Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 144 of 770
Found at i:42413247 original size:29 final size:28
Alignment explanation
Indices: 42413164--42413239 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
42413154 AAAATTGTAC
* *
42413164 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
42413192 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
42413221 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
42413240 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:42427131 original size:40 final size:39
Alignment explanation
Indices: 42427086--42427293 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
42427076 CGGAATACAA
*
42427086 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
42427126 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
42427166 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
42427206 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
42427246 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
42427286 CCGGATAT
1 CCGGATAT
42427294 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:42427226 original size:80 final size:81
Alignment explanation
Indices: 42427086--42427291 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
42427076 CGGAATACAA
* * *
42427086 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
42427150 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
42427166 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
42427229 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
42427246 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
42427292 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:42434134 original size:25 final size:25
Alignment explanation
Indices: 42434100--42434151 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
42434090 CCAAAACATA
42434100 TAAAAAAAAAGAAAGAAACAAAGCT
1 TAAAAAAAAAGAAAGAAACAAAGCT
42434125 TAAAAAAAAAGAAAGAAACAAAGCT
1 TAAAAAAAAAGAAAGAAACAAAGCT
42434150 TA
1 TA
42434152 GGGTTCAGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.71, C:0.08, G:0.12, T:0.10
Consensus pattern (25 bp):
TAAAAAAAAAGAAAGAAACAAAGCT
Found at i:42434527 original size:45 final size:44
Alignment explanation
Indices: 42434478--42434610 Score: 159
Period size: 45 Copynumber: 3.0 Consensus size: 44
42434468 AGGATTTTTG
42434478 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
1 ATATGTG-TTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
* *
42434523 ATATGTGGTTACGTGTAAGACCATGTCTGGGACATTGGCATC-AT
1 ATATGT-GTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
* *
42434567 AT-T-TGATTCATGTAAGATCC-TGTCTGGGACAG-TGGCATCGAT
1 ATATGTGTTTCGTGTAAGA-CCATGTCTGGGAC-GTTGGCATCGAT
42434609 AT
1 AT
42434611 GAGATAGCAT
Statistics
Matches: 78, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
41 27 0.35
42 7 0.09
43 1 0.01
44 4 0.05
45 38 0.49
46 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (44 bp):
ATATGTGTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
Found at i:42434593 original size:41 final size:45
Alignment explanation
Indices: 42434491--42434647 Score: 168
Period size: 41 Copynumber: 3.6 Consensus size: 45
42434481 TGTGTTTTCG
* * *
42434491 TGTAAGACCATGTCTGGGACGTTGGCATCGATATATGTGGTTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATATGTGATTACA
42434536 TGTAAGACCATGTCTGGGACATTGGCATC-ATAT-T-TGATT-CA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATATGTGATTACA
* *
42434577 TGTAAGATCC-TGTCTGGGACAGTGGCATCG--ATATGAGA-TAGCA
1 TGTAAGA-CCATGTCTGGGACATTGGCATCGATATATGTGATTA-CA
* * *
42434620 TGTAAGACCACGTCTGAGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
42434648 TGTACAATAT
Statistics
Matches: 96, Mismatches: 9, Indels: 16
0.79 0.07 0.13
Matches are distributed among these distances:
40 2 0.02
41 28 0.29
42 10 0.10
43 24 0.25
44 4 0.04
45 28 0.29
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (45 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATATGTGATTACA
Found at i:42437491 original size:40 final size:40
Alignment explanation
Indices: 42437432--42437600 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
42437422 CGGGACTTTA
* * *
42437432 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
42437472 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
42437512 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
42437552 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
42437592 CCCGGATAT
1 CCCGGATAT
42437601 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:42445512 original size:40 final size:40
Alignment explanation
Indices: 42445453--42445621 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
42445443 CGGGACTTTA
* * *
42445453 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
42445493 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
42445533 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
42445573 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
42445613 CCCGGATAT
1 CCCGGATAT
42445622 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:42449719 original size:16 final size:17
Alignment explanation
Indices: 42449690--42449722 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
42449680 ACATATAAAG
*
42449690 TAAATGAAATAAAAGAA
1 TAAATGAAACAAAAGAA
42449707 TAAA-GAAACAAAAGAA
1 TAAATGAAACAAAAGAA
42449723 AAGAAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.73, C:0.03, G:0.12, T:0.12
Consensus pattern (17 bp):
TAAATGAAACAAAAGAA
Found at i:42449794 original size:19 final size:19
Alignment explanation
Indices: 42449770--42449806 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
42449760 GAAACAAGGG
*
42449770 AAGGAAAGAAGGAAAAAGA
1 AAGGAAAGAAAGAAAAAGA
42449789 AAGGAAAGAAAGAAAAAG
1 AAGGAAAGAAAGAAAAAG
42449807 GAAAAATTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAGGAAAGAAAGAAAAAGA
Found at i:42450931 original size:18 final size:18
Alignment explanation
Indices: 42450908--42450942 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42450898 TATTAAAGAC
*
42450908 TGACCGCTATTGAATAAT
1 TGACCGCTACTGAATAAT
*
42450926 TGACCGTTACTGAATAA
1 TGACCGCTACTGAATAA
42450943 ACGACTGATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (18 bp):
TGACCGCTACTGAATAAT
Found at i:42450972 original size:18 final size:18
Alignment explanation
Indices: 42450931--42450972 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
42450921 ATAATTGACC
42450931 GTTACTGAATAAACGACT
1 GTTACTGAATAAACGACT
* * *
42450949 GATACTGAATAAATGATT
1 GTTACTGAATAAACGACT
42450967 GTTACT
1 GTTACT
42450973 TATTAACCGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (18 bp):
GTTACTGAATAAACGACT
Found at i:42460980 original size:42 final size:42
Alignment explanation
Indices: 42460934--42461102 Score: 153
Period size: 43 Copynumber: 4.0 Consensus size: 42
42460924 GACATTTAAC
* *
42460934 GGCGTTTTAGTAAAAGCGCCGCTAAAGCTCACGTTCTATAGT
1 GGCGTTTTAGTAAAAGCACCGCTAAAGGTCACGTTCTATAGT
* ** * *
42460976 GGCGTTTTGAGTAAAGGTTCCGCTAAAGGTCATGTTCTATAGC
1 GGCGTTTT-AGTAAAAGCACCGCTAAAGGTCACGTTCTATAGT
* ** * *
42461019 GGTGTTTGTAGGGAAA-CATCACTAAAGGTCACGTTCTATAGT
1 GGCGTTT-TAGTAAAAGCACCGCTAAAGGTCACGTTCTATAGT
* * *
42461061 AGTGTTTGTTAG-AAAAGCACCGCTAAAGGTCATGTTCTATAG
1 GGCG-TT-TTAGTAAAAGCACCGCTAAAGGTCACGTTCTATAG
42461103 CTGCTGTTTT
Statistics
Matches: 101, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
42 34 0.34
43 65 0.64
44 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (42 bp):
GGCGTTTTAGTAAAAGCACCGCTAAAGGTCACGTTCTATAGT
Found at i:42472439 original size:30 final size:31
Alignment explanation
Indices: 42472363--42472445 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
42472353 TCAGTCTCGA
*
42472363 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
42472393 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
42472424 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTAGGCCGAAGCCTTT
42472446 ACTGTAAGCG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 18 0.35
31 33 0.65
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTAGGCCGAAGCCTTTTCATAAAT
Found at i:42472693 original size:25 final size:25
Alignment explanation
Indices: 42472665--42472734 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
42472655 CTCTTGTAAT
* * *
42472665 AACTGGGGCAAATCCTTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
42472690 AACTGGGGAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
42472715 AATTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
42472735 AGCACTTCCT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:42473220 original size:17 final size:17
Alignment explanation
Indices: 42473180--42473221 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
42473170 TTTACCCAAA
* *
42473180 GGGCCCAAAAGGCCATT
1 GGGCCCGAAAGCCCATT
42473197 GGGCCCGAAAGCCCATT
1 GGGCCCGAAAGCCCATT
42473214 GGGCCCGA
1 GGGCCCGA
42473222 TTTCAGCCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.24, C:0.33, G:0.33, T:0.10
Consensus pattern (17 bp):
GGGCCCGAAAGCCCATT
Found at i:42473590 original size:27 final size:26
Alignment explanation
Indices: 42473560--42473637 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
42473550 GGGCATATTC
42473560 GTCATTTTACCATGTAGGGGTATTACG
1 GTCATTTTACCAT-TAGGGGTATTACG
* * *
42473587 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCAT-TAGGGG-TATTACG
*
42473614 GTCTTTTTACCTATTAGGGGTATT
1 GTCATTTTACC-ATTAGGGGTATT
42473638 TTAGTCATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.03
27 37 0.93
28 2 0.05
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCATTAGGGGTATTACG
Found at i:42473708 original size:27 final size:27
Alignment explanation
Indices: 42473678--42473907 Score: 103
Period size: 27 Copynumber: 8.4 Consensus size: 27
42473668 GTAAATCTAC
*
42473678 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTTCTATAATTTTGT
*
42473705 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
* * *
42473731 AGAAAGTCAAGGGTATTTTTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
* * * **
42473761 AAATCAGGGGTATTT-TGGTAATTTTAC
1 AAACCAAGGGTATTTCT-ATAATTTTGT
*** ** ***
42473788 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCTATAATTTTGT
* **
42473815 AAACC-AGTGGTATTT-TGGTAATTTTAC
1 AAACCAAG-GGTATTTCT-ATAATTTTGT
* * *
42473842 AAACTAGGGGTATTT-TGGTAATTTTGT
1 AAACCAAGGGTATTTCT-ATAATTTTGT
*
42473869 AAACTAAGGGTATTT-TAGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
* *
42473896 AAATCGAGGGTA
1 AAACCAAGGGTA
42473908 AAACTGTAAT
Statistics
Matches: 166, Mismatches: 27, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
26 4 0.02
27 136 0.82
28 7 0.04
29 18 0.11
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:42473879 original size:81 final size:81
Alignment explanation
Indices: 42473742--42473892 Score: 205
Period size: 81 Copynumber: 1.9 Consensus size: 81
42473732 GAAAGTCAAG
* ** * * *
42473742 GGTATTTTTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGT
1 GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGT
42473807 AATTTCACAAACCAGT
66 AATTTCACAAACCAGT
** *
42473823 GGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTAG
1 GGTATTTTGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAG
42473887 TAATTT
65 TAATTT
42473893 TGTAAATCGA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
80 1 0.02
81 59 0.98
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGT
AATTTCACAAACCAGT
Found at i:42473881 original size:54 final size:54
Alignment explanation
Indices: 42473656--42473893 Score: 203
Period size: 54 Copynumber: 4.4 Consensus size: 54
42473646 TTCATCCTAC
* * * * ** *
42473656 AAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAATAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACT
* * * * **
42473710 AATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTTTGTAATTTTGTAAA-T
1 AAGGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCGGTAATTTTGTAAACT
* * * ***
42473765 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAC-
1 -AAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACT
* * *
42473819 CAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACT
*
42473874 AAGGGTATTTTAGTAATTTT
1 AAGGGTATTTTGGTAATTTT
42473894 GTAAATCGAG
Statistics
Matches: 142, Mismatches: 34, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
53 1 0.01
54 89 0.63
55 19 0.13
56 33 0.23
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
AAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACT
Found at i:42473907 original size:54 final size:54
Alignment explanation
Indices: 42473696--42473983 Score: 201
Period size: 54 Copynumber: 5.3 Consensus size: 54
42473686 GGTATTTCAA
* * * * *
42473696 TAATTTTGTAAACCAATGGTATTTCTA-TAATTTTTAGAAAGTCAAGGGTATTTTTG
1 TAATTTTGTAAACTAAGGGTATTT-TAGTAA-TTTTACAAA-TCGAGGGTATTTTGG
* * * *
42473752 TAATTTTGTAAA-TCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGG
1 TAATTTTGTAAACT-AAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTTGG
*** * * *
42473806 TAATTTCACAAAC-CAGTGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTGTAAACTAAG-GGTATTTTAGTAATTTTACAAATCGA-GGGTATTTTGG
** ***
42473860 TAATTTTGTAAACTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACT-G
1 TAATTTTGTAAACTAAGGGTATTTTAGTAATTTTACAAATCGAGGGT-ATTTTGG
* * * * * ** *
42473914 TAATTCTGTAAA-TCGAGGGTACTTTGGTAATTTTACAAATTGAGGACATTTTAG
1 TAATTTTGTAAACT-AAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTTGG
*
42473968 TAATTTGGTAAACTAA
1 TAATTTTGTAAACTAA
42473984 AGTATTCTAA
Statistics
Matches: 178, Mismatches: 43, Indels: 24
0.73 0.18 0.10
Matches are distributed among these distances:
53 5 0.03
54 134 0.75
55 16 0.09
56 23 0.13
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
TAATTTTGTAAACTAAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTTGG
Found at i:42473943 original size:27 final size:27
Alignment explanation
Indices: 42473740--42473979 Score: 166
Period size: 27 Copynumber: 8.9 Consensus size: 27
42473730 TAGAAAGTCA
*
42473740 AGGGTATTTTTGTAATTTTGTAAATC-
1 AGGGTATTTTGGTAATTTTGTAAATCG
** *
42473766 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTGGTAATTTTGTAAATCG
* *** *
42473794 AGGGTATTTCGGTAATTTCACAAA-CC
1 AGGGTATTTTGGTAATTTTGTAAATCG
** *
42473820 AGTGGTATTTTGGTAATTTTACAAA-CT
1 AG-GGTATTTTGGTAATTTTGTAAATCG
*
42473847 AGGGGTATTTTGGTAATTTTGTAAA-CTA
1 A-GGGTATTTTGGTAATTTTGTAAATC-G
*
42473875 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
*** *
42473902 AGGGTAAAACT-GTAATTCTGTAAATCG
1 AGGGT-ATTTTGGTAATTTTGTAAATCG
* ** *
42473929 AGGGTACTTTGGTAATTTTACAAATTG
1 AGGGTATTTTGGTAATTTTGTAAATCG
** * *
42473956 AGGACATTTTAGTAATTTGGTAAA
1 AGGGTATTTTGGTAATTTTGTAAA
42473980 CTAAAGTATT
Statistics
Matches: 172, Mismatches: 34, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
26 5 0.03
27 161 0.94
28 6 0.03
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTGTAAATCG
Found at i:42478898 original size:40 final size:40
Alignment explanation
Indices: 42478849--42478999 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
42478839 ATCACGATTT
*
42478849 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
42478889 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
42478929 GCATAAATGTCC-TCGGGACTTAGCCCGGAT-GTA-GCCACTA
1 GCACAAATG-CCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* *
42478969 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
42479000 TAATTTCCAG
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
39 3 0.03
40 87 0.95
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:42478937 original size:80 final size:80
Alignment explanation
Indices: 42478853--42479039 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
42478843 CGATTTGCAC
* * *
42478853 AAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTCGCACGAA-TGCCTTCGGGTCTTAGCCCG
1 AAATGCCTTCGGGACTTAGCCCGGATAGAA-GCACTAGCAC-AATTGCCTTCGGGTCTTAACCCG
*
42478916 GATATAATTACTAGCAT
64 GATATAATTACCAGCAT
*
42478933 AAATGTCC-TCGGGACTTAGCCCGGAT-GTAGCCACTAGCACAATTGCCTTCGGGTCTTAACCCG
1 AAATG-CCTTCGGGACTTAGCCCGGATAGAAG-CACTAGCACAATTGCCTTCGGGTCTTAACCCG
*
42478996 GATATAATTTCCAGCAT
64 GATATAATTACCAGCAT
* * *
42479013 TAACGTCTTCGGGACTTAGCCCGGATA
1 AAATGCCTTCGGGACTTAGCCCGGATA
42479040 TCATTCAATT
Statistics
Matches: 92, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
78 1 0.01
79 5 0.05
80 84 0.91
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
AAATGCCTTCGGGACTTAGCCCGGATAGAAGCACTAGCACAATTGCCTTCGGGTCTTAACCCGGA
TATAATTACCAGCAT
Found at i:42486865 original size:40 final size:40
Alignment explanation
Indices: 42486816--42486966 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
42486806 ATCACGATTT
*
42486816 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
42486856 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
42486896 GCATAAATGTCC-TCGGGACTTAGCCCGGAT-GTA-GCCACTA
1 GCACAAATG-CCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* *
42486936 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
42486967 TAATTTCCAG
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
39 3 0.03
40 87 0.95
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:42486904 original size:80 final size:80
Alignment explanation
Indices: 42486820--42487006 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
42486810 CGATTTGCAC
* * *
42486820 AAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTCGCACGAA-TGCCTTCGGGTCTTAGCCCG
1 AAATGCCTTCGGGACTTAGCCCGGATAGAA-GCACTAGCAC-AATTGCCTTCGGGTCTTAACCCG
*
42486883 GATATAATTACTAGCAT
64 GATATAATTACCAGCAT
*
42486900 AAATGTCC-TCGGGACTTAGCCCGGAT-GTAGCCACTAGCACAATTGCCTTCGGGTCTTAACCCG
1 AAATG-CCTTCGGGACTTAGCCCGGATAGAAG-CACTAGCACAATTGCCTTCGGGTCTTAACCCG
*
42486963 GATATAATTTCCAGCAT
64 GATATAATTACCAGCAT
* * *
42486980 TAACGTCTTCGGGACTTAGCCCGGATA
1 AAATGCCTTCGGGACTTAGCCCGGATA
42487007 TCATTCAAGT
Statistics
Matches: 92, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
78 1 0.01
79 5 0.05
80 84 0.91
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
AAATGCCTTCGGGACTTAGCCCGGATAGAAGCACTAGCACAATTGCCTTCGGGTCTTAACCCGGA
TATAATTACCAGCAT
Found at i:42489088 original size:24 final size:24
Alignment explanation
Indices: 42489061--42489196 Score: 141
Period size: 24 Copynumber: 5.7 Consensus size: 24
42489051 GAAATGATTT
42489061 TGGCACTATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* *
42489085 TGGCACTATGTGTGCAAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
42489109 TGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
42489133 TGGCACTATGTGTACGGATTGGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
42489157 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
42489182 -GGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
42489197 GGTTAACATG
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
24 90 0.98
25 2 0.02
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:42491173 original size:6 final size:6
Alignment explanation
Indices: 42491155--42491251 Score: 65
Period size: 6 Copynumber: 15.8 Consensus size: 6
42491145 TAAAAACATT
* * *
42491155 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
42491204 ATCAGA ATTAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
42491252 GTAACATAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
5 4 0.06
6 58 0.83
7 6 0.09
8 2 0.03
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:42491205 original size:31 final size:31
Alignment explanation
Indices: 42491164--42491274 Score: 132
Period size: 31 Copynumber: 3.5 Consensus size: 31
42491154 TATCAGAACT
* *
42491164 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
42491195 AGAATTAGAATCAGAATTAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
42491226 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
42491257 ATAATCAAAAATCAGAAT
1 AGAATC-AGAATCAGAAT
42491275 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
31 59 0.84
32 11 0.16
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.22
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:42491959 original size:27 final size:27
Alignment explanation
Indices: 42491682--42491958 Score: 374
Period size: 27 Copynumber: 10.3 Consensus size: 27
42491672 GGGGCAAAAT
* * * *
42491682 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42491709 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42491736 GGTAATTTTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42491763 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42491790 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42491817 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42491844 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42491871 GGTAATTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42491898 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
42491925 AGTAATTTTACCCTAAAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
42491952 GGTAATT
1 GGTAATT
42491959 TCACAAATCA
Statistics
Matches: 219, Mismatches: 31, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 219 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:42491973 original size:27 final size:27
Alignment explanation
Indices: 42491943--42492004 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
42491933 TACCCTAAAA
*
42491943 GGGTATTTTGGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTCACAAACCAG
*
42491970 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTCACAAACCAG
42491997 GGGTATTT
1 GGGTATTT
42492005 CAATAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTCACAAACCAG
Found at i:42492011 original size:27 final size:27
Alignment explanation
Indices: 42491954--42492014 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
42491944 GGTATTTTGG
* * ***
42491954 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTCAA
42491981 TAATTTTACAAACCAGGGGTATTTCAA
1 TAATTTTACAAACCAGGGGTATTTCAA
42492008 TAATTTT
1 TAATTTT
42492015 GTAAATTGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTCAA
Found at i:42492038 original size:27 final size:27
Alignment explanation
Indices: 42492008--42492270 Score: 321
Period size: 27 Copynumber: 9.8 Consensus size: 27
42491998 GGTATTTCAA
* * * *
42492008 TAATTTTGTAAATTGAGGCTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
42492035 TAATTTTGTAAATCGAGGGTAAGACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
42492062 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * **
42492089 TAATTCTATTAATCGAGGGTAAGGC-G
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
42492115 TAATTCCGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * **
42492142 TAATTCTATAAATTGAGGGTAAAACAA
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
42492169 TAATTTTGTAAATCGAGGGTAAGACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
42492196 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
42492223 TAATTCTGTAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
42492250 TAATTCTGTAAATCGGGGGTA
1 TAATTCTGTAAATCGAGGGTA
42492271 CTTTGATAAT
Statistics
Matches: 198, Mismatches: 37, Indels: 2
0.84 0.16 0.01
Matches are distributed among these distances:
26 20 0.10
27 178 0.90
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGG
Found at i:42492173 original size:134 final size:135
Alignment explanation
Indices: 42492016--42492270 Score: 404
Period size: 134 Copynumber: 1.9 Consensus size: 135
42492006 AATAATTTTG
*** *
42492016 TAAATTGAGGCTAAAATGGTAATTTTGTAAATCGAGGGTAAGACGGTAATTCTGTAAATCGAGGG
1 TAAATTGAGGCTAAAACAATAATTTTGTAAATCGAGGGTAAGACGGTAATTCTATAAATCGAGGG
* **
42492081 TAAAATGGTAATTCTATTAATCGAGGGTAAGGC-GTAATTCCGTAAATCGAGGGTAAAATGGTAA
66 TAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCCGTAAATCGAGGGTAAAATGGTAA
42492145 TTCTA
131 TTCTA
*
42492150 TAAATTGAGGGTAAAACAATAATTTTGTAAATCGAGGGTAAGACGGTAATTCTATAAATCGAGGG
1 TAAATTGAGGCTAAAACAATAATTTTGTAAATCGAGGGTAAGACGGTAATTCTATAAATCGAGGG
* * *
42492215 TAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGGGGGTA
66 TAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCCGTAAATCGAGGGTA
42492271 CTTTGATAAT
Statistics
Matches: 109, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
134 89 0.82
135 20 0.18
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (135 bp):
TAAATTGAGGCTAAAACAATAATTTTGTAAATCGAGGGTAAGACGGTAATTCTATAAATCGAGGG
TAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCCGTAAATCGAGGGTAAAATGGTAA
TTCTA
Found at i:42494278 original size:6 final size:6
Alignment explanation
Indices: 42494267--42494383 Score: 78
Period size: 6 Copynumber: 18.8 Consensus size: 6
42494257 TATCAAAACT
* * *
42494267 AGAATC AGAATC AAAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * * *
42494316 AGTATC AGTATC AGGTAA-C AGAATC AAAATC AGAATC AGTATC AGGTAA-C
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC
*
42494366 AGAATC AAAAATC AGAAT
1 AGAATC -AGAATC AGAAT
42494384 GTGAATGCAA
Statistics
Matches: 87, Mismatches: 14, Indels: 20
0.72 0.12 0.17
Matches are distributed among these distances:
5 5 0.06
6 66 0.76
7 13 0.15
8 3 0.03
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:42494303 original size:31 final size:31
Alignment explanation
Indices: 42494267--42494383 Score: 117
Period size: 31 Copynumber: 3.5 Consensus size: 31
42494257 TATCAAAACT
* *
42494267 AGAATCAGAATCAAAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATTAGGTAAC
42494298 AGAATCAGAATCAGAATCAGTATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAG-A--A-T-T-AGGTAAC
* * *
42494335 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATTAGGTAAC
*
42494366 AGAATCAAAAATCAGAAT
1 AGAATC-AGAATCAGAAT
42494384 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 13
0.80 0.05 0.14
Matches are distributed among these distances:
31 32 0.43
32 12 0.16
33 1 0.01
34 2 0.03
35 1 0.01
36 1 0.01
37 25 0.34
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATTAGGTAAC
Found at i:42494323 original size:37 final size:37
Alignment explanation
Indices: 42494267--42494360 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
42494257 TATCAAAACT
** * *
42494267 AGAATCAGAATCAAAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGTATCAGAATCAGGTAACAGAATC
*
42494304 AGAATCAGAATCAGTATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGTATCAGAATCAGGTAACAGAATC
*
42494341 AAAATCAGAATCAGTATCAG
1 AGAATCAGAATCAGTATCAG
42494361 GTAACAGAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGTATCAGAATCAGGTAACAGAATC
Found at i:42494823 original size:27 final size:27
Alignment explanation
Indices: 42494793--42494978 Score: 230
Period size: 27 Copynumber: 6.9 Consensus size: 27
42494783 GGCAAAATGG
* * * *
42494793 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
42494820 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
42494847 TAATTTTACCTTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
42494874 TAATTCTACCCTATAGGGCTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
*
42494901 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
42494928 TAATTCTACCCTACAGGGGTATTTC-A
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
42494954 GTAATTTTACCCTAAAAGGGTATTT
1 -TAATTCTACCCTACAGGGGTATTT
42494979 TGGTAATTTC
Statistics
Matches: 139, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:42494915 original size:81 final size:80
Alignment explanation
Indices: 42494793--42495040 Score: 270
Period size: 81 Copynumber: 3.1 Consensus size: 80
42494783 GGCAAAATGG
* * * * * *
42494793 TAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTTTACCT
1 TAATTCTACCCTAAAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTACCA
42494858 TACAGGGGTATTTCGA
66 TACAGGGGTATTTC-A
* *
42494874 TAATTCTACCCT-ATAGGGCTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
1 TAATTCTACCCTAAAAGGG-TATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTACC
*
42494938 CTACAGGGGTATTTCA
65 ATACAGGGGTATTTCA
* * ** *
42494954 GTAATTTTACCCTAAAAGGGTATTTTGGTAATT-T-CACAAATCAGGGGTATTTTGGTAATTTTA
1 -TAATTCTACCCTAAAAGGGTATTTCGGTAATTCTAC-CCTA-CAGGGGTATTTCGGTAATTTTA
*
42495017 -CAAACCAGGGGTATTTCAA
63 CCATA-CAGGGGTATTTC-A
42495036 TAATT
1 TAATT
42495041 TTGTAAATTG
Statistics
Matches: 143, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
79 1 0.01
80 10 0.07
81 126 0.88
82 6 0.04
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (80 bp):
TAATTCTACCCTAAAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTACCA
TACAGGGGTATTTCA
Found at i:42494984 original size:54 final size:54
Alignment explanation
Indices: 42494791--42495017 Score: 278
Period size: 54 Copynumber: 4.2 Consensus size: 54
42494781 GGGGCAAAAT
* *
42494791 GGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* * * *
42494845 GGTAATTTTACCTTACAGGGGTATTTCGATAATTCTACCCTATAGGGCTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* * *
42494899 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* * * * ** *
42494953 AGTAATTTTACCCTAAAAGGGTATTTTGGTAATT-T-CACAAATCAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTCGATAATTCTAC-CCTA-CAGGGGTATTTC
42495007 GGTAATTTTAC
1 GGTAATTTTAC
42495018 AAACCAGGGG
Statistics
Matches: 151, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
52 1 0.01
53 3 0.02
54 147 0.97
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTAATTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
Found at i:42495001 original size:27 final size:27
Alignment explanation
Indices: 42494971--42495032 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
42494961 TACCCTAAAA
*
42494971 GGGTATTTTGGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTCACAAACCAG
*
42494998 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTCACAAACCAG
42495025 GGGTATTT
1 GGGTATTT
42495033 CAATAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTCACAAACCAG
Found at i:42495039 original size:27 final size:27
Alignment explanation
Indices: 42494982--42495042 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
42494972 GGTATTTTGG
* * ***
42494982 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTCAA
42495009 TAATTTTACAAACCAGGGGTATTTCAA
1 TAATTTTACAAACCAGGGGTATTTCAA
42495036 TAATTTT
1 TAATTTT
42495043 GTAAATTGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTCAA
Found at i:42495066 original size:27 final size:27
Alignment explanation
Indices: 42495044--42495299 Score: 323
Period size: 27 Copynumber: 9.5 Consensus size: 27
42495034 AATAATTTTG
* * * *
42495044 TAAATTGAGGCTAAAATGGTAATTTTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
* *
42495071 TAAATCGAGGGTAAGACGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
42495098 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
* *** *
42495125 TTAATCGAGGGTAAGGCGGTAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
42495152 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
* *** * *
42495179 TAAATCGAAGGTAAAACAATAATTTTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
*
42495206 TAAATCGAGGGTAAGATGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
42495233 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
* *
42495260 TAAATCGAGGGTAAAACGGTAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
*
42495287 TAAATCGGGGGTA
1 TAAATCGAGGGTA
42495300 CTTTGATAAT
Statistics
Matches: 194, Mismatches: 35, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 194 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (27 bp):
TAAATCGAGGGTAAAATGGTAATTCTA
Found at i:42495310 original size:81 final size:81
Alignment explanation
Indices: 42495036--42495299 Score: 357
Period size: 81 Copynumber: 3.3 Consensus size: 81
42495026 GGTATTTCAA
* * * * * * * *
42495036 TAATTTTGTAAATTGAGGCTAAAATGGTAATTTTGTAAATCGAGGGTAAGACGGTAATTCTATAA
1 TAATTCTGTAAATCGAGGGTAAGATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAA
*
42495101 ATCGAGGGTAAAATGG
66 ATCGAGGGTAAAACGG
* * ** *
42495117 TAATTCTATTAATCGAGGGTAAGGCGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAA
1 TAATTCTGTAAATCGAGGGTAAGATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAA
* **
42495182 ATCGAAGGTAAAACAA
66 ATCGAGGGTAAAACGG
*
42495198 TAATTTTGTAAATCGAGGGTAAGATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAA
1 TAATTCTGTAAATCGAGGGTAAGATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAA
42495263 ATCGAGGGTAAAACGG
66 ATCGAGGGTAAAACGG
*
42495279 TAATTCTGTAAATCGGGGGTA
1 TAATTCTGTAAATCGAGGGTA
42495300 CTTTGATAAT
Statistics
Matches: 157, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 157 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (81 bp):
TAATTCTGTAAATCGAGGGTAAGATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAA
ATCGAGGGTAAAACGG
Found at i:42496447 original size:46 final size:46
Alignment explanation
Indices: 42496394--42496568 Score: 223
Period size: 45 Copynumber: 3.8 Consensus size: 46
42496384 TATTTGGGCA
42496394 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
42496440 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
42496487 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
42496533 -CCCAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42496569 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
43 4 0.04
45 36 0.32
46 32 0.29
47 33 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:42496509 original size:47 final size:46
Alignment explanation
Indices: 42496390--42496563 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
42496380 GGGGTATTTG
*
42496390 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGA
* * *
42496437 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATG---CGA
*
42496483 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCG-A
* *
42496531 CGC--CC-AGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
42496564 TATGGGCGGG
Statistics
Matches: 109, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
43 4 0.04
45 29 0.27
46 35 0.32
47 32 0.29
48 5 0.05
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGA
Found at i:42499600 original size:6 final size:6
Alignment explanation
Indices: 42499589--42499705 Score: 78
Period size: 6 Copynumber: 18.8 Consensus size: 6
42499579 TATCAAAACT
* * *
42499589 AGAATC AGAATC AAAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * * *
42499638 AGTATC AGTATC AGGTAA-C AGAATC AAAATC AGAATC AGTATC AGGTAA-C
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC
*
42499688 AGAATC AAAAATC AGAAT
1 AGAATC -AGAATC AGAAT
42499706 GTGAATGCAA
Statistics
Matches: 87, Mismatches: 14, Indels: 20
0.72 0.12 0.17
Matches are distributed among these distances:
5 5 0.06
6 66 0.76
7 13 0.15
8 3 0.03
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:42499625 original size:31 final size:31
Alignment explanation
Indices: 42499589--42499705 Score: 117
Period size: 31 Copynumber: 3.5 Consensus size: 31
42499579 TATCAAAACT
* *
42499589 AGAATCAGAATCAAAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATTAGGTAAC
42499620 AGAATCAGAATCAGAATCAGTATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAG-A--A-T-T-AGGTAAC
* * *
42499657 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATTAGGTAAC
*
42499688 AGAATCAAAAATCAGAAT
1 AGAATC-AGAATCAGAAT
42499706 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 13
0.80 0.05 0.14
Matches are distributed among these distances:
31 32 0.43
32 12 0.16
33 1 0.01
34 2 0.03
35 1 0.01
36 1 0.01
37 25 0.34
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATTAGGTAAC
Found at i:42499645 original size:37 final size:37
Alignment explanation
Indices: 42499589--42499682 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
42499579 TATCAAAACT
** * *
42499589 AGAATCAGAATCAAAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGTATCAGAATCAGGTAACAGAATC
*
42499626 AGAATCAGAATCAGTATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGTATCAGAATCAGGTAACAGAATC
*
42499663 AAAATCAGAATCAGTATCAG
1 AGAATCAGAATCAGTATCAG
42499683 GTAACAGAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGTATCAGAATCAGGTAACAGAATC
Found at i:42500143 original size:27 final size:27
Alignment explanation
Indices: 42500111--42500416 Score: 366
Period size: 27 Copynumber: 11.4 Consensus size: 27
42500101 AGGGCAAAAT
* * *
42500111 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
42500138 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
42500165 GGTAATTTTACCTTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
42500192 GATAA-TTTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
42500218 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
42500245 GGTAA-TTTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
42500271 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
42500298 GGTAATTTTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* * *
42500325 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* * * *
42500352 AGTAATTTTACCCTAAAAGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
* ** *
42500379 GGTAATTTCA-CAAATCAGGGGTATTTT
1 GGTAATTTTACCCTA-CAGGGGTATTTC
42500406 GGTAATTTTAC
1 GGTAATTTTAC
42500417 AAACCAGGGG
Statistics
Matches: 236, Mismatches: 39, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
26 49 0.21
27 187 0.79
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAGGGGTATTTC
Found at i:42500250 original size:80 final size:80
Alignment explanation
Indices: 42500117--42500440 Score: 352
Period size: 80 Copynumber: 4.0 Consensus size: 80
42500107 AAATGGTAAT
* * * *
42500117 TTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTTTACCTTACA
1 TTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTACCCTACA
42500182 GGGGTATTTCGATAA
66 GGGGTATTTCGATAA
* *
42500197 TTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCCGGTAA-TTTACCCTACA
1 TTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTACCCTACA
* *
42500261 GGGGTATTTTGGTAA
66 GGGGTATTTCGATAA
* * * * * * *
42500276 TTCTACCTTACAGGGGTATTTCGGTAATTTTACCCTACAAGGGTATTTCGATAATTCTACCCTAT
1 TT-TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTACCCTAC
42500341 AGGGGTATTTC-AGTAA
65 AGGGGTATTTCGA-TAA
* * ** * **
42500357 TTTTACCCTAAAAGGGTATTTTGGTAATT-T-CACAAATCAGGGGTATTTTGGTAATTTTA-CAA
1 -TTTACCCTACAAGGGTATTTCGGTAATTCTAC-CCTA-CAGGGGTATTTCGGTAATTTTACCCT
*
42500419 ACCAGGGGTATTTCAATAA
63 A-CAGGGGTATTTCGATAA
42500438 TTT
1 TTT
42500441 TGTAAATTGA
Statistics
Matches: 206, Mismatches: 30, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
79 26 0.13
80 102 0.50
81 75 0.36
82 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (80 bp):
TTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTACCCTACA
GGGGTATTTCGATAA
Found at i:42500465 original size:27 final size:27
Alignment explanation
Indices: 42500435--42500697 Score: 287
Period size: 27 Copynumber: 9.8 Consensus size: 27
42500425 GGTATTTCAA
* * * *
42500435 TAATTTTGTAAATTGAGGCTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
42500462 TAATTTTGTAAATCGAGGGTAAGACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
42500489 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * * **
42500516 TAATTCTATTAATCGAAGGTAAGGC-G
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
42500542 TAATTCCT-TAAATCGAGGGTAAAATGG
1 TAATT-CTGTAAATCGAGGGTAAAACGG
* * **
42500569 TAATTCTATAAATTGAGGGTAAAACAA
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
42500596 TAATTTTGTAAATCGAGGGTAAGACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
42500623 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
42500650 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
42500677 TAATTTTGTAAATCGGGGGTA
1 TAATTCTGTAAATCGAGGGTA
42500698 CTTTGATAAT
Statistics
Matches: 197, Mismatches: 36, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
26 20 0.10
27 177 0.90
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGG
Found at i:42500708 original size:81 final size:80
Alignment explanation
Indices: 42500435--42500697 Score: 321
Period size: 81 Copynumber: 3.3 Consensus size: 80
42500425 GGTATTTCAA
* * * * * * * * *
42500435 TAATTTTGTAAATTGAGGCTAAAATGGTAATTTTGTAAATCGAGGGTAAGACGGTAATTCTGTAA
1 TAATTTTGTAAATCGAGGGTAAGA-CGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAA
*
42500500 ATCGAGGGTAAAATGG
65 ATCGAGGGTAAAACGG
* * * * *
42500516 TAATTCTATTAATCGAAGGTAAGGCGTAATTCCT-TAAATCGAGGGTAAAATGGTAATTCTATAA
1 TAATTTTGTAAATCGAGGGTAAGACGTAATT-CTATAAATCGAGGGTAAAATGGTAATTCTATAA
* **
42500580 ATTGAGGGTAAAACAA
65 ATCGAGGGTAAAACGG
42500596 TAATTTTGTAAATCGAGGGTAAGACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAA
1 TAATTTTGTAAATCGAGGGTAAGAC-GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAA
42500661 ATCGAGGGTAAAACGG
65 ATCGAGGGTAAAACGG
*
42500677 TAATTTTGTAAATCGGGGGTA
1 TAATTTTGTAAATCGAGGGTA
42500698 CTTTGATAAT
Statistics
Matches: 153, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
80 67 0.44
81 86 0.56
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (80 bp):
TAATTTTGTAAATCGAGGGTAAGACGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAA
TCGAGGGTAAAACGG
Found at i:42500735 original size:81 final size:81
Alignment explanation
Indices: 42500432--42500724 Score: 248
Period size: 81 Copynumber: 3.6 Consensus size: 81
42500422 AGGGGTATTT
* * * * * * ** * ** *
42500432 CAATAATTTTGTAAATTGAGGCTAAAATGGTAATTTTGTAAATCGAGGGTAAGACGGTAATTCTG
1 CAATAATTTTGTAAATCGAGGGTAAGACGATAATTCTACAAATCGAGGGTAAAATAGTAATTCTA
42500497 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
*** * * * * * * *
42500513 TGGTAATTCTATTAATCGAAGGTAAGGCG-TAATTCCT-TAAATCGAGGGTAAAATGGTAATTCT
1 CAATAATTTTGTAAATCGAGGGTAAGACGATAATT-CTACAAATCGAGGGTAAAATAGTAATTCT
*
42500576 ATAAATTGAGGGTAAAA
65 ATAAATCGAGGGTAAAA
* * *
42500593 CAATAATTTTGTAAATCGAGGGTAAGACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTA
1 CAATAATTTTGTAAATCGAGGGTAAGACGATAATTCTACAAATCGAGGGTAAAATAGTAATTCTA
42500658 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
** * **** * *
42500674 CGGTAATTTTGTAAATCGGGGGTACTTTGATAATTTTACAAGTCGAGGGTA
1 CAATAATTTTGTAAATCGAGGGTAAGACGATAATTCTACAAATCGAGGGTA
42500725 TTTCAGTAAT
Statistics
Matches: 172, Mismatches: 37, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
80 67 0.39
81 105 0.61
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.31
Consensus pattern (81 bp):
CAATAATTTTGTAAATCGAGGGTAAGACGATAATTCTACAAATCGAGGGTAAAATAGTAATTCTA
TAAATCGAGGGTAAAA
Found at i:42502703 original size:6 final size:6
Alignment explanation
Indices: 42502692--42502808 Score: 78
Period size: 6 Copynumber: 18.8 Consensus size: 6
42502682 TATCAAAACT
* * *
42502692 AGAATC AGAATC AAAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * * *
42502741 AGTATC AGTATC AGGTAA-C AGAATC AAAATC AGAATC AGTATC AGGTAA-C
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC
*
42502791 AGAATC AAAAATC AGAAT
1 AGAATC -AGAATC AGAAT
42502809 GTGAATGCAA
Statistics
Matches: 87, Mismatches: 14, Indels: 20
0.72 0.12 0.17
Matches are distributed among these distances:
5 5 0.06
6 66 0.76
7 13 0.15
8 3 0.03
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:42502728 original size:31 final size:31
Alignment explanation
Indices: 42502692--42502808 Score: 117
Period size: 31 Copynumber: 3.5 Consensus size: 31
42502682 TATCAAAACT
* *
42502692 AGAATCAGAATCAAAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATTAGGTAAC
42502723 AGAATCAGAATCAGAATCAGTATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAG-A--A-T-T-AGGTAAC
* * *
42502760 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATTAGGTAAC
*
42502791 AGAATCAAAAATCAGAAT
1 AGAATC-AGAATCAGAAT
42502809 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 13
0.80 0.05 0.14
Matches are distributed among these distances:
31 32 0.43
32 12 0.16
33 1 0.01
34 2 0.03
35 1 0.01
36 1 0.01
37 25 0.34
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATTAGGTAAC
Found at i:42502748 original size:37 final size:37
Alignment explanation
Indices: 42502692--42502785 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
42502682 TATCAAAACT
** * *
42502692 AGAATCAGAATCAAAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGTATCAGAATCAGGTAACAGAATC
*
42502729 AGAATCAGAATCAGTATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGTATCAGAATCAGGTAACAGAATC
*
42502766 AAAATCAGAATCAGTATCAG
1 AGAATCAGAATCAGTATCAG
42502786 GTAACAGAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGTATCAGAATCAGGTAACAGAATC
Found at i:42503491 original size:27 final size:27
Alignment explanation
Indices: 42503215--42503490 Score: 365
Period size: 27 Copynumber: 10.3 Consensus size: 27
42503205 AGGGCAAAAT
* * * *
42503215 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42503242 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42503269 GGTAATTTTACCTTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42503295 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42503322 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42503349 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42503376 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42503403 GGTAATTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42503430 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
42503457 AGTAATTTTACCCTAAAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
42503484 GGTAATT
1 GGTAATT
42503491 TCACAAATCA
Statistics
Matches: 217, Mismatches: 31, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 23 0.11
27 194 0.89
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:42503504 original size:54 final size:54
Alignment explanation
Indices: 42503215--42503521 Score: 332
Period size: 54 Copynumber: 5.7 Consensus size: 54
42503205 AGGGCAAAAT
* ** * * * * *
42503215 GGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCATACAGGGGTATTTCGGTAATTTTACCCTACAAGGGTATTTC
* * * * *
42503269 GGTAATTTTACCTTACA-GGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCATACAGGGGTATTTCGGTAATTTTACCCTACAAGGGTATTTC
* * * * *
42503322 GGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCATACAGGGGTATTTCGGTAATTTTACCCTACAAGGGTATTTC
*
42503376 GGTAATTCTACCTTACAGGGGTATTTCGGTAATTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCATACAGGGGTATTTCGGTAATTTTACCCTACAAGGGTATTTC
* * * * * *
42503430 GATAATTCTACCCTATAGGGGTATTTCAGTAATTTTACCCTAAAAGGGTATTTT
1 GGTAATTCTACCATACAGGGGTATTTCGGTAATTTTACCCTACAAGGGTATTTC
* *
42503484 GGTAATT-T-CACAAATCAGGGGTATTTTGGTAATTTTAC
1 GGTAATTCTAC-CATA-CAGGGGTATTTCGGTAATTTTAC
42503522 AAACCAGGGG
Statistics
Matches: 225, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
52 1 0.00
53 53 0.24
54 171 0.76
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCATACAGGGGTATTTCGGTAATTTTACCCTACAAGGGTATTTC
Found at i:42503505 original size:27 final size:27
Alignment explanation
Indices: 42503475--42503536 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
42503465 TACCCTAAAA
*
42503475 GGGTATTTTGGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTCACAAACCAG
*
42503502 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTCACAAACCAG
42503529 GGGTATTT
1 GGGTATTT
42503537 CAATAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTCACAAACCAG
Found at i:42503543 original size:27 final size:27
Alignment explanation
Indices: 42503486--42503546 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
42503476 GGTATTTTGG
* * ***
42503486 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTCAA
42503513 TAATTTTACAAACCAGGGGTATTTCAA
1 TAATTTTACAAACCAGGGGTATTTCAA
42503540 TAATTTT
1 TAATTTT
42503547 GTAAATGAGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTCAA
Found at i:42503594 original size:27 final size:27
Alignment explanation
Indices: 42503540--42503800 Score: 294
Period size: 27 Copynumber: 9.8 Consensus size: 27
42503530 GGTATTTCAA
* * *
42503540 TAATTTTGTAAAT-GAGGCTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
42503566 TAATTTTGTAAATCGAGGGTAAGACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
42503593 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * * **
42503620 TAATTCTATTAATCGAAGGTAAGGC-G
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
42503646 TAATTCCGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * **
42503673 TAATTCTATAAATTGAGGGTAAAACAA
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
42503700 TAATTTTGTAAATCGAGGGTAAGACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
42503727 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
42503754 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
42503781 TAATT-TGTAAATCGGGGGTA
1 TAATTCTGTAAATCGAGGGTA
42503801 CTTTGATAAT
Statistics
Matches: 195, Mismatches: 38, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 45 0.23
27 150 0.77
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGG
Found at i:42503825 original size:134 final size:134
Alignment explanation
Indices: 42503566--42503827 Score: 373
Period size: 134 Copynumber: 2.0 Consensus size: 134
42503556 GCTAAAATGG
* *
42503566 TAATTTTGTAAATCGAGGGTAAGACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATTA
1 TAATTTTGTAAATCGAGGGTAAGACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAA
** * * *
42503631 ATCGAAGGTAAGGCGTAATTCCGTAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAA
66 ATCGAAGGTAAAACGTAATTCCGTAAATCGAGGGTAAAATGATAATTCTACAAATCGAGGGTAAA
42503696 ACAA
131 ACAA
42503700 TAATTTTGTAAATCGAGGGTAAGACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAA
1 TAATTTTGTAAATCGAGGGTAAGACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAA
* * * *** * *
42503765 ATCGAGGGTAAAACGGTAATT-TGTAAATCGGGGGTACTTTGATAATTTTACAAGTCGAGGGTA
66 ATCGAAGGTAAAAC-GTAATTCCGTAAATCGAGGGTAAAATGATAATTCTACAAATCGAGGGTA
42503828 TTTCAGTAAT
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
134 106 0.95
135 6 0.05
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (134 bp):
TAATTTTGTAAATCGAGGGTAAGACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAA
ATCGAAGGTAAAACGTAATTCCGTAAATCGAGGGTAAAATGATAATTCTACAAATCGAGGGTAAA
ACAA
Found at i:42503838 original size:80 final size:81
Alignment explanation
Indices: 42503537--42503827 Score: 237
Period size: 80 Copynumber: 3.6 Consensus size: 81
42503527 AGGGGTATTT
* * * * * ** * ** *
42503537 CAATAATTTTGTAAAT-GAGGCTAAAATGGTAATTTTGTAAATCGAGGGTAAGACGGTAATTCTG
1 CAATAATTTTGTAAATCGAGGGTAAGACGATAATTCTACAAATCGAGGGTAAAATAGTAATTCTA
42503601 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
*** * * * * * *** *
42503617 TGGTAATTCTATTAATCGAAGGTAAGGCG-TAATTCCGTAAATCGAGGGTAAAATGGTAATTCTA
1 CAATAATTTTGTAAATCGAGGGTAAGACGATAATTCTACAAATCGAGGGTAAAATAGTAATTCTA
*
42503681 TAAATTGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * *
42503697 CAATAATTTTGTAAATCGAGGGTAAGACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTA
1 CAATAATTTTGTAAATCGAGGGTAAGACGATAATTCTACAAATCGAGGGTAAAATAGTAATTCTA
42503762 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
** * **** * *
42503778 CGGTAA-TTTGTAAATCGGGGGTACTTTGATAATTTTACAAGTCGAGGGTA
1 CAATAATTTTGTAAATCGAGGGTAAGACGATAATTCTACAAATCGAGGGTA
42503828 TTTCAGTAAT
Statistics
Matches: 170, Mismatches: 39, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
80 111 0.65
81 59 0.35
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (81 bp):
CAATAATTTTGTAAATCGAGGGTAAGACGATAATTCTACAAATCGAGGGTAAAATAGTAATTCTA
TAAATCGAGGGTAAAA
Found at i:42505797 original size:6 final size:6
Alignment explanation
Indices: 42505786--42505902 Score: 78
Period size: 6 Copynumber: 18.8 Consensus size: 6
42505776 TTATCAAACT
* * *
42505786 AGAATC AGAATC AAAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * * *
42505835 AGTATC AGTATC AGGTAA-C AGAATC AAAATC AGAATC AGTATC AGGTAA-C
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC
*
42505885 AGAATC AAAAATC AGAAT
1 AGAATC -AGAATC AGAAT
42505903 GTGAATGCAA
Statistics
Matches: 87, Mismatches: 14, Indels: 20
0.72 0.12 0.17
Matches are distributed among these distances:
5 5 0.06
6 66 0.76
7 13 0.15
8 3 0.03
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:42505822 original size:31 final size:31
Alignment explanation
Indices: 42505786--42505902 Score: 117
Period size: 31 Copynumber: 3.5 Consensus size: 31
42505776 TTATCAAACT
* *
42505786 AGAATCAGAATCAAAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATTAGGTAAC
42505817 AGAATCAGAATCAGAATCAGTATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAG-A--A-T-T-AGGTAAC
* * *
42505854 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATTAGGTAAC
*
42505885 AGAATCAAAAATCAGAAT
1 AGAATC-AGAATCAGAAT
42505903 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 13
0.80 0.05 0.14
Matches are distributed among these distances:
31 32 0.43
32 12 0.16
33 1 0.01
34 2 0.03
35 1 0.01
36 1 0.01
37 25 0.34
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATTAGGTAAC
Found at i:42505873 original size:37 final size:37
Alignment explanation
Indices: 42505788--42505879 Score: 130
Period size: 37 Copynumber: 2.5 Consensus size: 37
42505778 ATCAAACTAG
** * * *
42505788 AATCAGAATCAAAATCAGAATTAGGTGACAGAATCAG
1 AATCAGAATCAGTATCAGAATCAGGTAACAGAATCAA
*
42505825 AATCAGAATCAGTATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGAATCAGGTAACAGAATCAA
42505862 AATCAGAATCAGTATCAG
1 AATCAGAATCAGTATCAG
42505880 GTAACAGAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (37 bp):
AATCAGAATCAGTATCAGAATCAGGTAACAGAATCAA
Found at i:42506527 original size:129 final size:134
Alignment explanation
Indices: 42506308--42506604 Score: 437
Period size: 129 Copynumber: 2.3 Consensus size: 134
42506298 AGGGCAAAAT
* *
42506308 GGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCTGTATTTCTAC
1 GGTAATTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCTGTATTTCTAC
* *
42506373 CCTACAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTA
66 CCTACAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTA
42506438 TTTC
131 TTTC
* *
42506442 GGTAATTCTACCCTACATGGGTATTTCG-T-ATTCTACCCTACA-GGGTATTT-TGGTA-TT-TA
1 GGTAATTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCT-GTATTTCTA
*
42506501 -CCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGG
65 CCCTAC-AGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGG
42506565 TATTTC
129 TATTTC
* * *
42506571 AGTAATTTTGCCCTACAAGGGTATTTCGGTAATT
1 GGTAATTTTACCCTACAAGGGTATTTCGATAATT
42506605 TCACAAATCA
Statistics
Matches: 148, Mismatches: 11, Indels: 11
0.87 0.06 0.06
Matches are distributed among these distances:
128 5 0.03
129 87 0.59
130 4 0.03
131 14 0.09
132 13 0.09
133 1 0.01
134 24 0.16
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (134 bp):
GGTAATTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCTGTATTTCTAC
CCTACAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTA
TTTC
Found at i:42506605 original size:27 final size:27
Alignment explanation
Indices: 42506308--42506604 Score: 392
Period size: 27 Copynumber: 11.3 Consensus size: 27
42506298 AGGGCAAAAT
* * *
42506308 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
42506335 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
42506362 TGTATTTCTACCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
42506388 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
42506415 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
42506442 GGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
42506469 -GT-ATTCTACCCTAC-AGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
42506493 GGT-ATT-TA-CCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
42506517 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
42506544 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
42506571 AGTAATTTTGCCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
42506598 GGTAATT
1 GGTAATT
42506605 TCACAAATCA
Statistics
Matches: 238, Mismatches: 26, Indels: 12
0.86 0.09 0.04
Matches are distributed among these distances:
23 5 0.02
24 22 0.09
25 20 0.08
26 26 0.11
27 165 0.69
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:42506657 original size:27 final size:27
Alignment explanation
Indices: 42506589--42506660 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
42506579 TGCCCTACAA
*
42506589 GGGTATTTCGGTAATTTCACAAATCAG
1 GGGTATTTCGGTAATTTTACAAATCAG
*
42506616 GGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTCGGTAATTTTACAAATC-AG
**
42506643 GGGTATTTCAATAATTTT
1 GGGTATTTCGGTAATTTT
42506661 GTAAATCGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.03
27 38 0.97
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCAG
Found at i:42506702 original size:19 final size:21
Alignment explanation
Indices: 42506678--42506769 Score: 64
Period size: 22 Copynumber: 4.2 Consensus size: 21
42506668 GAGGTAAAAT
42506678 GGTAAT-TT-TGTAAATCAAG
1 GGTAATATTCTGTAAATCAAG
*
42506697 GGTAATAATTCTGTAAATCGAG
1 GGTAAT-ATTCTGTAAATCAAG
* *
42506719 GGTAAGGTAATTCTATAAATCGAG
1 GGTAA--T-ATTCTGTAAATCAAG
* *
42506743 GGTAAGTAATTCT-AAAATCGAG
1 GGTAA-T-ATTCTGTAAATCAAG
42506765 GGTAA
1 GGTAA
42506770 AATGTAATTC
Statistics
Matches: 65, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.09
21 2 0.03
22 28 0.43
23 8 0.12
24 21 0.32
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (21 bp):
GGTAATATTCTGTAAATCAAG
Found at i:42506875 original size:27 final size:27
Alignment explanation
Indices: 42506662--42506899 Score: 269
Period size: 26 Copynumber: 9.5 Consensus size: 27
42506652 AATAATTTTG
* *
42506662 TAAATCGA-GGTAAAATGGTAATTTTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
* *
42506688 TAAATCAAGGGT--AA---TAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
42506710 TAAATCGAGGGT--AA-GGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
42506734 TAAATCGAGGGT--AA--GTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
42506757 -AAATCGAGGGTAAAAT-GTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
* *
42506782 TAAATCGAGGGT-AAACGGTAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
42506808 TAAATCGAGGGTAAAATGGT-ATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
42506834 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
* * *
42506861 TAAATCGAGGGTAAAACGGTAATTTTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
42506888 TAAATCG-GGGTA
1 TAAATCGAGGGTA
42506900 CTTTGATAAT
Statistics
Matches: 191, Mismatches: 11, Indels: 20
0.86 0.05 0.09
Matches are distributed among these distances:
22 31 0.16
23 9 0.05
24 23 0.12
25 14 0.07
26 68 0.36
27 46 0.24
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.30
Consensus pattern (27 bp):
TAAATCGAGGGTAAAATGGTAATTCTA
Found at i:42506899 original size:53 final size:49
Alignment explanation
Indices: 42506662--42506899 Score: 265
Period size: 53 Copynumber: 4.8 Consensus size: 49
42506652 AATAATTTTG
* * * *
42506662 TAAATCGA-GGTAAAATGGTAATTTTGTAAATCAAGGGTAA-TAATTCTG
1 TAAATCGAGGGTAAAA-GGTAATTCTATAAATCGAGGGTAAGTAATTCTA
42506710 TAAATCGAGGGT--AAGGTAATTCTATAAATCGAGGGTAAGTAATTCTA
1 TAAATCGAGGGTAAAAGGTAATTCTATAAATCGAGGGTAAGTAATTCTA
* *
42506757 -AAATCGAGGGTAAAATGTAATTCTATAAATCGAGGGTAAACGGTAATTCTG
1 TAAATCGAGGGTAAAAGGTAATTCTATAAATCGAGGGT-AA--GTAATTCTA
42506808 TAAATCGAGGGTAAAATGGT-ATTCTATAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAA-GGTAATTCTATAAATCGAGGGT--AA--GTAATTCTA
* *
42506861 TAAATCGAGGGTAAAACGGTAATTTTGTAAATCG-GGGTA
1 TAAATCGAGGGTAAAA-GGTAATTCTATAAATCGAGGGTA
42506900 CTTTGATAAT
Statistics
Matches: 167, Mismatches: 12, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
46 32 0.19
47 9 0.05
48 31 0.19
49 5 0.03
51 9 0.05
52 33 0.20
53 37 0.22
54 11 0.07
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.30
Consensus pattern (49 bp):
TAAATCGAGGGTAAAAGGTAATTCTATAAATCGAGGGTAAGTAATTCTA
Found at i:42506910 original size:53 final size:50
Alignment explanation
Indices: 42506653--42506926 Score: 233
Period size: 53 Copynumber: 5.4 Consensus size: 50
42506643 GGGTATTTCA
* * * * *
42506653 ATAATTTTGTAAATCGA-GGTAAAATGGTAATTTTGTAAATCAAGGGTA--
1 ATAATTCTATAAATCGAGGGTAAAA-GGTAATTCTATAAATCGAGGGTATG
* *
42506701 ATAATTCTGTAAATCGAGGGT--AAGGTAATTCTATAAATCGAGGGTAAG
1 ATAATTCTATAAATCGAGGGTAAAAGGTAATTCTATAAATCGAGGGTATG
* *
42506749 -TAATTCTA-AAATCGAGGGTAAAATGTAATTCTATAAATCGAGGGTAAACG
1 ATAATTCTATAAATCGAGGGTAAAAGGTAATTCTATAAATCGAGGGT--ATG
* *
42506799 GTAATTCTGTAAATCGAGGGTAAAATGGT-ATTCTATAAATCGAGGGTAAAATG
1 ATAATTCTATAAATCGAGGGTAAAA-GGTAATTCTATAAATCGAGGGT---ATG
* * *
42506852 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCG-GGGTACTTTG
1 ATAATTCTATAAATCGAGGGTAAAA-GGTAATTCTATAAATCGAGGGTA---TG
* * *
42506905 ATAATTTTACAAGTCGAGGGTA
1 ATAATTCTATAAATCGAGGGTA
42506927 TTTCAGTAAT
Statistics
Matches: 193, Mismatches: 18, Indels: 25
0.82 0.08 0.11
Matches are distributed among these distances:
46 31 0.16
47 9 0.05
48 39 0.20
49 3 0.02
50 3 0.02
51 7 0.04
52 33 0.17
53 57 0.30
54 11 0.06
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (50 bp):
ATAATTCTATAAATCGAGGGTAAAAGGTAATTCTATAAATCGAGGGTATG
Found at i:42508894 original size:6 final size:6
Alignment explanation
Indices: 42508883--42508999 Score: 78
Period size: 6 Copynumber: 18.8 Consensus size: 6
42508873 TATCAAAACT
* * *
42508883 AGAATC AGAATC AAAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * * *
42508932 AGTATC AGTATC AGGTAA-C AGAATC AAAATC AGAATC AGTATC AGGTAA-C
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC
*
42508982 AGAATC AAAAATC AGAAT
1 AGAATC -AGAATC AGAAT
42509000 GTGAATGCAA
Statistics
Matches: 87, Mismatches: 14, Indels: 20
0.72 0.12 0.17
Matches are distributed among these distances:
5 5 0.06
6 66 0.76
7 13 0.15
8 3 0.03
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:42508919 original size:31 final size:31
Alignment explanation
Indices: 42508883--42508999 Score: 117
Period size: 31 Copynumber: 3.5 Consensus size: 31
42508873 TATCAAAACT
* *
42508883 AGAATCAGAATCAAAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATTAGGTAAC
42508914 AGAATCAGAATCAGAATCAGTATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAG-A--A-T-T-AGGTAAC
* * *
42508951 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATTAGGTAAC
*
42508982 AGAATCAAAAATCAGAAT
1 AGAATC-AGAATCAGAAT
42509000 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 13
0.80 0.05 0.14
Matches are distributed among these distances:
31 32 0.43
32 12 0.16
33 1 0.01
34 2 0.03
35 1 0.01
36 1 0.01
37 25 0.34
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATTAGGTAAC
Found at i:42508939 original size:37 final size:37
Alignment explanation
Indices: 42508883--42508976 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
42508873 TATCAAAACT
** * *
42508883 AGAATCAGAATCAAAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGTATCAGAATCAGGTAACAGAATC
*
42508920 AGAATCAGAATCAGTATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGTATCAGAATCAGGTAACAGAATC
*
42508957 AAAATCAGAATCAGTATCAG
1 AGAATCAGAATCAGTATCAG
42508977 GTAACAGAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGTATCAGAATCAGGTAACAGAATC
Found at i:42509426 original size:27 final size:28
Alignment explanation
Indices: 42509364--42509427 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
42509354 TAGTCACTTG
*
42509364 CCCACAAGGGCAAAACAGTCATTTAACA
1 CCCACAAGGGCAAAACAGTAATTTAACA
* ** *
42509392 CCC-TAAGGGCAAAATGGTAATTTTAC-
1 CCCACAAGGGCAAAACAGTAATTTAACA
42509418 CCCACAAGGG
1 CCCACAAGGG
42509428 TATCTCGATA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.10
27 23 0.79
28 3 0.10
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (28 bp):
CCCACAAGGGCAAAACAGTAATTTAACA
Found at i:42509711 original size:27 final size:27
Alignment explanation
Indices: 42509407--42509710 Score: 437
Period size: 27 Copynumber: 11.3 Consensus size: 27
42509397 AGGGCAAAAT
* * *
42509407 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
42509434 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
42509461 TGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
42509488 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
42509515 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
42509542 GGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
42509569 GTTAGTTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
42509596 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
42509623 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
42509650 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
42509677 AGTAATTTTGCCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
42509704 GGTAATT
1 GGTAATT
42509711 TCACAAATCA
Statistics
Matches: 246, Mismatches: 31, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 246 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:42509751 original size:81 final size:81
Alignment explanation
Indices: 42509444--42509767 Score: 312
Period size: 81 Copynumber: 4.0 Consensus size: 81
42509434 GATAATTCTA
* * * ** ** *
42509444 CCCTACAGGGGTATTTCTGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGG
1 CCCTACAAGGGTATTTCGGTAATTCTACAATACAAGGGTATTTCGATAATTCTACCAAACAGGGG
* * *
42509509 TATTTCGGTAATTCTA
66 TATTTCAGTAATTTTG
* ** * * * **
42509525 CCCTACAGGGGTATTTCGGTAATTCTACCCTACATGGGTATTTCGTTAGTTCTACCCTACAGGGG
1 CCCTACAAGGGTATTTCGGTAATTCTACAATACAAGGGTATTTCGATAATTCTACCAAACAGGGG
** * *
42509590 TATTTTGGTAATTCTA
66 TATTTCAGTAATTTTG
** **
42509606 CCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGG
1 CCCTACAAGGGTATTTCGGTAATTCTACAATACAAGGGTATTTCGATAATTCTACCAAACAGGGG
42509671 TATTTCAGTAATTTTG
66 TATTTCAGTAATTTTG
* * * *
42509687 CCCTACAAGGGTATTTCGGTAATT-TCACAA-ATCAGGGGTATTTTGGTAATTTTA-CAAACTAG
1 CCCTACAAGGGTATTTCGGTAATTCT-ACAATA-CAAGGGTATTTCGATAATTCTACCAAAC-AG
*
42509749 GGGTATTTCAATAATTTTG
63 GGGTATTTCAGTAATTTTG
42509768 TAAATCGAGG
Statistics
Matches: 216, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
80 5 0.02
81 211 0.98
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (81 bp):
CCCTACAAGGGTATTTCGGTAATTCTACAATACAAGGGTATTTCGATAATTCTACCAAACAGGGG
TATTTCAGTAATTTTG
Found at i:42509763 original size:27 final size:27
Alignment explanation
Indices: 42509695--42509766 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
42509685 TGCCCTACAA
*
42509695 GGGTATTTCGGTAATTTCACAAATCAG
1 GGGTATTTCGGTAATTTTACAAATCAG
*
42509722 GGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTCGGTAATTTTACAAATC-AG
**
42509749 GGGTATTTCAATAATTTT
1 GGGTATTTCGGTAATTTT
42509767 GTAAATCGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.03
27 38 0.97
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCAG
Found at i:42509790 original size:27 final size:27
Alignment explanation
Indices: 42509760--42510047 Score: 371
Period size: 27 Copynumber: 10.7 Consensus size: 27
42509750 GGTATTTCAA
* *
42509760 TAATTTTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * *
42509787 TAATTTTGTAAATCAAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
42509814 TAATTCTGTAAATCGAGGGTAAGACCG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * *
42509841 TAATTCTATAAATCGAGGGTAAAATGT
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
42509868 TAATTCTATAAATCGAGGGTAAGACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
42509895 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * *
42509922 TCATTCTATAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
42509949 TAATTCTGTAAATCGAGGGTAAGACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
42509976 TAATTCTGTAAATCGAGGGTAAAATGA
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
42510003 TAATTCTATAAATCGAGAGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
42510030 TAATTCTATAAATC-AGGG
1 TAATTCTGTAAATCGAGGG
42510048 GTACTTTGAT
Statistics
Matches: 228, Mismatches: 33, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
26 3 0.01
27 225 0.99
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGG
Found at i:42517224 original size:24 final size:24
Alignment explanation
Indices: 42517197--42517332 Score: 191
Period size: 24 Copynumber: 5.7 Consensus size: 24
42517187 GAAATGATTT
* *
42517197 TGGCACTATGTGTGTGAATTTGAA
1 TGGCACTATGTGTGCGAATTTGTA
42517221 TGGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGTA
*
42517245 TGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGAATTTGTA
*
42517269 TGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGAATTTGTA
* * **
42517293 TGGCACTATGTATGTGAATTACTA
1 TGGCACTATGTGTGCGAATTTGTA
*
42517317 AGGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
42517333 GGTTAACATG
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 101 1.00
ACGTcount: A:0.21, C:0.12, G:0.30, T:0.36
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGTA
Found at i:42517349 original size:72 final size:72
Alignment explanation
Indices: 42517197--42517350 Score: 191
Period size: 72 Copynumber: 2.1 Consensus size: 72
42517187 GAAATGATTT
* * ** *
42517197 TGGCACTATGTGTGTGAATTTGAATGGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTATGCGAATTACTAAGGCACTATGTGTGCGG
***
42517262 ATTTGTA
66 ATTAACA
* * *
42517269 TGGCACTATGTGTGCGGATTTGTATGGCACTATGTATGTGAATTACTAAGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTATGCGAATTACTAAGGCACTATGTGTGCGG
*
42517334 GTTAACA
66 ATTAACA
*
42517341 TGGTACTATG
1 TGGCACTATG
42517351 GATATGAATT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.22, C:0.12, G:0.30, T:0.36
Consensus pattern (72 bp):
TGGCACTATGTGTGCGAATTTGAATGGCACTATGTATGCGAATTACTAAGGCACTATGTGTGCGG
ATTAACA
Found at i:42520283 original size:28 final size:28
Alignment explanation
Indices: 42520218--42520318 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
42520208 ATAGTGAATC
*
42520218 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
42520247 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
42520275 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
42520305 CGCACACTTAGTGC
1 CGCACACTTAGTGC
42520319 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:42524661 original size:30 final size:30
Alignment explanation
Indices: 42524597--42524663 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
42524587 CCACACAGCC
* *
42524597 AGACACACGGGCGTGTGACTTGGCATTGTA
1 AGACACACAGGCGTGTGACTTGGCAGTGTA
* *
42524627 AGACACACAGGCGTGTGACTTGGCGGTGTG
1 AGACACACAGGCGTGTGACTTGGCAGTGTA
42524657 AGACACA
1 AGACACA
42524664 TAGCTAGACA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.21, G:0.34, T:0.19
Consensus pattern (30 bp):
AGACACACAGGCGTGTGACTTGGCAGTGTA
Found at i:42531076 original size:40 final size:40
Alignment explanation
Indices: 42531017--42531184 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
42531007 CGGAATAGAA
* * *
42531017 CCGGATATAACCACACGCACGAATGCCTTTGGGTCTTAGC
1 CCGGATATAACGACTCGCACGAATGCCTTCGGGTCTTAGC
* *
42531057 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACGACTCGCACGAATGCCTTCGGGTCTTAGC
* *
42531097 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTCGCACGAATGCCTTCGGGTCTTAGC
* * *
42531137 CTGGATA-AA-GTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACG--ACTCGCACGAA-TGCCTTCGGGTCTTAGC
42531177 CCGGATAT
1 CCGGATAT
42531185 CATTCAATTG
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.04
40 106 0.96
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAACGACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:42531157 original size:80 final size:80
Alignment explanation
Indices: 42531017--42531184 Score: 223
Period size: 80 Copynumber: 2.1 Consensus size: 80
42531007 CGGAATAGAA
* * *
42531017 CCGGATATAACCACACGCACGAATGCCTTTGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
42531082 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** * *
42531097 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCTGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
42531160 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
42531177 CCGGATAT
1 CCGGATAT
42531185 CATTCAATTG
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 74 0.96
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:42536683 original size:15 final size:15
Alignment explanation
Indices: 42536663--42536692 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42536653 TATATACAAA
42536663 TATATATATATGTGT
1 TATATATATATGTGT
*
42536678 TATATATGTATGTGT
1 TATATATATATGTGT
42536693 AATTGAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (15 bp):
TATATATATATGTGT
Found at i:42537144 original size:24 final size:24
Alignment explanation
Indices: 42537117--42537190 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 24
42537107 GGGTCAACAT
* *
42537117 TGGCATTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * *
42537141 TGGCACTATGTGTGTGAAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
42537165 TGGCACTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
42537189 TG
1 TG
42537191 TCAATACATG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.24, C:0.09, G:0.31, T:0.35
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:42537188 original size:48 final size:47
Alignment explanation
Indices: 42537117--42537274 Score: 129
Period size: 48 Copynumber: 3.3 Consensus size: 47
42537107 GGGTCAACAT
* * *
42537117 TGGCATTAAGTGTGCGGATTTGAATGGCACTATGTGTGTGAAATTGAA
1 TGGCACTATGTGTGC-GATTTGAATGGCACTATGTGTGTGAACTTGAA
* * ** * *
42537165 TGGCACTATGTGTGCTGATTTGAATGTCAATACATGAGTGAATCTTCAA
1 TGGCACTATGTGTGC-GATTTGAATGGCACTATGTGTGTGAA-CTTGAA
* * * * **
42537214 -GGCACTATGTGTACGATGTAGTATGGCACTATGTGTGCGAACTTGTT
1 TGGCACTATGTGTGCGAT-TTGAATGGCACTATGTGTGTGAACTTGAA
*
42537261 TAGCACTATGTGTG
1 TGGCACTATGTGTG
42537275 TGAAATCGGT
Statistics
Matches: 83, Mismatches: 24, Indels: 6
0.73 0.21 0.05
Matches are distributed among these distances:
47 6 0.07
48 73 0.88
49 4 0.05
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.34
Consensus pattern (47 bp):
TGGCACTATGTGTGCGATTTGAATGGCACTATGTGTGTGAACTTGAA
Found at i:42541146 original size:27 final size:27
Alignment explanation
Indices: 42540884--42541144 Score: 328
Period size: 27 Copynumber: 9.7 Consensus size: 27
42540874 CCAAAGTACT
*
42540884 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCATTTTACC
* *
42540911 CTC-AGTTTATAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCATTTTACC
* *
42540938 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCATTTTACC
* *
42540965 C-CTAATTTACATAATTACCATTTTACC
1 CTC-GATTTACAGAATTACCATTTTACC
* * * *
42540992 CCCGATTTACATAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCATTTTACC
* *
42541019 CTCGATTTACAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCATTTTACC
42541046 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCATTTTACC
* *
42541073 CTCGATTTATAGAATTACTATTTTACC
1 CTCGATTTACAGAATTACCATTTTACC
* *
42541100 CTTGATTTACAGAATTACTATTTTACC
1 CTCGATTTACAGAATTACCATTTTACC
*
42541127 CTCGATTTACAAAATTAC
1 CTCGATTTACAGAATTAC
42541145 TAAAATACCC
Statistics
Matches: 207, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.01
27 203 0.98
28 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
CTCGATTTACAGAATTACCATTTTACC
Found at i:42542457 original size:9 final size:9
Alignment explanation
Indices: 42542445--42542501 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
42542435 TTTGATAAAC
42542445 ATGATATGT
1 ATGATATGT
*
42542454 ATGATATAT
1 ATGATATGT
*
42542463 ACATGACATGT
1 --ATGATATGT
*
42542474 ATGATATGCAC
1 ATGATATG--T
42542485 ATGATATGT
1 ATGATATGT
42542494 ATGATATG
1 ATGATATG
42542502 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (9 bp):
ATGATATGT
Found at i:42542468 original size:20 final size:20
Alignment explanation
Indices: 42542443--42542513 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
42542433 ATTTTGATAA
*
42542443 ACATGATATGTATGATATAT
1 ACATGATATGTATGATATAC
* *
42542463 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATAC
*
42542483 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATAC
*
42542503 ACATGAGATGT
1 ACATGATATGT
42542514 TCATAAATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATAC
Found at i:42542590 original size:23 final size:23
Alignment explanation
Indices: 42542560--42542749 Score: 308
Period size: 23 Copynumber: 8.1 Consensus size: 23
42542550 AGGAAGTGCA
42542560 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
42542583 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
42542606 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
42542630 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
42542654 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
42542677 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
42542700 AAAGGGCTCATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
42542723 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
42542747 AAA
1 AAA
42542750 AGAGGCTAGG
Statistics
Matches: 158, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
23 92 0.58
24 66 0.42
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:42542638 original size:24 final size:23
Alignment explanation
Indices: 42542559--42542771 Score: 293
Period size: 23 Copynumber: 9.0 Consensus size: 23
42542549 GAGGAAGTGC
42542559 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
42542582 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
42542605 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
42542628 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
42542652 CAAAAGGGCTTATGCCCTAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
42542676 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
42542699 TAAAGGGCTCATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
42542723 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
42542747 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
42542771 A
1 A
42542772 TGATAAAGCA
Statistics
Matches: 175, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
23 87 0.50
24 78 0.45
25 10 0.06
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:42542719 original size:94 final size:94
Alignment explanation
Indices: 42542558--42542770 Score: 347
Period size: 94 Copynumber: 2.3 Consensus size: 94
42542548 GGAGGAAGTG
*
42542558 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTCATGCCCCA
42542623 GTTATCAAAAGGGCTTATGCCCCAGTTAT
66 GTTATCAAAAGGGCTTATGCCCCAGTTAT
*
42542652 CAAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTCATGCCCCA
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTCATGCCCCA
* *
42542717 GTTATTAAAAGGGCTTTTGCCCCAGTTAT
66 GTTATCAAAAGGGCTTATGCCCCAGTTAT
* *
42542746 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
42542771 ATGATAAAGC
Statistics
Matches: 110, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
94 100 0.91
95 10 0.09
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (94 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTCATGCCCCA
GTTATCAAAAGGGCTTATGCCCCAGTTAT
Found at i:42548731 original size:19 final size:19
Alignment explanation
Indices: 42548685--42548740 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
42548675 ACGCGCTAGG
** *
42548685 ATGCACTTCATGTGCCAAT
1 ATGCACTTTGTGTGCCAGT
42548704 ATGCACTTTGTGTGCCAGT
1 ATGCACTTTGTGTGCCAGT
*
42548723 ATGCTCTTTGTGTGCCAG
1 ATGCACTTTGTGTGCCAG
42548741 GATGTGCTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (19 bp):
ATGCACTTTGTGTGCCAGT
Found at i:42551488 original size:40 final size:40
Alignment explanation
Indices: 42551444--42551623 Score: 261
Period size: 40 Copynumber: 4.5 Consensus size: 40
42551434 CCAACCCAAT
* *
42551444 TGCCTTCGGGATTTAGCCCGGATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
*
42551484 TGCCTTCGGGACTTATCCCGGATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
*
42551524 TGCCATCGGGACTTAACCCGGATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* * * * *
42551564 TACCTTTGGGACTTAACTCGGATATAACAACTAGCATGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* *
42551604 TACCTTTGGGACTTAACCCG
1 TGCCTTCGGGACTTAACCCG
42551624 AAAAATAGGT
Statistics
Matches: 129, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 129 1.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
Found at i:42552243 original size:93 final size:93
Alignment explanation
Indices: 42552132--42552302 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
42552122 GCCCCTAAGT
* *
42552132 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAATGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGAACTCAACTCAA
42552197 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * ** * *
42552225 GAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGAACTCAACTCAA
42552290 CGAGTTCGGATGC
66 CGAGTTCGGATGC
42552303 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:42552299 original size:46 final size:46
Alignment explanation
Indices: 42552127--42552299 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
42552117 AACCCGCCCC
* * * *
42552127 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
* * *
42552173 TAAATGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTACATCCA
* * * *
42552221 TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
42552266 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
42552300 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.56
47 27 0.26
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
Found at i:42555264 original size:40 final size:40
Alignment explanation
Indices: 42555220--42555406 Score: 329
Period size: 40 Copynumber: 4.7 Consensus size: 40
42555210 CCAACCCAAT
* *
42555220 TGCCTTCGGGATTTAGCCCGGATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
*
42555260 TGCCTTCGGGACTTATCCCGGATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
42555300 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* *
42555340 TGCCTTCGGGACTTAACCCGAATATAACAACTAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
42555380 TGCCTTCGGGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGATATAA
42555407 TCCTCAATTG
Statistics
Matches: 141, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.20
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
Found at i:42565118 original size:23 final size:23
Alignment explanation
Indices: 42565088--42565134 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
42565078 TCGTCCCAAG
42565088 ACACAAATATAACCGTTAGTGCT
1 ACACAAATATAACCGTTAGTGCT
42565111 ACACAAATATAACCGTTAGTGCT
1 ACACAAATATAACCGTTAGTGCT
42565134 A
1 A
42565135 GAAGTCCTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (23 bp):
ACACAAATATAACCGTTAGTGCT
Found at i:42570545 original size:16 final size:16
Alignment explanation
Indices: 42570507--42570547 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
42570497 TAACAGTTAC
42570507 TTATTTTT-TTAACAT
1 TTATTTTTATTAACAT
*
42570522 TTACTTTTATTACACA-
1 TTATTTTTATTA-ACAT
42570538 TTATTTTTAT
1 TTATTTTTAT
42570548 GTTAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 7 0.32
16 12 0.55
17 3 0.14
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATTTTTATTAACAT
Found at i:42573883 original size:46 final size:47
Alignment explanation
Indices: 42573786--42573913 Score: 125
Period size: 46 Copynumber: 2.7 Consensus size: 47
42573776 CTGTATTAAC
* * *
42573786 TAGAACACATTAAATAAACTTAAGACATATTAAATGGCTGAACTAAT
1 TAGAACACATTAAATAAACTTAAGACATATTAAATGACCGAACTAAG
* * * *
42573833 TAGAATACATT-AATTAACTTAAGGCATATTAACT-ACCGAATCTAAG
1 TAGAACACATTAAATAAACTTAAGACATATTAAATGACCGAA-CTAAG
* * ** *
42573879 TAGAACATATTAAATAGACACAAGACACATTAAAT
1 TAGAACACATTAAATAAACTTAAGACATATTAAAT
42573914 ACTTAACTAA
Statistics
Matches: 63, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
45 4 0.06
46 33 0.52
47 26 0.41
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.27
Consensus pattern (47 bp):
TAGAACACATTAAATAAACTTAAGACATATTAAATGACCGAACTAAG
Found at i:42577649 original size:12 final size:12
Alignment explanation
Indices: 42577632--42577663 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
42577622 GATCACATTG
42577632 CCGTGTCCCAAC
1 CCGTGTCCCAAC
*
42577644 CCGTGTCCTAAC
1 CCGTGTCCCAAC
42577656 CCGTGTCC
1 CCGTGTCC
42577664 GACCTCTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.47, G:0.19, T:0.22
Consensus pattern (12 bp):
CCGTGTCCCAAC
Found at i:42579813 original size:27 final size:27
Alignment explanation
Indices: 42579783--42579939 Score: 158
Period size: 27 Copynumber: 5.9 Consensus size: 27
42579773 CTTTAATCGA
* *
42579783 TAAAATAATTGTTTTGCCCTTATAGGG
1 TAAAATGACTGTTTTGCCCTTATAGGG
* * *
42579810 TAAAATGGCTATTTTGCCCTTATAAGG
1 TAAAATGACTGTTTTGCCCTTATAGGG
*
42579837 TAAAATGACTGTTTT-CCCCTAT-GAGG
1 TAAAATGACTGTTTTGCCCTTATAG-GG
* *
42579863 TAAAATGATTGTTTTACCCTTAT-GTGG
1 TAAAATGACTGTTTTGCCCTTATAG-GG
* *
42579890 TAAAATGACTGTTTTGCCCTTTTATGG
1 TAAAATGACTGTTTTGCCCTTATAGGG
* * *
42579917 TAAGATGACTATTTTACCCTTAT
1 TAAAATGACTGTTTTGCCCTTAT
42579940 GTGATGTATG
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 22 0.21
27 85 0.79
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATAGGG
Found at i:42579883 original size:53 final size:54
Alignment explanation
Indices: 42579808--42579939 Score: 167
Period size: 53 Copynumber: 2.5 Consensus size: 54
42579798 GCCCTTATAG
* *
42579808 GGTAAAATGGCTATTTTGCCCTTATAAGGTAAAATGACTGTTTTCCCCTATGA-
1 GGTAAAATGACTATTTTACCCTTATAAGGTAAAATGACTGTTTTCCCCTATGAT
* * ** * * *
42579861 GGTAAAATGATTGTTTTACCCTTATGTGGTAAAATGACTGTTTTGCCCTTTTAT
1 GGTAAAATGACTATTTTACCCTTATAAGGTAAAATGACTGTTTTCCCCTATGAT
*
42579915 GGTAAGATGACTATTTTACCCTTAT
1 GGTAAAATGACTATTTTACCCTTAT
42579940 GTGATGTATG
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
53 44 0.67
54 22 0.33
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (54 bp):
GGTAAAATGACTATTTTACCCTTATAAGGTAAAATGACTGTTTTCCCCTATGAT
Found at i:42579919 original size:80 final size:80
Alignment explanation
Indices: 42579783--42579936 Score: 211
Period size: 80 Copynumber: 1.9 Consensus size: 80
42579773 CTTTAATCGA
* * *
42579783 TAAAATAATTGTTTTGCCCTTATAGGGTAAAATGGCTATTTTGCCCTTATAAGGTAAAATGACTG
1 TAAAATAATTGTTTTACCCTTATAGGGTAAAATGACTATTTTGCCCTTATAAGGTAAAATGACTA
*
42579848 TTTTCCCCTATGAGG
66 TTTTACCCTATGAGG
* * * * *
42579863 TAAAATGATTGTTTTACCCTTAT-GTGGTAAAATGACTGTTTTGCCCTTTTATGGTAAGATGACT
1 TAAAATAATTGTTTTACCCTTATAG-GGTAAAATGACTATTTTGCCCTTATAAGGTAAAATGACT
42579927 ATTTTACCCT
65 ATTTTACCCT
42579937 TATGTGATGT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
79 1 0.02
80 63 0.98
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (80 bp):
TAAAATAATTGTTTTACCCTTATAGGGTAAAATGACTATTTTGCCCTTATAAGGTAAAATGACTA
TTTTACCCTATGAGG
Found at i:42583762 original size:27 final size:27
Alignment explanation
Indices: 42583731--42583994 Score: 311
Period size: 27 Copynumber: 9.8 Consensus size: 27
42583721 CCTTAATCGA
* * *
42583731 TAAAATGACTATTTTTCCTTTAT-AGGG
1 TAAAATGACTGTTTTGCCCTTATGA-GG
*
42583758 TAAAAT-ACCTGTTTTGCCCTTATAAGG
1 TAAAATGA-CTGTTTTGCCCTTATGAGG
*
42583785 TAAAATGACTGTTTTGCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
42583812 TAAAATGCCTGTTTTGCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
42583839 TAAAATTG-TTGTTTTGCCCTTATGAGG
1 TAAAA-TGACTGTTTTGCCCTTATGAGG
* *
42583866 TAAAATGACTATTTTTCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
42583893 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
42583920 TAAAATGATTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
42583947 TAAAATGATTGTTTTGCCCTT-TTATGG
1 TAAAATGACTGTTTTGCCCTTATGA-GG
* *
42583974 TAAGATGACTGTTTTACCCTT
1 TAAAATGACTGTTTTGCCCTT
42583995 GTGTGATGTA
Statistics
Matches: 211, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
26 4 0.02
27 203 0.96
28 4 0.02
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGAGG
Found at i:42584334 original size:18 final size:18
Alignment explanation
Indices: 42584311--42584345 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
42584301 AGGACTTGCA
42584311 TACTGTTTACTGTTACTG
1 TACTGTTTACTGTTACTG
42584329 TACTGTTTACTGTTACT
1 TACTGTTTACTGTTACT
42584346 AAATTAGGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.51
Consensus pattern (18 bp):
TACTGTTTACTGTTACTG
Found at i:42589857 original size:2 final size:2
Alignment explanation
Indices: 42589850--42589880 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
42589840 TTATGTTCAT
42589850 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
42589881 TTAATAAATC
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:42593801 original size:28 final size:28
Alignment explanation
Indices: 42593736--42593836 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
42593726 ATAGTGAATC
*
42593736 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
42593765 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
42593793 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
42593823 CGCACACTTAGTGC
1 CGCACACTTAGTGC
42593837 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:42601711 original size:28 final size:28
Alignment explanation
Indices: 42601646--42601746 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
42601636 ATAGTGAATC
*
42601646 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
42601675 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
42601703 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
42601733 CGCACACTTAGTGC
1 CGCACACTTAGTGC
42601747 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:42604109 original size:37 final size:37
Alignment explanation
Indices: 42604068--42604155 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 37
42604058 TGTGACACAA
* * *
42604068 GTTTAGATTTGACGAGTAACCTAATGTCATTTTATAG
1 GTTTAGACTGGACGAGTAACCTAATGTCAGTTTATAG
* * * *
42604105 GTTTAGCCTGGACGGGTAACCTAATTTCGGTTTATAG
1 GTTTAGACTGGACGAGTAACCTAATGTCAGTTTATAG
42604142 GTTTA-ACCTGGACG
1 GTTTAGA-CTGGACG
42604156 GGTAGCCTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (37 bp):
GTTTAGACTGGACGAGTAACCTAATGTCAGTTTATAG
Found at i:42604156 original size:37 final size:37
Alignment explanation
Indices: 42604078--42604159 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
42604068 GTTTAGATTT
* * *
42604078 GACGAGTAACCTAATGTCATTTTATAGGTTTAGCCTG
1 GACGGGTAACCTAATGTCAGTTTATAGGTTTAACCTG
* *
42604115 GACGGGTAACCTAATTTCGGTTTATAGGTTTAACCTG
1 GACGGGTAACCTAATGTCAGTTTATAGGTTTAACCTG
42604152 GACGGGTA
1 GACGGGTA
42604160 GCCTTACATG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (37 bp):
GACGGGTAACCTAATGTCAGTTTATAGGTTTAACCTG
Found at i:42604784 original size:2 final size:2
Alignment explanation
Indices: 42604777--42604808 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
42604767 TGAGCTTTGA
42604777 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42604809 GGTAATCTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42611689 original size:20 final size:20
Alignment explanation
Indices: 42611646--42611691 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
42611636 ACTATTTTGT
42611646 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
42611666 -ATGGGCTCAACTGTGTT-AA
1 TATGGGC-CAACTGTATTGAA
42611685 TATGGGC
1 TATGGGC
42611692 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:42616830 original size:24 final size:24
Alignment explanation
Indices: 42616803--42616854 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
42616793 CCACACGGGG
42616803 GTGTGGCCGCCCGTGTGGCAGGCC
1 GTGTGGCCGCCCGTGTGGCAGGCC
42616827 GTGTGGCCGCCCGTGTGGCAGGCC
1 GTGTGGCCGCCCGTGTGGCAGGCC
42616851 GTGT
1 GTGT
42616855 AACAAAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.04, C:0.31, G:0.46, T:0.19
Consensus pattern (24 bp):
GTGTGGCCGCCCGTGTGGCAGGCC
Found at i:42616852 original size:12 final size:12
Alignment explanation
Indices: 42616803--42616854 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
42616793 CCACACGGGG
*
42616803 GTGTGGCCGCCC
1 GTGTGGCAGCCC
*
42616815 GTGTGGCAGGCC
1 GTGTGGCAGCCC
*
42616827 GTGTGGCCGCCC
1 GTGTGGCAGCCC
*
42616839 GTGTGGCAGGCC
1 GTGTGGCAGCCC
42616851 GTGT
1 GTGT
42616855 AACAAAACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.04, C:0.31, G:0.46, T:0.19
Consensus pattern (12 bp):
GTGTGGCAGCCC
Done.