Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 339 of 444
Found at i:98029489 original size:43 final size:43
Alignment explanation
Indices: 98029422--98029506 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
98029412 TCTAAACTCA
* * **
98029422 TTCACCTGCATTTCGCCTGCTAGGCTTGAAGCCCG-ATATCAT
1 TTCACCGGCATTTAGCCTGCTAGGCCCGAAGCCCGAATATCAT
98029464 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAATATCA
1 TTCACCGGCATT-TAGCCTGCTAGGCCCGAAGCCCGAATATCA
98029507 CATTTCGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 11 0.30
43 20 0.54
44 6 0.16
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (43 bp):
TTCACCGGCATTTAGCCTGCTAGGCCCGAAGCCCGAATATCAT
Found at i:98032733 original size:38 final size:39
Alignment explanation
Indices: 98032645--98032825 Score: 161
Period size: 40 Copynumber: 4.6 Consensus size: 39
98032635 GACTCGCTCA
** ** *
98032645 AATGCCTTCGGGACGAAGCCCGG-TTATAGCGACTCGCACG
1 AATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTTGCACG
* *
98032685 AATGCCTTCGGACTTAACCCGGGTTTAGTAACTTGCAC-
1 AATGCCTTCGGACTTAGCCCGGATTTAGTAACTTGCACG
* * *
98032723 AATGCCTTCGGGCTTAGCCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGACTTAGCCCGGATTTAGTAACTTGCACG
* * * *
98032762 AATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCAC-
1 AATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTT-GCACG
*
98032802 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTC-GGACTTAGCCCGGA
98032826 CATCATTCGA
Statistics
Matches: 115, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
38 33 0.29
39 31 0.27
40 44 0.38
41 7 0.06
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGACTTAGCCCGGATTTAGTAACTTGCACG
Found at i:98032763 original size:77 final size:80
Alignment explanation
Indices: 98032676--98032825 Score: 216
Period size: 77 Copynumber: 1.9 Consensus size: 80
98032666 GGTTATAGCG
* * * *
98032676 ACTCGCACGAATGCCTTCGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
98032738 AGCCCGGATTTATTA
66 AGCCCGGATTTATTA
** *
98032753 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
98032818 AGCCCGGA
66 AGCCCGGA
98032826 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
77 21 0.33
78 16 0.25
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:98040750 original size:77 final size:80
Alignment explanation
Indices: 98040667--98040816 Score: 200
Period size: 77 Copynumber: 1.9 Consensus size: 80
98040657 GGTTATAGCG
* * * *
98040667 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCA-AATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
98040728 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
98040744 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
98040809 AGCCCGGA
66 AGCCCGGA
98040817 CATCATTCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
76 3 0.05
77 34 0.55
78 3 0.05
79 11 0.18
80 11 0.18
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:98040816 original size:40 final size:39
Alignment explanation
Indices: 98040627--98040816 Score: 161
Period size: 40 Copynumber: 4.8 Consensus size: 39
98040617 GGATATAACG
* ** * **
98040627 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
98040667 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
98040707 ACTTGCA-AATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
98040744 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATATAGTA
* *
98040784 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
98040817 CATCATTCGA
Statistics
Matches: 121, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
37 21 0.17
38 14 0.12
39 9 0.07
40 69 0.57
41 8 0.07
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:98045373 original size:29 final size:29
Alignment explanation
Indices: 98045331--98045387 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
98045321 AGGTTAGTTC
98045331 GAGAATCGACTAAACCATGCTCTGATACT
1 GAGAATCGACTAAACCATGCTCTGATACT
98045360 GAGAATCGACTAAACCATGCTCTGATAC
1 GAGAATCGACTAAACCATGCTCTGATAC
98045388 CACTAAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (29 bp):
GAGAATCGACTAAACCATGCTCTGATACT
Found at i:98047254 original size:43 final size:43
Alignment explanation
Indices: 98047180--98047307 Score: 186
Period size: 43 Copynumber: 3.0 Consensus size: 43
98047170 TCTGAACTCA
* * **
98047180 TTCACCGGCATT-TTGCTTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
98047222 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
98047265 TTCACCGGCATTATAGCCTACTAGGCCCGAAGCTCGAATATCA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCG-ATATCA
98047308 CATTTCGATA
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
42 12 0.15
43 60 0.77
44 6 0.08
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:98048145 original size:39 final size:39
Alignment explanation
Indices: 98048091--98048165 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
98048081 ATAAACATAT
98048091 GGCTATTTATCACCATATAACTAACTCATTAACTAATAC
1 GGCTATTTATCACCATATAACTAACTCATTAACTAATAC
98048130 GGCTATTTATCACCATATAACTAACTCATTAACTAA
1 GGCTATTTATCACCATATAACTAACTCATTAACTAA
98048166 CACTTAAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.33
Consensus pattern (39 bp):
GGCTATTTATCACCATATAACTAACTCATTAACTAATAC
Found at i:98051575 original size:12 final size:12
Alignment explanation
Indices: 98051555--98051624 Score: 68
Period size: 13 Copynumber: 5.6 Consensus size: 12
98051545 AATAAAATTG
* *
98051555 AAATGAAAATCA
1 AAATAAAAATAA
*
98051567 AAAGAAAAATAAA
1 AAATAAAAAT-AA
98051580 AAATAAAAATAA
1 AAATAAAAATAA
*
98051592 AAATAAAAAAGAA
1 AAAT-AAAAATAA
*
98051605 TAAATAATAATAA
1 -AAATAAAAATAA
98051618 AAATAAA
1 AAATAAA
98051625 TAGGAGGAGT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
12 20 0.43
13 23 0.49
14 4 0.09
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.16
Consensus pattern (12 bp):
AAATAAAAATAA
Found at i:98051583 original size:7 final size:6
Alignment explanation
Indices: 98051555--98051624 Score: 68
Period size: 6 Copynumber: 11.2 Consensus size: 6
98051545 AATAAAATTG
* * * *
98051555 AAATGA AAATCA AAAGAA AAATAAA AAATAA AAATAA AAATAAA AAAGAA
1 AAATAA AAATAA AAATAA AAAT-AA AAATAA AAATAA AAAT-AA AAATAA
*
98051605 TAAATAA TAATAA AAATAA A
1 -AAATAA AAATAA AAATAA A
98051625 TAGGAGGAGT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
6 37 0.70
7 16 0.30
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:98051609 original size:26 final size:26
Alignment explanation
Indices: 98051571--98051624 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
98051561 AAATCAAAAG
*
98051571 AAAAATAAAAAATAAAAATAAAAATA
1 AAAAAGAAAAAATAAAAATAAAAATA
* *
98051597 AAAAAGAATAAATAATAATAAAAATA
1 AAAAAGAAAAAATAAAAATAAAAATA
98051623 AA
1 AA
98051625 TAGGAGGAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (26 bp):
AAAAAGAAAAAATAAAAATAAAAATA
Found at i:98051626 original size:20 final size:20
Alignment explanation
Indices: 98051571--98051626 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
98051561 AAATCAAAAG
98051571 AAAAATAAAAA-ATAA-AAAT
1 AAAAATAAAAATA-AATAAAT
98051590 AAAAATAAAAA-AGAATAAAT
1 AAAAATAAAAATA-AATAAAT
*
98051610 AATAATAAAAATAAATA
1 AAAAATAAAAATAAATA
98051627 GGAGGAGTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 14 0.42
20 18 0.55
21 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAAATAAAAATAAATAAAT
Found at i:98070393 original size:39 final size:40
Alignment explanation
Indices: 98070215--98070397 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
98070205 CCGCACCAAG
* * * * * * * *
98070215 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
98070255 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
98070295 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
98070335 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
98070374 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
98070398 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:98074191 original size:30 final size:30
Alignment explanation
Indices: 98074155--98074314 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
98074145 GACAAGATTG
* * * * *
98074155 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
98074185 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
98074213 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
98074242 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
98074272 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
98074301 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
98074315 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:98074282 original size:59 final size:57
Alignment explanation
Indices: 98074155--98074314 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
98074145 GACAAGATTG
* * * * * *
98074155 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
98074213 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
98074272 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
98074315 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:98082107 original size:30 final size:30
Alignment explanation
Indices: 98082071--98082230 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
98082061 GACAAGATTG
* * * * *
98082071 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
98082101 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
98082129 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
98082158 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
98082188 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
98082217 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
98082231 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:98082198 original size:59 final size:57
Alignment explanation
Indices: 98082071--98082230 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
98082061 GACAAGATTG
* * * * * *
98082071 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
98082129 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
98082188 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
98082231 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:98089578 original size:40 final size:40
Alignment explanation
Indices: 98089521--98089739 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
98089511 ATTGAATGAT
* * * * * * *
98089521 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTAT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
*
98089561 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
*
98089601 ATCCGGGTTAAGA-CCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
* * *
98089640 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TTAA
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGACTAC
* * *
98089680 ATCCGGGCTAATACCCGAAGGC-ATTGTGCAAGT--CGT-T
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGAC-TAC
98089717 ATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCA
98089740 TTCGTGCATG
Statistics
Matches: 158, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
37 21 0.13
38 2 0.01
39 48 0.30
40 85 0.54
41 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
Found at i:98089632 original size:79 final size:79
Alignment explanation
Indices: 98089521--98089747 Score: 234
Period size: 79 Copynumber: 2.9 Consensus size: 79
98089511 ATTGAATGAT
* * * * * *
98089521 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAG-ACCGAAGGCAATTGTGCTAGT-ACTATATCCGGGCTAAGACCCGAAGGCAAT
* *
98089586 T-GTGCTAG-TGACTAC
64 TCGTGCAAGTTG-CTAA
* *
98089601 ATCCGGGTTAAGACCGAAGGCAATTGTGCTAGTGACTACATCCGGGCTAAGACCCGAAGGC-ATT
1 ATCCGGGCTAAGACCGAAGGCAATTGTGCTAGT-ACTATATCCGGGCTAAGACCCGAAGGCAATT
*
98089665 CGTGCAAGTTGTTAA
65 CGTGCAAGTTGCTAA
* *
98089680 ATCCGGGCTAATACCCGAAGGC-ATTGTGCAAGT-CGT-TATCCGGGCTAAGACCCGAAGGC-AT
1 ATCCGGGCTAAGA-CCGAAGGCAATTGTGCTAGTAC-TATATCCGGGCTAAGACCCGAAGGCAAT
98089741 TCGTGCA
64 TCGTGCA
98089748 TGTGGTTATA
Statistics
Matches: 127, Mismatches: 16, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
77 32 0.25
78 4 0.03
79 70 0.55
80 21 0.17
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (79 bp):
ATCCGGGCTAAGACCGAAGGCAATTGTGCTAGTACTATATCCGGGCTAAGACCCGAAGGCAATTC
GTGCAAGTTGCTAA
Found at i:98097617 original size:40 final size:40
Alignment explanation
Indices: 98097558--98097784 Score: 234
Period size: 40 Copynumber: 5.8 Consensus size: 40
98097548 CAATTGAATG
* * * * *
98097558 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
98097598 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
98097638 ACATCCGGGTTAAGACCCGAAGGCA-TTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
98097677 ACATCCGGGCTAAGACCCGAAGGCA-TTGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* ** *
98097716 AAAT-CGGGCTAAGACCCGAAGGCATTCATGCAAGT--CGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGAC-T
*
98097754 -TATCCGGGCTAAGACCCGAAGGCATTCGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
98097785 ATGTGGTTAT
Statistics
Matches: 166, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
37 2 0.01
38 48 0.29
39 57 0.34
40 59 0.36
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:98097677 original size:39 final size:39
Alignment explanation
Indices: 98097560--98097784 Score: 235
Period size: 39 Copynumber: 5.7 Consensus size: 39
98097550 ATTGAATGAT
* * * * * *
98097560 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTAT
1 ATCCGGGCTAAGACCCGAAGGCA-TTGTGCTAGTGACTAC
*
98097600 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTGTGCTAGTGACTAC
*
98097640 ATCCGGGTTAAGACCCGAAGGCATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTGTGCTAGTGACTAC
* * *
98097679 ATCCGGGCTAAGACCCGAAGGCATTGTGCAAGTTG-TTAA
1 ATCCGGGCTAAGACCCGAAGGCATTGTGCTAG-TGACTAC
* * *
98097718 AT-CGGGCTAAGACCCGAAGGCATTCATGCAAGT--CGT-T
1 ATCCGGGCTAAGACCCGAAGGCATT-GTGCTAGTGAC-TAC
98097755 ATCCGGGCTAAGACCCGAAGGCATTCGTGC
1 ATCCGGGCTAAGACCCGAAGGCATT-GTGC
98097785 ATGTGGTTAT
Statistics
Matches: 165, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
37 2 0.01
38 50 0.30
39 57 0.35
40 55 0.33
41 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTGTGCTAGTGACTAC
Found at i:98100893 original size:28 final size:28
Alignment explanation
Indices: 98100853--98100942 Score: 171
Period size: 28 Copynumber: 3.2 Consensus size: 28
98100843 TGTGTCCTTA
98100853 GCCCGTATTCCTCACACGGCCTGGACAT
1 GCCCGTATTCCTCACACGGCCTGGACAT
98100881 GCCCGTATTCCTCACACGGCCTGGACAT
1 GCCCGTATTCCTCACACGGCCTGGACAT
*
98100909 GCCCGTATTCCTCACACGGCCTGGACAC
1 GCCCGTATTCCTCACACGGCCTGGACAT
98100937 GCCCGT
1 GCCCGT
98100943 GTCTATGGTC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.17, C:0.41, G:0.22, T:0.20
Consensus pattern (28 bp):
GCCCGTATTCCTCACACGGCCTGGACAT
Found at i:98115280 original size:2 final size:2
Alignment explanation
Indices: 98115273--98115309 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
98115263 ATAATGAGAA
98115273 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
98115310 AACTTTAAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:98116478 original size:2 final size:2
Alignment explanation
Indices: 98116471--98116505 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
98116461 CATTTGCACC
98116471 TA TA 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 TA TA T
98116506 CATCAAGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:98127087 original size:122 final size:122
Alignment explanation
Indices: 98126870--98127095 Score: 389
Period size: 122 Copynumber: 1.9 Consensus size: 122
98126860 GAATGTATTG
*
98126870 AAATGGTACCATTTTGGTTGCTAGGTGTGCATGAGGAAAGGGTGGCAAATTGGCTTTGCAAATAG
1 AAATGATACCATTTTGGTTGCTAGGTGTGCATGAGGAAAGGGTGGCAAATTGGCTTTGCAAATAG
98126935 CCTATTTTTATCCACACAGGCAAAGACACGGGCGTGTGTAACACACGGTCATGCTAC
66 CCTATTTTTATCCACACAGGCAAAGACACGGGCGTGTGTAACACACGGTCATGCTAC
*
98126992 AAATGATATCATTTTGGTTGCTAGGTGTGCATGAGGAAAGGGTGGCAAATTGGCTTTGCAAATAG
1 AAATGATACCATTTTGGTTGCTAGGTGTGCATGAGGAAAGGGTGGCAAATTGGCTTTGCAAATAG
* ** * *
98127057 CCTATTTTTATCTACATGGGTAGAGACACGGGCGTGTGT
66 CCTATTTTTATCCACACAGGCAAAGACACGGGCGTGTGT
98127096 CTCAGCCGTG
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
122 97 1.00
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (122 bp):
AAATGATACCATTTTGGTTGCTAGGTGTGCATGAGGAAAGGGTGGCAAATTGGCTTTGCAAATAG
CCTATTTTTATCCACACAGGCAAAGACACGGGCGTGTGTAACACACGGTCATGCTAC
Found at i:98134857 original size:28 final size:28
Alignment explanation
Indices: 98134792--98134892 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
98134782 CATTTATACC
*
98134792 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
98134821 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
98134849 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
98134879 CGCACACTTAGTGC
1 CGCACACTTAGTGC
98134893 CGAGACCAAT
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:98142730 original size:145 final size:144
Alignment explanation
Indices: 98142543--98142941 Score: 412
Period size: 145 Copynumber: 2.7 Consensus size: 144
98142533 TACTTAACCA
* * *
98142543 TAATTATATAATGTCAAATT-TATATATTATGATCTACCATAAAATTAGTTACACATTTAATGTT
1 TAATTATATAATG-CTAATTATATATATTATAATCTACCATAAAATTAGTTACATATTTAA-GTT
*
98142607 TAAAGTTACATATCATTAATATAAAAATATACATTATAATATCATAATTGTATATAGGGTTAGAT
64 T-AAGTTACA-ATCATTAATATAAAAATATACATTATAATATCATAATTGTATATAGGGTAAGAT
98142672 ATCATTAATAATCTACC-
127 ATCATTAATAATCTACCT
* * **
98142689 TAATTATATAACGCTAATTATAT-TATTATAATCTACCATAAAGTTAGTTACATGCTTAGAGTTT
1 TAATTATATAATGCTAATTATATATATTATAATCTACCATAAAATTAGTTACATATTTA-AGTTT
** * * * * ** * * *
98142753 AAGTTTACAAATCAAAAACATAACAATGTACATTATAAAAAAATAGTTGTATATGGGGTAATATA
65 AAG-TTAC-AATCATTAATATAAAAATATACATTATAATATCATAATTGTATATAGGGTAAGATA
*
98142818 TCATTTATAATCTACCT
128 TCATTAATAATCTACCT
* * * * * * *
98142835 TAATTTTATAATGTTGATTATATATATTATAATATACCATAAAATTAGCTATATATTTGAGGTTT
1 TAATTATATAATGCTAATTATATATATTATAATCTACCATAAAATTAGTTACATATTT-AAGTTT
* *
98142900 ATGTTGA-AATCATTAATA-AAAGAATAAACATTATAATATCAT
65 AAGTT-ACAATCATTAATATAAA-AATATACATTATAATATCAT
98142942 TATACATTCA
Statistics
Matches: 203, Mismatches: 41, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
144 5 0.02
145 124 0.61
146 38 0.19
147 35 0.17
148 1 0.00
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (144 bp):
TAATTATATAATGCTAATTATATATATTATAATCTACCATAAAATTAGTTACATATTTAAGTTTA
AGTTACAATCATTAATATAAAAATATACATTATAATATCATAATTGTATATAGGGTAAGATATCA
TTAATAATCTACCT
Found at i:98145442 original size:237 final size:237
Alignment explanation
Indices: 98145001--98145471 Score: 599
Period size: 237 Copynumber: 2.0 Consensus size: 237
98144991 AAAAAATGTC
*
98145001 GTTAATTACCGATGATTACCAATATTCAGCACTTGTTGCAAACTCGAAGATACATGTGACACAGG
1 GTTAATTACCGATGATTACCAAGATTCAGCACTTGTTGCAAACTCGAAGATACATGTGACACAGG
* *
98145066 TTTAGCTCAGACAAGTAACCTGATATCTTTTTAAAGGTTTAACTCAGAAAGTTAACCTGACATGT
66 TTTAGCTCAGACAAGTAACCTGATATCGTTTTAAAGGTTTAACTCAGAAAGGTAACCTGACATGT
* * *
98145131 ATATTTATAGCTTTGGCCAAACTATTTGATGTGTAGATAAAAGGTTTAGCCCGAACAGGTAACAT
131 ATATTTACAGCTTTAGCCAAACTATTTGATGTGTAGATAAAAGGTTTAGCCCGAACAAGTAACAT
*
98145196 GTCACAAATGGA-TCTGTTCAGCTCA-GACGAGCATTAGATATG
196 ATCACAAATGGATTC-GTTCAGCT-AGGACGAGCATTAGATATG
* ** * * *
98145238 GTTAATTACTGATGATTAGTAAGATTCAGCATTTGTTGCAGACTTGAAGATACATGTGACACAGG
1 GTTAATTACCGATGATTACCAAGATTCAGCACTTGTTGCAAACTCGAAGATACATGTGACACAGG
* * * * * * * *
98145303 TTTTGCTC-GAACGAGTAGCCTGATGTGGTTTTAAAGGTTTAGC-CTAGACAGGTAACTTGACAT
66 TTTAGCTCAG-ACAAGTAACCTGATATCGTTTTAAAGGTTTAACTC-AGAAAGGTAACCTGACAT
* * * * * *
98145366 GTATATTTACAGCTTTATCCAAGCTATTTGATGTGTTGATAAAAGGTTTAGTCTGGACAAGTAAC
129 GTATATTTACAGCTTTAGCCAAACTATTTGATGTGTAGATAAAAGGTTTAGCCCGAACAAGTAAC
* * * *
98145431 CTATTACAAATGGATTCGTTCATCTAGGATGAGCATTAGAT
194 ATATCACAAATGGATTCGTTCAGCTAGGACGAGCATTAGAT
98145472 GTGATTAGTA
Statistics
Matches: 199, Mismatches: 31, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
236 3 0.02
237 194 0.97
238 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (237 bp):
GTTAATTACCGATGATTACCAAGATTCAGCACTTGTTGCAAACTCGAAGATACATGTGACACAGG
TTTAGCTCAGACAAGTAACCTGATATCGTTTTAAAGGTTTAACTCAGAAAGGTAACCTGACATGT
ATATTTACAGCTTTAGCCAAACTATTTGATGTGTAGATAAAAGGTTTAGCCCGAACAAGTAACAT
ATCACAAATGGATTCGTTCAGCTAGGACGAGCATTAGATATG
Found at i:98145790 original size:27 final size:27
Alignment explanation
Indices: 98145760--98145817 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
98145750 TAATTATACA
*
98145760 CATTTATATACTTATGAACTTATTAAG
1 CATTTATATACTTATGAACTTACTAAG
98145787 CATTTATATACTTATGAACTTACTAAG
1 CATTTATATACTTATGAACTTACTAAG
98145814 CATT
1 CATT
98145818 AGTAATGCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (27 bp):
CATTTATATACTTATGAACTTACTAAG
Found at i:98149646 original size:93 final size:93
Alignment explanation
Indices: 98149539--98149709 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
98149529 GCCCATAAGT
* *
98149539 GAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
98149604 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
98149632 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
98149697 CGAGTTCGGATGC
66 CGAGCTCGGATGC
98149710 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:98149706 original size:46 final size:46
Alignment explanation
Indices: 98149531--98149706 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
98149521 TGTAACCCGC
* * * *
98149531 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * *
98149577 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
98149627 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
98149670 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
98149707 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 63 0.58
47 27 0.25
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:98156859 original size:13 final size:14
Alignment explanation
Indices: 98156841--98156875 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
98156831 TTATCATTTG
98156841 TTTATTTTTC-TTA
1 TTTATTTTTCGTTA
98156854 TTTA-TTTTCGTTA
1 TTTATTTTTCGTTA
98156867 TTTATTTTT
1 TTTATTTTT
98156876 ATCTAAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.25
13 11 0.55
14 4 0.20
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTATTTTTCGTTA
Found at i:98158126 original size:18 final size:18
Alignment explanation
Indices: 98158103--98158137 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
98158093 TTTTTACAAA
*
98158103 AATTCCTAAAGGATTTAT
1 AATTCCAAAAGGATTTAT
*
98158121 AATTCCAAAATGATTTA
1 AATTCCAAAAGGATTTA
98158138 AAACGAAATA
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:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (18 bp):
AATTCCAAAAGGATTTAT
Found at i:98158175 original size:101 final size:101
Alignment explanation
Indices: 98158049--98158241 Score: 239
Period size: 101 Copynumber: 1.9 Consensus size: 101
98158039 AAAAATGAGA
* ** *
98158049 AAAATGAAGTCATAAGATTTCAAGCA-ACACTTATAGCATAAAGATT-TTTACAAAAATTCCTAA
1 AAAATGAAGTCAAAAGATTAAAAGCACA-ACTTATAGCATAAAGATTATAT-CAAAAATTCCTAA
* * *
98158112 AGGATTTATAAT-TCCAAAATGATTTAAAACGAAATAAG
64 AAGATTTAAAATCT-CAAAATGATATAAAACGAAATAAG
* * * *
98158150 AAAATGAAGTCAAAAGATTAAAAGCACAACTTCTAGCATAAGGATTATATGAAAAATTCTTAAAA
1 AAAATGAAGTCAAAAGATTAAAAGCACAACTTATAGCATAAAGATTATATCAAAAATTCCTAAAA
98158215 GATTTAAAATCTCAAAATGATATAAAA
66 GATTTAAAATCTCAAAATGATATAAAA
98158242 TTTCTTTAGA
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
101 74 0.95
102 4 0.05
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (101 bp):
AAAATGAAGTCAAAAGATTAAAAGCACAACTTATAGCATAAAGATTATATCAAAAATTCCTAAAA
GATTTAAAATCTCAAAATGATATAAAACGAAATAAG
Found at i:98158545 original size:18 final size:18
Alignment explanation
Indices: 98158507--98158545 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
98158497 AAGGGGGTTT
*
98158507 AAATTAAAAAAAAAACTA
1 AAATTAAAAAAAAAACAA
**
98158525 AAATTAAAATTAAAACAA
1 AAATTAAAAAAAAAACAA
98158543 AAA
1 AAA
98158546 AAAATCAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (18 bp):
AAATTAAAAAAAAAACAA
Found at i:98164911 original size:14 final size:14
Alignment explanation
Indices: 98164890--98164931 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
98164880 TTGCAAAAAT
98164890 CATATATATGTATA
1 CATATATATGTATA
*
98164904 -AGTATATATCTATA
1 CA-TATATATGTATA
*
98164918 CATATTTATGTATA
1 CATATATATGTATA
98164932 GCATTCGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 1 0.04
14 21 0.91
15 1 0.04
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (14 bp):
CATATATATGTATA
Found at i:98168221 original size:43 final size:42
Alignment explanation
Indices: 98168155--98168318 Score: 161
Period size: 43 Copynumber: 3.8 Consensus size: 42
98168145 ATTGAAAAGT
*
98168155 AAATACAATGCCAAAGTCCTAGACGTGGTCTTACATGTAATCA
1 AAAT-CAATGCCAATGTCCTAGACGTGGTCTTACATGTAATCA
* * *
98168198 AACATCAATGCCACTGTCCTAGACAG-GGTCTTACACGAAATC-
1 AA-ATCAATGCCAATGTCCTAGAC-GTGGTCTTACATGTAATCA
* * * *
98168240 ATATACGATGCCAATGTCCTAGACATGGTCTTACATGTAAAACA
1 AAAT-CAATGCCAATGTCCTAGACGTGGTCTTACATGT-AATCA
* * *
98168284 GAAGTCGATGCCAATGTCCCAGACGTGGTCTTACA
1 -AAATCAATGCCAATGTCCTAGACGTGGTCTTACA
98168319 CGCAAAACAG
Statistics
Matches: 99, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
41 2 0.02
42 28 0.28
43 36 0.36
44 31 0.31
45 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (42 bp):
AAATCAATGCCAATGTCCTAGACGTGGTCTTACATGTAATCA
Found at i:98168313 original size:44 final size:42
Alignment explanation
Indices: 98168162--98168327 Score: 158
Period size: 44 Copynumber: 3.9 Consensus size: 42
98168152 AGTAAATACA
* * * *
98168162 ATGCCAAAGTCCTAGACGTGGTCTTACATGTAATCAA-ACATCA
1 ATGCCAATGTCCTAGACGTGGTCTTACACGTAA--AACAAATCG
* * *
98168205 ATGCCACTGTCCTAGACAG-GGTCTTACACG-AAATCATATACG
1 ATGCCAATGTCCTAGAC-GTGGTCTTACACGTAAAACAAAT-CG
* *
98168247 ATGCCAATGTCCTAGACATGGTCTTACATGTAAAACAGAAGTCG
1 ATGCCAATGTCCTAGACGTGGTCTTACACGTAAAACA-AA-TCG
* *
98168291 ATGCCAATGTCCCAGACGTGGTCTTACACGCAAAACA
1 ATGCCAATGTCCTAGACGTGGTCTTACACGTAAAACA
98168328 GATATCGAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 29 0.29
43 30 0.30
44 37 0.37
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCTAGACGTGGTCTTACACGTAAAACAAATCG
Found at i:98175513 original size:31 final size:31
Alignment explanation
Indices: 98175470--98175533 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
98175460 CCTTTTCATA
98175470 TTTCATAATTCATAACACTGGGCCAAAGCCT
1 TTTCATAATTCATAACACTGGGCCAAAGCCT
* ** *
98175501 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCAAAGCCT
98175532 TT
1 TT
98175534 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCAAAGCCT
Found at i:98175771 original size:23 final size:24
Alignment explanation
Indices: 98175726--98175869 Score: 186
Period size: 24 Copynumber: 6.0 Consensus size: 24
98175716 GTTTTATCAT
*
98175726 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
98175751 ATAATTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
98175776 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
98175799 ATAATTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
98175823 ATGACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
98175847 ATAACTGGGGCATAAGCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTT
98175870 TCACTTCCTC
Statistics
Matches: 106, Mismatches: 8, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
23 23 0.22
24 54 0.51
25 23 0.22
26 6 0.06
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:98175945 original size:20 final size:20
Alignment explanation
Indices: 98175922--98175984 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
98175912 GAACATCTCG
98175922 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
98175942 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
*
98175962 TGTGTATATCATACATATCA
1 TGTGCATATCATACATATCA
98175982 TGT
1 TGT
98175985 TTATCAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:98179096 original size:40 final size:40
Alignment explanation
Indices: 98179015--98179192 Score: 268
Period size: 40 Copynumber: 4.5 Consensus size: 40
98179005 CAACCAAGTA
** * *
98179015 CCTTCGGGGTTTAG-CCGGATATAGTTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
98179054 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
98179094 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
98179134 CCTTCGGGACTTAGCCCGGAAATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
98179174 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
98179193 TTATCATCCG
Statistics
Matches: 128, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 12 0.09
40 116 0.91
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:98186989 original size:31 final size:31
Alignment explanation
Indices: 98186946--98187009 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
98186936 CCTTTTCATA
98186946 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
98186977 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
98187008 TT
1 TT
98187010 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:98187249 original size:24 final size:24
Alignment explanation
Indices: 98187202--98187343 Score: 220
Period size: 24 Copynumber: 6.0 Consensus size: 24
98187192 GCTTTATCAT
*
98187202 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
98187227 ATAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
98187251 ATAACT-GGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
98187273 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
98187297 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
98187321 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
98187344 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 1, Indels: 11
0.90 0.01 0.09
Matches are distributed among these distances:
22 10 0.09
23 18 0.16
24 75 0.68
25 8 0.07
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:98187302 original size:70 final size:72
Alignment explanation
Indices: 98187202--98187342 Score: 227
Period size: 70 Copynumber: 2.0 Consensus size: 72
98187192 GCTTTATCAT
*
98187202 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTTTAATAACT-GGGCATAA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCC-TTTTAATAACTGGGGCATAA
98187265 GCCCTTTA
65 GCCCTTTA
98187273 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAA
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAA
98187336 GCCCTTT
65 GCCCTTT
98187343 TTCACTTCCT
Statistics
Matches: 66, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
70 33 0.50
71 33 0.50
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (72 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAG
CCCTTTA
Found at i:98187415 original size:9 final size:9
Alignment explanation
Indices: 98187401--98187457 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
98187391 ATCTCGTGTG
98187401 CATATCATA
1 CATATCATA
*
98187410 CATATCATGTG
1 CATATCA--TA
98187421 CATATCATA
1 CATATCATA
* *
98187430 CATGTCATGTG
1 CATATCA--TA
98187441 CATATCATA
1 CATATCATA
98187450 CATATCAT
1 CATATCAT
98187458 GTTTATCAAA
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:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:98187420 original size:20 final size:20
Alignment explanation
Indices: 98187397--98187459 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
98187387 GAACATCTCG
98187397 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
98187417 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
98187437 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
98187457 TGT
1 TGT
98187460 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:98187524 original size:25 final size:25
Alignment explanation
Indices: 98187496--98187543 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
98187486 ATATATAAAC
* * *
98187496 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
98187521 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
98187544 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:98189906 original size:10 final size:10
Alignment explanation
Indices: 98189891--98189922 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
98189881 ATAGTGTGGT
*
98189891 GACGATCCTC
1 GACGATCCCC
98189901 GACGATCCCC
1 GACGATCCCC
98189911 GACGATCCCC
1 GACGATCCCC
98189921 GA
1 GA
98189923 GCTCACAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.22, C:0.44, G:0.22, T:0.12
Consensus pattern (10 bp):
GACGATCCCC
Found at i:98191381 original size:40 final size:40
Alignment explanation
Indices: 98191336--98191503 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
98191326 CGGAATATAA
98191336 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
98191376 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
98191416 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
98191456 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
98191496 CCGGATAT
1 CCGGATAT
98191504 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:98199399 original size:40 final size:40
Alignment explanation
Indices: 98199354--98199521 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
98199344 CGGAATATAA
98199354 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
98199394 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
98199434 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
98199474 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
98199514 CCGGATAT
1 CCGGATAT
98199522 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:98201513 original size:43 final size:42
Alignment explanation
Indices: 98201465--98201621 Score: 115
Period size: 44 Copynumber: 3.7 Consensus size: 42
98201455 AGTAAATATA
* *
98201465 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAACATCT
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAA-ATCG
* * * *
98201508 ATGCC-ACTGTCCCAGATAG-GGTCTTACACGAAATC-ATATACG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACATGTAATCAAAAT-CG
* * * *
98201550 ATGCTAATGTCCCAGACATGGTCTTACATGTAAAAT-AGAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGT--AATCA-AAATCG
**
98201594 ATGCCAACGTCCTGGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
98201622 CGCAAAACAG
Statistics
Matches: 86, Mismatches: 19, Indels: 17
0.70 0.16 0.14
Matches are distributed among these distances:
41 2 0.02
42 26 0.30
43 27 0.31
44 29 0.34
45 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAAATCG
Found at i:98205459 original size:27 final size:28
Alignment explanation
Indices: 98205403--98205472 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
98205393 AAATTTGTAC
98205403 AGCACTAAGTGTGCGAGATTGATCATAT
1 AGCACTAAGTGTGCGAGATTGATCATAT
*
98205431 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGATTGATCATAT
98205458 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
98205473 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGATTGATCATAT
Found at i:98213306 original size:27 final size:28
Alignment explanation
Indices: 98213222--98213319 Score: 180
Period size: 28 Copynumber: 3.5 Consensus size: 28
98213212 AAATTTGTAC
98213222 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
98213250 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
98213278 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
98213305 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
98213320 GACTCACTAT
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
27 24 0.35
28 45 0.65
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:98226269 original size:30 final size:30
Alignment explanation
Indices: 98226230--98226286 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
98226220 TTTTGGGCAT
*
98226230 AGGGTAAAATCGTAATTTTTA-CAAAGTTTA
1 AGGGCAAAATCGTAA-TTTTACCAAAGTTTA
* *
98226260 AGGGCAAAATGGTTATTTTACCAAAGT
1 AGGGCAAAATCGTAATTTTACCAAAGT
98226287 ATGAGTCTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 5 0.22
30 18 0.78
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (30 bp):
AGGGCAAAATCGTAATTTTACCAAAGTTTA
Found at i:98226511 original size:73 final size:71
Alignment explanation
Indices: 98226391--98226536 Score: 247
Period size: 73 Copynumber: 2.0 Consensus size: 71
98226381 GAAGGAACAA
* *
98226391 AGTTTACGAGGATTTGGCTCGTTCCCATCATTTTGTGTCGAGGTAAGTACATATGTGAATAATGT
1 AGTTTACAAGGATTTGGCTCGTTCCCATCATTTTGTGTCGAGATAAGTACATATGTGAATAATGT
98226456 GCCATTAT
66 --CATTAT
*
98226464 AGTTTACAAGGATTTTGCTCGTTCCCATCATTTTGTGTCGAGATAAGTACATATGTGAATAATGT
1 AGTTTACAAGGATTTGGCTCGTTCCCATCATTTTGTGTCGAGATAAGTACATATGTGAATAATGT
98226529 CATTAT
66 CATTAT
98226535 AG
1 AG
98226537 CTTATTTTAA
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
71 8 0.11
73 62 0.89
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (71 bp):
AGTTTACAAGGATTTGGCTCGTTCCCATCATTTTGTGTCGAGATAAGTACATATGTGAATAATGT
CATTAT
Found at i:98228183 original size:21 final size:20
Alignment explanation
Indices: 98228157--98228196 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
98228147 GTTATAATGA
*
98228157 CCACACGGGCGTGTTGCCCTT
1 CCACACAGGCGTG-TGCCCTT
98228178 CCACACAGGCGTGTGCCCT
1 CCACACAGGCGTGTGCCCT
98228197 GTTTCAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (20 bp):
CCACACAGGCGTGTGCCCTT
Found at i:98230489 original size:17 final size:17
Alignment explanation
Indices: 98230467--98230506 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
98230457 AGCTATAACG
98230467 AATAAGGCTTCCACTGT
1 AATAAGGCTTCCACTGT
**
98230484 AATAAGTTTTCCACTGT
1 AATAAGGCTTCCACTGT
98230501 AATAAG
1 AATAAG
98230507 TTTTGGTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (17 bp):
AATAAGGCTTCCACTGT
Found at i:98230507 original size:17 final size:17
Alignment explanation
Indices: 98230475--98230510 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
98230465 CGAATAAGGC
98230475 TTCCACTGTAATAAGTT
1 TTCCACTGTAATAAGTT
98230492 TTCCACTGTAATAAGTT
1 TTCCACTGTAATAAGTT
98230509 TT
1 TT
98230511 GGTAAAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (17 bp):
TTCCACTGTAATAAGTT
Found at i:98232444 original size:11 final size:11
Alignment explanation
Indices: 98232430--98232462 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
98232420 ATTTGCAGAC
98232430 AAGTTGCCAAT
1 AAGTTGCCAAT
*
98232441 AAGTTG-CGAT
1 AAGTTGCCAAT
98232451 AAGTTGCCAAT
1 AAGTTGCCAAT
98232462 A
1 A
98232463 CTCCAACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (11 bp):
AAGTTGCCAAT
Found at i:98232456 original size:21 final size:22
Alignment explanation
Indices: 98232414--98232462 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
98232404 AGTAGAACTA
*
98232414 CCAATAATTTGCAGACAAGTTG
1 CCAATAAGTTGCAGACAAGTTG
*
98232436 CCAATAAGTTGC-GATAAGTTG
1 CCAATAAGTTGCAGACAAGTTG
98232457 CCAATA
1 CCAATA
98232463 CTCCAACAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (22 bp):
CCAATAAGTTGCAGACAAGTTG
Found at i:98234435 original size:23 final size:22
Alignment explanation
Indices: 98234382--98234435 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
98234372 GATGCGGACA
*
98234382 ATCTCTTTTAATGATAAGTGGC
1 ATCTCTTTTAATGACAAGTGGC
* * *
98234404 ATTTCCTTTTAATGACATGTGGT
1 ATCT-CTTTTAATGACAAGTGGC
98234427 ACTCTCTTT
1 A-TCTCTTT
98234436 ATATTTTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 3 0.12
23 20 0.80
24 2 0.08
ACGTcount: A:0.22, C:0.17, G:0.15, T:0.46
Consensus pattern (22 bp):
ATCTCTTTTAATGACAAGTGGC
Found at i:98234503 original size:2 final size:2
Alignment explanation
Indices: 98234498--98234529 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
98234488 TTTAAAAATA
98234498 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
98234530 GACTTGACGA
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:98239529 original size:20 final size:20
Alignment explanation
Indices: 98239500--98239540 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
98239490 GAATGCCAAG
*
98239500 TGTGTGATAAAAATAATACA
1 TGTGTAATAAAAATAATACA
* *
98239520 TGTGTAATAAATATTATACA
1 TGTGTAATAAAAATAATACA
98239540 T
1 T
98239541 ACATTTGTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTGTAATAAAAATAATACA
Found at i:98239620 original size:17 final size:17
Alignment explanation
Indices: 98239600--98239636 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
98239590 TATTTTATAT
98239600 TAATTAAATAAAGTAAA
1 TAATTAAATAAAGTAAA
*
98239617 TAATTAAATAAATTAAA
1 TAATTAAATAAAGTAAA
98239634 TAA
1 TAA
98239637 AGACAAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
TAATTAAATAAAGTAAA
Found at i:98239847 original size:4 final size:4
Alignment explanation
Indices: 98239831--98239863 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
98239821 AGAACAGGGG
*
98239831 AGAA AGAA GGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
98239864 AATAAGGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:98241027 original size:51 final size:53
Alignment explanation
Indices: 98240942--98241057 Score: 146
Period size: 51 Copynumber: 2.2 Consensus size: 53
98240932 AAGTGTTGCC
*
98240942 TTACTGTTACTGTTCCAGATTCGTTCCGAAGAGGTACTCCG-TACC-TTACTG
1 TTACTGTTACTGTTCCAGATTCGTTCCGAAGAGGTACTCCGCTACCGCTACTG
* * * * * *
98240993 TTACTGTTGCTGTTCTAGATTTGTTTCGATGAGGTACTCTGTCTACCGCTACTG
1 TTACTGTTACTGTTCCAGATTCGTTCCGAAGAGGTACTCCG-CTACCGCTACTG
98241047 TTACTGTTACT
1 TTACTGTTACT
98241058 TCTACTATTA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
51 35 0.65
53 4 0.07
54 15 0.28
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (53 bp):
TTACTGTTACTGTTCCAGATTCGTTCCGAAGAGGTACTCCGCTACCGCTACTG
Found at i:98241265 original size:18 final size:18
Alignment explanation
Indices: 98241187--98241270 Score: 60
Period size: 18 Copynumber: 4.5 Consensus size: 18
98241177 GTAAAAAAGG
*
98241187 TACTGAATAACCGACTGT
1 TACTGAATAAACGACTGT
*** *
98241205 TACTGAATAATTTATTGT
1 TACTGAATAAACGACTGT
* * * *
98241223 TACTAAAAAAAAACTAATCGT
1 TACT--GAATAAACGACT-GT
98241244 TACTGAATAAACGACTGT
1 TACTGAATAAACGACTGT
98241262 TACTGAATA
1 TACTGAATA
98241271 GATGATTACT
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
18 29 0.58
19 8 0.16
20 7 0.14
21 6 0.12
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (18 bp):
TACTGAATAAACGACTGT
Found at i:98242287 original size:22 final size:22
Alignment explanation
Indices: 98242232--98242291 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
98242222 ACACGGTGTG
* *
98242232 GCCACACGGGCATGTCACATAA
1 GCCACACGGGCGTGTGACATAA
98242254 GCCACACGGGCGTGTGACATAA
1 GCCACACGGGCGTGTGACATAA
*
98242276 GCCATACGGGCGTGTG
1 GCCACACGGGCGTGTG
98242292 GTACTGTCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.25, C:0.28, G:0.32, T:0.15
Consensus pattern (22 bp):
GCCACACGGGCGTGTGACATAA
Found at i:98244796 original size:16 final size:16
Alignment explanation
Indices: 98244775--98244805 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98244765 AGTTTAGGGG
98244775 CAAAAATATAATTTTA
1 CAAAAATATAATTTTA
*
98244791 CAAAAATATGATTTT
1 CAAAAATATAATTTT
98244806 TGGATCACAT
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:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
CAAAAATATAATTTTA
Found at i:98249714 original size:15 final size:15
Alignment explanation
Indices: 98249679--98249721 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
98249669 TTTTTTATGT
* *
98249679 TGGATTTCTATATTT
1 TGGATTTCTTTATTA
*
98249694 TAGATTTCTTTATTA
1 TGGATTTCTTTATTA
*
98249709 TGGATTTCCTTAT
1 TGGATTTCTTTAT
98249722 CTTGAATTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.21, C:0.09, G:0.12, T:0.58
Consensus pattern (15 bp):
TGGATTTCTTTATTA
Found at i:98264754 original size:50 final size:50
Alignment explanation
Indices: 98264628--98264806 Score: 169
Period size: 49 Copynumber: 3.7 Consensus size: 50
98264618 ACATTTGGGC
* *
98264628 GATATGTGTGTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-T
1 GATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACT
* * * *
98264676 GAGATGT--G-TC-AGTATAAGACCATGTCTGGGACATGGCATCGGCACG
1 GATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT
* *
98264722 GATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGC-CT
1 GATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT
* * * *
98264771 CA-ATTTCGATAGCTAGTGTAATACCATGTCTGGGAC
1 GATATGT-GAGAGCTAGTGTAAGACCATGTCTGGGAC
98264807 TTAATGGATG
Statistics
Matches: 109, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
44 8 0.07
45 16 0.15
46 15 0.14
48 10 0.09
49 30 0.28
50 30 0.28
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (50 bp):
GATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT
Found at i:98268620 original size:39 final size:39
Alignment explanation
Indices: 98268577--98268710 Score: 193
Period size: 39 Copynumber: 3.5 Consensus size: 39
98268567 ATTCATTTTT
*
98268577 AAGCATATATCACATTACAT-ATATAATCACATAACATTC
1 AAGCATATATCACAATAC-TCATATAATCACATAACATTC
*
98268616 AAGC--ATATCACAATACTCATACAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
98268653 AAGCATATATCACAATACTCATATAATCACTTAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
98268692 AAGTATATATCACGATACT
1 AAGCATATATCACAATACT
98268711 AAAAAACATG
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
36 1 0.01
37 33 0.38
39 52 0.60
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:98268642 original size:37 final size:37
Alignment explanation
Indices: 98268583--98268699 Score: 164
Period size: 37 Copynumber: 3.1 Consensus size: 37
98268573 TTTTAAGCAT
*
98268583 ATATCACATTACAT-ATATAATCACATAACATTCAAGC
1 ATATCACAATAC-TCATATAATCACATAACATTCAAGC
*
98268620 ATATCACAATACTCATACAATCACATAACATTCAAGC
1 ATATCACAATACTCATATAATCACATAACATTCAAGC
* *
98268657 ATATATCACAATACTCATATAATCACTTAACATTCAAGT
1 --ATATCACAATACTCATATAATCACATAACATTCAAGC
98268696 ATAT
1 ATAT
98268700 ATCACGATAC
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
36 1 0.01
37 37 0.51
39 34 0.47
ACGTcount: A:0.45, C:0.22, G:0.03, T:0.30
Consensus pattern (37 bp):
ATATCACAATACTCATATAATCACATAACATTCAAGC
Found at i:98268704 original size:22 final size:21
Alignment explanation
Indices: 98268639--98268704 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
98268629 TACTCATACA
*
98268639 ATCACATAACATTCAAGCATAT
1 ATCAC-TAACATTCAAGTATAT
* *
98268661 ATCAC-AATACTC-A-TATA-
1 ATCACTAACATTCAAGTATAT
98268678 ATCACTTAACATTCAAGTATAT
1 ATCAC-TAACATTCAAGTATAT
98268700 ATCAC
1 ATCAC
98268705 GATACTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
17 5 0.15
18 3 0.09
19 6 0.18
20 6 0.18
21 4 0.12
22 10 0.29
ACGTcount: A:0.44, C:0.23, G:0.03, T:0.30
Consensus pattern (21 bp):
ATCACTAACATTCAAGTATAT
Found at i:98283704 original size:79 final size:80
Alignment explanation
Indices: 98283561--98283768 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
98283551 ACCTTCGGAG
* * ** * * * *
98283561 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
98283625 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
98283640 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
98283702 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
98283719 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
98283769 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:98283713 original size:40 final size:40
Alignment explanation
Indices: 98283661--98283768 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
98283651 TATCACGATT
** *
98283661 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
98283701 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
98283741 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
98283769 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:98290869 original size:79 final size:80
Alignment explanation
Indices: 98290726--98290933 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
98290716 ACCTTCGGAG
* * ** * * * *
98290726 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
98290790 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
98290805 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
98290867 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
98290884 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
98290934 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:98290878 original size:40 final size:40
Alignment explanation
Indices: 98290826--98290933 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
98290816 TATCACGATT
** *
98290826 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
98290866 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
98290906 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
98290934 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:98300827 original size:37 final size:37
Alignment explanation
Indices: 98300747--98300925 Score: 189
Period size: 37 Copynumber: 4.8 Consensus size: 37
98300737 ACAAAGTTTG
* *
98300747 CTAGGCACATAGCATGAATATCAGCGGCACAAAGCCTA
1 CTAGGCACATAGCCTGAA-ATCACCGGCACAAAGCCTA
* *
98300785 CTAGGCACATAGCCTGAAATCACCTGCACAATGCCTGA
1 CTAGGCACATAGCCTGAAATCACCGGCACAAAGCCT-A
* * *
98300823 -TAGGCACTTAACCCGAAATCACCGGCACAAAGCCTA
1 CTAGGCACATAGCCTGAAATCACCGGCACAAAGCCTA
** * ** * *
98300859 CTAGGCATTTAGCCCGAAATCATTGACACAAAGCCTG
1 CTAGGCACATAGCCTGAAATCACCGGCACAAAGCCTA
* *
98300896 CTAGGCACATATCCTGAAATCACCAGCACA
1 CTAGGCACATAGCCTGAAATCACCGGCACA
98300926 TAACTAAATA
Statistics
Matches: 116, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
36 1 0.01
37 97 0.84
38 18 0.16
ACGTcount: A:0.35, C:0.30, G:0.18, T:0.17
Consensus pattern (37 bp):
CTAGGCACATAGCCTGAAATCACCGGCACAAAGCCTA
Found at i:98308170 original size:6 final size:6
Alignment explanation
Indices: 98308154--98308210 Score: 107
Period size: 6 Copynumber: 9.7 Consensus size: 6
98308144 ATTTATGTTA
98308154 TTTTC- TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
98308201 TTTTCT TTTT
1 TTTTCT TTTT
98308211 TATGTTTATT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.10
6 46 0.90
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:98313532 original size:16 final size:16
Alignment explanation
Indices: 98313511--98313543 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
98313501 TCTAAACTCA
98313511 AATTATGTTGAACCAT
1 AATTATGTTGAACCAT
98313527 AATTATGTTGAACCAT
1 AATTATGTTGAACCAT
98313543 A
1 A
98313544 TGTAGTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (16 bp):
AATTATGTTGAACCAT
Found at i:98317321 original size:42 final size:43
Alignment explanation
Indices: 98317209--98317346 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 43
98317199 TGAGACATTG
* * ** * * *
98317209 TGTAAGACCGTGTCTGGGACACAGGCCTCGAT-TGAGAATTACG
1 TGTAAGACCATGTCTGGGACAGAGGTATCAATAT-TGAATTACA
* ** * *
98317252 TATAAGACCATGTCTGGGACATCGGTATC-ATATCTG-ATTTCG
1 TGTAAGACCATGTCTGGGACAGAGGTATCAATAT-TGAATTACA
* *
98317294 TGTAAGACCCTGTCTGGGATAGAGGTATCAATATTGAATTACA
1 TGTAAGACCATGTCTGGGACAGAGGTATCAATATTGAATTACA
98317337 TGTAAGACCA
1 TGTAAGACCA
98317347 CGAATGGGAC
Statistics
Matches: 75, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
42 33 0.44
43 42 0.56
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGAGGTATCAATATTGAATTACA
Found at i:98330924 original size:2 final size:2
Alignment explanation
Indices: 98330917--98330961 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
98330907 ATTTTCATTC
*
98330917 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
98330959 AT A
1 AT A
98330962 AGCCGTAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:98331543 original size:43 final size:43
Alignment explanation
Indices: 98331489--98331588 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 43
98331479 CACCGGTATT
* * *
98331489 AAGCCTGCTAGGCACGAAGACCCAAATACACATCACCGGCGCG
1 AAGCCTGCTAGGCACGAAGACCCAAATACACATCACCAGCACA
* * * *
98331532 AAGCCTACTAGGAACGAAGGCCCGAATACACATCACCAGCACA
1 AAGCCTGCTAGGCACGAAGACCCAAATACACATCACCAGCACA
98331575 AAGCCTGCTAGGCA
1 AAGCCTGCTAGGCA
98331589 TGAATACCTG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.35, C:0.33, G:0.22, T:0.10
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGACCCAAATACACATCACCAGCACA
Found at i:98331673 original size:40 final size:40
Alignment explanation
Indices: 98331608--98331728 Score: 188
Period size: 40 Copynumber: 3.0 Consensus size: 40
98331598 GATTTCACAT
* * * * * *
98331608 CACCGGCATGAATGCCCTTCAGGACTTAGCCTGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
98331648 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
98331688 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
98331728 C
1 C
98331729 TCTCAATTCT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:98334038 original size:2 final size:2
Alignment explanation
Indices: 98334033--98334058 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
98334023 ACACACACAC
98334033 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
98334059 CCTTTTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98340645 original size:26 final size:26
Alignment explanation
Indices: 98340616--98340775 Score: 257
Period size: 26 Copynumber: 6.2 Consensus size: 26
98340606 TGGTACAAAT
*
98340616 TGATAATGGGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
98340642 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
98340668 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
98340694 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
98340720 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
98340746 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
98340772 TGAT
1 TGAT
98340776 GGGCATTTCA
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 122 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:98340678 original size:52 final size:52
Alignment explanation
Indices: 98340616--98340775 Score: 284
Period size: 52 Copynumber: 3.1 Consensus size: 52
98340606 TGGTACAAAT
*
98340616 TGATAATGGGTTAAGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
98340668 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * *
98340720 TGATAATGGGTTAGGTAAATGTTCTATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
98340772 TGAT
1 TGAT
98340776 GGGCATTTCA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 104 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:98345284 original size:26 final size:26
Alignment explanation
Indices: 98345255--98345307 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
98345245 TTTACAGTTT
98345255 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
98345281 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
98345307 T
1 T
98345308 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:98345801 original size:137 final size:137
Alignment explanation
Indices: 98345555--98345978 Score: 776
Period size: 137 Copynumber: 3.1 Consensus size: 137
98345545 GAGTAGTCTC
98345555 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
98345620 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACT
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
98345685 ACTGTTA
131 ACTGTTA
* *
98345692 CCCAAATGGGCTTGAATATGTTTACTGATGTTGCATGCATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
98345757 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
98345822 ACTGTTA
131 ACTGTTA
*
98345829 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
98345894 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
98345959 ACTGTTA
131 ACTGTTA
**
98345966 CCTGAATGGGCTT
1 CCCAAATGGGCTT
98345979 AGGCCCAATA
Statistics
Matches: 276, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 276 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:98347139 original size:37 final size:37
Alignment explanation
Indices: 98347050--98347223 Score: 159
Period size: 37 Copynumber: 4.6 Consensus size: 37
98347040 TTACATTGGT
* * * *
98347050 ACAAAGCTTGCTAGGCATATAGCCCGAATATCACAGGC
1 ACAAAGCCTGCTAGGCACATAGCCC-AAAATCACTGGC
*
98347088 ACAAAGCCTACTAGGCACATAGCCCAAAATCACTGGC
1 ACAAAGCCTGCTAGGCACATAGCCCAAAATCACTGGC
* * * ** **
98347125 AAAAAACCTGCTAGGCACATATCCTGAAATCACCAGC
1 ACAAAGCCTGCTAGGCACATAGCCCAAAATCACTGGC
* * * *
98347162 ACAAAGGCTGCTAGACACATAGCCCAAATAACATTGGC
1 ACAAAGCCTGCTAGGCACATAGCCCAAA-ATCACTGGC
* * *
98347200 ACAAATCCTGGTAGGCACAAAGCC
1 ACAAAGCCTGCTAGGCACATAGCC
98347224 TGGCAGACGC
Statistics
Matches: 106, Mismatches: 29, Indels: 2
0.77 0.21 0.01
Matches are distributed among these distances:
37 60 0.57
38 46 0.43
ACGTcount: A:0.38, C:0.29, G:0.18, T:0.16
Consensus pattern (37 bp):
ACAAAGCCTGCTAGGCACATAGCCCAAAATCACTGGC
Found at i:98347237 original size:54 final size:54
Alignment explanation
Indices: 98347160--98347277 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 54
98347150 GAAATCACCA
* ** * *
98347160 GCACAAAGGCTGCTAGACACATAGCCCAAATAACATTGGCACAAATCCTGGTAG
1 GCACAAAGCCTGCTAGACACATAGCCCAAATAACATCAGCACAAAGCCTGCTAG
* **
98347214 GCACAAAGCCTGGC-AGACGCATAGCCTGAATAACATCAGCACAAAGCCTGCTAG
1 GCACAAAGCCT-GCTAGACACATAGCCCAAATAACATCAGCACAAAGCCTGCTAG
*
98347268 GCACATAGCC
1 GCACAAAGCC
98347278 CTAAATCACC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 52 0.96
55 2 0.04
ACGTcount: A:0.36, C:0.29, G:0.21, T:0.14
Consensus pattern (54 bp):
GCACAAAGCCTGCTAGACACATAGCCCAAATAACATCAGCACAAAGCCTGCTAG
Found at i:98347275 original size:38 final size:37
Alignment explanation
Indices: 98347214--98347324 Score: 111
Period size: 37 Copynumber: 3.0 Consensus size: 37
98347204 ATCCTGGTAG
* *
98347214 GCACAAAGCCTGGC-AGACGCATAGCCTGAATAACATCA
1 GCACAAAGCCT-GCTAGGCACATAGCCTGAATAACA-CA
* *
98347252 GCACAAAGCCTGCTAGGCACATAGCCCT-AA-ATCACC
1 GCACAAAGCCTGCTAGGCACATAG-CCTGAATAACACA
* *
98347288 GACACAAAGCCTACTAGGCACATAGCCCGAATAACAC
1 G-CACAAAGCCTGCTAGGCACATAGCCTGAATAACAC
98347325 CGCATTTCTA
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
36 4 0.07
37 29 0.48
38 25 0.41
39 3 0.05
ACGTcount: A:0.37, C:0.32, G:0.18, T:0.13
Consensus pattern (37 bp):
GCACAAAGCCTGCTAGGCACATAGCCTGAATAACACA
Found at i:98352915 original size:18 final size:18
Alignment explanation
Indices: 98352894--98352976 Score: 103
Period size: 18 Copynumber: 4.6 Consensus size: 18
98352884 AAGCATGGAG
98352894 CACGTATACAGCACTATT
1 CACGTATACAGCACTATT
*
98352912 CACGTATACAGTACTATT
1 CACGTATACAGCACTATT
*
98352930 CACGTATACGGCACTATT
1 CACGTATACAGCACTATT
* * * * *
98352948 TACGAATACGGTACTGTT
1 CACGTATACAGCACTATT
98352966 CACGTATACAG
1 CACGTATACAG
98352977 TAGTTGGGAT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 55 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (18 bp):
CACGTATACAGCACTATT
Found at i:98352944 original size:36 final size:36
Alignment explanation
Indices: 98352894--98352976 Score: 121
Period size: 36 Copynumber: 2.3 Consensus size: 36
98352884 AAGCATGGAG
*
98352894 CACGTATACAGCACTATTCACGTATACAGTACTATT
1 CACGTATACAGCACTATTCACGAATACAGTACTATT
* * * *
98352930 CACGTATACGGCACTATTTACGAATACGGTACTGTT
1 CACGTATACAGCACTATTCACGAATACAGTACTATT
98352966 CACGTATACAG
1 CACGTATACAG
98352977 TAGTTGGGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (36 bp):
CACGTATACAGCACTATTCACGAATACAGTACTATT
Found at i:98358637 original size:17 final size:16
Alignment explanation
Indices: 98358611--98358650 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
98358601 ATATATTGTG
98358611 AATT-TTAAAAATTAT
1 AATTATTAAAAATTAT
*
98358626 AATCTATTAAAAATTCT
1 AAT-TATTAAAAATTAT
98358643 AATTATTA
1 AATTATTA
98358651 TTATATAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 6 0.27
17 13 0.59
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTATTAAAAATTAT
Found at i:98359647 original size:14 final size:14
Alignment explanation
Indices: 98359628--98359656 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
98359618 GTAGAATCCG
98359628 TATAAAACTACAAT
1 TATAAAACTACAAT
98359642 TATAAAACTACAAT
1 TATAAAACTACAAT
98359656 T
1 T
98359657 CTTCTATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (14 bp):
TATAAAACTACAAT
Found at i:98360012 original size:2 final size:2
Alignment explanation
Indices: 98360005--98360039 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
98359995 GAAACTTAAA
98360005 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
98360040 ATTTTGAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:98360770 original size:29 final size:29
Alignment explanation
Indices: 98360710--98360770 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
98360700 TAGAGACCAG
* * **
98360710 ATCAAATTAGTCTTTCTATTATTAAATTA
1 ATCAAATTAGTCATTCTACTATTAAAAAA
* *
98360739 ATCAATTTAGTCATTGTACTATTAAAAAA
1 ATCAAATTAGTCATTCTACTATTAAAAAA
98360768 ATC
1 ATC
98360771 GAATAAGCTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (29 bp):
ATCAAATTAGTCATTCTACTATTAAAAAA
Found at i:98361284 original size:26 final size:24
Alignment explanation
Indices: 98361244--98361303 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
98361234 TTATTTCATT
* * *
98361244 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
98361268 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
98361294 AAATAAATAT
1 AAATAAATAT
98361304 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:98361315 original size:22 final size:22
Alignment explanation
Indices: 98361274--98361332 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
98361264 ATAATAAATC
* *
98361274 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
98361294 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
98361316 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
98361333 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:98361409 original size:15 final size:16
Alignment explanation
Indices: 98361379--98361411 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
98361369 AAATAGTTAT
98361379 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
98361396 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
98361411 A
1 A
98361412 AATATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:98362956 original size:20 final size:20
Alignment explanation
Indices: 98362928--98362966 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
98362918 CTCTAATATA
98362928 TTTAAATTTAAATTTTAATC
1 TTTAAATTTAAATTTTAATC
* **
98362948 TTTATATTTTTATTTTAAT
1 TTTAAATTTAAATTTTAAT
98362967 ATAAATTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTAAATTTAAATTTTAATC
Found at i:98362972 original size:32 final size:30
Alignment explanation
Indices: 98362926--98362985 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
98362916 CCCTCTAATA
* *
98362926 TATTTAAATTTAAATTTTAATCTTTATATTTT
1 TATTTAAATATAAA--TTAATCTCTATATTTT
*
98362958 TATTTTAATATAAATTAATCTCTATATT
1 TATTTAAATATAAATTAATCTCTATATT
98362986 GTTGAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.52
32 12 0.48
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (30 bp):
TATTTAAATATAAATTAATCTCTATATTTT
Found at i:98366221 original size:44 final size:43
Alignment explanation
Indices: 98366105--98366238 Score: 142
Period size: 45 Copynumber: 3.0 Consensus size: 43
98366095 CCGCCATAAT
* *
98366105 TTGTAGCTTTAATTTGTTCCACTGCAACTTTAGGGAAATAAGA
1 TTGTAGCTTTAATTTGATCCACTGCAACTTTAGGGAGATAAGA
* * * * *
98366148 TTCGCTATCTTTAGTCTGCTCCGCTGCAACTTTAGGGAGATAAGA
1 TT-G-TAGCTTTAATTTGATCCACTGCAACTTTAGGGAGATAAGA
* * * *
98366193 CTTGTGGCTTTAATTTGATCCACTGCAACCTGAAGGAGATAAGA
1 -TTGTAGCTTTAATTTGATCCACTGCAACTTTAGGGAGATAAGA
98366237 TT
1 TT
98366239 TGCCATGATG
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
43 4 0.05
44 32 0.44
45 35 0.48
46 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (43 bp):
TTGTAGCTTTAATTTGATCCACTGCAACTTTAGGGAGATAAGA
Found at i:98370729 original size:81 final size:85
Alignment explanation
Indices: 98370583--98370747 Score: 212
Period size: 81 Copynumber: 2.0 Consensus size: 85
98370573 GTTATGGAGG
* ** * * *
98370583 TGAAGGAAAAATCCCAGAGAATGAAAGAATCTAAGAATAATTATTTACATGGTATGATTATGAAT
1 TGAAGGAAAAATCCCAAAGAACAAAAGAATCTAAGAATAATTATTTACATAGTATAATTACGAAT
98370648 G-AAA-AATAAAAGAATATT
66 GAAAAGAATAAAAGAATATT
* * *
98370666 TGAAGG-AAAAT-CCAAAGAACAAAAGAATCTAAGAATAATTATTTGCGTAGTGTAATTACGAAT
1 TGAAGGAAAAATCCCAAAGAACAAAAGAATCTAAGAATAATTATTTACATAGTATAATTACGAAT
*
98370729 GAAAAGAATGAAAGAATAT
66 GAAAAGAATAAAAGAATAT
98370748 CTGCTAAAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 44 0.63
82 8 0.11
83 18 0.26
ACGTcount: A:0.51, C:0.07, G:0.18, T:0.25
Consensus pattern (85 bp):
TGAAGGAAAAATCCCAAAGAACAAAAGAATCTAAGAATAATTATTTACATAGTATAATTACGAAT
GAAAAGAATAAAAGAATATT
Found at i:98375995 original size:75 final size:75
Alignment explanation
Indices: 98375876--98376047 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
98375866 CATGGCAAAG
** *
98375876 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
98375935 CCATACTGAGC
65 CCATACCGAGC
98375946 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
98376011 CATACCGAGT
66 CATACCGAGC
***
98376021 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
98376048 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:98376014 original size:35 final size:35
Alignment explanation
Indices: 98375879--98376045 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
98375869 GGCAAAGTGT
* **
98375879 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
98375914 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
98375949 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
98375989 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
98376025 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
98376046 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:98376037 original size:36 final size:35
Alignment explanation
Indices: 98375975--98376045 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
98375965 ATTATCAAAT
* *
98375975 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
98376010 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
98376046 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:98381507 original size:3 final size:3
Alignment explanation
Indices: 98381499--98381539 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
98381489 TAGGTATAGG
98381499 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
98381540 GGGAATCATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:98386778 original size:27 final size:26
Alignment explanation
Indices: 98386723--98386778 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 26
98386713 AATTGAAAAT
* *
98386723 AAAAATAAAAAATAGTTAAATTTAGAA
1 AAAAATAAAAAATAG-AAAATTTACAA
98386750 AAAAATAAAAAACTA-AAAATTTCACAA
1 AAAAATAAAAAA-TAGAAAATTT-ACAA
98386777 AA
1 AA
98386779 TATTTAGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 6 0.24
27 17 0.68
28 2 0.08
ACGTcount: A:0.70, C:0.05, G:0.04, T:0.21
Consensus pattern (26 bp):
AAAAATAAAAAATAGAAAATTTACAA
Found at i:98388269 original size:32 final size:32
Alignment explanation
Indices: 98388193--98388273 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
98388183 AAAAAAAGTA
*
98388193 AAAAATATTTTCACAAAAATATAAAAAAACATT
1 AAAAATATTTTTA-AAAAATATAAAAAAACATT
** **
98388226 AAATTTATTTTTAAAAAATATAAAAAATTATT
1 AAAAATATTTTTAAAAAATATAAAAAAACATT
98388258 ATAAAAT-TTTTTAAAA
1 A-AAAATATTTTTAAAA
98388274 TTCAAAATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
32 27 0.68
33 13 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (32 bp):
AAAAATATTTTTAAAAAATATAAAAAAACATT
Found at i:98391542 original size:26 final size:25
Alignment explanation
Indices: 98391507--98391560 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
98391497 GTCAGTAATG
*
98391507 TTTTTGAAAA-GTAATTTTATATAAA
1 TTTTTGAAAATGTAATTTT-GATAAA
*
98391532 TTTTGTGAAAATGTAGTTTTGATAAA
1 TTTT-TGAAAATGTAATTTTGATAAA
98391558 TTT
1 TTT
98391561 AGTTTTAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.16
26 14 0.56
27 7 0.28
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (25 bp):
TTTTTGAAAATGTAATTTTGATAAA
Found at i:98393164 original size:5 final size:4
Alignment explanation
Indices: 98393139--98393178 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
98393129 AGCAGAACAT
*
98393139 AAGA AAGA AAGA AAGAA AAGA GAAGA AAAA AAGA AAGA AA
1 AAGA AAGA AAGA AAG-A AAGA -AAGA AAGA AAGA AAGA AA
98393179 ATGTATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 24 0.75
5 8 0.25
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:98397117 original size:48 final size:48
Alignment explanation
Indices: 98397011--98397117 Score: 146
Period size: 48 Copynumber: 2.2 Consensus size: 48
98397001 TGTAATCCAC
* *
98397011 TGTACCTAATTTATATTACAAATTTTGTTCCAAGTTTTAATGTTGTAA
1 TGTATCTAATTTATATTACAAATTTTGTTCCAAGTTTTAATGTTGCAA
* *
98397059 TGTATTTAATTTATATTATTAAA-TTTGTTCCAAGTTTTAATGTTGCAA
1 TGTATCTAATTTATATTA-CAAATTTTGTTCCAAGTTTTAATGTTGCAA
98397107 T-TAATCTAATT
1 TGT-ATCTAATT
98397118 AAATAAATGA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
47 1 0.02
48 48 0.92
49 3 0.06
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.50
Consensus pattern (48 bp):
TGTATCTAATTTATATTACAAATTTTGTTCCAAGTTTTAATGTTGCAA
Found at i:98397626 original size:12 final size:12
Alignment explanation
Indices: 98397580--98397644 Score: 60
Period size: 12 Copynumber: 5.4 Consensus size: 12
98397570 GTATGCGATC
* *
98397580 GCTCGGGCTATA
1 GCTCGGCCTCTA
* * *
98397592 GCTTGGGCTCTG
1 GCTCGGCCTCTA
*
98397604 GCTCTGG-CTCTG
1 GCTC-GGCCTCTA
98397616 GCTCGGCCTCTA
1 GCTCGGCCTCTA
98397628 GCTCGGCCTCTA
1 GCTCGGCCTCTA
98397640 GCTCG
1 GCTCG
98397645 TATGCCTCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
11 2 0.04
12 42 0.91
13 2 0.04
ACGTcount: A:0.06, C:0.34, G:0.32, T:0.28
Consensus pattern (12 bp):
GCTCGGCCTCTA
Found at i:98400209 original size:13 final size:15
Alignment explanation
Indices: 98400191--98400232 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 15
98400181 TAAAATGTAA
98400191 AATAT-AATTAAA-T
1 AATATAAATTAAATT
98400204 AATATAAATTAAATT
1 AATATAAATTAAATT
98400219 AATAAATAAATTAA
1 AAT--ATAAATTAA
98400233 TTATTTACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.20
14 7 0.28
15 4 0.16
17 9 0.36
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATATAAATTAAATT
Found at i:98400230 original size:12 final size:13
Alignment explanation
Indices: 98400191--98400233 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
98400181 TAAAATGTAA
*
98400191 AATATAATTAAATA
1 AATA-AATTAAATT
98400205 ATATAAATTAAATT
1 A-ATAAATTAAATT
98400219 AATAAA-TAAATT
1 AATAAATTAAATT
98400231 AAT
1 AAT
98400234 TATTTACCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 9 0.33
13 5 0.19
14 10 0.37
15 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AATAAATTAAATT
Found at i:98405976 original size:54 final size:54
Alignment explanation
Indices: 98405895--98406031 Score: 211
Period size: 54 Copynumber: 2.5 Consensus size: 54
98405885 TATGTTGTCG
* *
98405895 TAGGAGATTTAGCATGGACTGGTAATCCCGACAATACTGTATGAGTTTATATTA
1 TAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTGTATGAGTTTATATTA
* * *
98405949 TAGGGGATTTAGCCTGGATTGGTAATCCCGATAATACTTTATGAGTTTATATTA
1 TAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTGTATGAGTTTATATTA
**
98406003 CGGGGGATTTAGCCTGGACTGGTAATCCC
1 TAGGGGATTTAGCCTGGACTGGTAATCCC
98406032 TCCGTAAGAT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.34
Consensus pattern (54 bp):
TAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTGTATGAGTTTATATTA
Done.