Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 146 of 433
Found at i:45229965 original size:28 final size:27
Alignment explanation
Indices: 45229890--45230012 Score: 141
Period size: 24 Copynumber: 4.7 Consensus size: 27
45229880 TATCTAGGAT
* *
45229890 ATGGCATTGTGCTAAGTGAAACAAGACC
1 ATGGCA-TGTGCTAAGTGAAATAAGTCC
*
45229918 GTGGCA--T-CTAAGTGAAATAAGTCC
1 ATGGCATGTGCTAAGTGAAATAAGTCC
45229942 ATGGCAATGTGCTAAGTGAAATAAGTCC
1 ATGGC-ATGTGCTAAGTGAAATAAGTCC
45229970 ATGGCA--T-CTAAGTGAAATAAGTCC
1 ATGGCATGTGCTAAGTGAAATAAGTCC
*
45229994 ATGACATGGTGCTAAGTGA
1 ATGGCAT-GTGCTAAGTGA
45230013 GAAATTTCTC
Statistics
Matches: 82, Mismatches: 5, Indels: 16
0.80 0.05 0.16
Matches are distributed among these distances:
24 41 0.50
25 3 0.04
27 3 0.04
28 35 0.43
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.24
Consensus pattern (27 bp):
ATGGCATGTGCTAAGTGAAATAAGTCC
Found at i:45230091 original size:51 final size:51
Alignment explanation
Indices: 45230036--45230132 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 51
45230026 TGAACCTTAG
* *
45230036 GAATAAAATACCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATACCTTTCG-CTACAAGGGTGGTACTATGTGAAGGCCACTTTGT
* *
45230087 GAATAAAATAGCTTTCGCTACAAGGGTGGTATTATGTGAAGGCCAC
1 GAATAAAATACCTTTCGCTACAAGGGTGGTACTATGTGAAGGCCAC
45230133 CGTGTACCCG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 1 0.02
51 40 0.98
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (51 bp):
GAATAAAATACCTTTCGCTACAAGGGTGGTACTATGTGAAGGCCACTTTGT
Found at i:45233542 original size:40 final size:40
Alignment explanation
Indices: 45233376--45233543 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
45233366 CATTTGAATG
* * *
45233376 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
45233416 ATGTCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * * **
45233456 ATATCCGGGCTAAGACCCGAAGGCAATGGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
45233496 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
45233536 GTATCCGG
1 ATATCCGG
45233544 TTAAATCCCG
Statistics
Matches: 102, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
39 3 0.03
40 95 0.93
41 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:45241637 original size:40 final size:40
Alignment explanation
Indices: 45241471--45241638 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
45241461 CATTTGAATG
* * *
45241471 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
45241511 ATGTCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * * **
45241551 ATATCCGGGCTAAGACCCGAAGGCAATGGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
45241591 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
45241631 GTATCCGG
1 ATATCCGG
45241639 TTAAATCCCG
Statistics
Matches: 102, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
39 3 0.03
40 95 0.93
41 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:45249609 original size:40 final size:40
Alignment explanation
Indices: 45249443--45249610 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
45249433 CATTTGAATG
* *
45249443 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATT
* *
45249483 ATGTCCGGGCTAAGACCCGAAGGC-ATTCATGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-ATGCTAG-TGATT
** * * **
45249523 ATATCCGGGCTAAGACCCGAAGGCAATGGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATT
* * * * *
45249563 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATT
*
45249603 GTATCCGG
1 ATATCCGG
45249611 TTAAATCCCG
Statistics
Matches: 102, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
39 3 0.03
40 95 0.93
41 4 0.04
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATT
Found at i:45251291 original size:28 final size:29
Alignment explanation
Indices: 45251259--45251325 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 29
45251249 GTGTGTCTTA
45251259 GTCGTGTGTG-ACACAGCCAGGTGAAACG
1 GTCGTGTGTGAACACAGCCAGGTGAAACG
45251287 GTCGTGTGTGACACACAGCCAGGTGAAACG
1 GTCGTGTGTGA-ACACAGCCAGGTGAAACG
*
45251317 GCCGTGTGT
1 GTCGTGTGT
45251326 TCCCTGGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 10 0.28
30 26 0.72
ACGTcount: A:0.22, C:0.22, G:0.36, T:0.19
Consensus pattern (29 bp):
GTCGTGTGTGAACACAGCCAGGTGAAACG
Found at i:45252728 original size:18 final size:18
Alignment explanation
Indices: 45252705--45252742 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
45252695 TTGTTGTTTT
45252705 AGCCGATAGAGCTT-GCAA
1 AGCCGA-AGAGCTTAGCAA
*
45252723 AGCCGAGGAGCTTAGCAA
1 AGCCGAAGAGCTTAGCAA
45252741 AG
1 AG
45252743 AAAAGAGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.34, C:0.21, G:0.32, T:0.13
Consensus pattern (18 bp):
AGCCGAAGAGCTTAGCAA
Found at i:45254482 original size:40 final size:40
Alignment explanation
Indices: 45254436--45254575 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
45254426 CGGATATAAC
*
45254436 GACTCGCTCAAATGCCTTCGGGAC-GAAGCCC-GGTTATAGT
1 GACTCGCACAAATGCCTTCGGGACTGAA-CCCGGGTT-TAGT
* *
45254476 GACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGT
1 GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
* * * * * *
45254516 AACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATT
1 GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
* *
45254555 AACTCGCACGAATGCCTTCGG
1 GACTCGCACAAATGCCTTCGG
45254576 ATCCTAGTCT
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.38
40 48 0.55
41 6 0.07
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
Found at i:45254612 original size:79 final size:80
Alignment explanation
Indices: 45254444--45254628 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
45254434 ACGACTCGCT
** * * * *
45254444 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCACGGATT-TATTAACTCGCACGAATGCCTTCGGGACCTAACCCG
* *
45254508 GGTTTAGTAACTTGCA
65 GATATAGTAACTTGCA
* ** *
45254524 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTC-GGATCCTAGTCTG
1 CAAATGCCTTCGGGACTTAGCACGGATTTATTAACTCGCACGAATGCCTTCGGGA-CCTAACCCG
*
45254587 GATATAGTCACTTAGCA
65 GATATAGTAACTT-GCA
45254604 CAAA-GCCTTCGGGACTTAGCACGGA
1 CAAATGCCTTCGGGACTTAGCACGGA
45254629 CATCATTCGA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.60
80 33 0.37
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCACGGATTTATTAACTCGCACGAATGCCTTCGGGACCTAACCCGG
ATATAGTAACTTGCA
Found at i:45264148 original size:40 final size:40
Alignment explanation
Indices: 45264084--45264274 Score: 199
Period size: 39 Copynumber: 4.8 Consensus size: 40
45264074 GCTACTCATT
* * * ***
45264084 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
45264124 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
45264164 CAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * ** *
45264203 CCATTGCCTTCGGG-CTTAGCCCAAATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
*
45264242 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
45264275 TTCGCACATT
Statistics
Matches: 131, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 86 0.66
40 45 0.34
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:45264201 original size:39 final size:39
Alignment explanation
Indices: 45264120--45264282 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
45264110 TATGGTAACC
* *
45264120 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
45264160 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* **
45264199 CGCACCATTGCCTTCGGGCTTAGCCCAAATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
45264238 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
45264277 CGCACA
1 CGCACA
45264283 TTCATACACA
Statistics
Matches: 110, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 93 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:45266096 original size:41 final size:41
Alignment explanation
Indices: 45265990--45266130 Score: 196
Period size: 41 Copynumber: 3.5 Consensus size: 41
45265980 GGCTGTCACA
* * * *
45265990 TTCGAGACCAAGCTCGGATTATGACATTGGCCCGAAGGCCC
1 TTCGAGACCAAGCTCGGATTATGACACTGGCTCAAAAGCCC
* * * *
45266031 TTCGA-AACTAGGTCGG-TTATGACACTGGCTTAAAAGCCC
1 TTCGAGACCAAGCTCGGATTATGACACTGGCTCAAAAGCCC
45266070 TTCGAGACCAAGCTCGGATTATGACACTGGCTCAAAAGCCC
1 TTCGAGACCAAGCTCGGATTATGACACTGGCTCAAAAGCCC
45266111 TTCGAGACCAAGCTCGGATT
1 TTCGAGACCAAGCTCGGATT
45266131 TAAACCCCGA
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 23 0.27
40 16 0.19
41 47 0.55
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (41 bp):
TTCGAGACCAAGCTCGGATTATGACACTGGCTCAAAAGCCC
Found at i:45274140 original size:41 final size:41
Alignment explanation
Indices: 45274087--45274195 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 41
45274077 CACTGACTCA
*
45274087 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCCG
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGG-CCG
* * * * * *
45274129 -AAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTG
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCG
*
45274168 AAAAGCCCTTCGAGACCAAGCTGGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
45274196 TAAACCCCGA
Statistics
Matches: 52, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
39 2 0.04
40 29 0.56
41 21 0.40
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCG
Found at i:45277117 original size:48 final size:48
Alignment explanation
Indices: 45277046--45277372 Score: 349
Period size: 48 Copynumber: 6.8 Consensus size: 48
45277036 GACATTTGGG
* *
45277046 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * *
45277094 TGATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCGA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
**
45277142 TG-TAGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGTGTCGG-CA
1 TGATA-TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * * * *
45277189 TTGATATGTGCGCTAATGTAAGACTATGTCTAGGACATGGCATCGACCA
1 -TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * *
45277238 -CATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATAGCATC-TCCA
1 TGA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * *
45277285 TAGAGATGAGAGCTAGTGTAAGACCATGTCTGGGACACGGCATCGGCC-
1 T-GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * *
45277333 TCAACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGG
1 T-GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGG
45277373 AATTGGCAAT
Statistics
Matches: 229, Mismatches: 42, Indels: 16
0.80 0.15 0.06
Matches are distributed among these distances:
47 7 0.03
48 215 0.94
49 7 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
Found at i:45277306 original size:144 final size:144
Alignment explanation
Indices: 45277046--45277321 Score: 387
Period size: 144 Copynumber: 1.9 Consensus size: 144
45277036 GACATTTGGG
* * * * *
45277046 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCCAGTG
1 TGATATGTGCGCCAATGTAAGACCATGTCTAGGACATGGCATCGACCATCATATGAGAGCCAGTG
* * *
45277111 TAAGACCATGTTTGGAACATGGCATCGGCGATGTAGTGAGAGCCAGTGTAAGACCATGTCTGGGA
66 TAAGACCATGTCTGGAACATAGCATCGGCCATGTAGTGAGAGCCAGTGTAAGACCATGTCTGGGA
45277176 CATGGTGTCGGCAT
131 CATGGTGTCGGCAT
* *
45277190 TGATATGTGCGCTAATGTAAGACTATGTCTAGGACATGGCATCGACCA-CATTATGAGAGCCAGT
1 TGATATGTGCGCCAATGTAAGACCATGTCTAGGACATGGCATCGACCATCA-TATGAGAGCCAGT
* * *
45277254 GTAAGACCATGTCTGGGACATAGCATC-TCCATAG-AGATGAGAGCTAGTGTAAGACCATGTCTG
65 GTAAGACCATGTCTGGAACATAGCATCGGCCAT-GTAG-TGAGAGCCAGTGTAAGACCATGTCTG
45277317 GGACA
128 GGACA
45277322 CGGCATCGGC
Statistics
Matches: 116, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
143 6 0.05
144 110 0.95
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (144 bp):
TGATATGTGCGCCAATGTAAGACCATGTCTAGGACATGGCATCGACCATCATATGAGAGCCAGTG
TAAGACCATGTCTGGAACATAGCATCGGCCATGTAGTGAGAGCCAGTGTAAGACCATGTCTGGGA
CATGGTGTCGGCAT
Found at i:45277331 original size:144 final size:144
Alignment explanation
Indices: 45277046--45277361 Score: 386
Period size: 144 Copynumber: 2.2 Consensus size: 144
45277036 GACATTTGGG
* * * * *
45277046 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCCAGTG
1 TGATATGTGCGCCAATGTAAGACCATGTCTAGGACATGGCATCGACCATCATATGAGAGCCAGTG
* * *
45277111 TAAGACCATGTTTGGAACATGGCATCGGCGATGTAGTGAGAGCCAGTGTAAGACCATGTCTGGGA
66 TAAGACCATGTCTGGAACATAGCATCGGCCATGTAGTGAGAGCCAGTGTAAGACCATGTCTGGGA
* **
45277176 CATGGTGTCGGCAT
131 CACGGCATCGGCAT
* *
45277190 TGATATGTGCGCTAATGTAAGACTATGTCTAGGACATGGCATCGACCA-CATTATGAGAGCCAGT
1 TGATATGTGCGCCAATGTAAGACCATGTCTAGGACATGGCATCGACCATCA-TATGAGAGCCAGT
* * *
45277254 GTAAGACCATGTCTGGGACATAGCATC-TCCATAG-AGATGAGAGCTAGTGTAAGACCATGTCTG
65 GTAAGACCATGTCTGGAACATAGCATCGGCCAT-GTAG-TGAGAGCCAGTGTAAGACCATGTCTG
*
45277317 GGACACGGCATCGGCCT
128 GGACACGGCATCGGCAT
** * * *
45277334 CAACATGTGAGCCAGTGTAAGACCATGT
1 TGATATGTGCGCCAATGTAAGACCATGT
45277362 TTGGAACATG
Statistics
Matches: 145, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
143 6 0.04
144 139 0.96
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (144 bp):
TGATATGTGCGCCAATGTAAGACCATGTCTAGGACATGGCATCGACCATCATATGAGAGCCAGTG
TAAGACCATGTCTGGAACATAGCATCGGCCATGTAGTGAGAGCCAGTGTAAGACCATGTCTGGGA
CACGGCATCGGCAT
Found at i:45284609 original size:20 final size:18
Alignment explanation
Indices: 45284584--45284620 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
45284574 ACCTAACACG
45284584 AATTAAATTTAAATCATATT
1 AATTAAA-TTAAA-CATATT
45284604 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
45284621 CAACATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:45285372 original size:17 final size:17
Alignment explanation
Indices: 45285350--45285385 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
45285340 CCATCTTCGA
45285350 CTAAAAAATTAATTTTC
1 CTAAAAAATTAATTTTC
45285367 CTAAAAAATTAATTTTC
1 CTAAAAAATTAATTTTC
45285384 CT
1 CT
45285386 TAATACGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (17 bp):
CTAAAAAATTAATTTTC
Found at i:45292225 original size:21 final size:21
Alignment explanation
Indices: 45292199--45292240 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
45292189 GTGGACTTGG
*
45292199 TTATTTTGTGATATGTGTCAT
1 TTATTTTGTGATATATGTCAT
45292220 TTATTTTGTGATATATGTCAT
1 TTATTTTGTGATATATGTCAT
45292241 GCAAATTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.17, T:0.57
Consensus pattern (21 bp):
TTATTTTGTGATATATGTCAT
Found at i:45300861 original size:55 final size:53
Alignment explanation
Indices: 45300735--45300931 Score: 160
Period size: 55 Copynumber: 3.7 Consensus size: 53
45300725 AGGGTTTAAG
* * * * * * ** * *
45300735 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCAATGATAA-CTACATAAGGCAAA
* * *
45300789 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAA
1 GATACCATGTAAGACCATGTCAAGACATGGCAATGAT-AACTAC-ATAAGGCAAA
* * * * * * * *
45300844 GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGCAAA
* *
45300897 GATACCACGTAAGACCATATCAAGACATGGCAATG
1 GATACCATGTAAGACCATGTCAAGACATGGCAATG
45300932 GTAAGTATAA
Statistics
Matches: 114, Mismatches: 27, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
53 39 0.34
54 35 0.31
55 40 0.35
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (53 bp):
GATACCATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGCAAA
Found at i:45303164 original size:19 final size:19
Alignment explanation
Indices: 45303142--45303186 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
45303132 CAGAGGAGTT
45303142 GCTGAAAGGAAAGGGTAAA
1 GCTGAAAGGAAAGGGTAAA
45303161 GCTGAAAGGAAAGGGTAAA
1 GCTGAAAGGAAAGGGTAAA
45303180 GCTGAAA
1 GCTGAAA
45303187 TTGAGATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.47, C:0.07, G:0.36, T:0.11
Consensus pattern (19 bp):
GCTGAAAGGAAAGGGTAAA
Found at i:45309377 original size:39 final size:38
Alignment explanation
Indices: 45309270--45309430 Score: 216
Period size: 39 Copynumber: 4.1 Consensus size: 38
45309260 ATGGTAACCC
* * *
45309270 GCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTC
1 GCACAATTGCCTTCGGG-CTTAGCCCGGATATCAC-ACTT
*
45309310 GCACAATTGCCTT-GGGCTTAGCCCGGATATCATAGCTT
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACA-CTT
*
45309348 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACACTT
*
45309386 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 -GCACAATTGCCTTCGGGCTTAGCCCGGATATCACACTT
45309425 CGCACA
1 -GCACA
45309431 TTCATTCACA
Statistics
Matches: 112, Mismatches: 6, Indels: 7
0.90 0.05 0.06
Matches are distributed among these distances:
37 1 0.01
38 32 0.29
39 67 0.60
40 12 0.11
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.24
Consensus pattern (38 bp):
GCACAATTGCCTTCGGGCTTAGCCCGGATATCACACTT
Found at i:45309394 original size:77 final size:79
Alignment explanation
Indices: 45309270--45309419 Score: 259
Period size: 78 Copynumber: 1.9 Consensus size: 79
45309260 ATGGTAACCC
45309270 GCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTT-GGGCTTAGCCC
1 GCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
45309334 GGATATCATAGCTT
66 GGATATCATAGCTT
* * *
45309348 GCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTGCCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
45309412 GGATATCA
66 GGATATCA
45309420 CAATTCGCAC
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
77 33 0.49
78 35 0.51
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
GGATATCATAGCTT
Found at i:45311608 original size:53 final size:53
Alignment explanation
Indices: 45311426--45311632 Score: 189
Period size: 53 Copynumber: 3.8 Consensus size: 53
45311416 ATTAGGGTTT
* * * * * * * *
45311426 AAGGATATCAAGTAAGACCATACCAAGGCATGACATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * *
45311480 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
45311535 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
** *
45311588 AAGGATACCACATAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
45311633 TAAAAAGGAA
Statistics
Matches: 122, Mismatches: 29, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 45 0.37
54 37 0.30
55 40 0.33
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:45318518 original size:40 final size:40
Alignment explanation
Indices: 45318474--45318657 Score: 205
Period size: 39 Copynumber: 4.7 Consensus size: 40
45318464 GTTCAAAACA
* * ***
45318474 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
45318514 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * * *
45318554 CCTTCGGG-CTTAGCCCGGATATCATAGCTCGCAC-ATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
45318592 CCTTCGGG-CTTAGCCCGGATATCACAACTCACACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
45318631 CCTTCGGG-CTTAGCCCGGATATCACAA
1 CCTTCGGGACTTAGCCCGGATATCACAA
45318658 TTCGCACATT
Statistics
Matches: 129, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 35 0.27
39 54 0.42
40 40 0.31
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
Found at i:45318601 original size:38 final size:39
Alignment explanation
Indices: 45318504--45318665 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
45318494 TATGGTAACC
* *
45318504 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
45318544 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
45318583 CGCAC-ATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
45318621 CACACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
45318660 CGCACA
1 CGCACA
45318666 TTCATACACA
Statistics
Matches: 112, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
38 35 0.31
39 60 0.54
40 17 0.15
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:45318663 original size:77 final size:78
Alignment explanation
Indices: 45318512--45318667 Score: 260
Period size: 77 Copynumber: 2.0 Consensus size: 78
45318502 CCCGCACAAA
*
45318512 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCACACAATTGCCTTCGGGCTTAGCCCGGATATC
* *
45318577 ATAGCTCGCACAT
66 ACAACTCGCACAT
*
45318590 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCACACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCACACAATTGCCTTCGGGCTTAGCCCGGATATC
*
45318654 ACAATTCGCACAT
66 ACAACTCGCACAT
45318667 T
1 T
45318668 CATACACATC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
77 63 0.86
78 10 0.14
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (78 bp):
TGCCTTCGGGACTTAACCCGGATATCACAACTCACACAATTGCCTTCGGGCTTAGCCCGGATATC
ACAACTCGCACAT
Found at i:45334554 original size:79 final size:81
Alignment explanation
Indices: 45334386--45334570 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
45334376 GCTACTCGTT
* * *
45334386 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGAGTTAACCCA
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
* *
45334450 GATTTAGTAACCCGCAC
65 GATATAGTAACCAGCAC
* ** *
45334467 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCA
* *
45334529 GATATAGTCACTTAGCA-
65 GATATAGTAAC-CAGCAC
45334546 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
45334571 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 56 0.64
80 26 0.30
81 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATATAGTAACCAGCAC
Found at i:45334570 original size:40 final size:40
Alignment explanation
Indices: 45334386--45334570 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
45334376 GCTACTCGTT
*
45334386 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCA
* * * * *
45334426 CAAATGCCTTCGGGAGTTAACCCAGATTTAGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
45334466 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * *
45334505 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
45334546 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45334571 CATCATTCGA
Statistics
Matches: 122, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 29 0.24
40 77 0.63
41 14 0.11
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:45341615 original size:38 final size:39
Alignment explanation
Indices: 45341544--45341722 Score: 174
Period size: 38 Copynumber: 4.6 Consensus size: 39
45341534 GCTACTCGTT
*
45341544 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
*
45341584 CAAATGCCTT-GGACTTAACCCGGATTTAGTAAC-CGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
45341621 CCAATGCCTTCGGGCTTAGCCCAGAATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
45341660 CAAATGCCTTCGGATCTTAG---TGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
45341698 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
45341723 CATCATTCGA
Statistics
Matches: 115, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
37 32 0.28
38 48 0.42
39 18 0.16
40 17 0.15
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:45343555 original size:5 final size:5
Alignment explanation
Indices: 45343545--45343589 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
45343535 CCCTATATCC
** * *
45343545 CTTTT CTTTT CTTTT CTTTT CTTTT CGATT CTTTA ATTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
45343590 TCATTTTCAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (5 bp):
CTTTT
Found at i:45351373 original size:24 final size:24
Alignment explanation
Indices: 45351335--45351381 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
45351325 AAATTTCCAT
*
45351335 GACACAAGGTCACATGCC-TGTGTG
1 GACACAAGGACACAT-CCGTGTGTG
*
45351359 GACACAAGGAGACATCCGTGTGT
1 GACACAAGGACACATCCGTGTGT
45351382 CTTCGACACG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.28, C:0.23, G:0.30, T:0.19
Consensus pattern (24 bp):
GACACAAGGACACATCCGTGTGTG
Found at i:45352293 original size:15 final size:15
Alignment explanation
Indices: 45352275--45352305 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45352265 TCTGACAGTT
45352275 TTGACCCCTCTTCAC
1 TTGACCCCTCTTCAC
45352290 TTGACCCCTCTTCAC
1 TTGACCCCTCTTCAC
45352305 T
1 T
45352306 AAAAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.45, G:0.06, T:0.35
Consensus pattern (15 bp):
TTGACCCCTCTTCAC
Found at i:45353549 original size:50 final size:49
Alignment explanation
Indices: 45353487--45353761 Score: 212
Period size: 50 Copynumber: 5.7 Consensus size: 49
45353477 ATATATCGAG
*
45353487 GCTGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATCTGTCAGT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCT-TCAGT
* * * *
45353537 GCTGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-ATCA-A
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTCAGT
* * * * *
45353582 GCCGATGACATGTCCCAGACATGGTCTTACAGTAGCTTTCATATCTCAAG-
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCT-TC-AGT
* * * * * *
45353632 CCCGATGCCATGTCCTAAACATGGTCTTACACTAGCTCTCGTC-TCAAT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTCAGT
* ** * * **
45353680 G-TCGATGCCATGCCCCAGACATGGTCTTGTATTGGCTCTCATAAT-A-T
1 GCT-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTCAGT
*
45353727 GGTCGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 GCT-GATGCCATGTCCCAGACATGGTCTTACACTAGC
45353762 ACACATGTCA
Statistics
Matches: 178, Mismatches: 37, Indels: 24
0.74 0.15 0.10
Matches are distributed among these distances:
45 30 0.17
46 13 0.07
47 19 0.11
48 44 0.25
49 4 0.02
50 68 0.38
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (49 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTCAGT
Found at i:45353658 original size:95 final size:95
Alignment explanation
Indices: 45353490--45353664 Score: 244
Period size: 95 Copynumber: 1.8 Consensus size: 95
45353480 TATCGAGGCT
* * * * * * *
45353490 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATCTGTCAGTGCTGATGCCATGTCCCAG
1 GATGACATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAGTCCCGATGCCATGTCCCAA
45353555 ACATGGTCTTACACTGACACATATCAAGCC
66 ACATGGTCTTACACTGACACATATCAAGCC
* * *
45353585 GATGACATGTCCCAGACATGGTCTTACAGTAGCTTTCATATCTCAAG-CCCGATGCCATGTCCTA
1 GATGACATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC-AGTCCCGATGCCATGTCCCA
45353649 AACATGGTCTTACACT
65 AACATGGTCTTACACT
45353665 AGCTCTCGTC
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
95 67 0.97
96 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (95 bp):
GATGACATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAGTCCCGATGCCATGTCCCAA
ACATGGTCTTACACTGACACATATCAAGCC
Found at i:45354333 original size:30 final size:30
Alignment explanation
Indices: 45354276--45354335 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
45354266 CATAATTTAT
*
45354276 ACTTTTACAAAATGACCATTTTGCCCCTAG
1 ACTTTTACAAAATGACCATTTTACCCCTAG
* *
45354306 ACTTTTACAAAAATTACGA-TTTACCCCTAG
1 ACTTTTAC-AAAATGACCATTTTACCCCTAG
45354336 GCTCTTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.33
Consensus pattern (30 bp):
ACTTTTACAAAATGACCATTTTACCCCTAG
Found at i:45358499 original size:49 final size:49
Alignment explanation
Indices: 45358326--45358516 Score: 220
Period size: 50 Copynumber: 3.8 Consensus size: 49
45358316 TGTGAGGTTG
* * * * *
45358326 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCA
* * * **
45358377 CGTGTGTAGTACTAAGTGCAGGCTGCTACGTGTATCAGATGGTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCA
* *
45358427 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCA
* * *
45358476 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
45358517 GCTTTGGCTA
Statistics
Matches: 118, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
49 42 0.36
50 43 0.36
51 33 0.28
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCA
Found at i:45362494 original size:14 final size:15
Alignment explanation
Indices: 45362477--45362524 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
45362467 ATTCAAAAAT
45362477 TTATAAAATTTTAT-
1 TTATAAAATTTTATA
*
45362491 TTATAAAGATTATATA
1 TTATAAA-ATTTTATA
45362507 TTAT-AAATTTTATA
1 TTATAAAATTTTATA
45362521 TTAT
1 TTAT
45362525 TTTTTACTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 18 0.60
15 8 0.27
16 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TTATAAAATTTTATA
Found at i:45362519 original size:16 final size:15
Alignment explanation
Indices: 45362475--45362522 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
45362465 TTATTCAAAA
45362475 ATTTATAAAATTT-T
1 ATTTATAAAATTTAT
45362489 ATTTATAAAGA-TTAT
1 ATTTATAAA-ATTTAT
*
45362504 ATATTATAAATTTTAT
1 AT-TTATAAAATTTAT
45362520 ATT
1 ATT
45362523 ATTTTTTACT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 11 0.38
15 5 0.17
16 13 0.45
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATAAAATTTAT
Found at i:45362608 original size:2 final size:2
Alignment explanation
Indices: 45362601--45362646 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
45362591 TATATGAGTT
45362601 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45362643 TA TA
1 TA TA
45362647 ATTAAAGCTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45363768 original size:18 final size:17
Alignment explanation
Indices: 45363747--45363831 Score: 62
Period size: 18 Copynumber: 4.5 Consensus size: 17
45363737 TTTTTTATTT
45363747 AATTTTTAATTTTTTGAA
1 AATTTTTAATTTTTT-AA
45363765 AATTTTTAATTAATTTTAA
1 AATTTTTAATT--TTTTAA
* *
45363784 CAATTTATATAAATTTTTGA
1 -AATTT-T-TAATTTTTTAA
* *
45363804 ATTTTTATAATAATTTTAA
1 AATTTT-TAAT-TTTTTAA
45363823 AATTTTTAA
1 AATTTTTAA
45363832 AAAAATTTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
18 19 0.35
19 16 0.30
20 14 0.26
21 1 0.02
22 4 0.07
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (17 bp):
AATTTTTAATTTTTTAA
Found at i:45363788 original size:20 final size:19
Alignment explanation
Indices: 45363747--45363831 Score: 77
Period size: 20 Copynumber: 4.5 Consensus size: 19
45363737 TTTTTTATTT
45363747 AATTTTTAATT--TTTTGAA
1 AATTTTTAATTAATTTT-AA
45363765 AATTTTTAATTAATTTTAA
1 AATTTTTAATTAATTTTAA
* * **
45363784 CAATTTAT-ATAAATTTTTG
1 -AATTTTTAATTAATTTTAA
*
45363803 AATTTTTATAATAATTTTAA
1 AATTTTTA-ATTAATTTTAA
45363823 AATTTTTAA
1 AATTTTTAA
45363832 AAAAATTTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
18 17 0.32
19 11 0.21
20 25 0.47
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (19 bp):
AATTTTTAATTAATTTTAA
Found at i:45363831 original size:9 final size:9
Alignment explanation
Indices: 45363747--45363833 Score: 54
Period size: 10 Copynumber: 9.2 Consensus size: 9
45363737 TTTTTTATTT
45363747 AATTTTT-A
1 AATTTTTAA
*
45363755 ATTTTTTGAA
1 AATTTTT-AA
45363765 AATTTTTAA
1 AATTTTTAA
45363774 TTAA-TTTTAA
1 --AATTTTTAA
*
45363784 CAATTTATATA
1 -AATTTTTA-A
*
45363795 AATTTTT-G
1 AATTTTTAA
45363803 AATTTTTATA
1 AATTTTTA-A
*
45363813 ATAATTTTAA
1 A-ATTTTTAA
45363823 AATTTTTAA
1 AATTTTTAA
45363832 AA
1 AA
45363834 AAATTTAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
8 13 0.21
9 13 0.21
10 26 0.43
11 9 0.15
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.55
Consensus pattern (9 bp):
AATTTTTAA
Found at i:45369576 original size:14 final size:14
Alignment explanation
Indices: 45369545--45369586 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
45369535 TATTCTACTA
*
45369545 TTATT-TTATAATT
1 TTATTGTTATTATT
*
45369558 ATATTGTTATTATT
1 TTATTGTTATTATT
45369572 TTATTGTTATTATT
1 TTATTGTTATTATT
45369586 T
1 T
45369587 GAATATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 4 0.16
14 21 0.84
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (14 bp):
TTATTGTTATTATT
Found at i:45369582 original size:33 final size:31
Alignment explanation
Indices: 45369545--45369626 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 31
45369535 TATTCTACTA
*
45369545 TTATTTTATAATTATATTGTTATTATTTTATTG
1 TTATTTTATAATTATAAT-TT-TTATTTTATTG
45369578 TTATTATT-TGAATATATAATTTTTATTTTATTG
1 TTATT-TTAT-AAT-TATAATTTTTATTTTATTG
*
45369611 TTAATTTTATTATTAT
1 TT-ATTTTATAATTAT
45369627 TTTAAAGACA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
32 3 0.07
33 23 0.55
34 11 0.26
35 5 0.12
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (31 bp):
TTATTTTATAATTATAATTTTTATTTTATTG
Found at i:45369620 original size:17 final size:17
Alignment explanation
Indices: 45369598--45369631 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
45369588 AATATATAAT
45369598 TTTTATT-TTATTGTTAA
1 TTTTATTATTATT-TTAA
45369615 TTTTATTATTATTTTAA
1 TTTTATTATTATTTTAA
45369632 AGACATTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTATTATTATTTTAA
Found at i:45382520 original size:5 final size:5
Alignment explanation
Indices: 45382510--45382534 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
45382500 TATTGGGGTT
45382510 GACAG GACAG GACAG GACAG GACAG
1 GACAG GACAG GACAG GACAG GACAG
45382535 AAATGAGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.40, T:0.00
Consensus pattern (5 bp):
GACAG
Found at i:45387846 original size:24 final size:24
Alignment explanation
Indices: 45387819--45387864 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
45387809 CTAATTAAAA
* *
45387819 TTTATAAATAATTAATATTTGTTG
1 TTTAAAAATAATTAAAATTTGTTG
*
45387843 TTTAAAAATATTTAAAATTTGT
1 TTTAAAAATAATTAAAATTTGT
45387865 ATTTCATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (24 bp):
TTTAAAAATAATTAAAATTTGTTG
Found at i:45390142 original size:2 final size:2
Alignment explanation
Indices: 45390131--45390163 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
45390121 TAGCTAAATC
45390131 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45390164 CTAGCTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:45390448 original size:10 final size:10
Alignment explanation
Indices: 45390431--45390499 Score: 61
Period size: 10 Copynumber: 6.6 Consensus size: 10
45390421 TTTATTATTT
45390431 ATATATAGTA
1 ATATATAGTA
*
45390441 ACATATAGTA
1 ATATATAGTA
45390451 TTTATATATAGTA
1 ---ATATATAGTA
45390464 ATATATAGTA
1 ATATATAGTA
*
45390474 TTTATATA-TA
1 -ATATATAGTA
45390484 ATAATATA-TA
1 AT-ATATAGTA
45390494 ATATAT
1 ATATAT
45390500 GCAAGAGAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
9 5 0.10
10 30 0.60
11 6 0.12
13 9 0.18
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.45
Consensus pattern (10 bp):
ATATATAGTA
Found at i:45390452 original size:23 final size:23
Alignment explanation
Indices: 45390426--45390493 Score: 118
Period size: 23 Copynumber: 3.0 Consensus size: 23
45390416 TGTTATTTAT
*
45390426 TATTTATATATAGTAACATATAG
1 TATTTATATATAGTAATATATAG
45390449 TATTTATATATAGTAATATATAG
1 TATTTATATATAGTAATATATAG
*
45390472 TATTTATATATAATAATATATA
1 TATTTATATATAGTAATATATA
45390494 ATATATGCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.47
Consensus pattern (23 bp):
TATTTATATATAGTAATATATAG
Found at i:45390624 original size:14 final size:15
Alignment explanation
Indices: 45390607--45390666 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 15
45390597 TATAGTTAAA
45390607 ATTATA-TATATAAC
1 ATTATATTATATAAC
* *
45390621 ATTATTATTTTATATAT
1 ATTA-TATTATATA-AC
* *
45390638 ATTATAATATATATC
1 ATTATATTATATAAC
45390653 ATATATATTATATA
1 AT-TATATTATATA
45390667 TTACAAGATT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
14 4 0.11
15 4 0.11
16 22 0.63
17 5 0.14
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTATATTATATAAC
Found at i:45393465 original size:40 final size:40
Alignment explanation
Indices: 45393410--45393510 Score: 143
Period size: 40 Copynumber: 2.5 Consensus size: 40
45393400 TTATTTGATG
* *
45393410 TGGAATTGTATCCGGGCTTAAAGA-CCAGTAGGCTTCATGC
1 TGGAATTATATCCGGGCTTAAAGATCC-GCAGGCTTCATGC
45393450 TGGAATTATATCCGGGCTTAAAGATCCGCAGGCTTCATGC
1 TGGAATTATATCCGGGCTTAAAGATCCGCAGGCTTCATGC
* *
45393490 TGGAATGACATCCGGG-TTAAA
1 TGGAATTATATCCGGGCTTAAA
45393511 AACCTACAGG
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
39 5 0.09
40 49 0.88
41 2 0.04
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TGGAATTATATCCGGGCTTAAAGATCCGCAGGCTTCATGC
Found at i:45393521 original size:39 final size:40
Alignment explanation
Indices: 45393419--45393522 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 40
45393409 GTGGAATTGT
* * *
45393419 ATCCGGGCTTAAAG-ACCAGTAGGCTTCATGCTGGAATTAT
1 ATCCGGGCTTAAAGAACCA-CAGGCTTCATGCTGGAATGAC
* *
45393459 ATCCGGGCTTAAAGATCCGCAGGCTTCATGCTGGAATGAC
1 ATCCGGGCTTAAAGAACCACAGGCTTCATGCTGGAATGAC
45393499 ATCCGGG-TTAAA-AACCTACAGGCT
1 ATCCGGGCTTAAAGAACC-ACAGGCT
45393523 GTGCAGATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
38 3 0.05
39 11 0.20
40 39 0.71
41 2 0.04
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTTAAAGAACCACAGGCTTCATGCTGGAATGAC
Found at i:45395850 original size:40 final size:40
Alignment explanation
Indices: 45395765--45395917 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
45395755 GGATATAACG
* * * * ***
45395765 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
45395805 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
45395845 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
45395885 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
45395918 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:45412003 original size:40 final size:40
Alignment explanation
Indices: 45411948--45412100 Score: 213
Period size: 40 Copynumber: 3.9 Consensus size: 40
45411938 TTATTTGATG
45411948 TGGAATTGTATCCGGGCTTAAAGACTCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACTCGCAGGCTTCGTGC
*
45411988 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACTCGCAGGCTTCGTGC
*
45412028 TGGAATTGTATCCGGGCTTAAAGA-TCCGCAGGCTTCATGC
1 TGGAATTGTATCCGGGCTTAAAGACT-CGCAGGCTTCGTGC
* * * *
45412068 TAGAA-TGACATCCGGG-TTAAAAACTTGCAGGCT
1 TGGAATTG-TATCCGGGCTTAAAGACTCGCAGGCT
45412101 GTGCTAGATA
Statistics
Matches: 103, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
39 15 0.15
40 88 0.85
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACTCGCAGGCTTCGTGC
Found at i:45412461 original size:2 final size:2
Alignment explanation
Indices: 45412454--45412484 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
45412444 TGTATTCATG
45412454 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45412485 TCGGCCAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45417050 original size:43 final size:42
Alignment explanation
Indices: 45417002--45417151 Score: 160
Period size: 43 Copynumber: 3.5 Consensus size: 42
45416992 ATTACCAAGA
* *
45417002 TGTGATTACATGTAAGACCATGTCTACGGCATTGGTATTGTAT
1 TGTGATTACATGTAAGACCATGTCTA-GGCATTGGCATCGTAT
* *
45417045 TGTGATTACGTGTAAGACCATGTCTGAGACATTGGCATCGT-T
1 TGTGATTACATGTAAGACCATGTCT-AGGCATTGGCATCGTAT
* * * *
45417087 ATATGATTTCATGTAAGACCATGTCTGGGACTTTGGCATCGATAT
1 -TGTGATTACATGTAAGACCATGTCTAGG-CATTGGCATCG-TAT
*
45417132 T-TGATAACATGTAAGACCAT
1 TGTGATTACATGTAAGACCAT
45417152 ATTTGAGATA
Statistics
Matches: 90, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
42 2 0.02
43 84 0.93
44 3 0.03
45 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (42 bp):
TGTGATTACATGTAAGACCATGTCTAGGCATTGGCATCGTAT
Found at i:45417159 original size:86 final size:85
Alignment explanation
Indices: 45417004--45417167 Score: 197
Period size: 86 Copynumber: 1.9 Consensus size: 85
45416994 TACCAAGATG
* * * * *
45417004 TGATTACATGTAAGACCATGTCTACGGCATTGGTATTGTATTGTGATTACGTGTAAGACCATGTC
1 TGATTACATGTAAGACCATGTCTACGGCATTGGCATCGTATTGTGATAACATGTAAGACCATATC
45417069 TGAGACATTGGCATCGTTATA
66 TGAGACA-TGGCATCGTTATA
* * *
45417090 TGATTTCATGTAAGACCATGTCT-GGGACTTTGGCATCGATATT-TGATAACATGTAAGACCATA
1 TGATTACATGTAAGACCATGTCTACGG-CATTGGCATCG-TATTGTGATAACATGTAAGACCATA
* *
45417153 TTTGAGATATGGCAT
64 TCTGAGACATGGCAT
45417168 TGTACGAGCT
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
85 8 0.12
86 54 0.82
87 4 0.06
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.35
Consensus pattern (85 bp):
TGATTACATGTAAGACCATGTCTACGGCATTGGCATCGTATTGTGATAACATGTAAGACCATATC
TGAGACATGGCATCGTTATA
Found at i:45421009 original size:26 final size:24
Alignment explanation
Indices: 45420934--45421010 Score: 59
Period size: 26 Copynumber: 3.1 Consensus size: 24
45420924 AGTTTAAAGT
**
45420934 TATTTATATATAATAATATATATTTT
1 TATTTATATAT-AT-ATATATATTAC
* *
45420960 TATTTAT-TATTTCTATAT-TATAC
1 TATTTATATATATATATATAT-TAC
45420983 TATTTATCATATATATTATATATTAC
1 TATTTAT-ATATATA-TATATATTAC
45421009 TA
1 TA
45421011 GGTTCTAGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
22 1 0.03
23 13 0.32
24 1 0.03
25 7 0.17
26 17 0.43
27 1 0.03
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (24 bp):
TATTTATATATATATATATATTAC
Found at i:45427904 original size:22 final size:22
Alignment explanation
Indices: 45427873--45427919 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
45427863 ATAACGAGCT
*
45427873 CATTAAGTATGAGTTTTATGTA
1 CATTAAGTATGAGTTTTACGTA
*
45427895 CATTACGTATGAGTTTTACGTA
1 CATTAAGTATGAGTTTTACGTA
45427917 CAT
1 CAT
45427920 ACCTGCATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.43
Consensus pattern (22 bp):
CATTAAGTATGAGTTTTACGTA
Found at i:45428167 original size:42 final size:43
Alignment explanation
Indices: 45428060--45428171 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
45428050 TACCAATGAT
* * * *
45428060 ATATCCCAGATATGCTCTTACATGTAATCTCGTATCGATGCCA
1 ATATCCCAGATATGGTCTTACACGTAACCTCATATCGATGCCA
* * *
45428103 ATAGCCCAGCTATGGTCTTACACG-AAGCCTCATATTGATGCC-
1 ATATCCCAGATATGGTCTTACACGTAA-CCTCATATCGATGCCA
*
45428145 ATATCCCAAATATGGTCTTACACGTAA
1 ATATCCCAGATATGGTCTTACACGTAA
45428172 TCTTAGTAAC
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 23 0.40
43 34 0.60
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (43 bp):
ATATCCCAGATATGGTCTTACACGTAACCTCATATCGATGCCA
Found at i:45429697 original size:40 final size:40
Alignment explanation
Indices: 45429645--45429867 Score: 304
Period size: 40 Copynumber: 5.6 Consensus size: 40
45429635 CTACTCGTTC
* *
45429645 AATGCCTTCGGGACATAGCCCGGATATAATAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACA
* * *
45429685 AATGCCTTCGGGACTTAGCCTGGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACA
*
45429725 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACA
* * *
45429765 AATGCCTTCGGGACTTAGCCCGAATGTAATAACTCGCAAA
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACA
* * * * *
45429805 AATGCCTTCGGGACTTAGCCCAGA-ACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAATAACTCGCACA
45429845 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
45429868 TTATCATCCG
Statistics
Matches: 162, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 162 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACA
Found at i:45429744 original size:80 final size:78
Alignment explanation
Indices: 45429611--45429864 Score: 296
Period size: 80 Copynumber: 3.2 Consensus size: 78
45429601 AAGCCAAGTA
* * ** *
45429611 CCTTCGGGATTTAACCGGATATAGCTACTCGTTC-AATGCCTTCGGGACATAGCCCGGATATAAT
1 CCTTCGGGACTTAGCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAAT
*
45429675 AACTCGCACCAATG
65 AACTCGCACAAATG
*
45429689 CCTTCGGGACTTAGCCTGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
1 CCTTCGGGACTTAGCC-GGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
45429754 TAACTCGCACAAATG
64 TAACTCGCACAAATG
* * * * *
45429769 CCTTCGGGACTTAGCCCGAATGTAATAACTCGCAAAAATGCCTTCGGGACTTAGCCCAGA-ACTA
1 CCTTCGGGACTTAG-CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TA
* * * *
45429833 GTCACTAGCGCAAATG
63 ATAACTCGCACAAATG
45429849 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
45429865 CGGTTATCAT
Statistics
Matches: 153, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
78 16 0.10
79 15 0.10
80 119 0.78
81 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA
ACTCGCACAAATG
Found at i:45433172 original size:40 final size:39
Alignment explanation
Indices: 45433127--45433253 Score: 148
Period size: 40 Copynumber: 3.2 Consensus size: 39
45433117 CGGAATATAA
45433127 CCGGATATAATCACGTGCGCAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TGCGCAAATGCCTTCGGGTCTTAGC
* *
45433167 CCGGATAGAATAACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTGCGCA--AATGCCTTCGGGTCTTAGC
** * * *
45433207 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACT-GCGCAAATGCCTTCGGGTCTTAGC
45433247 CCGGATA
1 CCGGATA
45433254 AATTTCCAGC
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
38 4 0.05
39 1 0.01
40 66 0.89
42 3 0.04
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAATCACTGCGCAAATGCCTTCGGGTCTTAGC
Found at i:45434536 original size:54 final size:53
Alignment explanation
Indices: 45434477--45434583 Score: 128
Period size: 55 Copynumber: 2.0 Consensus size: 53
45434467 TCCCCTTTTC
*
45434477 CCTTAGTA-TTTCGGCCAAGAAGAT-GAGAAAGATGAACAAATTTTTCTTTTCTTT
1 CCTTAGTACATTCGGCCAAG-AGATGGAGAAAGATGAAC--ATTTTTCTTTTCTTT
** * *
45434531 CCTTAGTACATTCGGCCAAGCTATGGAGAAGGATGAACATTTTTTTTTTCTTT
1 CCTTAGTACATTCGGCCAAGAGATGGAGAAAGATGAACATTTTTCTTTTCTTT
45434584 TTTTTTTCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
53 14 0.30
54 10 0.22
55 22 0.48
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (53 bp):
CCTTAGTACATTCGGCCAAGAGATGGAGAAAGATGAACATTTTTCTTTTCTTT
Found at i:45441149 original size:40 final size:39
Alignment explanation
Indices: 45441104--45441269 Score: 172
Period size: 40 Copynumber: 4.2 Consensus size: 39
45441094 CGGAATATAA
45441104 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGG-CTTAGC
* * * *
45441144 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
** * *
45441183 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-CTTAGC
** * * * *
45441223 CCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
45441262 CCGGATAT
1 CCGGATAT
45441270 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
Found at i:45441226 original size:79 final size:79
Alignment explanation
Indices: 45441120--45441269 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
45441110 ATAATCACGT
*
45441120 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAAC-CAGCA-GAATTGCCTTCGGGCTTAGC
45441183 CCGGATATAGCCACTA
64 CCGGATATAGCCACTA
* * ** * *
45441199 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
45441264 GGATAT
66 GGATAT
45441270 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.05
79 59 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:45442523 original size:54 final size:54
Alignment explanation
Indices: 45442463--45442570 Score: 130
Period size: 55 Copynumber: 2.0 Consensus size: 54
45442453 CCCCCTTTTC
*
45442463 CCTTAGTA-TTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTTCTTT
1 CCTTAGTACATTCGGCCAAGAAGATGGAG-AAGGATGAAC-AATTTTTCTTTCTTT
*** * *
45442517 CCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTTCTTT
1 CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACAATTTTTCTTTCTTT
45442571 TTTTTTTCTA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
54 21 0.46
55 22 0.48
56 3 0.07
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (54 bp):
CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACAATTTTTCTTTCTTT
Found at i:45458657 original size:39 final size:39
Alignment explanation
Indices: 45458613--45458776 Score: 145
Period size: 39 Copynumber: 4.2 Consensus size: 39
45458603 CGGAATATAA
45458613 CCGGATATATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
45458652 CCGGATAGAAT-AATCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATA-TATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
45458691 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-TCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * * *
45458731 CCGGATAAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATATCACTAGCACAAATGCCTTCGGGTCTTAGC
45458769 CCGGATAT
1 CCGGATAT
45458777 CATTCAATTT
Statistics
Matches: 100, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
38 14 0.14
39 54 0.54
40 32 0.32
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:45458760 original size:79 final size:78
Alignment explanation
Indices: 45458628--45458776 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 78
45458618 TATATCACGT
*
45458628 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAATCGCACGAATGCCTTCGGGCCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAATCGCACGAATGCCTTCGGG-CTTAGCCC
45458693 GGATATAGCCACTA
65 GGATATAGCCACTA
* * * *
45458707 GCACAATTGCCTTCGGGTCTTAACCCGGATA-AAT-TTC-CAGCATAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAATCGCA-C-GAA-TGCCTTCGGGCTTAGC
45458769 CCGGATAT
63 CCGGATAT
45458777 CATTCAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
76 2 0.03
77 3 0.05
78 19 0.31
79 38 0.61
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAATCGCACGAATGCCTTCGGGCTTAGCCCG
GATATAGCCACTA
Found at i:45460016 original size:54 final size:53
Alignment explanation
Indices: 45459954--45460063 Score: 134
Period size: 55 Copynumber: 2.1 Consensus size: 53
45459944 AATCCTCCCT
*
45459954 TTTCCTTAGTA-TTTCGGCCAAGAAGAT-GAGAAAGATGAACAAATTTTTCTTTTC
1 TTTCCTTAGTACATTCGGCCAAG-AGATGGAGAAAGATGAAC--ATTTTTCTTTTC
** * *
45460008 TTTCCTTAGTACATTCGGCCAAGCTATGGAGAAGGATGAACATTTTTTTTTTC
1 TTTCCTTAGTACATTCGGCCAAGAGATGGAGAAAGATGAACATTTTTCTTTTC
45460061 TTT
1 TTT
45460064 TTTTTTCATA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
53 14 0.29
54 13 0.27
55 22 0.45
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.40
Consensus pattern (53 bp):
TTTCCTTAGTACATTCGGCCAAGAGATGGAGAAAGATGAACATTTTTCTTTTC
Found at i:45466632 original size:40 final size:39
Alignment explanation
Indices: 45466587--45466713 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
45466577 CGGAATATAA
45466587 CCGGATATAGTCACGTGCGCAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGTCAC-TGCGCAAATGCCTTCGGGTCTTAGC
* * * *
45466627 CCGGATAGAATAACT-CGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAGTCACTGCGCA--AATGCCTTCGGGTCTTAGC
* * * *
45466667 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAGTCACT-GCGCAAATGCCTTCGGGTCTTAGC
45466707 CCGGATA
1 CCGGATA
45466714 AAATTTCCAG
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
38 4 0.06
39 1 0.01
40 63 0.89
42 3 0.04
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (39 bp):
CCGGATATAGTCACTGCGCAAATGCCTTCGGGTCTTAGC
Found at i:45466737 original size:80 final size:79
Alignment explanation
Indices: 45466587--45466753 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 79
45466577 CGGAATATAA
* * * *
45466587 CCGGATATAGTCACGTGCGCAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAGCCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATAACTCGCACGAATG
45466652 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* ** *
45466667 CCGGATATAGCCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTC-CAGCA-TAA
1 CCGGATATAGCCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATAACTC-GCACGAA
*
45466729 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
45466746 CCGGATAT
1 CCGGATAT
45466754 CATTCAATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 18 0.24
80 57 0.76
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (79 bp):
CCGGATATAGCCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:45477978 original size:43 final size:43
Alignment explanation
Indices: 45477889--45477995 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 43
45477879 TGTGATTACA
* * *
45477889 TGTAAGACCATGTCTGGAACATTGGCATTGTATTGAGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAATGAGATTATG
* *
45477932 TGTAAAACCATGTCTGGGACATTGGCATCGTTAAT-CGATT-TCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TAATGAGATTAT-G
* *
45477975 TGTAAGACCCTGTCTAGGACA
1 TGTAAGACCATGTCTGGGACA
45477996 GTGGTCTGGG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 1 0.02
43 50 0.93
44 3 0.06
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTAATGAGATTATG
Found at i:45483764 original size:12 final size:12
Alignment explanation
Indices: 45483749--45483776 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
45483739 TTTCACACAT
45483749 GGCCGTGTGCTA
1 GGCCGTGTGCTA
45483761 GGCCGTGTGCTA
1 GGCCGTGTGCTA
45483773 GGCC
1 GGCC
45483777 AAGTCAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.29, G:0.43, T:0.21
Consensus pattern (12 bp):
GGCCGTGTGCTA
Found at i:45495591 original size:45 final size:44
Alignment explanation
Indices: 45495432--45495607 Score: 210
Period size: 45 Copynumber: 3.9 Consensus size: 44
45495422 ATATTTGGGC
45495432 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
*** * *
45495476 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA
*
45495525 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* *
45495569 ACCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 A-TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45495608 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 37 0.33
46 33 0.29
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:45497594 original size:38 final size:38
Alignment explanation
Indices: 45497543--45497619 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
45497533 CCCTTAGGTA
45497543 TTTAGGGGTTTTAGTTCATAACTAAATAAGAAAACATC
1 TTTAGGGGTTTTAGTTCATAACTAAATAAGAAAACATC
45497581 TTTAGGGGTTTTAGTTCATAACTAAATAAGAAAACATC
1 TTTAGGGGTTTTAGTTCATAACTAAATAAGAAAACATC
45497619 T
1 T
45497620 CAGAAGAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (38 bp):
TTTAGGGGTTTTAGTTCATAACTAAATAAGAAAACATC
Found at i:45502256 original size:40 final size:39
Alignment explanation
Indices: 45502211--45502418 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
45502201 CGGAATACAA
*
45502211 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
45502251 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
45502291 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
45502331 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
45502371 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
45502411 CCGGATAT
1 CCGGATAT
45502419 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:45502351 original size:80 final size:81
Alignment explanation
Indices: 45502211--45502416 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
45502201 CGGAATACAA
* * *
45502211 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
45502275 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
45502291 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
45502354 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
45502371 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
45502417 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:45510307 original size:40 final size:39
Alignment explanation
Indices: 45510262--45510469 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
45510252 CGGAATACAA
*
45510262 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
45510302 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
45510342 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
45510382 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
45510422 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
45510462 CCGGATAT
1 CCGGATAT
45510470 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:45510402 original size:80 final size:81
Alignment explanation
Indices: 45510262--45510467 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
45510252 CGGAATACAA
* * *
45510262 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
45510326 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
45510342 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
45510405 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
45510422 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
45510468 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:45517789 original size:20 final size:20
Alignment explanation
Indices: 45517759--45517798 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
45517749 GACCTCTTTT
*
45517759 GTTCATTAATTATTTTTAGAA
1 GTTCATTAATT-TTTATAGAA
45517780 GTTC-TTAATTTTTATAGAA
1 GTTCATTAATTTTTATAGAA
45517799 AGGGTGGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 6 0.33
21 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.53
Consensus pattern (20 bp):
GTTCATTAATTTTTATAGAA
Found at i:45522036 original size:79 final size:80
Alignment explanation
Indices: 45521935--45522119 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
45521925 ACGACTCGCT
** * *
45521935 CAAACGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
45521998 GGGTTTAGTAACTT-GCA
63 GGATATAGTAACTTAGCA
* **
45522015 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
45522079 ATATAGTCACTTAGCA
65 ATATAGTAACTTAGCA
45522095 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
45522120 CATCATTCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.60
80 33 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGGA
TATAGTAACTTAGCA
Found at i:45522049 original size:39 final size:40
Alignment explanation
Indices: 45521935--45522119 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
45521925 ACGACTCGCT
* ** * *
45521935 CAAACGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTGCA
* * *
45521975 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* *
45522015 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* * * * *
45522054 CGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCA
45522095 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45522120 CATCATTCGA
Statistics
Matches: 118, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 74 0.63
41 11 0.09
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
Found at i:45539464 original size:34 final size:34
Alignment explanation
Indices: 45539416--45539521 Score: 144
Period size: 34 Copynumber: 3.1 Consensus size: 34
45539406 CTTAGTTCCC
* *
45539416 ACTGATACTGTTACTGAAATGGGCTCAGGCCCAG
1 ACTGCTACTGTTACTGAAATGGGCTCAGGCCCAA
*
45539450 ATTGCTACTGTTACTGAAATGGGCTCAGGCCCAA
1 ACTGCTACTGTTACTGAAATGGGCTCAGGCCCAA
*
45539484 ACTGCTACTGTTACT-AACATGGGCT-ACGGCCCTA
1 ACTGCTACTGTTACTGAA-ATGGGCTCA-GGCCCAA
45539518 ACTG
1 ACTG
45539522 AAACTGATAG
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
33 3 0.05
34 62 0.95
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (34 bp):
ACTGCTACTGTTACTGAAATGGGCTCAGGCCCAA
Found at i:45548238 original size:51 final size:50
Alignment explanation
Indices: 45548175--45548313 Score: 190
Period size: 50 Copynumber: 2.8 Consensus size: 50
45548165 TTAAGTCGCA
**
45548175 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTA-TCAGATG-CTGAGATCACG
* * * * *
45548226 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATGCTGAGATCACG
45548276 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
45548314 AGCTTCGGAT
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
50 44 0.57
51 33 0.43
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATGCTGAGATCACG
Found at i:45556308 original size:40 final size:39
Alignment explanation
Indices: 45556264--45556456 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
45556254 GTTCAAAACA
* * ** * *
45556264 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
45556304 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
45556344 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
45556383 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
45556422 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
45556457 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:45556375 original size:39 final size:39
Alignment explanation
Indices: 45556294--45556456 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
45556284 TATGGTAACC
* *
45556294 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
45556334 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
45556373 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
45556412 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
45556451 CGCACA
1 CGCACA
45556457 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:45564395 original size:40 final size:39
Alignment explanation
Indices: 45564351--45564543 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
45564341 GTTCAAAACA
* * ** * *
45564351 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
45564391 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
45564431 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
45564470 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
45564509 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
45564544 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:45564462 original size:39 final size:39
Alignment explanation
Indices: 45564381--45564543 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
45564371 TATGGTAACC
* *
45564381 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
45564421 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
45564460 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
45564499 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
45564538 CGCACA
1 CGCACA
45564544 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:45567027 original size:51 final size:49
Alignment explanation
Indices: 45566901--45567076 Score: 180
Period size: 51 Copynumber: 3.5 Consensus size: 49
45566891 TGAATACACG
* * *
45566901 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AT-ACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAATGAC--TTGA-TCACA
* *
45566951 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTAC-CAATGACTT-GATCACA
* * * *
45567002 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTG--TTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACC--AATGACTTGATCACA
45567051 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
45567077 TGCATATCAG
Statistics
Matches: 109, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
49 30 0.28
50 34 0.31
51 37 0.34
52 6 0.06
53 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAATGACTTGATCACA
Found at i:45567096 original size:100 final size:101
Alignment explanation
Indices: 45566897--45567082 Score: 320
Period size: 101 Copynumber: 1.9 Consensus size: 101
45566887 ATTGTGAATA
*
45566897 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCGCATGTGTAGTACT
*
45566962 AAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
66 AAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
* * *
45566998 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTT-GGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCGCATGTGTAGTACT
45567062 AAGTGCAGGCTACTATGCATA
66 AAGTGCAGGCTACTATGCATA
45567083 TCAGATAGCT
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
100 37 0.46
101 43 0.54
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
Found at i:45575549 original size:25 final size:25
Alignment explanation
Indices: 45575521--45575599 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
45575511 CTAATGGCCG
45575521 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ** *
45575546 ATGTGAT-AAGGCCTAA-TGGCT-G
1 ATGTGATGAATGTGAAAGTGTATAT
45575568 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
45575593 ATGTGAT
1 ATGTGAT
45575600 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.34
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:45575563 original size:47 final size:47
Alignment explanation
Indices: 45575476--45575888 Score: 646
Period size: 47 Copynumber: 8.7 Consensus size: 47
45575466 GATTTTACGC
* *
45575476 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTAT--ATATGTGATAAGGCCTAATGGCCGATGT
*
45575525 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
45575572 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
*
45575619 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
45575668 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
45575717 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * *
45575764 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * * * *
45575811 GATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* *
45575858 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAAGTGTATATATGTGATAAG
45575889 TCCCGAAGGG
Statistics
Matches: 346, Mismatches: 16, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
47 234 0.68
49 112 0.32
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:45575676 original size:192 final size:190
Alignment explanation
Indices: 45575476--45575880 Score: 684
Period size: 192 Copynumber: 2.1 Consensus size: 190
45575466 GATTTTACGC
*
45575476 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATAAATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
45575541 TATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * *
45575606 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGT
131 GAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAACGT
* *
45575668 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATAAATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
45575733 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATGTGATAAGGCC
66 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
45575798 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGT
131 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGT
*
45575858 GATGGATGTGAAAGTGTATAAAT
1 GATGAATGTGAAAGTGTATAAAT
45575881 GTGATAAGTC
Statistics
Matches: 200, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
190 48 0.24
192 152 0.76
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (190 bp):
GATGAATGTGAAAGTGTATAAATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
GAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGT
Found at i:45583575 original size:46 final size:46
Alignment explanation
Indices: 45583430--45583743 Score: 226
Period size: 46 Copynumber: 6.6 Consensus size: 46
45583420 TTTGTCTGCT
* * * * *
45583430 AGTGTAAGACATGCCTGGGACATGCATCAGCCAC-ATTATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCC
* * * *
45583476 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCC
* *
45583524 AGTGTAAGACATGTCTGGGACATACATCGGCCTCGAGATGTA-AACC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCC
* *
45583570 AGTGTAAGACATGTTTGGGACATGCATCGG-CTACGAGA-G-GAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAGCC
* * * * *
45583614 AGTGTAAGACCAAGTCTGGGGCATGGCATCGGCAC-AGATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGA--TGAGAGCC
* * ** * * *
45583664 GGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATTTCAATAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGAT-GAGAGCC
45583713 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
45583744 ACATTGTACC
Statistics
Matches: 214, Mismatches: 38, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
44 11 0.05
45 14 0.07
46 67 0.31
47 28 0.13
48 24 0.11
49 35 0.16
50 35 0.16
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCC
Found at i:45586535 original size:44 final size:44
Alignment explanation
Indices: 45586485--45586634 Score: 152
Period size: 44 Copynumber: 3.5 Consensus size: 44
45586475 TATGTGTTAT
45586485 CGTGTAAGACCAC-GTCTGGGACATTGGCATCG-ACTTATGATTTA
1 CGTGTAAGACCACAGTCTGGGACATTGGCATCGTA-TT-TGATTTA
* * * *
45586529 CGTGTAAGACCA-TGTCTGGGACATCGACATCGTATTTAATTT-
1 CGTGTAAGACCACAGTCTGGGACATTGGCATCGTATTTGATTTA
* * *
45586571 TGTGTAAGACC-CTGTCTGGGACAATGGCATCGGTATTTGA-TTA
1 CGTGTAAGACCACAGTCTGGGACATTGGCATC-GTATTTGATTTA
*
45586614 CATGTAAGACCACAG-CTGGGA
1 CGTGTAAGACCACAGTCTGGGA
45586635 TGTTGGCGTT
Statistics
Matches: 89, Mismatches: 11, Indels: 13
0.79 0.10 0.12
Matches are distributed among these distances:
42 28 0.31
43 27 0.30
44 33 0.37
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (44 bp):
CGTGTAAGACCACAGTCTGGGACATTGGCATCGTATTTGATTTA
Found at i:45589559 original size:30 final size:30
Alignment explanation
Indices: 45589518--45589608 Score: 164
Period size: 30 Copynumber: 3.0 Consensus size: 30
45589508 TTTTGGTAAA
* *
45589518 TGTGGTGAATGTGTGAAATAATGGGAATTT
1 TGTGGTAAATGTGTGAAATAATGGGAATTG
45589548 TGTGGTAAATGTGTGAAATAATGGGAATTG
1 TGTGGTAAATGTGTGAAATAATGGGAATTG
45589578 TGTGGTAAATGTGTGAAATAATGGGAATTG
1 TGTGGTAAATGTGTGAAATAATGGGAATTG
45589608 T
1 T
45589609 AGGCTGCTTC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.32, C:0.00, G:0.33, T:0.35
Consensus pattern (30 bp):
TGTGGTAAATGTGTGAAATAATGGGAATTG
Found at i:45593273 original size:48 final size:48
Alignment explanation
Indices: 45593145--45593388 Score: 221
Period size: 48 Copynumber: 5.1 Consensus size: 48
45593135 CAGTAAGAAT
* *
45593145 ATGGCATCAACCACAACATGAGAGCCAGTGTAAGACTATGTCTGGGAC
1 ATGGCATCAGCCACAACATGAGAGCCAGTGTAAGACCATGTCTGGGAC
*** * * *
45593193 ATGGCATC-G--ACGTTGATGTTTGTGCTAGTGTAAGACCATGTCTGGGAC
1 ATGGCATCAGCCAC-AACATG--AGAGCCAGTGTAAGACCATGTCTGGGAC
* *
45593241 ATGGCATCAGCCACAACATGAGAGCCAATGTAAGACCATGTTTGGGAC
1 ATGGCATCAGCCACAACATGAGAGCCAGTGTAAGACCATGTCTGGGAC
* * * *
45593289 AGGGCATCAG-CATGAAAATG-TA-CTCTAGTGTAAGACCATGTCTGGGAC
1 ATGGCATCAGCCA-CAACATGAGAGC-C-AGTGTAAGACCATGTCTGGGAC
* * ***
45593337 ATTGCATCGGCCACCTTATGAGAGCCAGTGTAAGACCATGTCTGGGAC
1 ATGGCATCAGCCACAACATGAGAGCCAGTGTAAGACCATGTCTGGGAC
45593385 ATGG
1 ATGG
45593389 GATCGATAAT
Statistics
Matches: 153, Mismatches: 31, Indels: 24
0.74 0.15 0.12
Matches are distributed among these distances:
45 2 0.01
46 4 0.03
47 4 0.03
48 132 0.86
49 5 0.03
50 4 0.03
51 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (48 bp):
ATGGCATCAGCCACAACATGAGAGCCAGTGTAAGACCATGTCTGGGAC
Found at i:45593274 original size:96 final size:94
Alignment explanation
Indices: 45593145--45593394 Score: 311
Period size: 96 Copynumber: 2.6 Consensus size: 94
45593135 CAGTAAGAAT
* * ***
45593145 ATGGCATCAACCACAACATGAGAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGACGTTGAT
1 ATGGCATCAGCCACAACATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGAAAAT
**
45593210 GTTTGTGCTAGTGTAAGACCATGTCTGGGAC
66 G-TACT-CTAGTGTAAGACCATGTCTGGGAC
* * * *
45593241 ATGGCATCAGCCACAACATGAGAGCCAATGTAAGACCATGTTTGGGACAGGGCATCAGCATGAAA
1 ATGGCATCAGCCACAACATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACGAAA
45593306 ATGTACTCTAGTGTAAGACCATGTCTGGGAC
64 ATGTACTCTAGTGTAAGACCATGTCTGGGAC
* * *** *
45593337 ATTGCATCGGCCACCTTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGGATCGA
1 ATGGCATCAGCCACAACATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA
45593395 TAATTCATCC
Statistics
Matches: 132, Mismatches: 20, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
94 1 0.01
95 1 0.01
96 122 0.92
97 3 0.02
98 5 0.04
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (94 bp):
ATGGCATCAGCCACAACATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGAAAAT
GTACTCTAGTGTAAGACCATGTCTGGGAC
Found at i:45605263 original size:24 final size:24
Alignment explanation
Indices: 45605217--45605261 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
45605207 TTGTGAAACT
45605217 TGAAAGGCTGAAAAGCTAAAAAGC
1 TGAAAGGCTGAAAAGCTAAAAAGC
*
45605241 TGAAAGGTTGAAAAG-TAAAAA
1 TGAAAGGCTGAAAAGCTAAAAA
45605262 AGTGGGTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.53, C:0.07, G:0.24, T:0.16
Consensus pattern (24 bp):
TGAAAGGCTGAAAAGCTAAAAAGC
Found at i:45606035 original size:34 final size:34
Alignment explanation
Indices: 45605963--45606038 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
45605953 TTGCATTCTT
*
45605963 TACTGAAATGGGCTAAGGCCCAGACTGCCACTGA
1 TACTGAAATGGGCTAAGGCCCAGACAGCCACTGA
* ** *
45605997 TACTGAAATGGGCTTAGGCCCAGACAGTTACTGC
1 TACTGAAATGGGCTAAGGCCCAGACAGCCACTGA
45606031 TACTGAAA
1 TACTGAAA
45606039 GAGGGGATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (34 bp):
TACTGAAATGGGCTAAGGCCCAGACAGCCACTGA
Found at i:45613074 original size:48 final size:48
Alignment explanation
Indices: 45613003--45613241 Score: 281
Period size: 48 Copynumber: 5.0 Consensus size: 48
45612993 GACATTTGGG
* * * *
45613003 TGATATGA-ATGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT
1 TGATATGAGA-GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAC
*
45613051 TGATATGTACA-CTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACC
1 TGATATG-AGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGG-CA-C
* *
45613101 T--TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAC
1 TGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAC
* * *
45613147 TGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-C
1 TGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAC
* * *
45613194 TCGACATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA
1 T-GATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCA
45613242 ATTCACCCTC
Statistics
Matches: 165, Mismatches: 17, Indels: 17
0.83 0.09 0.09
Matches are distributed among these distances:
46 2 0.01
47 6 0.04
48 152 0.92
49 3 0.02
50 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
TGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAC
Found at i:45613170 original size:96 final size:96
Alignment explanation
Indices: 45613013--45613241 Score: 316
Period size: 96 Copynumber: 2.4 Consensus size: 96
45613003 TGATATGAAT
* * * * * *
45613013 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATATGTACACTAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCACTGAGACGTACACTAGTGTAAGACCATG
* **
45613078 TTTGGGACATGGCATCGGCCACCTTATGAGA
66 TCTGGGACATGGCATCGGCCACCACATGAGA
*
45613109 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCACTGAGACG-AGAGCTAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCACTGAGACGTACA-CTAGTGTAAGACCAT
* * *
45613173 GTCTGGGACATGGCATCGGCCTCGACATGTGA
65 GTCTGGGACATGGCATCGGCCACCACATGAGA
*
45613205 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA
45613242 ATTCACCCTC
Statistics
Matches: 118, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
95 2 0.02
96 116 0.98
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (96 bp):
GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCACTGAGACGTACACTAGTGTAAGACCATG
TCTGGGACATGGCATCGGCCACCACATGAGA
Found at i:45620053 original size:42 final size:43
Alignment explanation
Indices: 45619989--45620078 Score: 123
Period size: 42 Copynumber: 2.1 Consensus size: 43
45619979 CATTGACTTA
*
45619989 TGATTTACGTGTAAGACATGTCTGGGACA-TCGTCATCG-TATT
1 TGATTTACGTGTAAGACATGTCTGGGACAGT-GGCATCGATATT
*
45620031 TGATTT-CGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATT
1 TGATTTACGTGTAAGA-CATGTCTGGGACAGTGGCATCGATATT
45620074 TGATT
1 TGATT
45620079 ACATGCACTA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
41 9 0.21
42 24 0.56
43 10 0.23
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.36
Consensus pattern (43 bp):
TGATTTACGTGTAAGACATGTCTGGGACAGTGGCATCGATATT
Found at i:45620278 original size:40 final size:41
Alignment explanation
Indices: 45620119--45620278 Score: 177
Period size: 40 Copynumber: 4.0 Consensus size: 41
45620109 GGCGTTTGGA
* * *
45620119 TAAAAAACGCCACTAAAGATCGAGCATTAGCGGCGCTTCT-
1 TAAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTC
* * *
45620159 TGAAAAATGCCGCTATAGAT-GTAGCATTAGCGGCAC-TTTC
1 TAAAAAACGCCGCTATAGATCG-AGCATTAGCGGCGCTTTTC
45620199 TAAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTC
1 TAAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTC
* * * *
45620240 -AAACAACGCTGCTATAGGTCGA-CTATTAGCTGCGCTTTT
1 TAAAAAACGCCGCTATAGATCGAGC-ATTAGCGGCGCTTTT
45620279 TGAAAAATTC
Statistics
Matches: 102, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
39 4 0.04
40 93 0.91
41 5 0.05
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (41 bp):
TAAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTC
Found at i:45620826 original size:22 final size:23
Alignment explanation
Indices: 45620778--45620836 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
45620768 ATGGTTTAGG
* *
45620778 GTTTAATGTTTATGGGTTACTAT
1 GTTTAAGGTTTATGGATTACTAT
45620801 -TTTAAGGTTTATGGATTAC-AT
1 GTTTAAGGTTTATGGATTACTAT
* *
45620822 GTTTAGGGATTATGG
1 GTTTAAGGTTTATGG
45620837 TTTATGGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 2 0.06
22 29 0.94
ACGTcount: A:0.24, C:0.03, G:0.25, T:0.47
Consensus pattern (23 bp):
GTTTAAGGTTTATGGATTACTAT
Found at i:45620843 original size:7 final size:7
Alignment explanation
Indices: 45620745--45620892 Score: 61
Period size: 7 Copynumber: 20.9 Consensus size: 7
45620735 TTAGTTATCA
*
45620745 TTATAGT
1 TTATGGT
*
45620752 TTAGGGT
1 TTATGGT
45620759 TTATGGT
1 TTATGGT
*
45620766 ATATGGT
1 TTATGGT
*
45620773 TTAGGGT
1 TTATGGT
45620780 TTAAT-GT
1 TT-ATGGT
*
45620787 TTATGGG
1 TTATGGT
**
45620794 TTACTATT
1 TTA-TGGT
*
45620802 TTAAGGT
1 TTATGGT
45620809 TTATGGAT
1 TTATGG-T
*
45620817 TACAT-GT
1 T-TATGGT
* *
45620824 TTAGGGA
1 TTATGGT
45620831 TTATGGT
1 TTATGGT
45620838 TTATGGT
1 TTATGGT
*
45620845 TT-TAGGA
1 TTAT-GGT
45620852 TT-TGGTT
1 TTATGG-T
*
45620859 TTAAGGT
1 TTATGGT
* *
45620866 TTAGGGG
1 TTATGGT
*
45620873 TTATGGG
1 TTATGGT
*
45620880 TTATGGG
1 TTATGGT
45620887 TTATGG
1 TTATGG
45620893 GTTCAGCATT
Statistics
Matches: 105, Mismatches: 27, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
6 6 0.06
7 87 0.83
8 10 0.10
9 2 0.02
ACGTcount: A:0.20, C:0.01, G:0.30, T:0.48
Consensus pattern (7 bp):
TTATGGT
Found at i:45620852 original size:21 final size:21
Alignment explanation
Indices: 45620822--45620885 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
45620812 TGGATTACAT
45620822 GTTTAGGGATTATGGTTTATG
1 GTTTAGGGATTATGGTTTATG
*
45620843 GTTTTA-GGATT-TGGTTTTAAG
1 G-TTTAGGGATTATGG-TTTATG
* *
45620864 GTTTAGGGGTTATGGGTTATG
1 GTTTAGGGATTATGGTTTATG
45620885 G
1 G
45620886 GTTATGGGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 7 0.20
21 21 0.60
22 7 0.20
ACGTcount: A:0.17, C:0.00, G:0.36, T:0.47
Consensus pattern (21 bp):
GTTTAGGGATTATGGTTTATG
Found at i:45620893 original size:7 final size:7
Alignment explanation
Indices: 45620870--45620895 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
45620860 TAAGGTTTAG
45620870 GGGTTAT
1 GGGTTAT
45620877 GGGTTAT
1 GGGTTAT
45620884 GGGTTAT
1 GGGTTAT
45620891 GGGTT
1 GGGTT
45620896 CAGCATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.46, T:0.42
Consensus pattern (7 bp):
GGGTTAT
Found at i:45626404 original size:19 final size:19
Alignment explanation
Indices: 45626381--45626427 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
45626371 ATTTGATCTA
*
45626381 ATTTTTATTATTTATTTTT
1 ATTTTTATTATATATTTTT
* * *
45626400 GTTTTGATTCTATATTTTT
1 ATTTTTATTATATATTTTT
45626419 ATTTTTATT
1 ATTTTTATT
45626428 TTAATATTTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.74
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:45626429 original size:31 final size:31
Alignment explanation
Indices: 45626348--45626436 Score: 101
Period size: 31 Copynumber: 2.8 Consensus size: 31
45626338 AAAGGACTTG
* *
45626348 ATATATTTTATTTATATCTTTATATTTGATCT
1 ATAT-TTTTATTTTTATTTTTATATTTGATCT
*
45626380 A-ATTTTTATTATTTATTTTTGT-TTTGATTCT
1 ATATTTTTATT-TTTATTTTTATATTTGA-TCT
*
45626411 ATATTTTTATTTTTATTTTAATATTT
1 ATATTTTTATTTTTATTTTTATATTT
45626437 AAGATAACTT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
30 12 0.25
31 23 0.48
32 13 0.27
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (31 bp):
ATATTTTTATTTTTATTTTTATATTTGATCT
Found at i:45626430 original size:5 final size:6
Alignment explanation
Indices: 45626381--45626429 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
45626371 ATTTGATCTA
* * *
45626381 ATTTTT ATTATTT ATTTTT GTTTTG ATTCTAT ATTTTT ATTTTT ATTTT
1 ATTTTT ATT-TTT ATTTTT ATTTTT ATT-TTT ATTTTT ATTTTT ATTTT
45626430 AATATTTAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 25 0.71
7 10 0.29
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:45626822 original size:43 final size:42
Alignment explanation
Indices: 45626688--45626833 Score: 175
Period size: 43 Copynumber: 3.4 Consensus size: 42
45626678 AATTTTTATA
*
45626688 AAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGTGCCGCT
1 AAAGGTCATGTTCTTTAGTGGCG-TTGTGGGAAAAGTGCCGCT
* * * * * **
45626731 GAAGGTTATGCTCTTTAGTGGTGTTTTTAGAAAAGTGCCGCT
1 AAAGGTCATGTTCTTTAGTGGCGTTGTGGGAAAAGTGCCGCT
* * *
45626773 AAAGGTCATGTTCTTTAGTGGCGTCTGTGGGGAAAGCGCTGCT
1 AAAGGTCATGTTCTTTAGTGGCGT-TGTGGGAAAAGTGCCGCT
45626816 AAAGGTCATGTTCTTTAG
1 AAAGGTCATGTTCTTTAG
45626834 CGGCATTTTT
Statistics
Matches: 84, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 36 0.43
43 48 0.57
ACGTcount: A:0.21, C:0.14, G:0.31, T:0.34
Consensus pattern (42 bp):
AAAGGTCATGTTCTTTAGTGGCGTTGTGGGAAAAGTGCCGCT
Found at i:45626843 original size:85 final size:85
Alignment explanation
Indices: 45626688--45626843 Score: 213
Period size: 85 Copynumber: 1.8 Consensus size: 85
45626678 AATTTTTATA
* * * * * *
45626688 AAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGTGCCGCTGAAGGTTATGCTCTTTAGTGGT
1 AAAGGTCATGTTCTTTAGCGGCGTCTGTGGGAAAAGCGCCGCTAAAGGTCATGCTCTTTAGCGGC
*
45626753 GTTTTTAGAAAAGTGCCGCT
66 ATTTTTAGAAAAGTGCCGCT
* * * *
45626773 AAAGGTCATGTTCTTTAGTGGCGTCTGTGGGGAAAGCGCTGCTAAAGGTCATGTTCTTTAGCGGC
1 AAAGGTCATGTTCTTTAGCGGCGTCTGTGGGAAAAGCGCCGCTAAAGGTCATGCTCTTTAGCGGC
45626838 ATTTTT
66 ATTTTT
45626844 TCACATAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 60 1.00
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.35
Consensus pattern (85 bp):
AAAGGTCATGTTCTTTAGCGGCGTCTGTGGGAAAAGCGCCGCTAAAGGTCATGCTCTTTAGCGGC
ATTTTTAGAAAAGTGCCGCT
Found at i:45637116 original size:21 final size:21
Alignment explanation
Indices: 45637092--45637138 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
45637082 GGGCGTTACA
45637092 ATTTATAT-ATAGAAATATATT
1 ATTTATATAATA-AAATATATT
**
45637113 ATTTATATAATAATGTATATT
1 ATTTATATAATAAAATATATT
45637134 ATTTA
1 ATTTA
45637139 CAGGGGGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (21 bp):
ATTTATATAATAAAATATATT
Found at i:45645846 original size:38 final size:38
Alignment explanation
Indices: 45645766--45645976 Score: 271
Period size: 38 Copynumber: 5.5 Consensus size: 38
45645756 AAACATAACC
* * * *
45645766 CCAGCACAAAGCCTACGGGACTTTAAACTCAGATATAATA
1 CCAGCACGAAGCCTGCGGGA-TTT-AACCCGGATATAATA
* *
45645806 CCAGCACTAGGCCTGCGGGATTTAACCCGGATATAATA
1 CCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATA
*
45645844 CCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTA
1 CCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATA
* * *
45645882 CCAGCACGAAGCCTACAGGATTTAACCCGGATATATTA
1 CCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATA
* *
45645920 CCAGCACAAAGCCTGCGGGATTTAACCCGGATATAATT
1 CCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATA
*
45645958 CCAGCA-TATAGCCTGCGGG
1 CCAGCACGA-AGCCTGCGGG
45645977 TCTATAAGCC
Statistics
Matches: 154, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
37 1 0.01
38 133 0.86
39 3 0.02
40 17 0.11
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (38 bp):
CCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATA
Found at i:45645953 original size:114 final size:116
Alignment explanation
Indices: 45645766--45645976 Score: 311
Period size: 114 Copynumber: 1.8 Consensus size: 116
45645756 AAACATAACC
* * * *
45645766 CCAGCACAAAGCCTACGGGACTTTAAACTCAGATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCAGCACAAAGCCTACAGGACTTTAAACCCAGATATAATACCAGCACAAAGCCTGCGGGATTTAA
45645831 CCCGGATATAATACCAGCACGA-AGCCTGCGGGATTTAACCCGGATATATTA
66 CCCGGATATAATACCAGCA-GATAGCCTGCGGGATTTAACCCGGATATATTA
* * *
45645882 CCAGCACGAAGCCTACAGGA-TTT-AACCCGGATATATTACCAGCACAAAGCCTGCGGGATTTAA
1 CCAGCACAAAGCCTACAGGACTTTAAACCCAGATATAATACCAGCACAAAGCCTGCGGGATTTAA
* *
45645945 CCCGGATATAATTCCAGCATATAGCCTGCGGG
66 CCCGGATATAATACCAGCAGATAGCCTGCGGG
45645977 TCTATAAGCC
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
113 1 0.01
114 63 0.74
115 3 0.04
116 18 0.21
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (116 bp):
CCAGCACAAAGCCTACAGGACTTTAAACCCAGATATAATACCAGCACAAAGCCTGCGGGATTTAA
CCCGGATATAATACCAGCAGATAGCCTGCGGGATTTAACCCGGATATATTA
Found at i:45649929 original size:43 final size:43
Alignment explanation
Indices: 45649775--45649930 Score: 113
Period size: 43 Copynumber: 3.7 Consensus size: 43
45649765 TTTGTTCTCG
* * *
45649775 TGTAAGA-CACGTCTAGGACGTTGGCATCGATATATGTGGTTACT
1 TGTAAGACCATGTCTAGGACGTTGGCATCG--ATATGTGATTACA
* * ** * * *
45649819 TGTAAGACCATGTCTAGGACATCGATATTG-TATTTGATT-CG
1 TGTAAGACCATGTCTAGGACGTTGGCATCGATATGTGATTACA
* * * *
45649860 TGTAAAACCCTGTCTGGGATAG-TGGCATCGATATGTGATTACA
1 TGTAAGACCATGTCTAGGA-CGTTGGCATCGATATGTGATTACA
* *
45649903 TGTAAGACCAGGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTAGGACGTTGGCAT
45649931 TGTACGATAT
Statistics
Matches: 83, Mismatches: 24, Indels: 11
0.70 0.20 0.09
Matches are distributed among these distances:
41 21 0.25
42 16 0.19
43 23 0.28
44 7 0.08
45 16 0.19
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACGTTGGCATCGATATGTGATTACA
Done.