Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 349 of 425
Found at i:107916592 original size:68 final size:70
Alignment explanation
Indices: 107916500--107916664 Score: 298
Period size: 68 Copynumber: 2.4 Consensus size: 70
107916490 CCTAGCCTCT
* *
107916500 TTTAGTAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACT-GGGCATA
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
107916564 AGCCC
66 AGCCC
107916569 TTTAATAACT-GGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
107916633 AGCCC
66 AGCCC
107916638 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
107916665 GCACTTCCTC
Statistics
Matches: 92, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
68 45 0.49
69 31 0.34
70 16 0.17
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (70 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
AGCCC
Found at i:107916745 original size:20 final size:20
Alignment explanation
Indices: 107916714--107916777 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
107916704 TTATGATTAC
107916714 ATCATG-GCATATCATACAT
1 ATCATGTGCATATCATACAT
107916733 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
107916753 GTCATGT--ATATCATACAT
1 ATCATGTGCATATCATACAT
*
107916771 ACCATGT
1 ATCATGT
107916778 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
18 16 0.39
19 6 0.15
20 19 0.46
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:107916782 original size:18 final size:18
Alignment explanation
Indices: 107916722--107916783 Score: 79
Period size: 18 Copynumber: 3.3 Consensus size: 18
107916712 ACATCATGGC
107916722 ATATCATACATATCATGT
1 ATATCATACATATCATGT
*
107916740 GCATATCATACATGTCATGT
1 --ATATCATACATATCATGT
*
107916760 ATATCATACATACCATGT
1 ATATCATACATATCATGT
*
107916778 TTATCA
1 ATATCA
107916784 AAATCCCATG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
18 21 0.55
20 17 0.45
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.37
Consensus pattern (18 bp):
ATATCATACATATCATGT
Found at i:107920055 original size:25 final size:25
Alignment explanation
Indices: 107920027--107920074 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
107920017 ACTCTCTCTC
107920027 GAGCCATATAA-CAGGAAGCTTATAT
1 GAGCCATATAATC-GGAAGCTTATAT
*
107920052 GAGCCATGTAATCGGAAGCTTAT
1 GAGCCATATAATCGGAAGCTTAT
107920075 CTGATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (25 bp):
GAGCCATATAATCGGAAGCTTATAT
Found at i:107920218 original size:24 final size:25
Alignment explanation
Indices: 107920191--107920242 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
107920181 TGTTCAGGCA
107920191 AGCC-ACATCGGGA-AGCTCACAAAG
1 AGCCTACATCGGGACA-CTCACAAAG
* *
107920215 AGCCTATATCGGGACACTCATAAAG
1 AGCCTACATCGGGACACTCACAAAG
107920240 AGC
1 AGC
107920243 TGTGATATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 4 0.17
25 19 0.79
26 1 0.04
ACGTcount: A:0.37, C:0.27, G:0.23, T:0.13
Consensus pattern (25 bp):
AGCCTACATCGGGACACTCACAAAG
Found at i:107920340 original size:64 final size:64
Alignment explanation
Indices: 107920226--107920346 Score: 154
Period size: 64 Copynumber: 1.9 Consensus size: 64
107920216 GCCTATATCG
** * * *
107920226 GGACACTCATAAAGAGCTGTGATATGTCCGCAATATATGCAGAATTAATACCAATCATATAATA
1 GGACACTCATAAAGAGCTCAGATATGTCCGCAACACATGCAGAATCAATACCAATCATATAATA
* * *
107920290 GGACGCTCATAAAGAGCTACAG-TATGTCCGCAACACATGCAGGATCAATACCGATCA
1 GGACACTCATAAAGAGCT-CAGATATGTCCGCAACACATGCAGAATCAATACCAATCA
107920347 GGATGCTCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
64 47 0.98
65 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.22
Consensus pattern (64 bp):
GGACACTCATAAAGAGCTCAGATATGTCCGCAACACATGCAGAATCAATACCAATCATATAATA
Found at i:107921945 original size:27 final size:27
Alignment explanation
Indices: 107921907--107921960 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
107921897 CAACCTCCAA
107921907 GAATCTTTCTCTTCTAGTGAGTTACCC
1 GAATCTTTCTCTTCTAGTGAGTTACCC
* *
107921934 GAATCTTTCTCTTTTGGTGAGTTACCC
1 GAATCTTTCTCTTCTAGTGAGTTACCC
107921961 CTAATGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (27 bp):
GAATCTTTCTCTTCTAGTGAGTTACCC
Found at i:107922029 original size:2 final size:2
Alignment explanation
Indices: 107922022--107922052 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
107922012 CTAGACACCC
107922022 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
107922053 CTTTATTTCT
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:107947258 original size:11 final size:11
Alignment explanation
Indices: 107947242--107947266 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
107947232 AGATTAATAG
107947242 TAATTATAATT
1 TAATTATAATT
107947253 TAATTATAATT
1 TAATTATAATT
107947264 TAA
1 TAA
107947267 ATAAAGATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TAATTATAATT
Found at i:107949686 original size:50 final size:50
Alignment explanation
Indices: 107949574--107949757 Score: 262
Period size: 50 Copynumber: 3.7 Consensus size: 50
107949564 CTAGTACGCA
* *
107949574 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCTGGTACACG
** *
107949623 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCTGGTACACG
* * * * *
107949673 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TTATCTGGTACACG
107949724 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
107949758 CACAATAGAT
Statistics
Matches: 118, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
49 31 0.26
50 47 0.40
51 40 0.34
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCTGGTACACG
Found at i:107949747 original size:101 final size:99
Alignment explanation
Indices: 107949574--107949757 Score: 296
Period size: 101 Copynumber: 1.8 Consensus size: 99
107949564 CTAGTACGCA
* * *
107949574 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
107949639 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACCTAACCATCTGATACACG
* * *
107949673 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
107949738 TAGTACTACACACGTGACCT
64 TAGTACTACACACGTGACCT
107949758 CACAATAGAT
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
99 29 0.38
100 3 0.04
101 45 0.58
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGTGACCTAACCATCTGATACACG
Found at i:107949928 original size:13 final size:14
Alignment explanation
Indices: 107949905--107949937 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
107949895 ATTTCATATG
107949905 ATAATAATATAATA
1 ATAATAATATAATA
107949919 ATAA-AATATAATA
1 ATAATAATATAATA
107949932 A-AATAA
1 ATAATAA
107949938 AAAGAATCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 12 0.67
14 4 0.22
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATAATATAATA
Found at i:107953145 original size:30 final size:30
Alignment explanation
Indices: 107953109--107953171 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
107953099 ATTTATTTTA
107953109 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
107953139 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
107953169 TTG
1 TTG
107953172 ATTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:107954044 original size:10 final size:10
Alignment explanation
Indices: 107954031--107954129 Score: 55
Period size: 10 Copynumber: 9.8 Consensus size: 10
107954021 TTATATTTTT
107954031 TTATAAAAAA
1 TTATAAAAAA
107954041 TTAT-AAAAA
1 TTATAAAAAA
* *
107954050 TTCTAATAAA
1 TTATAAAAAA
*
107954060 -TAT--GAAA
1 TTATAAAAAA
107954067 TTAATAAAAAAA
1 TT-AT-AAAAAA
107954079 TGT-TATAAAAA
1 T-TATA-AAAAA
*
107954090 TTCATAAAAAC
1 TT-ATAAAAAA
*
107954101 TTATAAAGAA
1 TTATAAAAAA
*
107954111 TTATAAAGAAT
1 TTATAAA-AAA
107954122 TTATAAAA
1 TTATAAAA
107954130 GAGTCATTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
7 3 0.04
8 1 0.01
9 12 0.18
10 24 0.35
11 21 0.31
12 6 0.09
13 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:107954088 original size:11 final size:10
Alignment explanation
Indices: 107954074--107954129 Score: 60
Period size: 10 Copynumber: 5.4 Consensus size: 10
107954064 AAATTAATAA
107954074 AAAAATGTTAT
1 AAAAAT-TTAT
*
107954085 AAAAATTCAT
1 AAAAATTTAT
*
107954095 AAAAACTTAT
1 AAAAATTTAT
107954105 AAAGAA-TTAT
1 AAA-AATTTAT
107954115 AAAGAATTTAT
1 AAA-AATTTAT
107954126 AAAA
1 AAAA
107954130 GAGTCATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
10 25 0.62
11 15 0.38
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (10 bp):
AAAAATTTAT
Found at i:107959985 original size:22 final size:22
Alignment explanation
Indices: 107959943--107959986 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
107959933 ATTTTAGCTC
*
107959943 AAAAAAAAAAGAGTCAAATTGA
1 AAAAAAAAAAGAGTAAAATTGA
107959965 AAAAAAAAAAG-GTAAACATTGA
1 AAAAAAAAAAGAGTAAA-ATTGA
107959987 GAGCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.68, C:0.05, G:0.14, T:0.14
Consensus pattern (22 bp):
AAAAAAAAAAGAGTAAAATTGA
Found at i:107962669 original size:30 final size:32
Alignment explanation
Indices: 107962604--107962671 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
107962594 ATGTTAGTAG
* *
107962604 GTGACTGATTTTGTCATTTTTTGATAATGTTA
1 GTGACTGATTTTATCATTTTTCGATAATGTTA
107962636 GTGACTGA-TTTATCATTTTTCGA-AA-GTTGA
1 GTGACTGATTTTATCATTTTTCGATAATGTT-A
107962666 GTGACT
1 GTGACT
107962672 AAATTGAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 3 0.09
30 9 0.27
31 13 0.39
32 8 0.24
ACGTcount: A:0.24, C:0.09, G:0.21, T:0.47
Consensus pattern (32 bp):
GTGACTGATTTTATCATTTTTCGATAATGTTA
Found at i:107962756 original size:10 final size:10
Alignment explanation
Indices: 107962741--107962797 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
107962731 AATTTACTCA
107962741 AAAAATTATT
1 AAAAATTATT
107962751 AAAAATTA-T
1 AAAAATTATT
107962760 AAAACATTATT
1 AAAA-ATTATT
*
107962771 TAAAATT-TGT
1 AAAAATTAT-T
*
107962781 AAAAAATTGTT
1 -AAAAATTATT
107962792 AAAAAT
1 AAAAAT
107962798 AGTAAATAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
9 6 0.15
10 22 0.55
11 11 0.28
12 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (10 bp):
AAAAATTATT
Found at i:107962775 original size:21 final size:20
Alignment explanation
Indices: 107962740--107962829 Score: 74
Period size: 20 Copynumber: 4.5 Consensus size: 20
107962730 TAATTTACTC
107962740 AAAAAATTATTAAAAATTAT
1 AAAAAATTATTAAAAATTAT
* * *
107962760 AAAACATTATTTAAAATTTGT
1 AAAAAATTA-TTAAAAATTAT
*
107962781 AAAAAATTGTTAAAAA-TAGT
1 AAAAAATTATTAAAAATTA-T
* * * *
107962801 AAATAGTTGTTAAAAATTGT
1 AAAAAATTATTAAAAATTAT
*
107962821 AAATAATTA
1 AAAAAATTA
107962830 ACAAATTAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
19 1 0.02
20 37 0.67
21 17 0.31
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.37
Consensus pattern (20 bp):
AAAAAATTATTAAAAATTAT
Found at i:107965056 original size:21 final size:20
Alignment explanation
Indices: 107965011--107965057 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
107965001 AAATAATAAT
*
107965011 GTAAATATAAATTTATAAATA
1 GTAAA-ATAAATTTATAAAGA
*
107965032 -TAAAATAAATTTAATTAAGA
1 GTAAAATAAATTT-ATAAAGA
107965052 GTAAAA
1 GTAAAA
107965058 ATCTCAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 8 0.36
20 9 0.41
21 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (20 bp):
GTAAAATAAATTTATAAAGA
Found at i:107966165 original size:12 final size:11
Alignment explanation
Indices: 107966146--107966175 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
107966136 TTATATTTTA
107966146 AATATATAAAT
1 AATATATAAAT
107966157 AATTATATAAAT
1 AA-TATATAAAT
107966169 AATATAT
1 AATATAT
107966176 TTATATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATAAAT
Found at i:107976889 original size:26 final size:26
Alignment explanation
Indices: 107976778--107976887 Score: 161
Period size: 26 Copynumber: 4.3 Consensus size: 26
107976768 AACTTTCTTG
*
107976778 AAATTTTATCAGGGCTAAAATCGTCA
1 AAATTTTATCAGGGGTAAAATCGTCA
**
107976804 AAATTTTATTGGGGGTAAAAT-GATCA
1 AAATTTTATCAGGGGTAAAATCG-TCA
*
107976830 AAATTTTATCAGGGTTAAAATCGTCA
1 AAATTTTATCAGGGGTAAAATCGTCA
107976856 AAATTTTATC-GGGGTAAAATCGTCA
1 AAATTTTATCAGGGGTAAAATCGTCA
107976881 AAATTTT
1 AAATTTT
107976888 TACTAGAGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
25 22 0.29
26 52 0.69
27 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (26 bp):
AAATTTTATCAGGGGTAAAATCGTCA
Found at i:107976889 original size:52 final size:52
Alignment explanation
Indices: 107976778--107976887 Score: 179
Period size: 52 Copynumber: 2.1 Consensus size: 52
107976768 AACTTTCTTG
*
107976778 AAATTTTATCAGGGCTAAAATCGTCAAAATTTTATTGGGGGTAAAATGATCA
1 AAATTTTATCAGGGCTAAAATCGTCAAAATTTTATTCGGGGTAAAATGATCA
*
107976830 AAATTTTATCAGGGTTAAAATCGTCAAAATTTTA-TCGGGGTAAAATCG-TCA
1 AAATTTTATCAGGGCTAAAATCGTCAAAATTTTATTCGGGGTAAAAT-GATCA
107976881 AAATTTT
1 AAATTTT
107976888 TACTAGAGTA
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
51 21 0.38
52 34 0.62
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTTATCAGGGCTAAAATCGTCAAAATTTTATTCGGGGTAAAATGATCA
Found at i:107978161 original size:36 final size:39
Alignment explanation
Indices: 107978114--107978207 Score: 97
Period size: 41 Copynumber: 2.4 Consensus size: 39
107978104 ACTTAATCAC
* *
107978114 TTTAATGTTAAATTAA-TATAAA-A-AT-ATTAGATTAAA
1 TTTAATATTAAATTAATTA-AAATAGATCATTAAATTAAA
*
107978150 TTTAATATTAAATCTTATTAAAATAGTATCATTAAATTAAA
1 TTTAATATTAAAT-TAATTAAAATAG-ATCATTAAATTAAA
*
107978191 TTTAATATTAAAATAAT
1 TTTAATATTAAATTAAT
107978208 CGCTTTAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
36 12 0.26
37 5 0.11
38 3 0.06
40 5 0.11
41 22 0.47
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (39 bp):
TTTAATATTAAATTAATTAAAATAGATCATTAAATTAAA
Found at i:107978227 original size:31 final size:31
Alignment explanation
Indices: 107978150--107978228 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
107978140 TTAGATTAAA
* *
107978150 TTTAATATTAAATCT--TATTAAAATAGTATC
1 TTTAATATTAAAT-TAATATTAAAATAATAGC
* *
107978180 ATTAA-ATTAAATTTAATATTAAAATAATCGC
1 TTTAATATTAAA-TTAATATTAAAATAATAGC
107978211 TTTAATATTAAATTAATA
1 TTTAATATTAAATTAATA
107978229 AAATACTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
29 7 0.17
30 5 0.12
31 22 0.55
32 6 0.15
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (31 bp):
TTTAATATTAAATTAATATTAAAATAATAGC
Found at i:107979916 original size:16 final size:16
Alignment explanation
Indices: 107979895--107979925 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
107979885 CTATGCATGC
*
107979895 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
107979911 AAAATACAAAAGACA
1 AAAATACAAAAGACA
107979926 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:107982065 original size:18 final size:19
Alignment explanation
Indices: 107982032--107982067 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
107982022 TTAAATTTAG
*
107982032 TAAATTAATTGAATTATGT
1 TAAATTAAATGAATTATGT
107982051 TAAATTAAATG-ATTATG
1 TAAATTAAATGAATTATG
107982068 GTGCCAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (19 bp):
TAAATTAAATGAATTATGT
Found at i:107982518 original size:68 final size:67
Alignment explanation
Indices: 107982446--107982595 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
107982436 CATCATGTGT
* * * *
107982446 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
107982508 ATGTAG
62 ATGTAG
** * *
107982514 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
107982579 AG
66 AG
107982581 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
107982596 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:107982551 original size:64 final size:64
Alignment explanation
Indices: 107982470--107982652 Score: 192
Period size: 67 Copynumber: 2.8 Consensus size: 64
107982460 AGACATTATG
* *
107982470 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
107982534 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
107982599 AA
63 AA
* * * *
107982601 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAG
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAG
107982653 TCGAAATATA
Statistics
Matches: 97, Mismatches: 17, Indels: 11
0.78 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:107990623 original size:22 final size:19
Alignment explanation
Indices: 107990595--107990636 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
107990585 ATGTCCATTT
107990595 TAAATATGATATTATAAAGTAA
1 TAAATATG-TATT-TAAA-TAA
107990617 TAAATATGTATTTAAATAA
1 TAAATATGTATTTAAATAA
107990636 T
1 T
107990637 GTTCAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 4 0.20
21 4 0.20
22 8 0.40
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (19 bp):
TAAATATGTATTTAAATAA
Found at i:107991431 original size:11 final size:11
Alignment explanation
Indices: 107991417--107991466 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
107991407 TATTTTCTCC
107991417 CTATTTTACTA
1 CTATTTTACTA
107991428 CTATTTTACTA
1 CTATTTTACTA
* * *
107991439 TTATGTTGCTA
1 CTATTTTACTA
**
107991450 CTATTTTGTTA
1 CTATTTTACTA
107991461 CTATTT
1 CTATTT
107991467 GGATATTGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.22, C:0.14, G:0.06, T:0.58
Consensus pattern (11 bp):
CTATTTTACTA
Found at i:107991525 original size:30 final size:30
Alignment explanation
Indices: 107991491--107991553 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
107991481 ACTTATTTTA
107991491 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* * *
107991521 TTGTTAGTTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
107991551 TTG
1 TTG
107991554 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:107992081 original size:21 final size:21
Alignment explanation
Indices: 107992057--107992099 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
107992047 TTTTTTATTT
107992057 AATTAAT-TTTTATGATGTAAA
1 AATTAATATTTTAT-ATGTAAA
*
107992078 AATTAATATTTTATATTTAAA
1 AATTAATATTTTATATGTAAA
107992099 A
1 A
107992100 TGGTGGAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (21 bp):
AATTAATATTTTATATGTAAA
Found at i:107993713 original size:6 final size:6
Alignment explanation
Indices: 107993704--107993746 Score: 77
Period size: 6 Copynumber: 7.2 Consensus size: 6
107993694 TTTGTTGCAA
*
107993704 TTTATT TTTATT TTTATT TTTATT TTTATT TTCATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT T
107993747 ACTAAATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:107994353 original size:40 final size:40
Alignment explanation
Indices: 107994265--107994356 Score: 141
Period size: 40 Copynumber: 2.3 Consensus size: 40
107994255 GATAGAGCTA
*
107994265 TAGTGGCG-TTTTTGAAAAACGCCGCTAAAGATCGAGCAT
1 TAGTGGCGCTTTTTGAAAAACACCGCTAAAGATCGAGCAT
* *
107994304 TCGCGGCGCTTTTTGAAAAACACCGCTAAAGATCGAGCAT
1 TAGTGGCGCTTTTTGAAAAACACCGCTAAAGATCGAGCAT
*
107994344 TAGTTGCGCTTTT
1 TAGTGGCGCTTTT
107994357 CAGAAAATGC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 6 0.13
40 40 0.87
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (40 bp):
TAGTGGCGCTTTTTGAAAAACACCGCTAAAGATCGAGCAT
Found at i:107994438 original size:40 final size:40
Alignment explanation
Indices: 107994394--107994499 Score: 160
Period size: 40 Copynumber: 2.6 Consensus size: 40
107994384 AAACGACGGC
* *
107994394 ATTAGCGGCTCTTTTT-GAAAAACGCCGTAATAGATCGAGA
1 ATTAGCGGCGCTTTTTAG-AAAACGCCGCAATAGATCGAGA
*
107994434 ATTAGCGGCGCTTTTTAGAAAACGCCGCAATAGATCGAGC
1 ATTAGCGGCGCTTTTTAGAAAACGCCGCAATAGATCGAGA
*
107994474 ATTAGCGGCGCTTTTCAGAAAACGCC
1 ATTAGCGGCGCTTTTTAGAAAACGCC
107994500 ATAAAAAAGT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 60 0.98
41 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (40 bp):
ATTAGCGGCGCTTTTTAGAAAACGCCGCAATAGATCGAGA
Found at i:107994510 original size:132 final size:132
Alignment explanation
Indices: 107994273--107994523 Score: 366
Period size: 132 Copynumber: 1.9 Consensus size: 132
107994263 TATAGTGGCG
* *
107994273 TTTTTGAAAAACGCCGCTAAAGATCGAGCATTCGCGGCGCTTTTTGAAAAACACCGCTAAAGATC
1 TTTTTGAAAAACGCCGCTAAAGATCGAGAATTAGCGGCGCTTTTTGAAAAACACCGCTAAAGATC
** * *
107994338 GAGCATTAGTTGCGCTTTTCAGAAAATGCCACAAAAAAGTTTAGC-AAAACGACGGCATTAGCGG
66 GAGCATTAGCGGCGCTTTTCAGAAAACGCCACAAAAAAGTTGA-CTAAAACGACGGCATTAGCGG
107994402 CTC
130 CTC
*
107994405 TTTTTGAAAAACGCCG-TAATAGATCGAGAATTAGCGGCGCTTTTT-AGAAAACGCCGC-AATAG
1 TTTTTGAAAAACGCCGCTAA-AGATCGAGAATTAGCGGCGCTTTTTGA-AAAACACCGCTAA-AG
*
107994467 ATCGAGCATTAGCGGCGCTTTTCAGAAAACGCCATAAAAAAGTTGACTAAAACGACG
63 ATCGAGCATTAGCGGCGCTTTTCAGAAAACGCCACAAAAAAGTTGACTAAAACGACG
107994524 TCGTTTGTTG
Statistics
Matches: 107, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
131 7 0.07
132 100 0.93
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (132 bp):
TTTTTGAAAAACGCCGCTAAAGATCGAGAATTAGCGGCGCTTTTTGAAAAACACCGCTAAAGATC
GAGCATTAGCGGCGCTTTTCAGAAAACGCCACAAAAAAGTTGACTAAAACGACGGCATTAGCGGC
TC
Found at i:107994604 original size:14 final size:14
Alignment explanation
Indices: 107994585--107994616 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
107994575 AAAAAATTAT
*
107994585 TTTATGATTTAGGG
1 TTTATGATTTAAGG
107994599 TTTATGATTTAAGG
1 TTTATGATTTAAGG
107994613 TTTA
1 TTTA
107994617 ATGTCTATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (14 bp):
TTTATGATTTAAGG
Found at i:107994720 original size:21 final size:21
Alignment explanation
Indices: 107994682--107994722 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
107994672 TAGAGTTTTG
*
107994682 AGTTTAGGGTTTATGGTTTAA
1 AGTTTAGGGTTTAGGGTTTAA
* *
107994703 AGTTTAGTGTTTGGGGTTTA
1 AGTTTAGGGTTTAGGGTTTA
107994723 TTATTTTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.49
Consensus pattern (21 bp):
AGTTTAGGGTTTAGGGTTTAA
Found at i:107994886 original size:2 final size:2
Alignment explanation
Indices: 107994879--107994908 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
107994869 GTCCCTTGTA
107994879 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
107994909 TTAGGGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107996338 original size:23 final size:25
Alignment explanation
Indices: 107996311--107996371 Score: 76
Period size: 23 Copynumber: 2.6 Consensus size: 25
107996301 ATACACACAC
107996311 ACATATATATATATTAAAAA-A-AT
1 ACATATATATATATTAAAAATATAT
*
107996334 ACATA-ATA-ATATTAAAAATATGT
1 ACATATATATATATTAAAAATATAT
107996357 ACATACTATATATAT
1 ACATA-TATATATAT
107996372 ACATATAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
21 10 0.31
22 4 0.12
23 11 0.34
25 3 0.09
26 4 0.12
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (25 bp):
ACATATATATATATTAAAAATATAT
Found at i:107996400 original size:26 final size:26
Alignment explanation
Indices: 107996370--107996427 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
107996360 TACTATATAT
*
107996370 ATACATATAATATAGT-TATTAAGAAA
1 ATACATACAATATA-TATATTAAGAAA
*
107996396 ATACATACAATATATAATATTAAGAAT
1 ATACATACAATATAT-ATATTAAGAAA
107996423 ATACA
1 ATACA
107996428 CAATACATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 1 0.04
26 13 0.46
27 14 0.50
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (26 bp):
ATACATACAATATATATATTAAGAAA
Found at i:107996426 original size:27 final size:26
Alignment explanation
Indices: 107996368--107996427 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
107996358 CATACTATAT
*
107996368 ATATACATATAATATAGTTATTAAGA
1 ATATACATACAATATAGTTATTAAGA
*
107996394 AAATACATACAATATA-TAATATTAAGA
1 ATATACATACAATATAGT--TATTAAGA
107996421 ATATACA
1 ATATACA
107996428 CAATACATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 14 0.48
27 14 0.48
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (26 bp):
ATATACATACAATATAGTTATTAAGA
Found at i:107996702 original size:25 final size:23
Alignment explanation
Indices: 107996674--107996744 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 23
107996664 TAATTAGAAA
107996674 ATAATACTATGTACAAAATATATAC
1 ATAATA-TAT-TACAAAATATATAC
107996699 ATAATATGGTATTA-AAAATATATAC
1 ATAATA---TATTACAAAATATATAC
*
107996724 ATAATATATATACAATATATA
1 ATAATATAT-TACAAAATATA
107996745 CCTATATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 3 0.08
23 2 0.05
24 7 0.17
25 23 0.57
26 2 0.05
27 3 0.08
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (23 bp):
ATAATATATTACAAAATATATAC
Found at i:107996842 original size:21 final size:20
Alignment explanation
Indices: 107996817--107996858 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
107996807 ATAAATAATA
*
107996817 ATAGTGTTAGAAATATATCAT
1 ATAGTATTAGAAATATA-CAT
107996838 ATAGTATTAGAAATATACAT
1 ATAGTATTAGAAATATACAT
107996858 A
1 A
107996859 ATATATACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.36
Consensus pattern (20 bp):
ATAGTATTAGAAATATACAT
Found at i:107997056 original size:3 final size:3
Alignment explanation
Indices: 107996950--107997038 Score: 151
Period size: 3 Copynumber: 29.3 Consensus size: 3
107996940 AGATATATAT
*
107996950 ATA ATA ACA CATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
107996996 ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
107997039 CGACAAATAC
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
3 79 0.98
4 2 0.02
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:107998937 original size:89 final size:91
Alignment explanation
Indices: 107998783--107998965 Score: 217
Period size: 89 Copynumber: 2.0 Consensus size: 91
107998773 GTTAACTTTT
* * * * * * ** **
107998783 AAAAGACAGGAATTGAAAATACTTAAGCGTGTCTTGAGACTCATCTCATTTCTTGCAATATGAGT
1 AAAAAACAGAAATTGAAAATACCTAAGCGGGTCCTGAGACTCAACTCACCTCTCACAATATGAGT
*
107998848 T-A-ATTTTTGAAAAATATAAATTGA
66 TGATATTTTTGAAAAATAGAAATTGA
* *
107998872 AAAAAACAGAAATTGAAAATACCTCAGCGGGTCCTGAGGCTCAACTCACCTCTCACAATATGAGT
1 AAAAAACAGAAATTGAAAATACCTAAGCGGGTCCTGAGACTCAACTCACCTCTCACAATATGAGT
* *
107998937 TGATTTTTTTGAAAAGTAGAAATTGA
66 TGATATTTTTGAAAAATAGAAATTGA
107998963 AAA
1 AAA
107998966 TACCTCAGCG
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
89 54 0.70
90 1 0.01
91 22 0.29
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (91 bp):
AAAAAACAGAAATTGAAAATACCTAAGCGGGTCCTGAGACTCAACTCACCTCTCACAATATGAGT
TGATATTTTTGAAAAATAGAAATTGA
Found at i:107999060 original size:73 final size:72
Alignment explanation
Indices: 107998874--107999113 Score: 345
Period size: 75 Copynumber: 3.2 Consensus size: 72
107998864 TAAATTGAAA
* *
107998874 AAAACAGAAATTGAAAATACCTCAGCGGGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
107998939 ATTTTTTTG
66 A--TTTTTG
* * * *
107998948 AAAAGTAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTATCGCAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAGCGGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
107999013 GATTTTTG
65 GATTTTTG
* *
107999021 ACAAACAAAAATTGAAATTACCTCAGCGGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAGCGGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
107999086 GATTTTTTTG
65 GA--TTTTTG
107999096 AAAGACAGAAATTGAAAA
1 AAA-ACAGAAATTGAAAA
107999114 GTAGAAATTG
Statistics
Matches: 147, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
73 63 0.43
74 9 0.06
75 75 0.51
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (72 bp):
AAAACAGAAATTGAAAATACCTCAGCGGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTG
Found at i:107999132 original size:237 final size:235
Alignment explanation
Indices: 107998711--107999335 Score: 758
Period size: 237 Copynumber: 2.6 Consensus size: 235
107998701 TAGACATTAA
* * ** *
107998711 AAACAGAAATTGAAAATAGCTCAGCGTGTGACC-TGAGGCTTAACTTGCCTCTCACAATATGAGT
1 AAACAGAAATTGAAAATACCTCAGC--GTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * * * * * * *
107998775 TAACTTTTAAAAGACAGGAATTGAAAATACTTAAGCGTGTCTTGAGACTCATCTCATTTCTTGCA
63 TGATTTTTGAAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCA
* * * * *
107998840 ATATGAGTT-AATTTTTGAAAAATATAAATTGAAAAAAACAGAAATTGAAAATACCTCAGCGGGT
128 ATATGAGTTGATTTTTTGAAAAACAGAAATTG-AAAAAACAGAAATTGAAAATACCTCAACGGGC
*
107998904 CCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGA-
192 CCTGAAGCTCAACTCACCTCTCACAATATGAGTTGA--TTTTTGAC
* *
107998949 AAAGTAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTATCGCAATATGAGTTG
1 AAA-CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * * **
107999014 ATTTTTGACAA-ACAAAAATTGAAATTACCTCAGCGGGTCTTGAGGCTCAACTCACCTCTCGCAA
65 ATTTTTGA-AAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAA
* ** *
107999078 TATGAGTTGATTTTTTTGAAAGACAGAAATTG-AAAAGTAGAAATTGAAAATACCTCAACGTGCC
129 TATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAAACAGAAATTGAAAATACCTCAACGGGCC
*
107999142 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
193 CTGAAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAC
* * *
107999185 AAACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
107999250 TTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTA
66 ---TTTTTGAAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCA
*
107999315 ATATGAGTTGA-ATTTTGAAAA
128 ATATGAGTTGATTTTTTGAAAA
107999336 CAAAAATAAA
Statistics
Matches: 331, Mismatches: 46, Indels: 22
0.83 0.12 0.06
Matches are distributed among these distances:
235 64 0.19
236 13 0.04
237 148 0.45
238 69 0.21
239 37 0.11
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (235 bp):
AAACAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
TGAGTTGATTTTTTGAAAAACAGAAATTGAAAAAACAGAAATTGAAAATACCTCAACGGGCCCTG
AAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAC
Found at i:107999153 original size:162 final size:163
Alignment explanation
Indices: 107998945--107999276 Score: 612
Period size: 162 Copynumber: 2.0 Consensus size: 163
107998935 GTTGATTTTT
* * *
107998945 TTGAAAAGTAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTATCGCAATATGA
1 TTGAAAAGTAGAAATTGAAAATACCTCAACGTGCCCTGAAGCTCAACTCACCTATCGCAATATGA
107999010 GTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGGGTCTTGAGGCTCAACTCACCTCTCG
66 GTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGGGTCTTGAGGCTCAACTCACCTCTCG
107999075 CAATATGAGTTGA-TTTTTTTGAAAGACAGAAA
131 CAATATGAGTTGATTTTTTTTGAAAGACAGAAA
*
107999107 TTGAAAAGTAGAAATTGAAAATACCTCAACGTGCCCTGAAGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGTAGAAATTGAAAATACCTCAACGTGCCCTGAAGCTCAACTCACCTATCGCAATATGA
*
107999172 GTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCG
66 GTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGGGTCTTGAGGCTCAACTCACCTCTCG
107999237 CAATATGAGTTGATTTTTTTTGAAAGACAGAAA
131 CAATATGAGTTGATTTTTTTTGAAAGACAGAAA
107999270 TTGAAAA
1 TTGAAAA
107999277 TACCTCAACG
Statistics
Matches: 164, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
162 138 0.84
163 26 0.16
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (163 bp):
TTGAAAAGTAGAAATTGAAAATACCTCAACGTGCCCTGAAGCTCAACTCACCTATCGCAATATGA
GTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGGGTCTTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTTTTGAAAGACAGAAA
Found at i:107999237 original size:73 final size:72
Alignment explanation
Indices: 107999118--107999342 Score: 315
Period size: 76 Copynumber: 3.1 Consensus size: 72
107999108 TGAAAAGTAG
* * *
107999118 AAATTGAAAATACCTCAACGTGCCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
107999183 ACAAACAA
66 A-AAACAA
* *
107999191 AAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTT
*
107999256 TTGAAAGACAG
63 TTGAAA-ACAA
** * *
107999267 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
107999332 AAAACAA
66 AAAACAA
107999339 AAAT
1 AAAT
107999343 AAAAACATCA
Statistics
Matches: 135, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
72 7 0.05
73 62 0.46
75 2 0.01
76 64 0.47
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (72 bp):
AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAACAA
Found at i:108011504 original size:3 final size:3
Alignment explanation
Indices: 108011496--108011533 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
108011486 TGAAAGCATG
108011496 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
108011534 AACCAATGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:108011986 original size:26 final size:26
Alignment explanation
Indices: 108011956--108012013 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
108011946 TACTATATAT
*
108011956 ATACATATAATATAGT-TATTAAGAAA
1 ATACATACAATATA-TATATTAAGAAA
*
108011982 ATACATACAATATATAATATTAAGAAT
1 ATACATACAATATAT-ATATTAAGAAA
108012009 ATACA
1 ATACA
108012014 CAATACATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 1 0.04
26 13 0.46
27 14 0.50
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (26 bp):
ATACATACAATATATATATTAAGAAA
Found at i:108012012 original size:27 final size:26
Alignment explanation
Indices: 108011954--108012013 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
108011944 CATACTATAT
*
108011954 ATATACATATAATATAGTTATTAAGA
1 ATATACATACAATATAGTTATTAAGA
*
108011980 AAATACATACAATATA-TAATATTAAGA
1 ATATACATACAATATAGT--TATTAAGA
108012007 ATATACA
1 ATATACA
108012014 CAATACATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 14 0.48
27 14 0.48
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (26 bp):
ATATACATACAATATAGTTATTAAGA
Found at i:108012419 original size:11 final size:10
Alignment explanation
Indices: 108012402--108012440 Score: 55
Period size: 9 Copynumber: 4.0 Consensus size: 10
108012392 ATGACATTAA
108012402 AAATATATAC
1 AAATATATAC
108012412 ATAATATATA-
1 A-AATATATAC
108012422 AAATATATAC
1 AAATATATAC
108012432 -AATATATAC
1 AAATATATAC
108012441 CTATATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 17 0.63
10 2 0.07
11 8 0.30
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (10 bp):
AAATATATAC
Found at i:108012779 original size:3 final size:3
Alignment explanation
Indices: 108012653--108012760 Score: 182
Period size: 3 Copynumber: 36.0 Consensus size: 3
108012643 ATATATATAT
* *
108012653 ATA ATA ACA CATA ATA TTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
108012699 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
108012747 A-A ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
108012761 TAAAAAGGCA
Statistics
Matches: 99, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.02
3 95 0.96
4 2 0.02
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:108013293 original size:23 final size:23
Alignment explanation
Indices: 108013263--108013320 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
108013253 AGTCATCACC
108013263 GCCGGCCACTGTCGTCGGCCGCA
1 GCCGGCCACTGTCGTCGGCCGCA
*
108013286 GCCTGCCACTGTCGTCGGCCGCA
1 GCCGGCCACTGTCGTCGGCCGCA
108013309 GCCGGCCACTGT
1 GCCGGCCACTGT
108013321 ACACGGTGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.09, C:0.43, G:0.33, T:0.16
Consensus pattern (23 bp):
GCCGGCCACTGTCGTCGGCCGCA
Found at i:108014450 original size:8 final size:8
Alignment explanation
Indices: 108014439--108014486 Score: 64
Period size: 8 Copynumber: 6.2 Consensus size: 8
108014429 AAAATCTTCA
108014439 AAAAAATT
1 AAAAAATT
108014447 -AAAAATT
1 AAAAAATT
108014454 -AAAAATT
1 AAAAAATT
108014461 AAAAAATT
1 AAAAAATT
*
108014469 AAAAACTT
1 AAAAAATT
*
108014477 AAAAATTT
1 AAAAAATT
108014485 AA
1 AA
108014487 TATTTAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
7 14 0.38
8 23 0.62
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (8 bp):
AAAAAATT
Found at i:108014457 original size:6 final size:7
Alignment explanation
Indices: 108014440--108014483 Score: 70
Period size: 7 Copynumber: 6.0 Consensus size: 7
108014430 AAATCTTCAA
108014440 AAAAATT
1 AAAAATT
108014447 AAAAATT
1 AAAAATT
108014454 AAAAATT
1 AAAAATT
108014461 AAAAAATT
1 -AAAAATT
108014469 AAAAACTT
1 AAAAA-TT
108014477 AAAAATT
1 AAAAATT
108014484 TAATATTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 21 0.60
8 14 0.40
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAAATT
Found at i:108014465 original size:15 final size:15
Alignment explanation
Indices: 108014440--108014486 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
108014430 AAATCTTCAA
108014440 AAAAATT-AAAAATT
1 AAAAATTAAAAAATT
108014454 AAAAATTAAAAAATT
1 AAAAATTAAAAAATT
*
108014469 AAAAACTTAAAAATTT
1 AAAAA-TTAAAAAATT
108014485 AA
1 AA
108014487 TATTTAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 7 0.23
15 12 0.40
16 11 0.37
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAAATTAAAAAATT
Found at i:108020034 original size:2 final size:2
Alignment explanation
Indices: 108020027--108020055 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
108020017 TGTAATACTT
108020027 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
108020056 TTATGTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:108020402 original size:15 final size:15
Alignment explanation
Indices: 108020382--108020413 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
108020372 TGCATTTTTT
108020382 GCGGCGTTTGTAAAA
1 GCGGCGTTTGTAAAA
108020397 GCGGCGTTTGTAAAA
1 GCGGCGTTTGTAAAA
108020412 GC
1 GC
108020414 ACCGCAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (15 bp):
GCGGCGTTTGTAAAA
Found at i:108023243 original size:116 final size:116
Alignment explanation
Indices: 108023109--108023337 Score: 422
Period size: 116 Copynumber: 2.0 Consensus size: 116
108023099 GCGACATGGC
* *
108023109 CGTGTTACCTACACGGCCTGGACACACGAGCATGTCCTAGGCCGTGTGAAAATTGGAGCTAAATT
1 CGTGTTACCTACACGGCCTGAACACACGAGCATGTCCTAGGCCGTGTGAAAACTGGAGCTAAATT
*
108023174 TTCAAATTTTAAACAAGTTAGAGATTTACACGGGCGAGGCACACGGCCGTG
66 TTCAAATTTTAAACAAGTTAGAGATCTACACGGGCGAGGCACACGGCCGTG
*
108023225 CGTGTTACCTACACGGCCTGAACACACGAGCATGTCCTAGGGCGTGTGAAAACTGGAGCTAAATT
1 CGTGTTACCTACACGGCCTGAACACACGAGCATGTCCTAGGCCGTGTGAAAACTGGAGCTAAATT
108023290 TTCAAATTTTAAACAAGTTAGAGATCTACACGGGCGAGGCACACGGCC
66 TTCAAATTTTAAACAAGTTAGAGATCTACACGGGCGAGGCACACGGCC
108023338 ATGTGTTTGG
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 109 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.22
Consensus pattern (116 bp):
CGTGTTACCTACACGGCCTGAACACACGAGCATGTCCTAGGCCGTGTGAAAACTGGAGCTAAATT
TTCAAATTTTAAACAAGTTAGAGATCTACACGGGCGAGGCACACGGCCGTG
Found at i:108025649 original size:6 final size:6
Alignment explanation
Indices: 108025635--108025710 Score: 73
Period size: 6 Copynumber: 12.7 Consensus size: 6
108025625 TTGAGTCCGA
* ** *
108025635 TTATTT TTATGT TTATGA TTATTT TTATTT TTATCTT GTA-TT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTAT-TT TTATTT TTATTT
* * *
108025683 TTATTT TGAGTT TTATTT TTCTTT TTAT
1 TTATTT TTATTT TTATTT TTATTT TTAT
108025711 GTCTATTTTG
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
5 4 0.07
6 48 0.86
7 4 0.07
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.74
Consensus pattern (6 bp):
TTATTT
Found at i:108030490 original size:23 final size:24
Alignment explanation
Indices: 108030440--108030491 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
108030430 TAAGAAATAT
* *
108030440 AAAAAGAAAAATTTTAGTTATAAT
1 AAAAAGAAAAATTTTAGTTAGAAG
108030464 AAAAAGAAAAGA-TTTA-TTAGAAG
1 AAAAAGAAAA-ATTTTAGTTAGAAG
108030487 AAAAA
1 AAAAA
108030492 CTTCTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.40
24 14 0.56
25 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.25
Consensus pattern (24 bp):
AAAAAGAAAAATTTTAGTTAGAAG
Found at i:108034849 original size:22 final size:22
Alignment explanation
Indices: 108034824--108034867 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
108034814 TCTATCTACT
108034824 AATTTTTTTTCTAGAATTTTTC
1 AATTTTTTTTCTAGAATTTTTC
108034846 AATTTTTTTTCTAGAATTTTTC
1 AATTTTTTTTCTAGAATTTTTC
108034868 GTCGGGCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.05, T:0.64
Consensus pattern (22 bp):
AATTTTTTTTCTAGAATTTTTC
Found at i:108035914 original size:52 final size:48
Alignment explanation
Indices: 108035833--108036039 Score: 186
Period size: 47 Copynumber: 4.2 Consensus size: 48
108035823 CCATGGCAGC
* * * * *
108035833 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGAAG
1 ATGTGATATGTG-CTTCCGTATAAGACCATATCTGGGATATGGCATCG--G
* *
108035884 AAATGTGATATGTGCTTCCATATAAGACCATATCCGGGATATGGCATCGG
1 --ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
* * *
108035934 -TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
* * * ** * *
108035981 -TGTGATATGTG-ATCCGTGTAAGACTATGGCTGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
108036027 TATGTGATATGTG
1 -ATGTGATATGTG
108036040 ACTATGTGCA
Statistics
Matches: 130, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
46 25 0.19
47 53 0.41
48 11 0.08
50 1 0.01
52 29 0.22
53 11 0.08
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (48 bp):
ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
Found at i:108037619 original size:23 final size:23
Alignment explanation
Indices: 108037537--108037623 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
108037527 CCTGATCAGT
*
108037537 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
108037559 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
108037579 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
108037602 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
108037624 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:108038238 original size:23 final size:23
Alignment explanation
Indices: 108038208--108038294 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
108038198 GCTTTATCGA
* *
108038208 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
108038231 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
108038252 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
108038274 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
108038295 ACTGATTAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:108040514 original size:17 final size:18
Alignment explanation
Indices: 108040484--108040517 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
108040474 AAATCATAAA
108040484 AAATCTAAAATCTAAAAT
1 AAATCTAAAATCTAAAAT
*
108040502 AAATC-AAATTCTAAAA
1 AAATCTAAAATCTAAAA
108040518 GTTTATTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATCTAAAATCTAAAAT
Found at i:108043129 original size:15 final size:15
Alignment explanation
Indices: 108043109--108043165 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
108043099 CGATGAATTT
108043109 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
108043124 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
108043139 ATTGAATTTATATTG
1 ATTGAATTTATATTG
108043154 ATTGAA-TTATAT
1 ATTGAATTTATAT
108043166 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:108043562 original size:23 final size:23
Alignment explanation
Indices: 108043536--108043620 Score: 79
Period size: 21 Copynumber: 3.9 Consensus size: 23
108043526 GCTTTATCGA
* * *
108043536 TCAGGCACTTTATGTGTCTTATT
1 TCAGGCACCTCATGTGTCGTATT
*
108043559 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
108043580 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
108043602 T-AGGCACTTTATGTGTCGT
1 TCAGGCACCTCATGTGTCGT
108043621 CTACTGATTA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
21 35 0.66
22 1 0.02
23 17 0.32
ACGTcount: A:0.14, C:0.22, G:0.25, T:0.39
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:108043583 original size:21 final size:21
Alignment explanation
Indices: 108043559--108043608 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
108043549 GTGTCTTATT
108043559 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
*
108043580 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCACCTCGTGTGTCGTA
*
108043601 TTAGGCAC
1 TCAGGCAC
108043609 TTTATGTGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.14, C:0.28, G:0.28, T:0.30
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCGTA
Found at i:108045470 original size:28 final size:28
Alignment explanation
Indices: 108045439--108045492 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
108045429 AAACAAAAAA
* *
108045439 AAGAAAGCTACGTGGGAAAATGACATTC
1 AAGAAAGCAACGTGGGAAAACGACATTC
**
108045467 AAGAAAGCAATTTGGGAAAACGACAT
1 AAGAAAGCAACGTGGGAAAACGACAT
108045493 CCAAATGCAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.17
Consensus pattern (28 bp):
AAGAAAGCAACGTGGGAAAACGACATTC
Found at i:108047129 original size:26 final size:24
Alignment explanation
Indices: 108047091--108047148 Score: 89
Period size: 26 Copynumber: 2.3 Consensus size: 24
108047081 AGACAAAGGA
108047091 TTTTTTTTCACAAAAAAGCATATACT
1 TTTTTTTTCACAAAAAAGC--ATACT
*
108047117 TTTTTTTTTACAAAAAAGCATACT
1 TTTTTTTTCACAAAAAAGCATACT
108047141 TTTTTTTT
1 TTTTTTTT
108047149 GTTGATACCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 13 0.42
26 18 0.58
ACGTcount: A:0.33, C:0.12, G:0.03, T:0.52
Consensus pattern (24 bp):
TTTTTTTTCACAAAAAAGCATACT
Found at i:108047652 original size:29 final size:30
Alignment explanation
Indices: 108047619--108047689 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 30
108047609 AAAAATTTTT
*
108047619 AACTTTTAAGGG-CCCAAATTTTTTT-TACC
1 AACTTTTAAGGGACCAAAATTTTTTTCT-CC
*
108047648 AACTTTTAAGGGATCTAAAATTTTTTTCTCC
1 AACTTTTAAGGGA-CCAAAATTTTTTTCTCC
108047679 AACTTTTAAGG
1 AACTTTTAAGG
108047690 AATCTAAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 12 0.32
31 24 0.65
32 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (30 bp):
AACTTTTAAGGGACCAAAATTTTTTTCTCC
Found at i:108047672 original size:31 final size:31
Alignment explanation
Indices: 108047634--108047698 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
108047624 TTAAGGGCCC
*
108047634 AAATTTTTTT-TACCAACTTTTAAGGGATCTA
1 AAATTTTTTTCT-CCAACTTTTAAGGAATCTA
108047665 AAATTTTTTTCTCCAACTTTTAAGGAATCTA
1 AAATTTTTTTCTCCAACTTTTAAGGAATCTA
108047696 AAA
1 AAA
108047699 CCCCATTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (31 bp):
AAATTTTTTTCTCCAACTTTTAAGGAATCTA
Found at i:108049686 original size:19 final size:20
Alignment explanation
Indices: 108049658--108049710 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
108049648 TTTGCTTAAT
108049658 TAAT-TTTTAATAATTATTA
1 TAATATTTTAATAATTATTA
* *
108049677 TAA-ATTTTAATATTTTTTA
1 TAATATTTTAATAATTATTA
108049696 TAATATTTT-ATAATT
1 TAATATTTTAATAATT
108049711 CTAAAATGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 24 0.83
20 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TAATATTTTAATAATTATTA
Found at i:108066590 original size:27 final size:27
Alignment explanation
Indices: 108066557--108066611 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
108066547 ACTATATATG
* *
108066557 TATGAATTGTTATGATATCATGATGTA
1 TATGAATTGCTATGATATCATAATGTA
108066584 TATGAATTGCTATGATATCATAATGTA
1 TATGAATTGCTATGATATCATAATGTA
108066611 T
1 T
108066612 GATTAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (27 bp):
TATGAATTGCTATGATATCATAATGTA
Found at i:108078797 original size:33 final size:32
Alignment explanation
Indices: 108078758--108078835 Score: 133
Period size: 33 Copynumber: 2.5 Consensus size: 32
108078748 AACACAGAGT
108078758 AAACATTTAAGCTTAGTAAGTTCGTATAATAC
1 AAACATTTAAGCTTAGTAAGTTCGTATAATAC
108078790 AGAACATTTAAGCTTAGTAAGTTCGTATAATAC
1 A-AACATTTAAGCTTAGTAAGTTCGTATAATAC
108078823 AAA-ATTTAA-CTTA
1 AAACATTTAAGCTTA
108078836 CCATATTTCC
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
30 4 0.09
31 6 0.13
32 3 0.07
33 32 0.71
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (32 bp):
AAACATTTAAGCTTAGTAAGTTCGTATAATAC
Found at i:108079203 original size:25 final size:25
Alignment explanation
Indices: 108079183--108079245 Score: 126
Period size: 25 Copynumber: 2.5 Consensus size: 25
108079173 GTTGAATAAC
108079183 GGGAAGCTCATGCGAGCTGAAAAAT
1 GGGAAGCTCATGCGAGCTGAAAAAT
108079208 GGGAAGCTCATGCGAGCTGAAAAAT
1 GGGAAGCTCATGCGAGCTGAAAAAT
108079233 GGGAAGCTCATGC
1 GGGAAGCTCATGC
108079246 AGTACCCCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.16
Consensus pattern (25 bp):
GGGAAGCTCATGCGAGCTGAAAAAT
Found at i:108082043 original size:47 final size:47
Alignment explanation
Indices: 108081934--108082045 Score: 138
Period size: 47 Copynumber: 2.4 Consensus size: 47
108081924 CCGAGATAAG
* * *
108081934 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGAAACAAATCCGGAACTTTAACAGTACAGTA
* * *
108081981 CACAAAGTACTTCATCGAAACAAATCCGGAACTTTAACAGTAGCCG-A
1 CACATAGTGCTTCATCGAAACAAATCCGGAACTTTAACAGTA-CAGTA
108082028 CACATAGTG-TCTCATCGA
1 CACATAGTGCT-TCATCGA
108082046 CTCAATGTCG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.96
48 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (47 bp):
CACATAGTGCTTCATCGAAACAAATCCGGAACTTTAACAGTACAGTA
Found at i:108082816 original size:4 final size:4
Alignment explanation
Indices: 108082807--108082887 Score: 72
Period size: 4 Copynumber: 19.8 Consensus size: 4
108082797 CCCTTTTCTA
** * * *
108082807 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TCAC GTTTGC TCTC TGTA
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTTC
** *
108082857 ACTC TTTC TATC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
108082888 TTTTTTAACT
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
4 57 0.93
5 3 0.05
6 1 0.02
ACGTcount: A:0.05, C:0.26, G:0.04, T:0.65
Consensus pattern (4 bp):
TTTC
Found at i:108083996 original size:36 final size:36
Alignment explanation
Indices: 108083956--108084027 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
108083946 GGGAATGAGC
*
108083956 TATATACAT-AATAGATTT-AAA-AAATATATATGTA
1 TATATATATGAATAGATTTAAAAGAAAT-TATATGTA
108083990 TATATATATGAATAGATTTAAAAGAAATTATATGTA
1 TATATATATGAATAGATTTAAAAGAAATTATATGTA
108084026 TA
1 TA
108084028 AAATAACATG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
34 8 0.24
35 9 0.26
36 13 0.38
37 4 0.12
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.39
Consensus pattern (36 bp):
TATATATATGAATAGATTTAAAAGAAATTATATGTA
Found at i:108107449 original size:17 final size:17
Alignment explanation
Indices: 108107424--108107457 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
108107414 TTTTTTATTG
* *
108107424 AAAATATTATATTAAGT
1 AAAAAATTATAATAAGT
108107441 AAAAAATTATAATAAGT
1 AAAAAATTATAATAAGT
108107458 TATCAAACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
AAAAAATTATAATAAGT
Found at i:108122898 original size:18 final size:18
Alignment explanation
Indices: 108122875--108122910 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
108122865 TTCACTATAT
108122875 TTTTTATATTAGAATTTA
1 TTTTTATATTAGAATTTA
* *
108122893 TTTTTATTTTAGAGTTTA
1 TTTTTATATTAGAATTTA
108122911 AATTTTTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (18 bp):
TTTTTATATTAGAATTTA
Found at i:108123001 original size:31 final size:31
Alignment explanation
Indices: 108122938--108123004 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
108122928 TTAATTCTTA
* * * * *
108122938 AATTTGGCAATTGTTCTCATTTTCAGGTTTG
1 AATTTGACAATTATTCTCATATTCAAGCTTG
*
108122969 AATTTGACAATTATTCTCATATTGAAGCTTG
1 AATTTGACAATTATTCTCATATTCAAGCTTG
108123000 AATTT
1 AATTT
108123005 TAAGGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (31 bp):
AATTTGACAATTATTCTCATATTCAAGCTTG
Found at i:108126476 original size:26 final size:27
Alignment explanation
Indices: 108126419--108126509 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
108126409 ATAGTTCGCG
*
108126419 GGGATAATAAACACTGGGTAGTCTGTC
1 GGGATAATAAACACGGGGTAGTCTGTC
*
108126446 AGGATAATAAAC-CGGGGTAGTCTG-C
1 GGGATAATAAACACGGGGTAGTCTGTC
* * *
108126471 TGGGATAGTAAACACGGAGTAGTCCGTC
1 -GGGATAATAAACACGGGGTAGTCTGTC
*
108126499 GGGATAGTAAA
1 GGGATAATAAA
108126510 TACAGAGACA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
25 1 0.02
26 21 0.38
27 32 0.58
28 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.32, T:0.22
Consensus pattern (27 bp):
GGGATAATAAACACGGGGTAGTCTGTC
Found at i:108130258 original size:27 final size:27
Alignment explanation
Indices: 108130220--108130277 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
108130210 TAACTGGTTC
108130220 CAAATGTCTCTAACTACAATACAGTCA
1 CAAATGTCTCTAACTACAATACAGTCA
108130247 CAAATGTCTCTAACTACAATACAGTCA
1 CAAATGTCTCTAACTACAATACAGTCA
108130274 CAAA
1 CAAA
108130278 GACGTGTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.43, C:0.26, G:0.07, T:0.24
Consensus pattern (27 bp):
CAAATGTCTCTAACTACAATACAGTCA
Found at i:108131901 original size:29 final size:28
Alignment explanation
Indices: 108131868--108131997 Score: 95
Period size: 28 Copynumber: 4.5 Consensus size: 28
108131858 AAAGTAGCCC
108131868 TAAAAAAAATTCACGAACTCTATTTCGT
1 TAAAAAAAATTCACGAACTCTATTTCGT
* * * *
108131896 TAAAAAAATTTGACGAACCCTATTTCAT
1 TAAAAAAAATTCACGAACTCTATTTCGT
* * *
108131924 TCAAAATATAATTTCA-GCAACTCTCTTTTAGT
1 T-AAAA-A-AAATTCACG-AACTCT-ATTTCGT
*
108131956 TAAAAAAAATTCAAC-AACTCTCTTT-GTT
1 TAAAAAAAATTC-ACGAACTCTATTTCG-T
*
108131984 TAAAAAAAAATCAC
1 TAAAAAAAATTCAC
108131998 CAACCCTTTC
Statistics
Matches: 82, Mismatches: 12, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
27 3 0.04
28 40 0.49
29 15 0.18
30 4 0.05
31 15 0.18
32 5 0.06
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (28 bp):
TAAAAAAAATTCACGAACTCTATTTCGT
Found at i:108133732 original size:93 final size:93
Alignment explanation
Indices: 108133621--108133793 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
108133611 CCCCAATAAG
*
108133621 CGAACTCGGACTCAACTCAACGAGCTC-GAGCATTCGCATCCACAAGTGAACTCAGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAGCTCGGA-CATTCGCATCCACAAGTGAACTCAGACTCAACTC
108133685 AACGAGCTCGGATGCCTAGTTACATCTCT
65 AACGAGCTCGGATGCCTAGTTACATCTCT
* * * *
108133714 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCTATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCAGACTCAACTCA
*
108133779 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
108133794 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 71 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:108133784 original size:46 final size:47
Alignment explanation
Indices: 108133616--108133789 Score: 180
Period size: 46 Copynumber: 3.7 Consensus size: 47
108133606 TAACCCCCCA
* *
108133616 ATAAGCGAACTCGGACTCAACTCAACGAGCTC-GAGCATTCGCATCC
1 ATAAGCGAACTCAGACTCAACTCAACGAGCTCGGAGCATTCGCATCT
* * *
108133662 ACAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATCT
1 ATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA-G-C-A-TTCGCATCT
* *
108133712 CT---CGAACTCAGACTCAACTCAACGAGTTCGGA-CATTCGCATCT
1 ATAAGCGAACTCAGACTCAACTCAACGAGCTCGGAGCATTCGCATCT
* * *
108133755 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA
108133790 TGCCCAAACA
Statistics
Matches: 106, Mismatches: 13, Indels: 18
0.77 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 7 0.07
44 1 0.01
46 57 0.54
47 30 0.28
48 1 0.01
49 1 0.01
50 5 0.05
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (47 bp):
ATAAGCGAACTCAGACTCAACTCAACGAGCTCGGAGCATTCGCATCT
Found at i:108137262 original size:2 final size:2
Alignment explanation
Indices: 108137255--108137286 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
108137245 AATAATCAAC
108137255 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
108137287 TTGAATGAAT
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:108137449 original size:23 final size:23
Alignment explanation
Indices: 108137423--108137469 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
108137413 AAGAATGATT
108137423 TATGGGTTAATATTAAGGATAAA
1 TATGGGTTAATATTAAGGATAAA
108137446 TATGGGTTAATATTAAGGATAAA
1 TATGGGTTAATATTAAGGATAAA
108137469 T
1 T
108137470 TAAGAAACGG
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:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (23 bp):
TATGGGTTAATATTAAGGATAAA
Found at i:108138287 original size:25 final size:24
Alignment explanation
Indices: 108138242--108138289 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
108138232 CAATTATTAA
** *
108138242 AAAGGAAAATAAAGTTTAAAATAG
1 AAAGGAAAATAAACATAAAAATAG
108138266 AAAGAGAAAATAAACATAAAAATA
1 AAAG-GAAAATAAACATAAAAATA
108138290 AAAAATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.69, C:0.02, G:0.12, T:0.17
Consensus pattern (24 bp):
AAAGGAAAATAAACATAAAAATAG
Found at i:108140662 original size:43 final size:43
Alignment explanation
Indices: 108140599--108140685 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
108140589 ATGGCCTAAG
* *
108140599 ACACGCCCGTGTGTCCAAGCCATGTGGTCCACACGGCCGTGTC
1 ACACGCCCGTGTGTCCAAGCCATATGGTCCACACGACCGTGTC
* *
108140642 ACACGCCCTTGTGTCTAAGCCATATGGTCCACACGACCGTGTC
1 ACACGCCCGTGTGTCCAAGCCATATGGTCCACACGACCGTGTC
108140685 A
1 A
108140686 TGTACCCGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.20, C:0.36, G:0.24, T:0.21
Consensus pattern (43 bp):
ACACGCCCGTGTGTCCAAGCCATATGGTCCACACGACCGTGTC
Found at i:108145859 original size:27 final size:27
Alignment explanation
Indices: 108145829--108145902 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
108145819 GTCTTTCGGG
*
108145829 ACAGTGAACACGAGTAAGTCTGCCTGA
1 ACAGTAAACACGAGTAAGTCTGCCTGA
* * * *
108145856 ACAGTAAATATGGGTAAGTCTGCCTGG
1 ACAGTAAACACGAGTAAGTCTGCCTGA
108145883 ACAGTAAACACGAGTAAGTC
1 ACAGTAAACACGAGTAAGTC
108145903 CGTCGGGATA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (27 bp):
ACAGTAAACACGAGTAAGTCTGCCTGA
Found at i:108145916 original size:54 final size:54
Alignment explanation
Indices: 108145827--108145931 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
108145817 AGGTCTTTCG
* * * * **
108145827 GGACAGTGAACACGAGTAAGTCTGCCTGAACAGTAAATATGGGTAAGTCTGCCT
1 GGACAGTAAACACGAGTAAGTCCGCCGGAACAGTAAAAACAGGTAAGTCTGCCT
* * *
108145881 GGACAGTAAACACGAGTAAGTCCGTCGGGATAGTAAAAACAGGTAAGTCTG
1 GGACAGTAAACACGAGTAAGTCCGCCGGAACAGTAAAAACAGGTAAGTCTG
108145932 TTAAGACAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (54 bp):
GGACAGTAAACACGAGTAAGTCCGCCGGAACAGTAAAAACAGGTAAGTCTGCCT
Found at i:108160867 original size:35 final size:35
Alignment explanation
Indices: 108160703--108160865 Score: 202
Period size: 35 Copynumber: 4.6 Consensus size: 35
108160693 CATGGCACAG
* * *
108160703 TGTGAAATGTAAGGTATAGTATTAACCATACTGAGT
1 TGTGAAACGT-AGGTATGGTATTATCCATACTGAGT
*
108160739 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
*
108160774 TGTGAAACGCAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
** ** *
108160809 TAAGAAACGTAGGTATGACATT-TCCGATACCGAGT
1 TGTGAAACGTAGGTATGGTATTATCC-ATACTGAGT
*
108160844 TGTGAAATGTAGGTATGGTATT
1 TGTGAAACGTAGGTATGGTATT
108160866 TCAATGAGGA
Statistics
Matches: 111, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
34 3 0.03
35 99 0.89
36 9 0.08
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
Found at i:108163189 original size:5 final size:5
Alignment explanation
Indices: 108163179--108163221 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
108163169 TATTTTTTAT
* * *
108163179 TATAA TATAA TATAA TTTAA TTTAA TTTAA TATAA TAT-A TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
108163222 CTTAATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (5 bp):
TATAA
Found at i:108163233 original size:25 final size:28
Alignment explanation
Indices: 108163170--108163231 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
108163160 TTCTTTATTT
* *
108163170 ATTTTTTATTATAATATAATATAATTTA
1 ATTTTTTAATATAATATAATATAACTTA
108163198 ATTTAATTTAATATAATAT-ATAT-ACTTA
1 ATTT--TTTAATATAATATAATATAACTTA
108163226 ATTTTT
1 ATTTTT
108163232 AAGGTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 2 0.07
28 12 0.40
29 4 0.13
30 12 0.40
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (28 bp):
ATTTTTTAATATAATATAATATAACTTA
Found at i:108172691 original size:84 final size:84
Alignment explanation
Indices: 108172582--108172747 Score: 260
Period size: 84 Copynumber: 2.0 Consensus size: 84
108172572 CCAGTACCAC
* **
108172582 TAGTTCCACCACTTAAATTCTGTCCACAATCTTGCAACTCATCATTGTCCTTCACACCACCTTCT
1 TAGTTCCACCACTTAAATTCTGTCCACAATCTTGCAACTCACCATCATCCTTCACACCACCTTCT
108172647 CTTCTATTCACCACCTCAT
66 CTTCTATTCACCACCTCAT
* * *
108172666 TAGTTCCACCATTTAGATTCTGTCCACAATCTTGCAACTCACCATCATCCTTCACATCACCTTCT
1 TAGTTCCACCACTTAAATTCTGTCCACAATCTTGCAACTCACCATCATCCTTCACACCACCTTCT
* *
108172731 CTTTTATTCACCCCCTC
66 CTTCTATTCACCACCTC
108172748 TTCATTAACC
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 74 1.00
ACGTcount: A:0.23, C:0.37, G:0.05, T:0.35
Consensus pattern (84 bp):
TAGTTCCACCACTTAAATTCTGTCCACAATCTTGCAACTCACCATCATCCTTCACACCACCTTCT
CTTCTATTCACCACCTCAT
Found at i:108173357 original size:225 final size:216
Alignment explanation
Indices: 108172971--108173394 Score: 661
Period size: 225 Copynumber: 1.9 Consensus size: 216
108172961 CTCTCCACCA
* * *
108172971 CCACCACCAACACTCTTAGACTGTTCGCTGCCTGAATCCCGTGACCATGTTGGTGACCTTGACTT
1 CCACCACCAACACTCTTAGACTGCTCACTGCCTGAATCCCGTGACCATGTTGGCGACCTTGACTT
* *
108173036 AGACTTCGACTTGGAGCTTCTCCTCTTCAAATCCTCCTCCCTTGATTCCCCAACAACCCTGCCTG
66 AGACTTCGACTTGGAGCTTCTCCTCCTCAAATCCTCCTCCCTTGATTCCCCAACAACCCTCCCTG
*
108173101 CCCCCAAAGAATCCCTTGACCGTGTAGGTGAGCTCACATCCCTAACATCCTTCAGTTGCACCTTA
131 CCCCCAAAGAATCCCTTGACCGTGTAGGTGAGCTCACATCCCTAACATCCCTCAGTTGCACCTTA
108173166 CTACCTCTAGTCTCATCAATT
196 CTACCTCTAGTCTCATCAATT
108173187 CCACCACCAACACTCTTAGACTGCTCACTGCCTGAATCCCGTGACCATGTTGGCGACCTTGACAT
1 CCACCACCAACACTCTTAGACTGCTCACTGCCTGAATCCCGTGACCATGTTGGCGACCTTGAC--
* * *
108173252 TGACGTAGACATT-GCCTTGGTGCTTCTCCTCCTCAAATCTTCCCTTTCCCTTGATTCCCCAACA
64 T----TAGAC-TTCGACTTGGAGCTTCTCCTCCTCAAATCCT-CC--TCCCTTGATTCCCCAACA
*
108173316 ACCCTCCCTGCCCCCAAAGAATCCCTTGACCTTGTAGGTGAGCTCACATCCCTAACATCCCTCAG
121 ACCCTCCCTGCCCCCAAAGAATCCCTTGACCGTGTAGGTGAGCTCACATCCCTAACATCCCTCAG
108173381 TTGCACCTTACTAC
186 TTGCACCTTACTAC
108173395 TCCCTCTAAC
Statistics
Matches: 188, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
216 60 0.32
218 1 0.01
222 29 0.15
223 4 0.02
225 94 0.50
ACGTcount: A:0.21, C:0.37, G:0.14, T:0.28
Consensus pattern (216 bp):
CCACCACCAACACTCTTAGACTGCTCACTGCCTGAATCCCGTGACCATGTTGGCGACCTTGACTT
AGACTTCGACTTGGAGCTTCTCCTCCTCAAATCCTCCTCCCTTGATTCCCCAACAACCCTCCCTG
CCCCCAAAGAATCCCTTGACCGTGTAGGTGAGCTCACATCCCTAACATCCCTCAGTTGCACCTTA
CTACCTCTAGTCTCATCAATT
Found at i:108180181 original size:53 final size:53
Alignment explanation
Indices: 108180040--108180190 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
108180030 ACAAGTGTGC
* **
108180040 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
108180093 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
108180146 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
108180191 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:108187685 original size:53 final size:53
Alignment explanation
Indices: 108187544--108187694 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
108187534 ACAAGTGTGC
* **
108187544 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
108187597 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
108187650 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
108187695 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:108189037 original size:40 final size:40
Alignment explanation
Indices: 108188982--108189121 Score: 165
Period size: 40 Copynumber: 3.4 Consensus size: 40
108188972 TATATATATG
*
108188982 TATGGCACTTAGTGTGCGATTCGAGATAACTTCGGCTATA
1 TATGGCACTTAGTGTGCGAATCGAGATAACTTCGGCTATA
* * * *
108189022 TATGGCACTTGGTGTGCGAATCGAAATAGCTCCGGCTATA
1 TATGGCACTTAGTGTGCGAATCGAGATAACTTCGGCTATA
* *
108189062 TGTGTGGCACTTAGTGTGCGAGACCGAGATAACTTCGGCTATGA
1 --TATGGCACTTAGTGTGCGA-ATCGAGATAACTTCGGCTAT-A
*
108189106 -AAGGCACTTAGTGTGC
1 TATGGCACTTAGTGTGC
108189122 ACGATTAAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
40 35 0.42
41 14 0.17
42 17 0.20
43 16 0.19
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
TATGGCACTTAGTGTGCGAATCGAGATAACTTCGGCTATA
Found at i:108189153 original size:83 final size:83
Alignment explanation
Indices: 108188976--108189167 Score: 221
Period size: 83 Copynumber: 2.3 Consensus size: 83
108188966 TTCGGATATA
* ** * *
108188976 TATATGTATGGCACTTAGTGTGCGA-TTCGAGATAACTTCGGCTATATATGGCACTTGGTGTGCG
1 TATATGTGTGGCACTTAGTGTGCGAGACCGAGATAACTTCGGCTATATAAGGCACTTAGTGTGCG
* *
108189040 AATCGAAATAGCTCCGGC
66 AATCAAAATAGCTCCGAC
108189058 TATATGTGTGGCACTTAGTGTGCGAGACCGAGATAACTTCGGCTATGA-AAGGCACTTAGTGTGC
1 TATATGTGTGGCACTTAGTGTGCGAGACCGAGATAACTTCGGCTAT-ATAAGGCACTTAGTGTGC
* * *
108189122 -ACGATTAAAATAGCTTCTAC
65 GA--ATCAAAATAGCTCCGAC
* *
108189142 TATGT-TTTGGCACTTAGTGTGCGAGA
1 TATATGTGTGGCACTTAGTGTGCGAGA
108189168 ATTAAAGTAT
Statistics
Matches: 94, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
82 25 0.27
83 52 0.55
84 17 0.18
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (83 bp):
TATATGTGTGGCACTTAGTGTGCGAGACCGAGATAACTTCGGCTATATAAGGCACTTAGTGTGCG
AATCAAAATAGCTCCGAC
Found at i:108189684 original size:10 final size:10
Alignment explanation
Indices: 108189669--108189693 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
108189659 TGTATTTGGT
108189669 TATGTGCATA
1 TATGTGCATA
108189679 TATGTGCATA
1 TATGTGCATA
108189689 TATGT
1 TATGT
108189694 AATAGTCCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (10 bp):
TATGTGCATA
Found at i:108193400 original size:20 final size:19
Alignment explanation
Indices: 108193372--108193413 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
108193362 TGTCCCCTGT
108193372 TTTGAGAAACATTT-TCTAAG
1 TTTGAGAAA-ATTTCT-TAAG
*
108193392 TTTGTGAAAATTTCTTAAG
1 TTTGAGAAAATTTCTTAAG
108193411 TTT
1 TTT
108193414 TCGGTTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (19 bp):
TTTGAGAAAATTTCTTAAG
Found at i:108197996 original size:18 final size:19
Alignment explanation
Indices: 108197973--108198012 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
108197963 TATTTCATAC
108197973 TATGC-ACAAACAAGTAAA
1 TATGCAACAAACAAGTAAA
*
108197991 TATGCAACAAACAAGTCAA
1 TATGCAACAAACAAGTAAA
108198010 TAT
1 TAT
108198013 CCAGCAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.53, C:0.17, G:0.10, T:0.20
Consensus pattern (19 bp):
TATGCAACAAACAAGTAAA
Found at i:108199883 original size:17 final size:17
Alignment explanation
Indices: 108199861--108199896 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
108199851 GTATGTACAT
108199861 ATTTATATTTTGCCCAA
1 ATTTATATTTTGCCCAA
*
108199878 ATTTATATTTTGTCCAA
1 ATTTATATTTTGCCCAA
108199895 AT
1 AT
108199897 CTATTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (17 bp):
ATTTATATTTTGCCCAA
Found at i:108201600 original size:19 final size:21
Alignment explanation
Indices: 108201572--108201613 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
108201562 TGATTGTGTG
*
108201572 TACATGTGTA-AAAATAA-AA
1 TACATATGTATAAAATAATAA
108201591 TACATATGTATAAAATAATAA
1 TACATATGTATAAAATAATAA
108201612 TA
1 TA
108201614 TATGAAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 7 0.35
21 4 0.20
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (21 bp):
TACATATGTATAAAATAATAA
Found at i:108201656 original size:5 final size:5
Alignment explanation
Indices: 108201634--108201693 Score: 102
Period size: 5 Copynumber: 12.0 Consensus size: 5
108201624 TTAATATTTA
* *
108201634 ATTAT ATAAT AATAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
108201684 ATTAT ATTAT
1 ATTAT ATTAT
108201694 TATAATAACT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 51 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATTAT
Found at i:108202105 original size:18 final size:19
Alignment explanation
Indices: 108202076--108202111 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
108202066 GTGAAAAATT
*
108202076 TGAAATTTAGGGATTTAAG
1 TGAAATTTAGGGAGTTAAG
108202095 TGAAA-TTAGGGAGTTAA
1 TGAAATTTAGGGAGTTAA
108202112 ATATAGCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (19 bp):
TGAAATTTAGGGAGTTAAG
Found at i:108208751 original size:26 final size:26
Alignment explanation
Indices: 108208720--108208775 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
108208710 TGAAATGCCC
108208720 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
108208746 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
108208772 ATCA
1 ATCA
108208776 ATTTGTACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:108217459 original size:26 final size:25
Alignment explanation
Indices: 108217421--108217501 Score: 92
Period size: 26 Copynumber: 3.2 Consensus size: 25
108217411 GGTATCTTCG
* *
108217421 AAGAGCCATTAATCAGGAAGCTCACT
1 AAGAACCA-TAATCGGGAAGCTCACT
108217447 AAGAACCTATAATCGGGAAGCTCACT
1 AAGAACC-ATAATCGGGAAGCTCACT
* *
108217473 AAGAGCCATATATCGGGATGCTCA-T
1 AAGAACCATA-ATCGGGAAGCTCACT
108217498 AAGA
1 AAGA
108217502 GTTGTGGTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
25 8 0.16
26 40 0.82
27 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (25 bp):
AAGAACCATAATCGGGAAGCTCACT
Found at i:108223912 original size:131 final size:130
Alignment explanation
Indices: 108223589--108223935 Score: 408
Period size: 130 Copynumber: 2.7 Consensus size: 130
108223579 GAAGACGAGG
* * * *
108223589 TTTGATGTTTGGCAATTCGCGGAATCATTCCCTAACGTGTTGGGTTACAATTTCGCGTTTGCTCA
1 TTTGATGTTTGGCAATTCGCGGAATCATGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTCA
* * * *
108223654 AAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTTTAAAATCCCTTAAACGAAGGCGATA
66 AAATAATCGAATATCCCTTCAAAATTTCACTCAGGTCTTTAAAAATCCCTTAAACGAAGGCAATA
** * * * * *
108223719 TGCGATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGTTTA
1 TTTGATGTTTGGCAATTCGCGGAATCATGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTCA
* * * *
108223784 AAATAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAACGAATGTAA
66 AAATAATCGAATATCCCTTCAAAATTTCACTCAGGTCTT-TAAAAATCCCTT-AAACGAAGGCAA
108223849 TA
129 TA
* * * * * ** *
108223851 TTTGGTGTTTGACAATTCG-AGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCA
1 TTTGATGTTTGGCAATTCGCGGAATCATGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTCA
* *
108223915 AAACAATCGAATATTCCTTCA
66 AAATAATCGAATATCCCTTCA
108223936 GGTTTTCATT
Statistics
Matches: 179, Mismatches: 36, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
130 90 0.50
131 64 0.36
132 25 0.14
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (130 bp):
TTTGATGTTTGGCAATTCGCGGAATCATGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTCA
AAATAATCGAATATCCCTTCAAAATTTCACTCAGGTCTTTAAAAATCCCTTAAACGAAGGCAATA
Found at i:108223943 original size:131 final size:131
Alignment explanation
Indices: 108223563--108224056 Score: 433
Period size: 131 Copynumber: 3.8 Consensus size: 131
108223553 TCATTCATTC
* * * ** * * *
108223563 AAAAATTCTTCAAAACGAAGACGAGGTTTGATGTTTGGCAATTCGCGGAATCATTCCCTAACGTG
1 AAAAATCCTTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCGCAGAATCATGCCCTAACGTG
* * * * *
108223628 TTGGGTTACAATTTCGCGTTTGCTCAAAATAATCGAATA-TCACTTCAAAATTTCACTCATGTCT
66 CTGGGTTGCAATTTCTCATTTGCTCAAAACAATCGAATATTC-CTTCAAAATTTCACTCATGTCT
108223692 TT
130 TT
* * * * ** *
108223694 TAAAATCCCTT-AAACGAAGGCGATATGCGATATTTGGCAATTCGTGGAATCGTGCCCTAACGTG
1 AAAAATCCTTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCGCAGAATCATGCCCTAACGTG
* * * * * * * *
108223758 TTGGGTTGCAATTTCCCATTTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACTCAGGTCTT
66 CTGGGTTGCAATTTCTCATTTGCTCAAAACAATCGAATATTCCTTCAAAATTTCACTCATGTCTT
108223823 CT
131 -T
* ** * * * *
108223825 AAAAATCCTTTAAAACGAATGTAATATTTGGTGTTTGACAATTCG-AGAATCATGCCCTATCGTG
1 AAAAATCCTTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCGCAGAATCATGCCCTAACGTG
** * * *** * *
108223889 CTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTCAGGTTTTCATTCATGTTTA
66 CTGGGTTGCAATTTCTCATTTGCTCAAAACAATCGAATATTCCTTCAAAATTTCACTCATGTCT-
108223954 TT
130 TT
* * * * *
108223956 AAAAA-CCATTCAAAACGAAGGCGATGTTCGATGTTTGGCGATTTG-AGAATCGA-GCCCTATCG
1 AAAAATCC-TTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCGCAGAATC-ATGCCCTAACG
** *
108224018 TGCTGGGTTGCGCTTTTTCATTTGCTCAAAACAATCGAA
64 TGCTGGGTTGCAATTTCTCATTTGCTCAAAACAATCGAA
108224057 GATCCCTTTG
Statistics
Matches: 293, Mismatches: 64, Indels: 12
0.79 0.17 0.03
Matches are distributed among these distances:
130 101 0.34
131 165 0.56
132 27 0.09
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (131 bp):
AAAAATCCTTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCGCAGAATCATGCCCTAACGTG
CTGGGTTGCAATTTCTCATTTGCTCAAAACAATCGAATATTCCTTCAAAATTTCACTCATGTCTT
T
Found at i:108226492 original size:22 final size:20
Alignment explanation
Indices: 108226428--108226495 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 20
108226418 CTTCCTTTCT
108226428 TTTTTCTATACTTCCTCATAA
1 TTTTT-TATACTTCCTCATAA
* *
108226449 CTTTTTATA-TTCC-CTTATA
1 TTTTTTATACTTCCTCATA-A
108226468 TTTTTATGATACTTCCTCATAA
1 TTTTT-T-ATACTTCCTCATAA
108226490 TTTTTT
1 TTTTTT
108226496 TTTAGTATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
18 3 0.08
19 9 0.24
20 5 0.13
21 8 0.21
22 10 0.26
23 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.01, T:0.57
Consensus pattern (20 bp):
TTTTTTATACTTCCTCATAA
Found at i:108231578 original size:143 final size:143
Alignment explanation
Indices: 108231380--108231667 Score: 513
Period size: 143 Copynumber: 2.0 Consensus size: 143
108231370 CTCTCTTGTA
*
108231380 CACTGGCTGAATGTTTAAAATGTGTTATATCACTGTTAAGAGACACTGCATATCAGTGGTGGAAT
1 CACTGGCTGAATGTTTAAAATGTGTTATATCACCGTTAAGAGACACTGCATATCAGTGGTGGAAT
* * * *
108231445 ACGTCAGTATCTGTGGTACTGAGGGAGAGAGTCACCTGGAAATTCTTTCAGACCTAGTTCCGAAA
66 ACGTCAGTATCCGTGGTACCGAGGGAGAGAGTCACCTGGAAATTCTTTCAGACCGAGTTCCAAAA
108231510 GAAATACATAAGT
131 GAAATACATAAGT
108231523 CACTGGCTGAATGTTTAAAATGTGTTATATCACCGTTAAGAGACACTGCATATCAGTGGTGGAAT
1 CACTGGCTGAATGTTTAAAATGTGTTATATCACCGTTAAGAGACACTGCATATCAGTGGTGGAAT
* *
108231588 ACGTTAGTATCCGTGGTACCGAGGGAGAGAGTCACCTGGGAATTCTTTCAGACCGAGTTCCAAAA
66 ACGTCAGTATCCGTGGTACCGAGGGAGAGAGTCACCTGGAAATTCTTTCAGACCGAGTTCCAAAA
108231653 GAAATACATAAGT
131 GAAATACATAAGT
108231666 CA
1 CA
108231668 ACAGTTTCTG
Statistics
Matches: 138, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
143 138 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (143 bp):
CACTGGCTGAATGTTTAAAATGTGTTATATCACCGTTAAGAGACACTGCATATCAGTGGTGGAAT
ACGTCAGTATCCGTGGTACCGAGGGAGAGAGTCACCTGGAAATTCTTTCAGACCGAGTTCCAAAA
GAAATACATAAGT
Done.