATTGTTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAAGCAAGGATACCATGTAAGA
* *
71561315 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTTCTATAAGGCAAAGGTC
* *
71561360 CCATGTAAGACCATGCCAAGGCAT-GACATTGGTGA-G-TTCATAAAGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAAGCAAGGATACCATGTAAG
* *
71561422 ACCATGTCGAGACATGACAATGGTAAGTTTC
65 ACCATGTCAAGACATGACAATGATAAGTTTC
71561453 AAAAGGATAC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.59
109 8 0.10
110 22 0.27
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAAGCAAGGATACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:71561476 original size:49 final size:51
Alignment explanation
Indices: 71561297--71561497 Score: 165
Period size: 53 Copynumber: 3.9 Consensus size: 51
71561287 GTTTCTAAGG
* * * * * *
71561297 CAAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAG--T-TATAA-A
* * * *
71561352 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTCATAAA
1 C-AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTT-ATAAA
* * *
71561404 GCAAGGATACCATGTAAGACCATGTCGAGACATGACAATGGTAAGTT-TCAA
1 -CAAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTTATAAA
* * * *
71561455 -AAGGATACCATGTAAGACCATGACAAGTCAAGGCAATGGTAAG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAG
71561498 GTACCCGTGT
Statistics
Matches: 122, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
49 38 0.31
51 3 0.02
52 5 0.04
53 40 0.33
55 32 0.26
56 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.22
Consensus pattern (51 bp):
CAAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTTATAAA
Found at i:71561716 original size:16 final size:16
Alignment explanation
Indices: 71561695--71561729 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
71561685 ATAAATTTGA
71561695 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
71561711 TTAAGTAAGTGAGTAT
1 TTAAGTAAGTAAGTAT
71561727 TTA
1 TTA
71561730 TGTCTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:71569073 original size:53 final size:53
Alignment explanation
Indices: 71568894--71569096 Score: 237
Period size: 53 Copynumber: 3.8 Consensus size: 53
71568884 ATTAGGGTTT
* ** *
71568894 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGTTTTTAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAAGTTCATAAGGC
* * *
71568948 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG-TTC-ATAAGGC
* * * *
71569003 AAAGG-TCCCATGCAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * *
71569056 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTA
71569097 GGTTTCAAAA
Statistics
Matches: 124, Mismatches: 21, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
52 4 0.03
53 44 0.35
54 36 0.29
55 36 0.29
56 4 0.03
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:71569102 original size:108 final size:109
Alignment explanation
Indices: 71568901--71569102 Score: 307
Period size: 108 Copynumber: 1.9 Consensus size: 109
71568891 TTTAAGGATA
* ** *
71568901 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGTTTTTAAGGAAAGGATATCATGTAAGAC
1 CCATGCAAGACCATGCCAAGGCATGGCAATTGGTAAGTTCATAAGGAAAGGATACCATGTAAGAC
*
71568966 CATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTC
66 CATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
* *
71569010 CCATGCAAGACCATGCCAAGGCATGGC-ATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGAC
1 CCATGCAAGACCATGCCAAGGCATGGCAATTGGTAAGTTCATAAGGAAAGGATACCATGTAAGAC
* * *
71569074 CATGTCGAGACATGGCAATGGTAGGTTTC
66 CATGTCAAGACATGGCAATGATAAGTTTC
71569103 AAAAGGATAC
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
108 57 0.69
109 26 0.31
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (109 bp):
CCATGCAAGACCATGCCAAGGCATGGCAATTGGTAAGTTCATAAGGAAAGGATACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:71569366 original size:16 final size:16
Alignment explanation
Indices: 71569345--71569375 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71569335 ATAAATATGA
71569345 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
71569361 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
71569376 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:71572996 original size:44 final size:44
Alignment explanation
Indices: 71572931--71573015 Score: 111
Period size: 44 Copynumber: 1.9 Consensus size: 44
71572921 TTGATATCTC
* *
71572931 AAAGTCCATGGTTGTACCATGGCAAT-TAAGGAAGAATTGACAGA
1 AAAGTCCATGGTTATAACATGGC-ATCTAAGGAAGAATTGACAGA
*
71572975 AAAGTCCAT-GTTCATAACATGGCATCTAAGGAGGAATTGAC
1 AAAGTCCATGGTT-ATAACATGGCATCTAAGGAAGAATTGAC
71573016 GGTTAAGGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 5 0.14
44 31 0.86
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCATCTAAGGAAGAATTGACAGA
Found at i:71573212 original size:47 final size:47
Alignment explanation
Indices: 71573154--71573275 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
71573144 ATATTGGCAC
*
71573154 TAAGACAAGGATATCATGTAAAACCATGTTAGGAACATGGCATTTGG
1 TAAGACAAGGATATCATGTAAGACCATGTTAGGAACATGGCATTTGG
* *
71573201 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATATCATGTAAGACCATGTTAGGAACATGGCATTTGG
*
71573248 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATATCATGTAAGACCATG
71573276 CCAAGGCATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATATCATGTAAGACCATGTTAGGAACATGGCATTTGG
Found at i:71573323 original size:54 final size:54
Alignment explanation
Indices: 71573257--71573461 Score: 223
Period size: 55 Copynumber: 3.8 Consensus size: 54
71573247 GTAAGATAAG
* *
71573257 GATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAA
* * * * *
71573311 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGCAAA
* * * * * * * *
71573366 GGTCCCATGTAAGACCATGCCAAGGCGTGGCATTGGTGAGTTC-GTAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAA
* * * *
71573419 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
71573462 AAAAAGGAAA
Statistics
Matches: 126, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
53 42 0.33
54 39 0.31
55 45 0.36
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAA
Found at i:71586655 original size:40 final size:40
Alignment explanation
Indices: 71586552--71586807 Score: 337
Period size: 40 Copynumber: 6.5 Consensus size: 40
71586542 AAGCCAAGTA
* * * *
71586552 CCTTCGGGATTTAG-CCGGATA-TAGCT-ACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGA-ACTAG-TAACTCGCACAAATG
71586591 CCTTCGGGAC--AGCCCGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
*
71586629 CCTTCGGAACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
71586669 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
*
71586709 CCTTCGGGACTTAGCCCGGATA-TGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
* * *
71586749 CCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
*
71586789 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
71586808 TTATCATCCA
Statistics
Matches: 198, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
37 3 0.02
38 29 0.15
39 11 0.06
40 154 0.78
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
Found at i:71592334 original size:8 final size:8
Alignment explanation
Indices: 71592321--71592364 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
71592311 GGCAAAAGCT
71592321 GAAATGCC
1 GAAATGCC
71592329 GAAATGCC
1 GAAATGCC
** *
71592337 GAAAAACT
1 GAAATGCC
71592345 GAAATGCC
1 GAAATGCC
*
71592353 GAAAAGCC
1 GAAATGCC
71592361 GAAA
1 GAAA
71592365 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.48, C:0.20, G:0.23, T:0.09
Consensus pattern (8 bp):
GAAATGCC
Found at i:71592346 original size:24 final size:24
Alignment explanation
Indices: 71592314--71592364 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
71592304 ATGAATCGGC
* *
71592314 AAAAGCTGAAATGCCGAAATGCCG
1 AAAAACTGAAATGCCGAAAAGCCG
71592338 AAAAACTGAAATGCCGAAAAGCCG
1 AAAAACTGAAATGCCGAAAAGCCG
71592362 AAA
1 AAA
71592365 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.20, G:0.22, T:0.10
Consensus pattern (24 bp):
AAAAACTGAAATGCCGAAAAGCCG
Found at i:71592364 original size:16 final size:16
Alignment explanation
Indices: 71592321--71592364 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
71592311 GGCAAAAGCT
*
71592321 GAAATGCCGAAATGCC
1 GAAAAGCCGAAATGCC
* *
71592337 GAAAAACTGAAATGCC
1 GAAAAGCCGAAATGCC
71592353 GAAAAGCCGAAA
1 GAAAAGCCGAAA
71592365 GTTTGGCTAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.48, C:0.20, G:0.23, T:0.09
Consensus pattern (16 bp):
GAAAAGCCGAAATGCC
Found at i:71592657 original size:28 final size:28
Alignment explanation
Indices: 71592575--71592660 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
71592565 GTGAGCATGA
*
71592575 ATATGAATGTGACTGGGCCTAATGGGCC
1 ATATGAATGTGAATGGGCCTAATGGGCC
* *
71592603 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-ATGGGCCTAATGGGCC
* *
71592632 ATATGAATATGAATGGGCTTAATGGGCC
1 ATATGAATGTGAATGGGCCTAATGGGCC
71592660 A
1 A
71592661 GATACATGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 26 0.51
29 25 0.49
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (28 bp):
ATATGAATGTGAATGGGCCTAATGGGCC
Found at i:71596638 original size:30 final size:30
Alignment explanation
Indices: 71596604--71596664 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
71596594 TTCTTAACTC
71596604 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * * *
71596634 AAACTTTTGCATATTTATACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
71596664 A
1 A
71596665 GGCTCGGGAA
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:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:71599755 original size:28 final size:29
Alignment explanation
Indices: 71599697--71599761 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
71599687 GGCCTACTCT
* *
71599697 CATTCGTATGGCCCATTAGGCCCAAATCA
1 CATTCATATGACCCATTAGGCCCAAATCA
* *
71599726 CATTCATATGACCCA-TCGGCCCCAATCA
1 CATTCATATGACCCATTAGGCCCAAATCA
71599754 CATTCATA
1 CATTCATA
71599762 GTCATGCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 19 0.59
29 13 0.41
ACGTcount: A:0.29, C:0.34, G:0.12, T:0.25
Consensus pattern (29 bp):
CATTCATATGACCCATTAGGCCCAAATCA
Found at i:71604420 original size:28 final size:28
Alignment explanation
Indices: 71604380--71604486 Score: 121
Period size: 28 Copynumber: 3.8 Consensus size: 28
71604370 ATAAATGCAA
* * *
71604380 CCCACTAGGCCCACTCTCATTCATATGG
1 CCCATTAGGCCCAATCACATTCATATGG
71604408 CCCATTAGGCCCAAATCACATT-ATATGG
1 CCCATTAGGCCC-AATCACATTCATATGG
* *
71604436 CCCA-TCGGCCCCAATCATATTCATATGG
1 CCCATTAGG-CCCAATCACATTCATATGG
71604464 CCCATT-GGCTCCAATCACATTCA
1 CCCATTAGGC-CCAATCACATTCA
71604487 GAGTCATGCA
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
27 12 0.18
28 48 0.71
29 8 0.12
ACGTcount: A:0.26, C:0.36, G:0.13, T:0.25
Consensus pattern (28 bp):
CCCATTAGGCCCAATCACATTCATATGG
Found at i:71605473 original size:23 final size:23
Alignment explanation
Indices: 71605434--71605478 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
71605424 CAACACAAAA
*
71605434 AAAAGAAATGAGGAA-TTCGGCT
1 AAAAGAAATGAGCAATTTCGGCT
*
71605456 AAAAGAAGTGAAGCAATTTCGGC
1 AAAAGAAATG-AGCAATTTCGGC
71605479 ATTACCCTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.44, C:0.11, G:0.27, T:0.18
Consensus pattern (23 bp):
AAAAGAAATGAGCAATTTCGGCT
Found at i:71608880 original size:28 final size:28
Alignment explanation
Indices: 71608817--71608970 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
71608807 ATATTAAGTC
* *
71608817 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
71608844 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
71608872 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
71608900 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
*
71608928 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
71608956 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71608971 GTACAATTTA
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 22 0.18
28 99 0.82
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:71610798 original size:12 final size:12
Alignment explanation
Indices: 71610781--71610811 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
71610771 AACACTTCTG
71610781 CGGCCTCGGCCA
1 CGGCCTCGGCCA
71610793 CGGCCTCGGCCA
1 CGGCCTCGGCCA
71610805 CGGCCTC
1 CGGCCTC
71610812 TTGCACCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.52, G:0.32, T:0.10
Consensus pattern (12 bp):
CGGCCTCGGCCA
Found at i:71612615 original size:28 final size:28
Alignment explanation
Indices: 71612565--71612657 Score: 114
Period size: 28 Copynumber: 3.3 Consensus size: 28
71612555 GGCCCACTCT
* * * *
71612565 CATTCATATGACCTATTAGGCCCAAAACA
1 CATTCATATGGCCCATCA-GCCCAAATCA
*
71612594 CATTCATATGGCCCATCAGCCCTAATCA
1 CATTCATATGGCCCATCAGCCCAAATCA
* *
71612622 CATTCATATGGCCCATCGGCCCCAATCA
1 CATTCATATGGCCCATCAGCCCAAATCA
71612650 CATTCATA
1 CATTCATA
71612658 GTCATGCAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 42 0.74
29 15 0.26
ACGTcount: A:0.31, C:0.33, G:0.11, T:0.25
Consensus pattern (28 bp):
CATTCATATGGCCCATCAGCCCAAATCA
Found at i:71620367 original size:46 final size:46
Alignment explanation
Indices: 71620317--71620627 Score: 310
Period size: 46 Copynumber: 6.7 Consensus size: 46
71620307 TGAGCATCCA
*
71620317 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * * * *
71620363 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCG
* ** *
71620410 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * *
71620456 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * * *
71620502 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCG
* *
71620549 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * *
71620595 AGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71620628 GCGGGTTACA
Statistics
Matches: 217, Mismatches: 34, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
43 10 0.05
45 6 0.03
46 128 0.59
47 57 0.26
48 6 0.03
50 10 0.05
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
Found at i:71620469 original size:93 final size:93
Alignment explanation
Indices: 71620310--71620480 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
71620300 GGATGGTTGA
* *
71620310 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
71620375 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * ** *
71620403 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
71620468 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71620481 ACTTATGGAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:71620544 original size:139 final size:139
Alignment explanation
Indices: 71620319--71620627 Score: 564
Period size: 139 Copynumber: 2.2 Consensus size: 139
71620309 AGCATCCAAA
71620319 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAGTCCGA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAGTCCGA
* *
71620384 GTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGA
66 GTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
71620449 ACGCCCGAG
131 ACGCCCGAG
*
71620458 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAGTCCGA
*
71620523 GTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
66 GTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
71620588 ACGCCCGAG
131 ACGCCCGAG
* *
71620597 CTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71620628 GCGGGTTACA
Statistics
Matches: 164, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 164 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (139 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAGTCCGA
GTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
ACGCCCGAG
Found at i:71629383 original size:50 final size:49
Alignment explanation
Indices: 71629263--71629538 Score: 175
Period size: 46 Copynumber: 5.8 Consensus size: 49
71629253 TAAGGTGCCA
* *
71629263 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATATTCGAGGCTG
* * * *
71629312 ATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCACATATTTG-TGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTAT--CATATTCGAGGCTG
* * * *
71629362 ATGCCATGTCCCAAACATGGTCTTACACT-GAC-A-CAT-CTC-ATAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTATCATATTCGA-GGCTG
* * ** * *
71629408 ATG-CATGTCCCAGACAT-GTCTTACATTGGCT-T-ACGTCCTGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATATTC-GAGGCTG
* * * * **
71629454 ATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCGT-CTCAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATATTCGAGGCTG
* * *
71629500 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATA
71629539 AGGTGGCTGA
Statistics
Matches: 177, Mismatches: 32, Indels: 36
0.72 0.13 0.15
Matches are distributed among these distances:
44 11 0.06
45 16 0.09
46 48 0.27
47 16 0.09
48 15 0.08
49 33 0.19
50 32 0.18
51 6 0.03
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATATTCGAGGCTG
Found at i:71637080 original size:46 final size:46
Alignment explanation
Indices: 71637030--71637202 Score: 129
Period size: 46 Copynumber: 3.7 Consensus size: 46
71637020 TTGGGCATCC
*
71637030 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCT
* * * * * *
71637076 GAACTCGTTGGGTTGAGTTCGAGTTC-GTGA--GATG-TAACTAGGCAT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GCCT
* * * ** * *
71637121 ACGATCTCATTGAGTTGAGTCTGAGTTCACCCATGGATGCGAACGCCC
1 --GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCT
* *
71637169 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71637203 GCGGGTTACA
Statistics
Matches: 93, Mismatches: 25, Indels: 18
0.68 0.18 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 52 0.56
47 21 0.23
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCT
Found at i:71637184 original size:93 final size:93
Alignment explanation
Indices: 71637023--71637195 Score: 238
Period size: 93 Copynumber: 1.9 Consensus size: 93
71637013 AGGATGTTTG
* * ** * * * *
71637023 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGGG
1 GGCATACGAACTCATTGAGTTGAGTCCGAGTTCACCCATGGATGCGAACGCCCGAACTCGTTGAG
*
71637088 TTGAGTTCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
71637116 GGCATACGATCTCATTGAGTTGAGTCTGAGTTCACCCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATACGAACTCATTGAGTTGAGTCCGAGTTCACCCATGGATGCGAACGCCCGAACTCGTTGAG
71637181 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
71637196 CTTATGGGCG
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATACGAACTCATTGAGTTGAGTCCGAGTTCACCCATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:71646353 original size:39 final size:39
Alignment explanation
Indices: 71646299--71646570 Score: 438
Period size: 39 Copynumber: 7.0 Consensus size: 39
71646289 ATTATATTAT
* * *
71646299 CAGCACAAAGCCTGCGGGACTTTAACCCAGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
71646338 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
71646377 CAGCACAAAGCCTGCGGGACTTTGGCCCAGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
71646416 CAGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
71646455 CAGCACGAAGCCTGCGGGACTTT-GTCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAG-CCCGGATACATTTC
* *
71646494 TAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
71646533 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
71646571 TCAGTGTCTT
Statistics
Matches: 216, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
38 1 0.00
39 214 0.99
40 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:71646620 original size:12 final size:12
Alignment explanation
Indices: 71646603--71646637 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
71646593 ACATGTTAAC
71646603 ACATTTCACATA
1 ACATTTCACATA
71646615 ACATTTCACATA
1 ACATTTCACATA
71646627 ACATTTCACAT
1 ACATTTCACAT
71646638 TAGCAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.34
Consensus pattern (12 bp):
ACATTTCACATA
Found at i:71652239 original size:39 final size:39
Alignment explanation
Indices: 71652190--71652460 Score: 425
Period size: 39 Copynumber: 6.9 Consensus size: 39
71652180 TTATATTATT
* *
71652190 AGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
*
71652229 AGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* * * **
71652268 AGCACGAAGCCTGCAGGACTTTGGTCCGGATACATTTAA
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* *
71652307 AGCATGAAGCCTGCGGGACTTTAGCCCGGATATATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* *
71652346 AGCACGAAGCCTGCGGGACTTTAGCCCAGATATATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
71652385 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
*
71652424 AGCACGAAGCGTGCGGGACTTTAGCCCGGATACATTT
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
71652461 TCAGTGTCTT
Statistics
Matches: 213, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 213 1.00
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (39 bp):
AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
Found at i:71654144 original size:40 final size:40
Alignment explanation
Indices: 71654082--71654297 Score: 319
Period size: 40 Copynumber: 5.3 Consensus size: 40
71654072 AAACCAAGTA
* * *
71654082 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
71654121 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
71654161 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
71654201 CCTTCGAGACTTAGCCCGGGTATAGTAACTCGCACTAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
71654241 CCTTCGGGACTTAGCCCGGTTATCATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG--AT-ATAGTAACTCGCACAAATG
71654284 CCTTCGGGACTTAG
1 CCTTCGGGACTTAG
71654298 TCTGATTATC
Statistics
Matches: 161, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
39 13 0.08
40 115 0.71
42 1 0.01
43 32 0.20
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:71659884 original size:54 final size:54
Alignment explanation
Indices: 71659821--71659936 Score: 232
Period size: 54 Copynumber: 2.1 Consensus size: 54
71659811 ACACTGGCGA
71659821 CCGAAGTGACTCGTGTACTCACAGGGGGTCGATCACGATCTCGTCTAGAAAAGC
1 CCGAAGTGACTCGTGTACTCACAGGGGGTCGATCACGATCTCGTCTAGAAAAGC
71659875 CCGAAGTGACTCGTGTACTCACAGGGGGTCGATCACGATCTCGTCTAGAAAAGC
1 CCGAAGTGACTCGTGTACTCACAGGGGGTCGATCACGATCTCGTCTAGAAAAGC
71659929 CCGAAGTG
1 CCGAAGTG
71659937 TCTCTAGATC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (54 bp):
CCGAAGTGACTCGTGTACTCACAGGGGGTCGATCACGATCTCGTCTAGAAAAGC
Found at i:71662387 original size:40 final size:40
Alignment explanation
Indices: 71662317--71662534 Score: 368
Period size: 40 Copynumber: 5.5 Consensus size: 40
71662307 AAACCAAGTA
* * *
71662317 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
71662356 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
71662396 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
71662436 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
71662476 CCTTCGAGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
71662516 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
71662535 TTATCATCCG
Statistics
Matches: 171, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 14 0.08
40 157 0.92
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:71671164 original size:48 final size:48
Alignment explanation
Indices: 71671061--71671185 Score: 146
Period size: 48 Copynumber: 2.6 Consensus size: 48
71671051 TAGGGTTATG
* * * *
71671061 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGAATCATTA
1 TGTGATCCCATATAAGACCATGTCTGGGACATGACATTGGAATCATCA
* *
71671109 TGAGATCCCATATAAGACCATGTCTGGGACATGACATTGGTATCGA-CA
1 TGTGATCCCATATAAGACCATGTCTGGGACATGACATTGGAATC-ATCA
* *
71671157 TGTGATCCCA-AGTAAGACAATATCTGGGA
1 TGTGATCCCATA-TAAGACCATGTCTGGGA
71671186 TATGGAATTG
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
47 1 0.02
48 64 0.97
49 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (48 bp):
TGTGATCCCATATAAGACCATGTCTGGGACATGACATTGGAATCATCA
Found at i:71679017 original size:48 final size:48
Alignment explanation
Indices: 71678905--71679131 Score: 171
Period size: 48 Copynumber: 4.8 Consensus size: 48
71678895 TAGGGTTATG
* * * * * * *
71678905 TGTGATCCCAAGTAAGACTATGTTTGGGACATGGCTTTGGAATTGTTA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * *
71678953 TGAGATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGACA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * * *
71679001 TGTGATCTCATGTAAGAGCATATCTGGGATATGGCATTGACATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * * * *
71679049 TGAGA-CATCGTGTAAGACCATAG-CTAGG-C-T---ATTGGCTTCGATT
1 TGTGATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATA
* * *
71679092 TGTGATCCCATGTAAGACCATATCTGGTATATGGCATTGG
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
71679132 AATCTTACTA
Statistics
Matches: 136, Mismatches: 34, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
43 29 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 103 0.76
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:71701123 original size:16 final size:16
Alignment explanation
Indices: 71701081--71701139 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 16
71701071 GTAGATCGGT
* *
71701081 AAAAGTCAAAATGCTG
1 AAAAGCCAAAATACTG
* *
71701097 AAAAACTAAAATACTG
1 AAAAGCCAAAATACTG
71701113 AAAAGCCAAAATGAC-G
1 AAAAGCCAAAAT-ACTG
71701129 AAAAGCCAAAA
1 AAAAGCCAAAA
71701140 GTTTAGCTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
16 34 0.94
17 2 0.06
ACGTcount: A:0.59, C:0.15, G:0.14, T:0.12
Consensus pattern (16 bp):
AAAAGCCAAAATACTG
Found at i:71701392 original size:29 final size:29
Alignment explanation
Indices: 71701350--71701532 Score: 278
Period size: 29 Copynumber: 6.3 Consensus size: 29
71701340 GAAAGTATGA
* *
71701350 ATATGAATGTGATTTGGGTCAAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
71701379 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
71701408 ATATGAATGTGATTTGGGCCTAATAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
71701437 ATACGAATGTGATTTGAGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
71701466 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
71701495 ATATGAATGAGATTT-GGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
71701523 ATATGCATGT
1 ATATGAATGT
71701533 ATGTAGACTT
Statistics
Matches: 142, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
28 20 0.14
29 122 0.86
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:71702185 original size:13 final size:13
Alignment explanation
Indices: 71702167--71702195 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
71702157 GTGTATTGGT
71702167 TGGATTATTGGGG
1 TGGATTATTGGGG
71702180 TGGATTATTGGGG
1 TGGATTATTGGGG
71702193 TGG
1 TGG
71702196 GTCAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.48, T:0.38
Consensus pattern (13 bp):
TGGATTATTGGGG
Found at i:71710180 original size:30 final size:30
Alignment explanation
Indices: 71710145--71710204 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
71710135 ATTTAATACG
**
71710145 AACTTTGGCAAAATTACTTTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
71710175 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
71710205 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:71714606 original size:6 final size:6
Alignment explanation
Indices: 71714588--71714696 Score: 98
Period size: 6 Copynumber: 17.8 Consensus size: 6
71714578 AAGAAACATT
*
71714588 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
71714635 GTGACAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGG
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
*
71714686 ATCAGT ATCAG
1 ATCAGA ATCAG
71714697 GTAATAGAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
5 4 0.05
6 73 0.86
7 6 0.07
8 2 0.02
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:71714646 original size:31 final size:31
Alignment explanation
Indices: 71714608--71714708 Score: 148
Period size: 31 Copynumber: 3.3 Consensus size: 31
71714598 GAATCAGAAT
* * *
71714608 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGTATCAGGTAA
71714639 CAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGTATCAGGTAA
* *
71714670 CAGAATCAAAATCAGGATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGTATCAGGTAA
*
71714701 TAGAATCA
1 CAGAATCA
71714709 AAAATCAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGTATCAGGTAA
Found at i:71714899 original size:27 final size:26
Alignment explanation
Indices: 71714856--71714957 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
71714846 GCTCAGTTAT
* *
71714856 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
* * *
71714883 CAAATATTGTGGTAGAGCCACTAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
71714909 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
71714937 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
71714958 TTAACAGAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 6 0.10
27 48 0.77
28 8 0.13
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:71714948 original size:54 final size:53
Alignment explanation
Indices: 71714856--71714958 Score: 125
Period size: 54 Copynumber: 1.9 Consensus size: 53
71714846 GCTCAGTTAT
* * * * *
71714856 CAGATATTGTGACAGAGTCACCAGATACAAATATTGTGGTAGAGCCACTAGAA
1 CAGATATTGTGACAGAGCCACCAGAAACAAATAATGTGGCAAAGCCACTAGAA
* * *
71714909 CAGATATTTGTGGCATAGCCACCAGAAACAGATAATGTGGCAAAGCCACT
1 CAGATA-TTGTGACAGAGCCACCAGAAACAAATAATGTGGCAAAGCCACT
71714959 TAACAGAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 6 0.15
54 35 0.85
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.21
Consensus pattern (53 bp):
CAGATATTGTGACAGAGCCACCAGAAACAAATAATGTGGCAAAGCCACTAGAA
Found at i:71715153 original size:22 final size:22
Alignment explanation
Indices: 71715127--71715180 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
71715117 TGGCACACAA
**
71715127 CCATAATCAGGTTGGGACAAAG
1 CCATAATCAGGTTGACACAAAG
* *
71715149 GCAT-ATGTAGGTTGACACAAAG
1 CCATAAT-CAGGTTGACACAAAG
71715171 CCATAATCAG
1 CCATAATCAG
71715181 AAGGCTTTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
21 2 0.08
22 20 0.83
23 2 0.08
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (22 bp):
CCATAATCAGGTTGACACAAAG
Found at i:71715664 original size:27 final size:27
Alignment explanation
Indices: 71715625--71716259 Score: 799
Period size: 27 Copynumber: 23.6 Consensus size: 27
71715615 TACCCCATAA
* *
71715625 GGTATCTCGGTAATTCCACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
** **
71715652 GGTATTTTAGTAATTCTACCCTACATA
1 GGTATTTCGGTAATTCTACCCTACAGG
* * * *
71715679 GGTATTGCGATAATTCTACCTTACATG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
71715706 GGTATTGCGATAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * * *
71715733 GGTATTGCGATAATTCTACCCTATAGA
1 GGTATTTCGGTAATTCTACCCTACAGG
71715760 GGTATTCTC-GTAATTCTACCCTACAGG
1 GGTATT-TCGGTAATTCTACCCTACAGG
* * *
71715787 AGTATTCCGGTAAATCTACCCTACA-G
1 GGTATTTCGGTAATTCTACCCTACAGG
71715813 GGTA-TTCTGGTAATTCTACCCTACAGG
1 GGTATTTC-GGTAATTCTACCCTACAGG
*
71715840 GGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
71715867 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
71715894 GGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
71715921 AGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
71715948 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
71715975 GTTATTTTGGTAATTCTACCTTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
71716002 GTTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
71716029 GGTATTTCGGTAGTTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
71716056 GGTATTTCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * * *
71716083 GGTATTGCGGTAATTTTACCCTATAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
**
71716110 GGTATTTAAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
71716137 GGTATTGCGGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
71716164 GGTATTGCGGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
71716191 GGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * * *
71716218 AGTATTTCGGTATTTCTACCCTAGAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
71716245 GGTATTTCGATAATT
1 GGTATTTCGGTAATT
71716260 TTGTAAATCG
Statistics
Matches: 535, Mismatches: 68, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
25 2 0.00
26 21 0.04
27 509 0.95
28 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:71716273 original size:27 final size:27
Alignment explanation
Indices: 71716243--71716451 Score: 113
Period size: 27 Copynumber: 7.7 Consensus size: 27
71716233 CTACCCTAGA
*
71716243 AGGGTATTTCGATAATTTTGTAAATCG
1 AGGGTATTTCGATAATTTTATAAATCG
*** * * *
71716270 AGGGTAAAACGATAATTCTGTAAATCA
1 AGGGTATTTCGATAATTTTATAAATCG
* * *
71716297 AGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCGATAATTTTATAAATCG
* **
71716324 AGGGTATTTCAATAATTTTATAGGTCG
1 AGGGTATTTCGATAATTTTATAAATCG
* * *
71716351 AGGGTATTT-TAGTAATTTCACAAATC-
1 AGGGTATTTCGA-TAATTTTATAAATCG
* * * *
71716377 AGGGATATTTTGGTAATTTTACAAA-CT
1 AGGG-TATTTCGATAATTTTATAAATCG
* * *
71716404 AGGGGTATTTTGATAATTTTACAAACCTG
1 A-GGGTATTTCGATAATTTTATAAATC-G
* *
71716433 -GGGTATTTTGGTAATTTTA
1 AGGGTATTTCGATAATTTTA
71716452 CAAACCAGAG
Statistics
Matches: 144, Mismatches: 29, Indels: 18
0.75 0.15 0.09
Matches are distributed among these distances:
26 9 0.06
27 131 0.91
28 4 0.03
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTATAAATCG
Found at i:71716410 original size:81 final size:80
Alignment explanation
Indices: 71716297--71716638 Score: 339
Period size: 81 Copynumber: 4.2 Consensus size: 80
71716287 CTGTAAATCA
* * * * * ***
71716297 AGGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTATAGGTCGAGGGTATTTT
1 AGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTAATAATTTTACAAACCGAGGGTATTTT
* *
71716361 AGTAATTTCACAAATC
65 AGTAATTTTACAAACC
*
71716377 AGGGATATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCTG-GGGTATTT
1 AGGG-TATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAACC-GAGGGTATTT
*
71716441 TGGTAATTTTACAAACC
64 TAGTAATTTTACAAACC
* * * * * * * *
71716458 AGAGTTATTTTGGTAACTTTATAAACAAAGGGTATTTTAGTAATTTTAC-AAGCTAGGGGTATTT
1 AG-GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAACCGA-GGGTATTT
* **
71716522 TGGTAATTTTGTAAACC
64 TAGTAATTTTACAAACC
* * * * * *
71716539 AATGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTGATTTTATAAACCAAGGGTATTTT
1 -AGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAACCGAGGGTATTTT
71716604 AGTAATTTTACAAACC
65 AGTAATTTTACAAACC
71716620 AGGGGTATTTTGGTAATTT
1 A-GGGTATTTTGGTAATTT
71716639 GGTAAACTAA
Statistics
Matches: 216, Mismatches: 37, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
80 8 0.04
81 197 0.91
82 11 0.05
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAACCGAGGGTATTTTA
GTAATTTTACAAACC
Found at i:71716645 original size:27 final size:27
Alignment explanation
Indices: 71716352--71716638 Score: 349
Period size: 27 Copynumber: 10.6 Consensus size: 27
71716342 TATAGGTCGA
* * *
71716352 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
71716379 GGATATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
71716406 GGGTATTTTGATAATTTTACAAACCTG
1 GGGTATTTTGGTAATTTTACAAACCAG
71716433 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * * * *
71716460 AGTTATTTTGGTAACTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
71716487 GGGTATTTTAGTAATTTTACAAGCTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
71716514 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
71716541 TGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
71716568 GGGTATTTTAGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
71716595 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
71716622 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
71716639 GGTAAACTAA
Statistics
Matches: 216, Mismatches: 44, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 216 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:71718585 original size:30 final size:30
Alignment explanation
Indices: 71718550--71718609 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
71718540 ATTTAATACG
**
71718550 AACTTTGGCAAAATTACTTTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
71718580 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
71718610 GGCTCAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:71721599 original size:21 final size:21
Alignment explanation
Indices: 71721588--71721648 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
71721578 TATAATGAGT
71721588 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
71721609 ATATCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
71721630 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
71721649 ATATCAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:71721616 original size:5 final size:5
Alignment explanation
Indices: 71721588--71721659 Score: 56
Period size: 5 Copynumber: 14.0 Consensus size: 5
71721578 TATAATGAGT
* * * * *
71721588 ATATC ATAGC ATATC ATGTGC ATATC ATAAC ATATC ATGTGC ATATC ATGTC
1 ATATC ATATC ATATC ATAT-C ATATC ATATC ATATC ATAT-C ATATC ATATC
*
71721640 ATATC ATGT- ATATC AATATC
1 ATATC ATATC ATATC -ATATC
71721660 TCATGCATCT
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
4 3 0.06
5 35 0.69
6 13 0.25
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (5 bp):
ATATC
Found at i:71721647 original size:10 final size:10
Alignment explanation
Indices: 71721588--71721654 Score: 75
Period size: 10 Copynumber: 6.6 Consensus size: 10
71721578 TATAATGAGT
71721588 ATATCATAG-C
1 ATATCAT-GTC
71721598 ATATCATGTGC
1 ATATCATGT-C
**
71721609 ATATCATAAC
1 ATATCATGTC
71721619 ATATCATGTGC
1 ATATCATGT-C
71721630 ATATCATGTC
1 ATATCATGTC
71721640 ATATCATGT-
1 ATATCATGTC
71721649 ATATCA
1 ATATCA
71721655 ATATCTCATG
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
9 7 0.14
10 25 0.50
11 18 0.36
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (10 bp):
ATATCATGTC
Found at i:71723303 original size:93 final size:93
Alignment explanation
Indices: 71723173--71723344 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
71723163 CGCCCATAAG
* * * *
71723173 CGAAATCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAATTCA
1 CGAAATCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71723238 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
* *
71723266 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAAATCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
71723331 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
71723345 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAAATCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:71723341 original size:46 final size:46
Alignment explanation
Indices: 71723166--71723341 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
71723156 TGTAACCCGC
* * * *
71723166 CCATAAGCGAAATCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
71723212 CCATAAGTGAACTCGGACTCAATTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
71723262 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
71723305 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
71723342 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.58
47 27 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Done.