Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 45 of 91
Found at i:15645346 original size:37 final size:37
Alignment explanation
Indices: 15645305--15645382 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
15645295 GTTGTGTGAG
15645305 GATGTTGAAGTGTGCGAGTAGGGAGTGCACACATGAT
1 GATGTTGAAGTGTGCGAGTAGGGAGTGCACACATGAT
*
15645342 GATGTTGAAGTGTGTGAGTAGGGAGTGCACACATGAT
1 GATGTTGAAGTGTGCGAGTAGGGAGTGCACACATGAT
15645379 GATG
1 GATG
15645383 AATGCATATG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.27, C:0.09, G:0.38, T:0.26
Consensus pattern (37 bp):
GATGTTGAAGTGTGCGAGTAGGGAGTGCACACATGAT
Found at i:15673988 original size:17 final size:17
Alignment explanation
Indices: 15673966--15674018 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
15673956 AAGTAAAATA
15673966 AGCACACACTAGAGGGG
1 AGCACACACTAGAGGGG
* * *
15673983 AGCACATATTAAAGGGG
1 AGCACACACTAGAGGGG
15674000 AGCACACACTTAG-GGGG
1 AGCACACAC-TAGAGGGG
15674017 AG
1 AG
15674019 GAAAACTCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
17 27 0.93
18 2 0.07
ACGTcount: A:0.36, C:0.19, G:0.34, T:0.11
Consensus pattern (17 bp):
AGCACACACTAGAGGGG
Found at i:15674487 original size:73 final size:72
Alignment explanation
Indices: 15674368--15674549 Score: 183
Period size: 73 Copynumber: 2.5 Consensus size: 72
15674358 AACAGAAAAT
** * * *
15674368 ACTTAGTCGACCAAGAAGTGGGTTAGTCGACTAAAAAGGTACTGCCAAAAATCT-GGACTT-CAA
1 ACTTAGTCGACCAAGAAGTAAGTTAGTCGACT-AAGAGCTACTGCCAAAAA-CTAGGA-TTAAAA
15674431 GACAAA-ACAA
63 GACAAAGAC-A
* *
15674441 ACTTAGTCGACCAAGAAGTAAGTTAGTCGACTAAGTGCTCACTGCCAGAAACTAGGATTAAAAGA
1 ACTTAGTCGACCAAGAAGTAAGTTAGTCGACTAAGAGCT-ACTGCCAAAAACTAGGATTAAAAGA
*
15674506 CAAAGACG
65 CAAAGACA
* * *
15674514 ACTTAGTTGACTAAG-AGTGCAGTTAGTCGACTAAGA
1 ACTTAGTCGACCAAGAAGT-AAGTTAGTCGACTAAGA
15674550 ACATTTTGCC
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
72 11 0.12
73 79 0.86
74 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.21
Consensus pattern (72 bp):
ACTTAGTCGACCAAGAAGTAAGTTAGTCGACTAAGAGCTACTGCCAAAAACTAGGATTAAAAGAC
AAAGACA
Found at i:15678465 original size:21 final size:20
Alignment explanation
Indices: 15678441--15678488 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
15678431 AGCTTACCTT
*
15678441 TTTTTCACTTGTTTCCTTGAA
1 TTTTTCACTT-TTCCCTTGAA
*
15678462 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTCCCTTGAA
15678483 TTTTTC
1 TTTTTC
15678489 CACCTAAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.15, C:0.23, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTGAA
Found at i:15678488 original size:22 final size:22
Alignment explanation
Indices: 15678446--15678486 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
15678436 ACCTTTTTTT
*
15678446 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
15678468 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
15678487 TCCACCTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:15681696 original size:12 final size:12
Alignment explanation
Indices: 15681679--15681712 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
15681669 CTTAGCTTCC
15681679 TTCTTCTTCTTT
1 TTCTTCTTCTTT
15681691 TTCTTCTTCTTT
1 TTCTTCTTCTTT
*
15681703 TTGTTCTTCT
1 TTCTTCTTCT
15681713 CAAGCTCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.74
Consensus pattern (12 bp):
TTCTTCTTCTTT
Found at i:15681698 original size:15 final size:15
Alignment explanation
Indices: 15681678--15681712 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
15681668 CCTTAGCTTC
15681678 CTTCTTCTTCTTT-TT
1 CTTCTTCTT-TTTGTT
15681693 CTTCTTCTTTTTGTT
1 CTTCTTCTTTTTGTT
15681708 CTTCT
1 CTTCT
15681713 CAAGCTCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.16
15 16 0.84
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (15 bp):
CTTCTTCTTTTTGTT
Found at i:15687050 original size:14 final size:14
Alignment explanation
Indices: 15687031--15687059 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
15687021 GATCATTGGA
15687031 ATCAAGTTTGGGTT
1 ATCAAGTTTGGGTT
15687045 ATCAAGTTTGGGTT
1 ATCAAGTTTGGGTT
15687059 A
1 A
15687060 AGTTAGCCCC
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:0.24, C:0.07, G:0.28, T:0.41
Consensus pattern (14 bp):
ATCAAGTTTGGGTT
Found at i:15690282 original size:123 final size:123
Alignment explanation
Indices: 15690058--15690298 Score: 455
Period size: 123 Copynumber: 2.0 Consensus size: 123
15690048 CTCTGCTTCA
15690058 AATGTATCGATACATGTTCATCTTTGGCCAAATTTATTGATAAATTCTTAAATGTATTGATAGAA
1 AATGTATCGATACATGTTCATCTTTGGCCAAATTTATTGATAAATTCTTAAATGTATTGATAGAA
*
15690123 TATTCTTCCTAGGGCCTTTGTTGTTCATCCTGCCATGAATATATTGACACATTTGGAC
66 TATTCTTCCTAGGGCCTTTGTTGTTCATCCTACCATGAATATATTGACACATTTGGAC
* *
15690181 AATGTATCGATACATGTTCATCTTTGGCCAAATTTATTGATGACTTCTTAAATGTATTGATAGAA
1 AATGTATCGATACATGTTCATCTTTGGCCAAATTTATTGATAAATTCTTAAATGTATTGATAGAA
15690246 TATTCTTCCTAGGGCCTTTGTTGTTCATCCTACCATGAATATATTGACACATT
66 TATTCTTCCTAGGGCCTTTGTTGTTCATCCTACCATGAATATATTGACACATT
15690299 GGGGTATGTA
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 115 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (123 bp):
AATGTATCGATACATGTTCATCTTTGGCCAAATTTATTGATAAATTCTTAAATGTATTGATAGAA
TATTCTTCCTAGGGCCTTTGTTGTTCATCCTACCATGAATATATTGACACATTTGGAC
Found at i:15693895 original size:54 final size:54
Alignment explanation
Indices: 15693813--15693917 Score: 183
Period size: 54 Copynumber: 1.9 Consensus size: 54
15693803 TCATCATGTG
*
15693813 CATCTCACCCAACTCATGTGCATCCCACCACATCGTGTAAATAGCCGGACATCC
1 CATCTCACCCAACTCATGTGCATCCCACCACATCGTGCAAATAGCCGGACATCC
* *
15693867 CATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAGCTGGACA
1 CATCTCACCCAACTCATGTGCATCCCACCACATCGTGCAAATAGCCGGACA
15693918 GTATCACCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.28, C:0.39, G:0.13, T:0.20
Consensus pattern (54 bp):
CATCTCACCCAACTCATGTGCATCCCACCACATCGTGCAAATAGCCGGACATCC
Found at i:15694198 original size:184 final size:183
Alignment explanation
Indices: 15693889--15694255 Score: 716
Period size: 184 Copynumber: 2.0 Consensus size: 183
15693879 CTCATGTGCA
15693889 TCCCACCACATCGTGCACATAGCTGGACAGTATCACCATCCATCTCCCTCACCACCGTCATCATC
1 TCCCACCACATCGTGCACATAGCTGGACAGTATCACCATCCATCTCCCTCACCACCGTCATCATC
15693954 GGCAAGTGCACACTCGCCCAGCACATGCACGATTGCATTTGTCTCATGATGGTACCATTTATGAC
66 GGCAAGTGCACACTCGCCCAGCACATGCACGATTGCATTTGTCTCATGATGGTACCATTTATGAC
*
15694019 ATAGTATATATATATATATATATATATCAACATTATACAAAACCATACGGATT
131 ATAGTATATATATATATATATATATATCAACATTATACAAAAACATACGGATT
15694072 NTCCCACCACATCGTGCACATAGCTGGACAGTATCACCATCCATCTCCCTCACCACCGTCATCAT
1 -TCCCACCACATCGTGCACATAGCTGGACAGTATCACCATCCATCTCCCTCACCACCGTCATCAT
15694137 CGGCAAGTGCACACTCGCCCAGCACATGCACGATTGCATTTGTCTCATGATGGTACCATTTATGA
65 CGGCAAGTGCACACTCGCCCAGCACATGCACGATTGCATTTGTCTCATGATGGTACCATTTATGA
15694202 CATAGTATATATATATATATATATATATCAACATTATACAAAAACATACGGATT
130 CATAGTATATATATATATATATATATATCAACATTATACAAAAACATACGGATT
15694256 CATCCTTTTA
Statistics
Matches: 182, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
184 182 1.00
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.27
Consensus pattern (183 bp):
TCCCACCACATCGTGCACATAGCTGGACAGTATCACCATCCATCTCCCTCACCACCGTCATCATC
GGCAAGTGCACACTCGCCCAGCACATGCACGATTGCATTTGTCTCATGATGGTACCATTTATGAC
ATAGTATATATATATATATATATATATCAACATTATACAAAAACATACGGATT
Found at i:15695325 original size:6 final size:6
Alignment explanation
Indices: 15695314--15695345 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
15695304 CCATTGTTTA
15695314 TTATTT TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TT
15695346 TTCCTTCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:15700419 original size:2 final size:2
Alignment explanation
Indices: 15700412--15700456 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
15700402 TTATGGAATA
15700412 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
15700454 TC T
1 TC T
15700457 AATATGTCCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:15704445 original size:73 final size:72
Alignment explanation
Indices: 15704291--15704463 Score: 179
Period size: 73 Copynumber: 2.4 Consensus size: 72
15704281 GAAGTTTGAT
* * * * * * *
15704291 AGATAGAGACAACTTAATCGACTGAGAAGAAAGTTAGTCGACTAAGAGCCTATTGCTAAAAATTT
1 AGATAGAAACAACTTAATCGACTAAGAAGAAAGTTAGTCGACAAAGAGCCTACTGCCAAAAACTA
15704356 GGACTTCA
66 GGAC-TCA
* * * *
15704364 AGACAGAAACAACTTAATCGACTAAGAAGGAAGTTAGTCGACAAAGTG-CTCACTGCCAGAAACT
1 AGATAGAAACAACTTAATCGACTAAGAAGAAAGTTAGTCGACAAAGAGCCT-ACTGCCAAAAACT
15704428 AGGA-TCAGA
65 AGGACTC--A
* *
15704437 AGATAGAAACAACTTAGTTGACTAAGA
1 AGATAGAAACAACTTAATCGACTAAGA
15704464 GCGCAGTTAG
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
71 2 0.02
72 2 0.02
73 79 0.95
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (72 bp):
AGATAGAAACAACTTAATCGACTAAGAAGAAAGTTAGTCGACAAAGAGCCTACTGCCAAAAACTA
GGACTCA
Found at i:15704977 original size:11 final size:11
Alignment explanation
Indices: 15704939--15704980 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
15704929 GGTTTTGGCT
15704939 AAGCTTGGTAA
1 AAGCTTGGTAA
15704950 AAGCCATT-GTAA
1 AAG-C-TTGGTAA
*
15704962 AAGCTTGGTGA
1 AAGCTTGGTAA
15704973 AAGCTTGG
1 AAGCTTGG
15704981 GAATTTCACT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 2 0.07
11 15 0.56
12 8 0.30
13 2 0.07
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (11 bp):
AAGCTTGGTAA
Found at i:15710605 original size:2 final size:2
Alignment explanation
Indices: 15710598--15710658 Score: 95
Period size: 2 Copynumber: 30.5 Consensus size: 2
15710588 ATGAAATCTT
* * *
15710598 TC TC TC TC TC TC AC TC AC TC AC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
15710640 TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC T
15710659 ACACAATTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.05, C:0.49, G:0.00, T:0.46
Consensus pattern (2 bp):
TC
Found at i:15717141 original size:19 final size:21
Alignment explanation
Indices: 15717099--15717142 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
15717089 AGGGAAGAAG
*
15717099 AAGACAGCTGCTGGAAATTTC
1 AAGACAGCTGCTAGAAATTTC
15717120 AAGA-AGCTGCTAGAAA-TTC
1 AAGACAGCTGCTAGAAATTTC
15717139 AAGA
1 AAGA
15717143 TATTTATAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 11 0.50
21 4 0.18
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (21 bp):
AAGACAGCTGCTAGAAATTTC
Found at i:15718557 original size:73 final size:73
Alignment explanation
Indices: 15718464--15718638 Score: 205
Period size: 73 Copynumber: 2.4 Consensus size: 73
15718454 CAAAAGTTTG
* * *
15718464 AAAGACAGAGACAACTTAATCGACTAAGA-AGGAAGTTAGTCGACTAAGAGC-CTACTACCAGAA
1 AAAGACAGAAACAACTTAATCGACTAAGACAAGAAGTTAGTCGACTAAGAGCTC-ACTACCAAAA
*
15718527 ATTTGGACTTC
65 ATTGGGA--TC
* * **
15718538 -AAGACAGAAACAACTTAATCGACTAA-ACAAGAAGTTAGTTGACTAAGTGCTCACTGTCAAAAA
1 AAAGACAGAAACAACTTAATCGACTAAGACAAGAAGTTAGTCGACTAAGAGCTCACTACCAAAAA
15718601 TTGGGATC
66 TTGGGATC
*
15718609 AAAAGACAGAAACAACTTAGTCGACTAAGA
1 -AAAGACAGAAACAACTTAATCGACTAAGA
15718639 GCCCAGTTAG
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
71 2 0.02
72 1 0.01
73 82 0.94
74 2 0.02
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (73 bp):
AAAGACAGAAACAACTTAATCGACTAAGACAAGAAGTTAGTCGACTAAGAGCTCACTACCAAAAA
TTGGGATC
Found at i:15723541 original size:37 final size:37
Alignment explanation
Indices: 15723490--15723604 Score: 178
Period size: 37 Copynumber: 3.1 Consensus size: 37
15723480 CAATATTATA
* *
15723490 ATCATGTGTTCACTCCCTACTTGCACACTTCAACATC
1 ATCATGTGTGCACTCCCTACTCGCACACTTCAACATC
* *
15723527 ATCATGTGTGCACTCCCTACTCGCACAC-TCTATCATT
1 ATCATGTGTGCACTCCCTACTCGCACACTTC-AACATC
15723564 ATCATGTGTGCACTCCCTACTCGCACACTTCAACATC
1 ATCATGTGTGCACTCCCTACTCGCACACTTCAACATC
15723601 ATCA
1 ATCA
15723605 CACAACATTA
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
36 2 0.03
37 66 0.94
38 2 0.03
ACGTcount: A:0.24, C:0.36, G:0.10, T:0.30
Consensus pattern (37 bp):
ATCATGTGTGCACTCCCTACTCGCACACTTCAACATC
Found at i:15724716 original size:23 final size:21
Alignment explanation
Indices: 15724668--15724730 Score: 54
Period size: 23 Copynumber: 2.8 Consensus size: 21
15724658 TACTTTAAAA
*
15724668 ATCATCATTATTTTTATTTCC
1 ATCATCATTATCTTTATTTCC
* *
15724689 TTCATCATTTAATCTTTATTTTC
1 ATCATCA-TT-ATCTTTATTTCC
15724712 ATCATTCATCTATGCTTTA
1 ATCA-TCAT-TAT-CTTTA
15724731 GGCTTACTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
21 6 0.18
22 2 0.06
23 16 0.48
24 9 0.27
ACGTcount: A:0.24, C:0.19, G:0.02, T:0.56
Consensus pattern (21 bp):
ATCATCATTATCTTTATTTCC
Found at i:15727514 original size:21 final size:19
Alignment explanation
Indices: 15727478--15727518 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
15727468 ACATGTTGAG
15727478 TAGTTAATTTAAGTTATTT
1 TAGTTAATTTAAGTTATTT
*
15727497 TAGTTAAATTTTATGTTATTT
1 TAGTT-AA-TTTAAGTTATTT
15727518 T
1 T
15727519 GTTTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (19 bp):
TAGTTAATTTAAGTTATTT
Found at i:15730743 original size:33 final size:33
Alignment explanation
Indices: 15730706--15730772 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 33
15730696 GTTCTTCGAT
15730706 CTTGCTAAT-AGGTTATAGTAGTTAGCACATGGC
1 CTTGCTAATGA-GTTATAGTAGTTAGCACATGGC
15730739 CTTGCTAATGAGTTATAGTAGTTAGCACATGGC
1 CTTGCTAATGAGTTATAGTAGTTAGCACATGGC
15730772 C
1 C
15730773 CCACTAACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (33 bp):
CTTGCTAATGAGTTATAGTAGTTAGCACATGGC
Found at i:15730792 original size:33 final size:33
Alignment explanation
Indices: 15730717--15730798 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 33
15730707 TTGCTAATAG
*** *
15730717 GTTATAGTAGTTAGCACATGGCCTTGCTAATGA
1 GTTATAGTAGTTAGCACATGGCCCCACTAATCA
15730750 GTTATAGTAGTTAGCACATGGCCCCACTAA-CA
1 GTTATAGTAGTTAGCACATGGCCCCACTAATCA
*
15730782 TGTTACAGTAGTTAGCA
1 -GTTATAGTAGTTAGCA
15730799 TACGACCCTA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
32 1 0.02
33 42 0.98
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (33 bp):
GTTATAGTAGTTAGCACATGGCCCCACTAATCA
Found at i:15730812 original size:33 final size:33
Alignment explanation
Indices: 15730750--15730812 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
15730740 TTGCTAATGA
* * *
15730750 GTTATAGTAGTTAGCACATGGCCCCACTAACAT
1 GTTACAGTAGTTAGCACACGACCCCACTAACAT
* *
15730783 GTTACAGTAGTTAGCATACGACCCTACTAA
1 GTTACAGTAGTTAGCACACGACCCCACTAA
15730813 GAGGGTTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (33 bp):
GTTACAGTAGTTAGCACACGACCCCACTAACAT
Found at i:15735449 original size:202 final size:207
Alignment explanation
Indices: 15735067--15735465 Score: 562
Period size: 202 Copynumber: 1.9 Consensus size: 207
15735057 ATCAAAAGAT
*
15735067 TTCAAATTTTTCGAATTCGGTGCAAAATTGAAATAAAGAGAAAGTGGAAAAAAAGAAAGAAGAAG
1 TTCAAATTTTTCAAATTCGGTGCAAAATTGAAATAAAGAG-AAGTGGAAAAAAAGAAAGAAGAAG
* * *
15735132 AGAGTGAAAAAGAATTGTAGGGACAAAAACGGTTTTGAGTTTTGATTGCTTCCATCCATCTTTAA
65 AGAGTGAAAAAGAACTATAGGGACAAAAACGGTTTTGAGTTTTGATTACTTCCATCCATCTTTAA
* * *
15735197 TTTAGTAAAATCTCATAAAAATTTTAGAAAAGTCCTTACCAGATGATTTTATTGATGAATCACAA
130 TTTAGTAAAATCTAATAAAAATTCTAGAAAAGTCCTTACCAGAAGATTTTATTGATGAATCACAA
15735262 AATAAACAAATGG
195 AATAAACAAATGG
* *
15735275 TTCAATTTTTTCAAATTCGGTGCAAAATTGAATTAAAGAG-AGT-GAAAAAAA-AAAGAAG-A-A
1 TTCAAATTTTTCAAATTCGGTGCAAAATTGAAATAAAGAGAAGTGGAAAAAAAGAAAGAAGAAGA
* * *
15735335 G-GTGAAAAAGAACTATAGGGA-AGAAAATGGTTTTTATGTTTTGGTTACTTCCATCCATCTTTA
66 GAGTGAAAAAGAACTATAGGGACA-AAAACGGTTTTGA-GTTTTGATTACTTCCATCCATCTTTA
* * * *
15735398 GTTTGGTAAAATCTAATAGAAAATTCTAG-AAAGTCCTTACTAGAAGATTTTATTGATGAATCGC
129 ATTTAGTAAAATCTAATA-AAAATTCTAGAAAAGTCCTTACCAGAAGATTTTATTGATGAATCAC
15735462 AAAA
193 AAAA
15735466 CTTTGTGTCC
Statistics
Matches: 172, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
200 1 0.01
201 29 0.17
202 77 0.45
203 10 0.06
204 7 0.04
205 8 0.05
206 3 0.02
208 37 0.22
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (207 bp):
TTCAAATTTTTCAAATTCGGTGCAAAATTGAAATAAAGAGAAGTGGAAAAAAAGAAAGAAGAAGA
GAGTGAAAAAGAACTATAGGGACAAAAACGGTTTTGAGTTTTGATTACTTCCATCCATCTTTAAT
TTAGTAAAATCTAATAAAAATTCTAGAAAAGTCCTTACCAGAAGATTTTATTGATGAATCACAAA
ATAAACAAATGG
Found at i:15735632 original size:26 final size:26
Alignment explanation
Indices: 15735573--15735928 Score: 137
Period size: 26 Copynumber: 13.3 Consensus size: 26
15735563 CTATAGTAAA
* *
15735573 TTTTTTTGAATATGACATGTAACAAC
1 TTTTTTTCAATATGGCATGTAACAAC
*
15735599 AATATTTTTTTAATATGGCATGTAACAAC
1 --T-TTTTTTCAATATGGCATGTAACAAC
** * *
15735628 TTTTTTTTCAATATTACGTGTAATAAC
1 -TTTTTTTCAATATGGCATGTAACAAC
* * * * *
15735655 -TTTTTTCAACATGACGTATAACAAG
1 TTTTTTTCAATATGGCATGTAACAAC
* ** * * *
15735680 TTTTTTTCAAAATAACGTGTAGCAAAAT
1 TTTTTTTCAATATGGCATGTA--ACAAC
* * *
15735708 TTTTTTTGAATCTGGTCATAGCAACAAC
1 TTTTTTTCAATATGG-CAT-GTAACAAC
** *
15735736 AGTTTTTCAATATAGCATGTAACAAC
1 TTTTTTTCAATATGGCATGTAACAAC
* * * *
15735762 TTTTCTTCAAAAT-GCGGTGTAAAAAC
1 TTTTTTTCAATATGGC-ATGTAACAAC
* * * *
15735788 -TTTTTTCAACATGACGTGTAAGAA-
1 TTTTTTTCAATATGGCATGTAACAAC
* * *
15735812 ATCTTTTCAAATATGGCTTGTAACAA-
1 TTTTTTTC-AATATGGCATGTAACAAC
* *
15735838 TAACATTTTTCAATATGGCGTGTAACAAC
1 T---TTTTTTCAATATGGCATGTAACAAC
* * * *
15735867 TTTTTATGAACATAGCATGAATAACAAC
1 TTTTTTTCAATATGGCATG--TAACAAC
* * *
15735895 ATTTTTTTCAACATGTCATGCAACAAC
1 -TTTTTTTCAATATGGCATGTAACAAC
15735922 TTTTTTT
1 TTTTTTT
15735929 TCACGTGCAC
Statistics
Matches: 248, Mismatches: 63, Indels: 36
0.71 0.18 0.10
Matches are distributed among these distances:
25 46 0.19
26 74 0.30
27 29 0.12
28 51 0.21
29 46 0.19
30 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (26 bp):
TTTTTTTCAATATGGCATGTAACAAC
Found at i:15735635 original size:29 final size:29
Alignment explanation
Indices: 15735573--15735650 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 29
15735563 CTATAGTAAA
15735573 TTTTTTTGAATATGACATGTAACAACAAT
1 TTTTTTTGAATATGACATGTAACAACAAT
*
15735602 ATTTTTTT-AATATGGCATGTAACAAC--T
1 -TTTTTTTGAATATGACATGTAACAACAAT
* * *
15735629 TTTTTTTCAATATTACGTGTAA
1 TTTTTTTGAATATGACATGTAA
15735651 TAACTTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
26 7 0.16
27 12 0.28
29 17 0.40
30 7 0.16
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (29 bp):
TTTTTTTGAATATGACATGTAACAACAAT
Found at i:15736616 original size:23 final size:23
Alignment explanation
Indices: 15736581--15736645 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
15736571 TATTTATAAA
*
15736581 TGTCTATTCCCAACAGACACAAT
1 TGTCTATTTCCAACAGACACAAT
* *
15736604 TGTCTCTTTCCAACAGATACAAT
1 TGTCTATTTCCAACAGACACAAT
* * *
15736627 TGTCTTTTTCTAACGGACA
1 TGTCTATTTCCAACAGACA
15736646 TAACTATTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (23 bp):
TGTCTATTTCCAACAGACACAAT
Found at i:15739562 original size:36 final size:36
Alignment explanation
Indices: 15739522--15739610 Score: 133
Period size: 36 Copynumber: 2.5 Consensus size: 36
15739512 AAGGTTATTT
*
15739522 CTTAACCTCATTAAAAAATCGGTATAAGGGTTATCA
1 CTTAATCTCATTAAAAAATCGGTATAAGGGTTATCA
* * * *
15739558 CTTAATCTCATGAAAAAATTGGTGTAAGGGTTATCG
1 CTTAATCTCATTAAAAAATCGGTATAAGGGTTATCA
15739594 CTTAATCTCATTAAAAA
1 CTTAATCTCATTAAAAA
15739611 GTAAGAATTC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (36 bp):
CTTAATCTCATTAAAAAATCGGTATAAGGGTTATCA
Found at i:15740727 original size:28 final size:28
Alignment explanation
Indices: 15740687--15740768 Score: 103
Period size: 28 Copynumber: 3.0 Consensus size: 28
15740677 TTTACAAAAT
15740687 ACTA-CTTTTCGTGGATCAAGCATAACC
1 ACTACCTTTTCGTGGATCAAGCATAACC
* * *
15740714 CCTACCTTTTCGTGAATCAAGTATAACC
1 ACTACCTTTTCGTGGATCAAGCATAACC
* **
15740742 ACTGCCTTTTCAAGGATCAAGCATAAC
1 ACTACCTTTTCGTGGATCAAGCATAAC
15740769 TATTGTCTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 3 0.07
28 42 0.93
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.29
Consensus pattern (28 bp):
ACTACCTTTTCGTGGATCAAGCATAACC
Found at i:15740778 original size:28 final size:28
Alignment explanation
Indices: 15740699--15740797 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
15740689 TACTTTTCGT
* * **
15740699 GGATCAAGCATAACCCCTACCTTTTCGT
1 GGATCAAGCATAACCACTGCCTTTTCAA
* *
15740727 GAATCAAGTATAACCACTGCCTTTTCAA
1 GGATCAAGCATAACCACTGCCTTTTCAA
* * *
15740755 GGATCAAGCATAACTATTGTCTTTTCAA
1 GGATCAAGCATAACCACTGCCTTTTCAA
*
15740783 GGATTAAGCATAACC
1 GGATCAAGCATAACC
15740798 TTTACAAAAC
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.29
Consensus pattern (28 bp):
GGATCAAGCATAACCACTGCCTTTTCAA
Found at i:15741337 original size:63 final size:63
Alignment explanation
Indices: 15741229--15741364 Score: 148
Period size: 63 Copynumber: 2.2 Consensus size: 63
15741219 CTTTCTAGAG
* *
15741229 TTTGAGAATCGATCAATGGATTCTTGAGAAGTCCATTCTCCTTGCCTCTGA-AGCATTCTATTT
1 TTTGAGAATCGATCAATGGATTCATGAGAAGTCCACTCTCCTTGCCT-TGAGAGCATTCTATTT
* * * ** ** * * *
15741292 TTTGAGAATTGATCAGTGTATTCATGAGAAGTTGACTCTTTTTGCCTTTAGAGCATTTTGTTT
1 TTTGAGAATCGATCAATGGATTCATGAGAAGTCCACTCTCCTTGCCTTGAGAGCATTCTATTT
15741355 TTTGAGAATC
1 TTTGAGAATC
15741365 AATCTTTGCA
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
62 2 0.03
63 57 0.97
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (63 bp):
TTTGAGAATCGATCAATGGATTCATGAGAAGTCCACTCTCCTTGCCTTGAGAGCATTCTATTT
Found at i:15744495 original size:20 final size:20
Alignment explanation
Indices: 15744470--15744518 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
15744460 TCTTTCTGTG
15744470 ATGGAGGAAGTTCATCTATT
1 ATGGAGGAAGTTCATCTATT
15744490 ATGGAGGAAGTTCATCTATT
1 ATGGAGGAAGTTCATCTATT
*
15744510 ATAGAGGAA
1 ATGGAGGAA
15744519 ACAACTATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (20 bp):
ATGGAGGAAGTTCATCTATT
Found at i:15745621 original size:21 final size:21
Alignment explanation
Indices: 15745597--15745636 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15745587 GCACAAATCA
*
15745597 TCAACAGAACGAGGGTTTCAC
1 TCAACAGAACGAGGATTTCAC
* *
15745618 TCAACTGCACGAGGATTTC
1 TCAACAGAACGAGGATTTC
15745637 GCGTTAGAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (21 bp):
TCAACAGAACGAGGATTTCAC
Found at i:15748608 original size:512 final size:511
Alignment explanation
Indices: 15747579--15748791 Score: 1793
Period size: 512 Copynumber: 2.4 Consensus size: 511
15747569 TCGAGGTATC
* * *
15747579 ACAACCTTCAATGTTGAAAGTAGGAAGTGCATATTCTTCTACCATCTTAGAAACTT-TCACGATC
1 ACAACCTTCAATGTTGAAAGTAGGAAATGCATATTCTTCTACCATCTTAGAAAGTTGTCACCATC
* * *
15747643 GAACTGGTCCAATTTTACAAAATCATAAGTCAATTCCTTAGTGTTCCACTTACAGCAGTCATTGT
66 GAACTGGTCTACTTTCACAAAATCATAAGTCAATTCCTTAGTGTTCCACTTACAGCAGTCATTGT
* * * *
15747708 TAAATCAAAATAAAACCTTAAAATTGTTGGAATAAAGAACTAGAAAATAATGAAATGGCTTTAAA
131 TAAATCGAAATAAAACCTTAAAATTGTTGGAACAAAGAACTGGAAAATAATGAAATGGCTTGAAA
*
15747773 GTGTTTGATTAAACATTCTTTCAATTTCATGCAATTGTTCAATAACAAATCGATCATCAACCATT
196 GTGTTTGATTAAACATTCTTTCAATTTCATGCAATTGTTCAATAACAAATCGACCATCAACCATT
* * *
15747838 TGATAATTATTAAAACGACTAATAAGAAATTTCTTATTGGTTGCAATTTCTGTCATATACTTGGC
261 TGACAATTATTAAAACAACTAATAAGAAATTTCTTATTGGTTGCAATTTCTGTCATATACTTGAC
*
15747903 CTCCAATTTGTCCCACAATATTTTTACAATAACTTCATTCTGGTATGAGTCAAATAAGATATCAA
326 CTCCAATTTGTCCCACAATATTTTTACAATAACTTCATTCTGGTAT-AGTAAAATAAGATATCAA
* * *
15747968 ATAGATCATTCAAAATGTGACCCTTGCACATATAATTTACATTATCCCATTTCTGCATTACTTTG
390 ACAGATCATTCAAAATGTGACCCTTGCACATATAATCTACATTAGCCCATTTCTGCATTACTTTG
* * * *
15748033 CTTACAGTAACAAAATCATTTTCATTCTTTATTAGTCTAGGAATAGTCAAAGCGTAG
455 CGTACAGTAACAAAATCATTTTCATTCTTTATTAGTCTAAGAATAGTCAAACCGTAA
*
15748090 ACAACCTTCAATGTTGAAAGTTGGAAATGCATATTCTTCTACCATCTTAGAAAGTTGTCACCATC
1 ACAACCTTCAATGTTGAAAGTAGGAAATGCATATTCTTCTACCATCTTAGAAAGTTGTCACCATC
*
15748155 GAACTGGTCTACTTTCACAAAATCATAAGTCAATTCCTTAGTGTTCCACTTACAACAGTCATTGT
66 GAACTGGTCTACTTTCACAAAATCATAAGTCAATTCCTTAGTGTTCCACTTACAGCAGTCATTGT
* * * * *
15748220 TAAATTGAAATAAAACCATAAAATCGTTGGAGCAAAGAATTGGAAAATAATGAAATGGCTTGAAA
131 TAAATCGAAATAAAACCTTAAAATTGTTGGAACAAAGAACTGGAAAATAATGAAATGGCTTGAAA
* * *
15748285 GTGTTTGATTAAGCATTCTTTCAATTTCATGCAATTGTTCAATAATAGATCGACCATCAACCATT
196 GTGTTTGATTAAACATTCTTTCAATTTCATGCAATTGTTCAATAACAAATCGACCATCAACCATT
* *
15748350 TGACAATTATTAAAACAACTGATAAGAAATTTCTTATTGGTTGTAATTTCTGTCATATACCTT-A
261 TGACAATTATTAAAACAACTAATAAGAAATTTCTTATTGGTTGCAATTTCTGTCATATA-CTTGA
* * * * *
15748414 CCTCTAATTTGTCCCATAATATTTTTGCAGTAACTTCATTCTGGTCA-ATGTAAAATAAGTTATC
325 CCTCCAATTTGTCCCACAATATTTTTACAATAACTTCATTCTGGT-ATA-GTAAAATAAGATATC
** * * *
15748478 AAACAGATGGTTCAAAATGTGACCCTTGCACATATAATCTGCATTAGCCTATTTTTGCATTACTT
388 AAACAGATCATTCAAAATGTGACCCTTGCACATATAATCTACATTAGCCCATTTCTGCATTACTT
** ** * * *
15748543 TGCGTGTAGTAACAAAATCATTTTTGTTCTTTATTGGTCTAAGAGTAGTTAAACCGTAA
453 TGCGTACAGTAACAAAATCATTTTCATTCTTTATTAGTCTAAGAATAGTCAAACCGTAA
* * *
15748602 ACAACCTTCAATGTTGAAAGCAAGAAATGCATATTCTTCTACCATCTTAAAAAGTTGTCACCATC
1 ACAACCTTCAATGTTGAAAGTAGGAAATGCATATTCTTCTACCATCTTAGAAAGTTGTCACCATC
* * * * *
15748667 AAACTAGCTAGTACAATTTCACAAAATCATAAGTCAATTCCTTAGTGTTCCACTTATAGCAATCA
66 GAACT-GGT-CTAC--TTTCACAAAATCATAAGTCAATTCCTTAGTGTTCCACTTACAGCAGTCA
*
15748732 TTGTTAAATCGAAATAAAACCTTAAAATTGTTGGAACCAAGAACTGGAAAATAATGAAAT
127 TTGTTAAATCGAAATAAAACCTTAAAATTGTTGGAACAAAGAACTGGAAAATAATGAAAT
15748792 AACTTTAAAG
Statistics
Matches: 627, Mismatches: 67, Indels: 11
0.89 0.10 0.02
Matches are distributed among these distances:
511 54 0.09
512 464 0.74
513 6 0.01
514 3 0.00
516 100 0.16
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (511 bp):
ACAACCTTCAATGTTGAAAGTAGGAAATGCATATTCTTCTACCATCTTAGAAAGTTGTCACCATC
GAACTGGTCTACTTTCACAAAATCATAAGTCAATTCCTTAGTGTTCCACTTACAGCAGTCATTGT
TAAATCGAAATAAAACCTTAAAATTGTTGGAACAAAGAACTGGAAAATAATGAAATGGCTTGAAA
GTGTTTGATTAAACATTCTTTCAATTTCATGCAATTGTTCAATAACAAATCGACCATCAACCATT
TGACAATTATTAAAACAACTAATAAGAAATTTCTTATTGGTTGCAATTTCTGTCATATACTTGAC
CTCCAATTTGTCCCACAATATTTTTACAATAACTTCATTCTGGTATAGTAAAATAAGATATCAAA
CAGATCATTCAAAATGTGACCCTTGCACATATAATCTACATTAGCCCATTTCTGCATTACTTTGC
GTACAGTAACAAAATCATTTTCATTCTTTATTAGTCTAAGAATAGTCAAACCGTAA
Found at i:15760708 original size:11 final size:11
Alignment explanation
Indices: 15760692--15760722 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
15760682 CTTGATTTTC
15760692 TTGGCTTTCTA
1 TTGGCTTTCTA
15760703 TTGGCTTTCTA
1 TTGGCTTTCTA
*
15760714 TTGGTTTTC
1 TTGGCTTTC
15760723 CCCCTTTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.06, C:0.16, G:0.19, T:0.58
Consensus pattern (11 bp):
TTGGCTTTCTA
Found at i:15761354 original size:29 final size:30
Alignment explanation
Indices: 15761322--15761383 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
15761312 GCGTTTAATT
* *
15761322 AAGTCTTTATA-TTCTATTTTAAACTAAAC
1 AAGTCATTATACTTCTATTTTAAACCAAAC
* *
15761351 AAGTCATTATACTTTTATTTTTAACCAAAC
1 AAGTCATTATACTTCTATTTTAAACCAAAC
15761381 AAG
1 AAG
15761384 CTCTCATGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 10 0.36
30 18 0.64
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.42
Consensus pattern (30 bp):
AAGTCATTATACTTCTATTTTAAACCAAAC
Found at i:15763579 original size:32 final size:30
Alignment explanation
Indices: 15763538--15763600 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 30
15763528 TTTTAATATA
*
15763538 TCATAATTGATGATTATGCGACATGTTGAATG
1 TCATAATTGATGATGATGCG-CATGTT-AATG
*
15763570 TCATAATTGATGATGATGTGCATGTTAATG
1 TCATAATTGATGATGATGCGCATGTTAATG
15763600 T
1 T
15763601 GACATGATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 5 0.17
31 6 0.21
32 18 0.62
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (30 bp):
TCATAATTGATGATGATGCGCATGTTAATG
Found at i:15771497 original size:42 final size:42
Alignment explanation
Indices: 15771440--15771573 Score: 146
Period size: 42 Copynumber: 3.2 Consensus size: 42
15771430 CTCCCCACTA
* * * * *
15771440 GCACATGGTTGGGTCAGCATCGGCTTATGCTCAC-TCTTATTC
1 GCACATAGTCGGGTCATCATCGGCTTATGCGCACTTC-TACTC
* *
15771482 GCATATAGTCGGGTCATCATCAGCTTATGCGCACTTCTACTC
1 GCACATAGTCGGGTCATCATCGGCTTATGCGCACTTCTACTC
* * *
15771524 GCACATAGTCGGGTAATCATCGG-TGTATGCGTACTCCTACTC
1 GCACATAGTCGGGTCATCATCGGCT-TATGCGCACTTCTACTC
15771566 GCACATAG
1 GCACATAG
15771574 CCAGATCCAC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.01
42 75 0.96
43 2 0.03
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (42 bp):
GCACATAGTCGGGTCATCATCGGCTTATGCGCACTTCTACTC
Found at i:15771568 original size:84 final size:85
Alignment explanation
Indices: 15771410--15771573 Score: 181
Period size: 84 Copynumber: 1.9 Consensus size: 85
15771400 CACTCTCCCA
* * * *
15771410 TCATCATCAGCTCATGTGCACTCCCCACTAGCACATGGTTGGGTCAGCATCGGCTTATGCTCACT
1 TCATCATCAGCTCATGCGCACTCCCCACTAGCACATAGTCGGGTAAGCATCGGCTTATGCTCACT
* * *
15771475 CTTATTCGCATATAGTCGGG
66 CCTACTCGCACATAGTCGGG
* * * * *
15771495 TCATCATCAGCTTATGCGCACT-TCTACTCGCACATAGTCGGGTAATCATCGG-TGTATGCGT-A
1 TCATCATCAGCTCATGCGCACTCCCCACTAGCACATAGTCGGGTAAGCATCGGCT-TATGC-TCA
15771557 CTCCTACTCGCACATAG
64 CTCCTACTCGCACATAG
15771574 CCAGATCCAC
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
83 1 0.02
84 43 0.66
85 21 0.32
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.29
Consensus pattern (85 bp):
TCATCATCAGCTCATGCGCACTCCCCACTAGCACATAGTCGGGTAAGCATCGGCTTATGCTCACT
CCTACTCGCACATAGTCGGG
Found at i:15779333 original size:21 final size:22
Alignment explanation
Indices: 15779304--15779347 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
15779294 TGATTTAAGT
15779304 CCAACTTAAATCAT-TGCAATC
1 CCAACTTAAATCATATGCAATC
* *
15779325 CCAATTTAATTCATAATGCAATC
1 CCAACTTAAATCAT-ATGCAATC
15779348 TTTTTGTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.32
Consensus pattern (22 bp):
CCAACTTAAATCATATGCAATC
Found at i:15785317 original size:22 final size:22
Alignment explanation
Indices: 15785289--15785343 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
15785279 CAACGAATCT
15785289 TCGCTGCAGCGGAAAGGCATTC
1 TCGCTGCAGCGGAAAGGCATTC
15785311 TCGCTGCAGCGGAAAGGCATTC
1 TCGCTGCAGCGGAAAGGCATTC
*
15785333 TCGTTGCAGCG
1 TCGCTGCAGCG
15785344 TAGCGACGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.20, C:0.27, G:0.33, T:0.20
Consensus pattern (22 bp):
TCGCTGCAGCGGAAAGGCATTC
Found at i:15785659 original size:22 final size:22
Alignment explanation
Indices: 15785631--15785707 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
15785621 GCTACAGTGT
*
15785631 CATTCTCGGTGCAGCGAAAATG
1 CATTCTCGCTGCAGCGAAAATG
*
15785653 CATTCTCACTGCAGCGAAAATG
1 CATTCTCGCTGCAGCGAAAATG
**
15785675 CATTCTCGCTGCAATGAAAATG
1 CATTCTCGCTGCAGCGAAAATG
15785697 CATTCTCGCTG
1 CATTCTCGCTG
15785708 TAGTGAGTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (22 bp):
CATTCTCGCTGCAGCGAAAATG
Found at i:15786043 original size:26 final size:23
Alignment explanation
Indices: 15785982--15786041 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
15785972 TATACGTATA
*
15785982 CCCATCATCATCATGCACACCAT
1 CCCATCATCATCATACACACCAT
15786005 CCCATCATCATCATACACACCAT
1 CCCATCATCATCATACACACCAT
**
15786028 TACATCATCATCAT
1 CCCATCATCATCAT
15786042 CACCAGCTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.33, C:0.40, G:0.02, T:0.25
Consensus pattern (23 bp):
CCCATCATCATCATACACACCAT
Found at i:15786125 original size:43 final size:43
Alignment explanation
Indices: 15786078--15786169 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
15786068 GCGCATGGCT
*** *
15786078 GGGTCATCATCGGGTTATGCCCACTCCCTACTCGTATAGAACC
1 GGGTCATCATCAACTTATGCCCACTCCCTACTCGCATAGAACC
* * *
15786121 GGGTCATCCTCAACTTATGCGCACTCCCTACTCGCATATAACC
1 GGGTCATCATCAACTTATGCCCACTCCCTACTCGCATAGAACC
*
15786164 GAGTCA
1 GGGTCA
15786170 ATATAATTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (43 bp):
GGGTCATCATCAACTTATGCCCACTCCCTACTCGCATAGAACC
Found at i:15787299 original size:71 final size:71
Alignment explanation
Indices: 15787183--15787321 Score: 278
Period size: 71 Copynumber: 2.0 Consensus size: 71
15787173 ATTTTGCCCC
15787183 TGTTGTGAAAATTATTGCCACTTCTAGTTTTCTTCATGTTTTCATCATTACACATCATTTATGAG
1 TGTTGTGAAAATTATTGCCACTTCTAGTTTTCTTCATGTTTTCATCATTACACATCATTTATGAG
15787248 GTCCCT
66 GTCCCT
15787254 TGTTGTGAAAATTATTGCCACTTCTAGTTTTCTTCATGTTTTCATCATTACACATCATTTATGAG
1 TGTTGTGAAAATTATTGCCACTTCTAGTTTTCTTCATGTTTTCATCATTACACATCATTTATGAG
15787319 GTC
66 GTC
15787322 TTATGCCTAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (71 bp):
TGTTGTGAAAATTATTGCCACTTCTAGTTTTCTTCATGTTTTCATCATTACACATCATTTATGAG
GTCCCT
Found at i:15790225 original size:24 final size:24
Alignment explanation
Indices: 15790193--15790242 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
15790183 AAAGATACGC
*
15790193 TTAAAATAAATGCAAGTAATCCAT
1 TTAAAATAAATACAAGTAATCCAT
15790217 TTAAAATAAATACAAGTAATCCAT
1 TTAAAATAAATACAAGTAATCCAT
15790241 TT
1 TT
15790243 CAAACAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (24 bp):
TTAAAATAAATACAAGTAATCCAT
Found at i:15805510 original size:38 final size:39
Alignment explanation
Indices: 15805424--15805526 Score: 129
Period size: 38 Copynumber: 2.6 Consensus size: 39
15805414 ACCCGACTCA
*
15805424 TGTACATCCCCCCACATCGTGCACATAGCCGGCACCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCAGG-ACCATCG
* * *
15805464 TGTGCATCCCCCCACATCGTGCACA-ATCAATG-CCATCG
1 TGTACATCCCCCCACATCGTGCACATAGC-AGGACCATCG
*
15805502 TGTACATCCCCCCACATTGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
15805527 CGGGCACTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
38 29 0.52
39 2 0.04
40 25 0.45
ACGTcount: A:0.23, C:0.41, G:0.16, T:0.20
Consensus pattern (39 bp):
TGTACATCCCCCCACATCGTGCACATAGCAGGACCATCG
Found at i:15805861 original size:2 final size:2
Alignment explanation
Indices: 15805850--15805888 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
15805840 ATTCATCATG
15805850 CA CA -A CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
15805889 TATATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:15809066 original size:30 final size:28
Alignment explanation
Indices: 15809025--15809105 Score: 81
Period size: 30 Copynumber: 2.8 Consensus size: 28
15809015 GGAAGGACTT
*
15809025 ATTGAAAATAATAAGAAGTTGAGGGGTGGA
1 ATTGTAAATAATAA-AAGTTGAGGGGT-GA
**
15809055 ATTGTAAATAATGAAAAGTAAAGGGGTGA
1 ATTGTAAATAAT-AAAAGTTGAGGGGTGA
* *
15809084 AGTTGTAATTATTAAAAGTTGA
1 A-TTGTAAATAATAAAAGTTGA
15809106 AGGATCAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
29 10 0.24
30 30 0.71
31 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.28
Consensus pattern (28 bp):
ATTGTAAATAATAAAAGTTGAGGGGTGA
Found at i:15810614 original size:25 final size:25
Alignment explanation
Indices: 15810565--15810624 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
15810555 CGGTTTGTTA
***
15810565 TTATAGGTGGCAAGGCCATGGGTTG
1 TTATAGGTGGCAAGGCCACAAGTTG
*
15810590 TTATATGTGGCAAGGCCACAAGTTG
1 TTATAGGTGGCAAGGCCACAAGTTG
*
15810615 ATATAGGTGG
1 TTATAGGTGG
15810625 TTGCGACCAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.12, G:0.35, T:0.28
Consensus pattern (25 bp):
TTATAGGTGGCAAGGCCACAAGTTG
Found at i:15818839 original size:20 final size:21
Alignment explanation
Indices: 15818814--15818860 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
15818804 ATCATCTATT
*
15818814 GATAGAT-AGGTCCATTTATC
1 GATAGATGAGGACCATTTATC
* *
15818834 GATAGATGATGAGCATTTATC
1 GATAGATGAGGACCATTTATC
15818855 GATAGA
1 GATAGA
15818861 CAGACTTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (21 bp):
GATAGATGAGGACCATTTATC
Found at i:15822977 original size:26 final size:28
Alignment explanation
Indices: 15822921--15822979 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 28
15822911 TATATTTAAT
*
15822921 TTTTGTTGATTAATTTAGTGTTTTTTTAA
1 TTTTGTT-ATTAATTTAGTGTTTTTTCAA
15822950 TTTTGTT-TTAA-TTAGT-TTTTCTTCAA
1 TTTTGTTATTAATTTAGTGTTTT-TTCAA
15822976 TTTT
1 TTTT
15822980 TAGATCACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 4 0.14
26 13 0.46
27 4 0.14
29 7 0.25
ACGTcount: A:0.19, C:0.03, G:0.10, T:0.68
Consensus pattern (28 bp):
TTTTGTTATTAATTTAGTGTTTTTTCAA
Found at i:15827213 original size:73 final size:74
Alignment explanation
Indices: 15827062--15827228 Score: 196
Period size: 73 Copynumber: 2.3 Consensus size: 74
15827052 ACAGAGTGTT
* * * * * *
15827062 CTTAGTTGACTAACATAT--TTCTTAGTCCATTAAGTCGTTTCTGTTTTTTGATCCTAATTTCTG
1 CTTAGTTGACTAACA-ATGCTTCTTAGTCAATTAAGTCGTCTCTGTTCTCTAAACCTAATTTCTG
*
15827125 GCAGTAAGCT
65 GCAGTAAGCA
* *
15827135 TTTAGTTGACTAACAATGCTTCTTAGTCAATTAAGTCGTCTCTG-TCTCTAAACCTAGTTTCTGG
1 CTTAGTTGACTAACAATGCTTCTTAGTCAATTAAGTCGTCTCTGTTCTCTAAACCTAATTTCTGG
15827199 CAGTAAGCA
66 CAGTAAGCA
* * *
15827208 CTTAGTCGATTAACCATGCTT
1 CTTAGTTGACTAACAATGCTT
15827229 TTTGGTCGAC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
72 2 0.03
73 54 0.68
74 23 0.29
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.41
Consensus pattern (74 bp):
CTTAGTTGACTAACAATGCTTCTTAGTCAATTAAGTCGTCTCTGTTCTCTAAACCTAATTTCTGG
CAGTAAGCA
Found at i:15828040 original size:22 final size:22
Alignment explanation
Indices: 15828012--15828054 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
15828002 CCTAAATTAC
15828012 CCCTAAATTACTTTTACTTTCG
1 CCCTAAATTACTTTTACTTTCG
*
15828034 CCCTAAATTTCTTTTACTTTC
1 CCCTAAATTACTTTTACTTTC
15828055 TATCTCCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.28, G:0.02, T:0.49
Consensus pattern (22 bp):
CCCTAAATTACTTTTACTTTCG
Found at i:15833558 original size:14 final size:15
Alignment explanation
Indices: 15833539--15833567 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15833529 CCATAGATTA
15833539 CATTTCCTT-GATAT
1 CATTTCCTTGGATAT
15833553 CATTTCCTTGGATAT
1 CATTTCCTTGGATAT
15833568 TTCTCCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (15 bp):
CATTTCCTTGGATAT
Found at i:15841362 original size:42 final size:41
Alignment explanation
Indices: 15841267--15841418 Score: 143
Period size: 42 Copynumber: 3.8 Consensus size: 41
15841257 ATAGTCGGAG
* **
15841267 TCATCGTGTGCATCCCTCCACATCATGCACAAGCAATATCA
1 TCATCGTGTGCATCCCCCCACATCGGGCACAAGCAATATCA
* * * * *
15841308 TC-GCTTTATGCATCCGCCCCACATCGTGCACAAGCGATATCA
1 TCATC-GTGTGCATCC-CCCCACATCGGGCACAAGCAATATCA
* *
15841350 TCATCGTGTGCATCCCCCCATATCGGGCACAA-CTAAT-GC-
1 TCATCGTGTGCATCCCCCCACATCGGGCACAAGC-AATATCA
*
15841389 -CATTGTGTGCATCCCCCCACATCGGGCACA
1 TCATCGTGTGCATCCCCCCACATCGGGCACA
15841419 CGGGCAATAT
Statistics
Matches: 92, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
38 28 0.30
40 3 0.03
41 27 0.29
42 33 0.36
43 1 0.01
ACGTcount: A:0.24, C:0.36, G:0.16, T:0.23
Consensus pattern (41 bp):
TCATCGTGTGCATCCCCCCACATCGGGCACAAGCAATATCA
Found at i:15841524 original size:2 final size:2
Alignment explanation
Indices: 15841517--15841544 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15841507 NTATGACATA
15841517 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
15841545 CAATATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15842588 original size:18 final size:18
Alignment explanation
Indices: 15842565--15842601 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15842555 CAAAACCAAG
*
15842565 CTTTTTCTTCCTTTCTCT
1 CTTTTTCTTCCTTCCTCT
*
15842583 CTTTTTCTTTCTTCCTCT
1 CTTTTTCTTCCTTCCTCT
15842601 C
1 C
15842602 CTAGGGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (18 bp):
CTTTTTCTTCCTTCCTCT
Found at i:15847421 original size:17 final size:17
Alignment explanation
Indices: 15847391--15847423 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15847381 TTCTTCATAA
15847391 AATAAAACTCCTTATTG
1 AATAAAACTCCTTATTG
15847408 AATAATAACT-CTTATT
1 AATAA-AACTCCTTATT
15847424 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (17 bp):
AATAAAACTCCTTATTG
Found at i:15849059 original size:2 final size:2
Alignment explanation
Indices: 15849052--15849082 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15849042 TACTATGTTG
*
15849052 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15849083 CGGATAATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15849181 original size:61 final size:61
Alignment explanation
Indices: 15849090--15849210 Score: 188
Period size: 61 Copynumber: 2.0 Consensus size: 61
15849080 ATACGGATAA
* * * *
15849090 TGTTGTGATACTTACAATCGTGCATTTGCGGAGAGGGCAGCGCACATGCCGGTAATGATGT
1 TGTTGTGATACTTACAACCGTGCATGTGCGGAGAGAGCAGCGCACATGCCGATAATGATGT
* *
15849151 TGTTGTGATATTTACAACCGTGCATGTGCGGAGAGAGCAGTGCACATGCCGATAATGATG
1 TGTTGTGATACTTACAACCGTGCATGTGCGGAGAGAGCAGCGCACATGCCGATAATGATG
15849211 CACATGAGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (61 bp):
TGTTGTGATACTTACAACCGTGCATGTGCGGAGAGAGCAGCGCACATGCCGATAATGATGT
Found at i:15854454 original size:36 final size:36
Alignment explanation
Indices: 15854423--15854492 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
15854413 GCATTGCTGT
15854423 AGCAAACGACAGAGTCATGTCACACCCCATTGCCAC
1 AGCAAACGACAGAGTCATGTCACACCCCATTGCCAC
* *
15854459 GGCAAACGACAGAGTC-TAGTCACGCCCCATTGCC
1 AGCAAACGACAGAGTCAT-GTCACACCCCATTGCC
15854493 TAGTAAACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 1 0.03
36 30 0.97
ACGTcount: A:0.30, C:0.36, G:0.20, T:0.14
Consensus pattern (36 bp):
AGCAAACGACAGAGTCATGTCACACCCCATTGCCAC
Found at i:15854615 original size:36 final size:35
Alignment explanation
Indices: 15854568--15854637 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 35
15854558 ACAATACCAT
*
15854568 GTCACGCCCCATTGTC-ATGACAAACGATGGAGTCTA
1 GTCACGCCCCATAGTCGA-G-CAAACGATGGAGTCTA
*
15854604 GTCACGCCCCATAGTCGAGCAAATGATGGAGTCT
1 GTCACGCCCCATAGTCGAGCAAACGATGGAGTCT
15854638 GTGGTCTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 14 0.45
36 16 0.52
37 1 0.03
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.21
Consensus pattern (35 bp):
GTCACGCCCCATAGTCGAGCAAACGATGGAGTCTA
Found at i:15861011 original size:68 final size:67
Alignment explanation
Indices: 15860939--15861193 Score: 282
Period size: 68 Copynumber: 3.8 Consensus size: 67
15860929 AATAAAAGTC
* * * *
15860939 CCACAAGGTCT-AGTTGGGCCAATGTACCATTTTTTCCCTTTCTAAAACCTAATGTGCAAAGAAG
1 CCACAAGGT-TAAGTTAGGCAAATGAACCATCTTTTCCC-TTCTAAAACCTAATGTGCAAAGAAG
15861003 AATA
64 AATA
*
15861007 CCACAAGGTTAAGTTAGGCAAATGAACCATCTTTTCTCCTTCTAAAACCTAATGTGCAAATAAGA
1 CCACAAGGTTAAGTTAGGCAAATGAACCATCTTTTC-CCTTCTAAAACCTAATGTGCAAAGAAGA
15861072 ATA
65 ATA
* * **
15861075 CCACAAGGTTAAGTTAGGCAAATGAACCATCTTTTCCCTTCTTAAAACCCAGTGTG-AGGGTAAG
1 CCACAAGGTTAAGTTAGGCAAATGAACCATCTTTTCCCTTC-TAAAACCTAATGTGCAAAG-AAG
15861139 AATA
64 AATA
* * * * * * * *
15861143 CCATAAGATCAAGTTGGGAAAATGTACCATTTTTTCTCTAT-TAAAACCTAA
1 CCACAAGGTTAAGTTAGGCAAATGAACCATCTTTTCCCT-TCTAAAACCTAA
15861194 AATGGGGGTA
Statistics
Matches: 162, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
67 15 0.09
68 144 0.89
69 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.29
Consensus pattern (67 bp):
CCACAAGGTTAAGTTAGGCAAATGAACCATCTTTTCCCTTCTAAAACCTAATGTGCAAAGAAGAA
TA
Found at i:15861157 original size:136 final size:135
Alignment explanation
Indices: 15860939--15861261 Score: 303
Period size: 136 Copynumber: 2.4 Consensus size: 135
15860929 AATAAAAGTC
* * * * *
15860939 CCACAAGGTCTAGTTGGGCCAATGTACCATTTTTTCCCTTTCTAAAACCTAATGTGCAAAGAAGA
1 CCACAAGGTCTAGTTAGGCAAATGAACCATCTTTTCCCTTTCTAAAACCCAATGTGCAAAGAAGA
* * *
15861004 ATACCACAAGGTTAAGTTAGGCAAATGAACCATCTTTTCTCCT-TCTAAAACCTAATGTGCAAAT
66 ATACCACAAGATCAAGTTAGGAAAATGAACCATCTTTTCT-CTAT-TAAAACCTAATGTGCAAAT
15861068 AAGAATA
129 AAGAATA
* **
15861075 CCACAAGGT-TAAGTTAGGCAAATGAACCATCTTTTCCC-TTCTTAAAACCCAGTGTG-AGGGTA
1 CCACAAGGTCT-AGTTAGGCAAATGAACCATCTTTTCCCTTTC-TAAAACCCAATGTGCAAAG-A
* * * * ** ****
15861137 AGAATACCATAAGATCAAGTTGGGAAAATGTACCATTTTTTCTCTATTAAAACCTAAAATGGGGG
63 AGAATACCACAAGATCAAGTTAGGAAAATGAACCATCTTTTCTCTATTAAAACCTAATGTGCAAA
*
15861202 TAAAAATA
128 TAAGAATA
* * * * * * *
15861210 CCATAGGGTCAAGTTGGGAAAATGTACCCATCTTTTCCCTATCTAAAACCCA
1 CCACAAGGTCTAGTTAGGCAAATG-AACCATCTTTTCCCTTTCTAAAACCCA
15861262 GTATGGGGAT
Statistics
Matches: 151, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
135 45 0.30
136 104 0.69
137 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (135 bp):
CCACAAGGTCTAGTTAGGCAAATGAACCATCTTTTCCCTTTCTAAAACCCAATGTGCAAAGAAGA
ATACCACAAGATCAAGTTAGGAAAATGAACCATCTTTTCTCTATTAAAACCTAATGTGCAAATAA
GAATA
Found at i:15861213 original size:67 final size:69
Alignment explanation
Indices: 15861101--15861259 Score: 198
Period size: 67 Copynumber: 2.3 Consensus size: 69
15861091 GGCAAATGAA
* *** * *
15861101 CCATCTTTTCCCT-TCTTAAAACCCAGTGTGAGGGTAAGAATACCATAAGATCAAGTTGGGAAAA
1 CCATCTTTTCCCTATC-TAAAACCTAAAATGGGGGTAAAAATACCATAAGATCAAGTTGGGAAAA
15861165 TGTA-
65 TGTAC
* * * *
15861169 CCATTTTTTCTCTAT-TAAAACCTAAAATGGGGGTAAAAATACCATAGGGTCAAGTTGGGAAAAT
1 CCATCTTTTCCCTATCTAAAACCTAAAATGGGGGTAAAAATACCATAAGATCAAGTTGGGAAAAT
15861233 GTAC
66 GTAC
15861237 CCATCTTTTCCCTATCTAAAACC
1 CCATCTTTTCCCTATCTAAAACC
15861260 CAGTATGGGG
Statistics
Matches: 76, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
67 44 0.58
68 24 0.32
69 8 0.11
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (69 bp):
CCATCTTTTCCCTATCTAAAACCTAAAATGGGGGTAAAAATACCATAAGATCAAGTTGGGAAAAT
GTAC
Found at i:15862011 original size:16 final size:16
Alignment explanation
Indices: 15861987--15862025 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
15861977 AAAACCAAAA
15861987 TTTGAATTTTGATTCT
1 TTTGAATTTTGATTCT
* *
15862003 TTTGGATTTTGATTTT
1 TTTGAATTTTGATTCT
15862019 TTTGAAT
1 TTTGAAT
15862026 ATTTTTATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.18, C:0.03, G:0.15, T:0.64
Consensus pattern (16 bp):
TTTGAATTTTGATTCT
Found at i:15863398 original size:68 final size:68
Alignment explanation
Indices: 15863243--15863493 Score: 211
Period size: 68 Copynumber: 3.7 Consensus size: 68
15863233 CATGTTTGGT
* *
15863243 ATGATGAATGCCATAAAATTTTGTATATGAT-TGAAATTCCATATACCATATAAGGTGATTAAGT
1 ATGATGAATGCCATAAGATTATGTATATGATGT-AAATTCCATATACCATATAAGGTGATTAAGT
15863307 ATGC
65 ATGC
** * * * *
15863311 ATGATGTCTACTATAAGATTGTGTAAATGATGTAAATTCCATATACCATATGAA-GTGATTAAGT
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATAT-AAGGTGATTAAGT
*
15863375 ATGT
65 ATGC
* * * * * ** * * * * * *
15863379 GTGATAAATGCCATCAGATTATGTATATGATGTATATCCCATATATTACATGAGATTATTGAGAA
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATAAGGTGATTAAGTA
*
15863444 AGC
66 TGC
* * * *
15863447 AAGATGAATGCCATGAGATTATGTATATAATG-AATTTTCCATATACC
1 ATGATGAATGCCATAAGATTATGTATATGATGTAA-ATTCCATATACC
15863494 TTATGAGATG
Statistics
Matches: 140, Mismatches: 39, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
67 2 0.01
68 135 0.96
69 3 0.02
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (68 bp):
ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATAAGGTGATTAAGTA
TGC
Found at i:15864931 original size:37 final size:37
Alignment explanation
Indices: 15864890--15864999 Score: 121
Period size: 37 Copynumber: 3.0 Consensus size: 37
15864880 ATAATGTTGT
* **
15864890 ATGATGATAATGAGGTGTGCGAGTAGGGAGTGCACAC
1 ATGATGATATTGAAATGTGCGAGTAGGGAGTGCACAC
* *
15864927 ATGATGACATTGAAATGTGCGAGTAGGGAGTGCACAT
1 ATGATGATATTGAAATGTGCGAGTAGGGAGTGCACAC
* * *** *
15864964 ATGGTGGTATTGCCTTGTGCGTGTAGGGAGTGCACA
1 ATGATGATATTGAAATGTGCGAGTAGGGAGTGCACA
15865000 AGAGCTGAGG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.26, C:0.12, G:0.36, T:0.25
Consensus pattern (37 bp):
ATGATGATATTGAAATGTGCGAGTAGGGAGTGCACAC
Found at i:15866762 original size:20 final size:20
Alignment explanation
Indices: 15866716--15866767 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 20
15866706 ACATTTTACT
* *
15866716 AATGCATTGATAAATACATG
1 AATGTATTGATAAATACAAG
* * *
15866736 AAAGTATTGATACATTCAAG
1 AATGTATTGATAAATACAAG
*
15866756 AATGTATCGATA
1 AATGTATTGATA
15866768 GTTTTGGTGC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (20 bp):
AATGTATTGATAAATACAAG
Found at i:15869702 original size:31 final size:30
Alignment explanation
Indices: 15869645--15869808 Score: 136
Period size: 31 Copynumber: 5.3 Consensus size: 30
15869635 TATTTGTTTC
* *
15869645 ACTTTGGAATTGATA-TTGTTTTGACTTTAG
1 ACTTTGGATTTGGTATTTGTTTTGACTTT-G
*
15869675 ACTTTGGATTTGGTATTTGTTTAGACTTTG
1 ACTTTGGATTTGGTATTTGTTTTGACTTTG
* * *
15869705 ATCTTTGGATTTGGCAATTGTTTTGACCTTG
1 A-CTTTGGATTTGGTATTTGTTTTGACTTTG
* **
15869736 -GTGTTTAAGTTTGGTATTTGTTTTGA-TTTGG
1 ACT-TTGGA-TTTGGTATTTGTTTTGACTTT-G
* * *
15869767 GCATTTGGATTTGGTATTTGTTTCGACCTTG
1 AC-TTTGGATTTGGTATTTGTTTTGACTTTG
15869798 ATCTTTGGATT
1 A-CTTTGGATT
15869809 GAATATTTGC
Statistics
Matches: 106, Mismatches: 19, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
29 1 0.01
30 20 0.19
31 78 0.74
32 6 0.06
33 1 0.01
ACGTcount: A:0.16, C:0.08, G:0.24, T:0.52
Consensus pattern (30 bp):
ACTTTGGATTTGGTATTTGTTTTGACTTTG
Found at i:15869830 original size:93 final size:93
Alignment explanation
Indices: 15869660--15869835 Score: 205
Period size: 93 Copynumber: 1.9 Consensus size: 93
15869650 GGAATTGATA
* *
15869660 TTGTTTTGACTTTAGACTTTGGATTTGGTATTTGTTTAGACTTTGATCTTTGGATTTGGCAATTG
1 TTGTTTTGACTTTAGACTTTGGATTTGGTATTTGTTTAGACCTTGATCTTTGGATTTGGAAATTG
*** * *
15869725 TTTTGACCTTGGTGTTTAAGTTTGGTAT
66 CCCTAACCTTGGTATTTAAGTTTGGTAT
* * *
15869753 TTGTTTTGA-TTTGGGCATTTGGATTTGGTATTTGTTTCGACCTTGATCTTTGGA-TT-GAATAT
1 TTGTTTTGACTTTAGAC-TTTGGATTTGGTATTTGTTTAGACCTTGATCTTTGGATTTGGAA-A-
*
15869815 TTGCCCTAACTTTGGTATTTA
63 TTGCCCTAACCTTGGTATTTA
15869836 GACTTGATTT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
91 2 0.03
92 8 0.12
93 59 0.86
ACGTcount: A:0.16, C:0.09, G:0.23, T:0.52
Consensus pattern (93 bp):
TTGTTTTGACTTTAGACTTTGGATTTGGTATTTGTTTAGACCTTGATCTTTGGATTTGGAAATTG
CCCTAACCTTGGTATTTAAGTTTGGTAT
Found at i:15880732 original size:35 final size:35
Alignment explanation
Indices: 15880655--15880735 Score: 117
Period size: 35 Copynumber: 2.3 Consensus size: 35
15880645 ATCTTCGTAG
* *
15880655 AGGTTACACCTGATCTTACAAAAGGCATGCTGTAA
1 AGGTTACGCCTGATCCTACAAAAGGCATGCTGTAA
* * *
15880690 AGGTTACGCTTGATCCTACAAAGGGCATGTTGTAA
1 AGGTTACGCCTGATCCTACAAAAGGCATGCTGTAA
15880725 AGGTTACGCCT
1 AGGTTACGCCT
15880736 AACCTTGTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (35 bp):
AGGTTACGCCTGATCCTACAAAAGGCATGCTGTAA
Found at i:15890421 original size:21 final size:20
Alignment explanation
Indices: 15890397--15890444 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
15890387 AATCTTACCT
* *
15890397 TTTTTCACTTGTTTCTTTGAA
1 TTTTTCACTT-TTCCCTTGAA
*
15890418 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTCCCTTGAA
15890439 TTTTTC
1 TTTTTC
15890445 CACCTAGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.15, C:0.21, G:0.06, T:0.58
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTGAA
Found at i:15895662 original size:43 final size:43
Alignment explanation
Indices: 15895544--15895665 Score: 133
Period size: 43 Copynumber: 2.8 Consensus size: 43
15895534 TGACTCGGCT
* * *
15895544 ATGTGCAAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGATA
1 ATGTGCGAGTAGGGAGTGAGCATAAGCCG-GTGATGACCCGACA
* *
15895587 ATGTGCGAGTAGGGAGT-ACGCATAACCCGGTGATGACCC-AGCC
1 ATGTGCGAGTAGGGAGTGA-GCATAAGCCGGTGATGACCCGA-CA
* *
15895630 ATGTGCGAGTAGGGAGTGAGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGAGCATAAGCCGGTGATGA
15895666 TGATGATGGG
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
42 2 0.03
43 64 0.96
44 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.37, T:0.18
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGAGCATAAGCCGGTGATGACCCGACA
Found at i:15901062 original size:16 final size:18
Alignment explanation
Indices: 15901043--15901075 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15901033 TTTAACTAAA
15901043 TGCTA-GTT-TATTTTTT
1 TGCTATGTTATATTTTTT
15901059 TGCTATGTTATATTTTT
1 TGCTATGTTATATTTTT
15901076 AATTTCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 3 0.20
18 7 0.47
ACGTcount: A:0.15, C:0.06, G:0.12, T:0.67
Consensus pattern (18 bp):
TGCTATGTTATATTTTTT
Found at i:15901770 original size:45 final size:46
Alignment explanation
Indices: 15901706--15901795 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
15901696 TCACTTAAAG
*
15901706 AATTATGCAACTCTTGAC-TTTTGTGTACATATTGCAGTTGACAAC
1 AATTATGCAACTCTTGACTTTTTGTATACATATTGCAGTTGACAAC
* * * *
15901751 AATTATGTAACTTTTGACTTTTTTTATACATATTGTAGTTGACAA
1 AATTATGCAACTCTTGACTTTTTGTATACATATTGCAGTTGACAA
15901796 ATAGCTTTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 16 0.41
46 23 0.59
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (46 bp):
AATTATGCAACTCTTGACTTTTTGTATACATATTGCAGTTGACAAC
Found at i:15903052 original size:2 final size:2
Alignment explanation
Indices: 15903045--15903098 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
15903035 TTTCAAGATT
15903045 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15903087 -A TA TA TA TA TA T
1 TA TA TA TA TA TA T
15903099 GTACTATATT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15906315 original size:2 final size:2
Alignment explanation
Indices: 15906305--15906335 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15906295 AAAAAGAATT
*
15906305 TA TA CA 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
15906336 TCAATTACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:15908134 original size:26 final size:26
Alignment explanation
Indices: 15908104--15908153 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
15908094 GTAATCCGAA
*
15908104 TGAATGTTTATTTTGTAAGCATTTCG
1 TGAATGTTTATTGTGTAAGCATTTCG
15908130 TGAATGTTTATTGTGTAAGCATTT
1 TGAATGTTTATTGTGTAAGCATTT
15908154 TGTATCTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.06, G:0.20, T:0.50
Consensus pattern (26 bp):
TGAATGTTTATTGTGTAAGCATTTCG
Found at i:15909539 original size:15 final size:15
Alignment explanation
Indices: 15909519--15909549 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15909509 CTGTAGCTGT
*
15909519 TCCACCTCCACCTCC
1 TCCACCGCCACCTCC
15909534 TCCACCGCCACCTCC
1 TCCACCGCCACCTCC
15909549 T
1 T
15909550 TTGCCAGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.65, G:0.03, T:0.19
Consensus pattern (15 bp):
TCCACCGCCACCTCC
Found at i:15933503 original size:19 final size:19
Alignment explanation
Indices: 15933479--15933515 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
15933469 AAACTATCAA
15933479 CTGGTCGAGGGTTTCTCAG
1 CTGGTCGAGGGTTTCTCAG
15933498 CTGGTCGAGGGTTTCTCA
1 CTGGTCGAGGGTTTCTCA
15933516 CTAAACCCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.35, T:0.32
Consensus pattern (19 bp):
CTGGTCGAGGGTTTCTCAG
Found at i:15934198 original size:2 final size:2
Alignment explanation
Indices: 15934193--15934262 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
15934183 AGATATGCAC
15934193 AT AT AT AT AT 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 AT AT AT AT AT
15934235 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
15934263 CAACATAACA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15938518 original size:30 final size:31
Alignment explanation
Indices: 15938478--15938556 Score: 135
Period size: 30 Copynumber: 2.6 Consensus size: 31
15938468 AAACAGAAAG
15938478 TTTCTCGCTGCAGCGAGAAGCTTCAACAA-T
1 TTTCTCGCTGCAGCGAGAAGCTTCAACAACT
*
15938508 TTTCTTGCTGCAGCGAGAAGCTTCAACAACT
1 TTTCTCGCTGCAGCGAGAAGCTTCAACAACT
15938539 TTT-TCGCTGCAGCGAGAA
1 TTTCTCGCTGCAGCGAGAA
15938557 TCAAGTCGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 42 0.91
31 4 0.09
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (31 bp):
TTTCTCGCTGCAGCGAGAAGCTTCAACAACT
Found at i:15938957 original size:42 final size:43
Alignment explanation
Indices: 15938858--15938976 Score: 161
Period size: 43 Copynumber: 2.8 Consensus size: 43
15938848 TACCATCCCA
* * *
15938858 TCATCATCAGCTCATGTGCACTCC-CTACTCGCACATAGTTGGG
1 TCATCATCAGCTCATGTGCACTCCAC-ACTCACACAAAGCTGGG
15938901 TCATCATCAGCTCATGTGCACTCCACACT-ACACAAAGCTGGG
1 TCATCATCAGCTCATGTGCACTCCACACTCACACAAAGCTGGG
* *
15938943 TCATCATCAACTCATGTGCACTCCCACACGCACA
1 TCATCATCAGCTCATGTGCACT-CCACACTCACA
15938977 TTCCTGGGTC
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
42 31 0.46
43 33 0.49
44 4 0.06
ACGTcount: A:0.26, C:0.35, G:0.15, T:0.24
Consensus pattern (43 bp):
TCATCATCAGCTCATGTGCACTCCACACTCACACAAAGCTGGG
Found at i:15938984 original size:42 final size:42
Alignment explanation
Indices: 15938858--15938991 Score: 180
Period size: 42 Copynumber: 3.2 Consensus size: 42
15938848 TACCATCCCA
* *
15938858 TCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGTTGGG
1 TCATCATCAGCTCATGTGCACTCCC-ACACGCACATAGCTGGG
* *
15938901 TCATCATCAGCTCATGTGCACT-CCACACTACACAAAGCTGGG
1 TCATCATCAGCTCATGTGCACTCCCACAC-GCACATAGCTGGG
* **
15938943 TCATCATCAACTCATGTGCACTCCCACACGCACATTCCTGGG
1 TCATCATCAGCTCATGTGCACTCCCACACGCACATAGCTGGG
15938985 TCATCAT
1 TCATCAT
15938992 TATCACATAA
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
41 3 0.04
42 49 0.61
43 28 0.35
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (42 bp):
TCATCATCAGCTCATGTGCACTCCCACACGCACATAGCTGGG
Found at i:15941019 original size:15 final size:15
Alignment explanation
Indices: 15941001--15941031 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15940991 AAAAAAAAAG
15941001 AGAAAAAGAAAAATA
1 AGAAAAAGAAAAATA
*
15941016 AGAAAAAGAAGAATA
1 AGAAAAAGAAAAATA
15941031 A
1 A
15941032 AGTGTTGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.06
Consensus pattern (15 bp):
AGAAAAAGAAAAATA
Found at i:15951941 original size:22 final size:22
Alignment explanation
Indices: 15951916--15951960 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
15951906 CATCACATCA
15951916 AACATAACATATAGATCAACTT
1 AACATAACATATAGATCAACTT
15951938 AACATAACATATAGATCAACTT
1 AACATAACATATAGATCAACTT
15951960 A
1 A
15951961 GGTTATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.27
Consensus pattern (22 bp):
AACATAACATATAGATCAACTT
Found at i:15959135 original size:21 final size:22
Alignment explanation
Indices: 15959110--15959150 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
15959100 CCTAGGCGAA
15959110 AAAATTCAAGGAAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
15959131 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
15959151 AAAAAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.54, C:0.07, G:0.22, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:15959156 original size:22 final size:21
Alignment explanation
Indices: 15959107--15959156 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
15959097 AACCCTAGGC
15959107 GAAAAAATTCAAGGAAAAAGT
1 GAAAAAATTCAAGGAAAAAGT
**
15959128 GTGAAAATTCAAGGAAACAAGT
1 GAAAAAATTCAAGGAAA-AAGT
15959150 GAAAAAA
1 GAAAAAA
15959157 AGTAAGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.60, C:0.06, G:0.20, T:0.14
Consensus pattern (21 bp):
GAAAAAATTCAAGGAAAAAGT
Found at i:15962196 original size:35 final size:35
Alignment explanation
Indices: 15962119--15962325 Score: 222
Period size: 35 Copynumber: 5.9 Consensus size: 35
15962109 CACTTGATTA
* * *
15962119 AAATTGTTTAATTAAG---TTGTGCCTAATGAACT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* *
15962151 AAATTGTTTAATTAAATCATTGGGCTTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
*
15962186 AAATTGTTTAATTAAGTCATGGGGCCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
**** * *
15962221 AAATTAAACAATTAAGTTATTGGGCCTAATTGATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* *
15962256 AAATTTGTTTAATTAAGTCATTGGGCCTAGTTGATT
1 AAA-TTGTTTAATTAAGTCATTGGGCCTAATTAATT
* * *
15962292 AAAATTGTTTAATTAAATTATTGGGCTTAATTAA
1 -AAATTGTTTAATTAAGTCATTGGGCCTAATTAA
15962326 ATTATTGGGC
Statistics
Matches: 144, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
32 15 0.10
35 75 0.52
36 51 0.35
37 3 0.02
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (35 bp):
AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
Found at i:15962350 original size:22 final size:18
Alignment explanation
Indices: 15962300--15962343 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
15962290 TTAAAATTGT
15962300 TTAATTAAATTATTGGGC
1 TTAATTAAATTATTGGGC
15962318 TTAATTAAATTATTGGGC
1 TTAATTAAATTATTGGGC
15962336 TTAATTAA
1 TTAATTAA
15962344 TTAAATTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (18 bp):
TTAATTAAATTATTGGGC
Found at i:15962357 original size:35 final size:35
Alignment explanation
Indices: 15962318--15962385 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
15962308 ATTATTGGGC
*
15962318 TTAATTAAATTATTGGGCTTAATTAATTAAATTGT
1 TTAATTAAATTATTGGGCCTAATTAATTAAATTGT
* *
15962353 TTAATTAAGTTATTGGGCCTAATTGATTAAATT
1 TTAATTAAATTATTGGGCCTAATTAATTAAATT
15962386 AAACAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.47
Consensus pattern (35 bp):
TTAATTAAATTATTGGGCCTAATTAATTAAATTGT
Found at i:15962367 original size:53 final size:54
Alignment explanation
Indices: 15962264--15962376 Score: 156
Period size: 53 Copynumber: 2.1 Consensus size: 54
15962254 TTAAATTTGT
* * *
15962264 TTAATTAAGTCATTGGGCCTAGTTGATTAAAATTGTTTAATTAAATTATTGGGC
1 TTAATTAAATCATTGGGCCTAATTAATTAAAATTGTTTAATTAAATTATTGGGC
* * *
15962318 TTAATTAAATTATTGGGCTTAATTAATT-AAATTGTTTAATTAAGTTATTGGGC
1 TTAATTAAATCATTGGGCCTAATTAATTAAAATTGTTTAATTAAATTATTGGGC
*
15962371 CTAATT
1 TTAATT
15962377 GATTAAATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
53 29 0.56
54 23 0.44
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (54 bp):
TTAATTAAATCATTGGGCCTAATTAATTAAAATTGTTTAATTAAATTATTGGGC
Found at i:15962394 original size:35 final size:35
Alignment explanation
Indices: 15962320--15962406 Score: 102
Period size: 35 Copynumber: 2.5 Consensus size: 35
15962310 TATTGGGCTT
* * ****
15962320 AATTAAATTATTGGGCTTAATTAATTAAATTGTTT
1 AATTAAGTTATTGGGCCTAATTAATTAAATTAAAC
*
15962355 AATTAAGTTATTGGGCCTAATTGATTAAATTAAAC
1 AATTAAGTTATTGGGCCTAATTAATTAAATTAAAC
15962390 AATTAAGTTAATTGGGC
1 AATTAAGTT-ATTGGGC
15962407 TTCTAAAGGA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 37 0.84
36 7 0.16
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.41
Consensus pattern (35 bp):
AATTAAGTTATTGGGCCTAATTAATTAAATTAAAC
Found at i:15962404 original size:89 final size:90
Alignment explanation
Indices: 15962230--15962408 Score: 245
Period size: 89 Copynumber: 2.0 Consensus size: 90
15962220 TAAATTAAAC
* * *
15962230 AATTAAGTTATTGGGCCTAATTGATTAAATTTGTTTAATTAAGTCATTGGGCCTAGTTGATTAAA
1 AATTAAATTATTGGGCCTAATTAATTAAATTTGTTTAATTAAGTCATTGGGCCTAATTGATTAAA
****
15962295 ATTGTTTAATTAAATTATTGGGCTT
66 ATTAAACAATTAAATTATTGGGCTT
* *
15962320 AATTAAATTATTGGGCTTAATTAATTAAA-TTGTTTAATTAAGTTATTGGGCCTAATTGATT-AA
1 AATTAAATTATTGGGCCTAATTAATTAAATTTGTTTAATTAAGTCATTGGGCCTAATTGATTAAA
*
15962383 ATTAAACAATTAAGTTAATTGGGCTT
66 ATTAAACAATTAAATT-ATTGGGCTT
15962409 CTAAAGGACT
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
88 13 0.17
89 39 0.50
90 26 0.33
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.44
Consensus pattern (90 bp):
AATTAAATTATTGGGCCTAATTAATTAAATTTGTTTAATTAAGTCATTGGGCCTAATTGATTAAA
ATTAAACAATTAAATTATTGGGCTT
Found at i:15965205 original size:35 final size:35
Alignment explanation
Indices: 15965144--15965223 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
15965134 TAGTGTCTTG
*
15965144 GTAAAGGTTACACCTAATCCTACAAAAGGCATGTT
1 GTAAAGGTTACACCTAATACTACAAAAGGCATGTT
* * * * *
15965179 GTAGAGGTTACTCTTAATACTGCAAAATGCATGTT
1 GTAAAGGTTACACCTAATACTACAAAAGGCATGTT
15965214 GTAAAGGTTA
1 GTAAAGGTTA
15965224 TGCCTGACTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (35 bp):
GTAAAGGTTACACCTAATACTACAAAAGGCATGTT
Found at i:15966436 original size:35 final size:35
Alignment explanation
Indices: 15966397--15966529 Score: 87
Period size: 35 Copynumber: 3.9 Consensus size: 35
15966387 TTTTGGGTTT
*
15966397 TGGTTGATCCCGTGAAAAACCATTGTTAAAAGTTG
1 TGGTTGAGCCCGTGAAAAACCATTGTTAAAAGTTG
* ** * * ** *
15966432 TGGTTTAGCCTTTGAAAAGCCACT-TT--GGGTTT
1 TGGTTGAGCCCGTGAAAAACCATTGTTAAAAGTTG
* *
15966464 TGGTTGATCCCGAT-AAAAACCATTGTTAAAGGTTG
1 TGGTTGAGCCCG-TGAAAAACCATTGTTAAAAGTTG
* ** *
15966499 TGGCTGAGCCTATGAAAAGCCATTG-TAAAAG
1 TGGTTGAGCCCGTGAAAAACCATTGTTAAAAG
15966530 CTTGGTGGGA
Statistics
Matches: 70, Mismatches: 23, Indels: 11
0.67 0.22 0.11
Matches are distributed among these distances:
32 19 0.27
33 3 0.04
34 8 0.11
35 40 0.57
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (35 bp):
TGGTTGAGCCCGTGAAAAACCATTGTTAAAAGTTG
Found at i:15966466 original size:67 final size:67
Alignment explanation
Indices: 15966388--15966520 Score: 214
Period size: 67 Copynumber: 2.0 Consensus size: 67
15966378 AAAAGTTAGT
* * *
15966388 TTTGGGTTTTGGTTGATCCCG-TGAAAAACCATTGTTAAAAGTTGTGGTTTAGCCTTTGAAAAGC
1 TTTGGGTTTTGGTTGATCCCGAT-AAAAACCATTGTTAAAAGTTGTGGCTGAGCCTATGAAAAGC
15966452 CAC
65 CAC
*
15966455 TTTGGGTTTTGGTTGATCCCGATAAAAACCATTGTTAAAGGTTGTGGCTGAGCCTATGAAAAGCC
1 TTTGGGTTTTGGTTGATCCCGATAAAAACCATTGTTAAAAGTTGTGGCTGAGCCTATGAAAAGCC
15966520 A
66 A
15966521 TTGTAAAAGC
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
67 60 0.98
68 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (67 bp):
TTTGGGTTTTGGTTGATCCCGATAAAAACCATTGTTAAAAGTTGTGGCTGAGCCTATGAAAAGCC
AC
Found at i:15968118 original size:23 final size:20
Alignment explanation
Indices: 15968062--15968116 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
15968052 AATCATTTGT
*
15968062 TCCAGTAGCTTCTTCATTTC
1 TCCAATAGCTTCTTCATTTC
15968082 TCCAATAGCTTCTTCATTTC
1 TCCAATAGCTTCTTCATTTC
15968102 TCCAATAGCTTCTTC
1 TCCAATAGCTTCTTC
15968117 TTTTTCTTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.18, C:0.31, G:0.07, T:0.44
Consensus pattern (20 bp):
TCCAATAGCTTCTTCATTTC
Found at i:15968919 original size:17 final size:19
Alignment explanation
Indices: 15968878--15968919 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
15968868 ATGTATATAT
15968878 ATGAATATATGTTGTGCATTG
1 ATGAATATATGTTGTG-A-TG
15968899 ATGAATA-ATGTTGTG-TG
1 ATGAATATATGTTGTGATG
15968916 ATGA
1 ATGA
15968920 TGTTGAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
20 8 0.38
21 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.40
Consensus pattern (19 bp):
ATGAATATATGTTGTGATG
Found at i:15968956 original size:37 final size:37
Alignment explanation
Indices: 15968914--15969005 Score: 150
Period size: 37 Copynumber: 2.5 Consensus size: 37
15968904 TAATGTTGTG
*
15968914 TGATGATGTT-GAAGTGTGCAAGTAGGGAGTGCACACA
1 TGATGATGTTAG-AGTGTGCAAGTAGGAAGTGCACACA
*
15968951 TGATGATGTTAGAGTGTGCGAGTAGGAAGTGCACACA
1 TGATGATGTTAGAGTGTGCAAGTAGGAAGTGCACACA
15968988 TGATGATGTTAGAGTGTG
1 TGATGATGTTAGAGTGTG
15969006 AGTGCACACA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
37 51 0.98
38 1 0.02
ACGTcount: A:0.28, C:0.09, G:0.36, T:0.27
Consensus pattern (37 bp):
TGATGATGTTAGAGTGTGCAAGTAGGAAGTGCACACA
Found at i:15971614 original size:38 final size:38
Alignment explanation
Indices: 15971521--15971635 Score: 167
Period size: 38 Copynumber: 3.0 Consensus size: 38
15971511 ACTTAACTCA
*** *
15971521 TGTGCATCCCCCCACATCGTGCACATAGCTGGAGTCATTG
1 TGTGCATCCCCCCACATCGTGCACA-AGCAATA-TCATCG
15971561 TGTGCATCCCCCCACATCGTGCACAAGCAATATCATCG
1 TGTGCATCCCCCCACATCGTGCACAAGCAATATCATCG
*
15971599 TGTGCATCCCTCCACATCGTGCACAAGCAATATCATC
1 TGTGCATCCCCCCACATCGTGCACAAGCAATATCATC
15971636 ACCCACACTC
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
38 41 0.59
39 4 0.06
40 25 0.36
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.23
Consensus pattern (38 bp):
TGTGCATCCCCCCACATCGTGCACAAGCAATATCATCG
Found at i:15979965 original size:24 final size:24
Alignment explanation
Indices: 15979938--15979993 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
15979928 ATAATAAAAC
*
15979938 AAAGACAAAGCAAC-AAAGATAAAT
1 AAAGACAAA-CAACTAAAAATAAAT
*
15979962 AAAGACCAACAACTTAAAAATAAAT
1 AAAGACAAACAAC-TAAAAATAAAT
15979987 AAAGACA
1 AAAGACA
15979994 CCCCCCAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.15
24 8 0.30
25 15 0.56
ACGTcount: A:0.66, C:0.14, G:0.09, T:0.11
Consensus pattern (24 bp):
AAAGACAAACAACTAAAAATAAAT
Found at i:15983124 original size:2 final size:2
Alignment explanation
Indices: 15983117--15983169 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
15983107 TGAATTGTGT
*
15983117 AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
15983159 AG AG AG AG AG A
1 AG AG AG AG AG A
15983170 TTTCATGATA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15983725 original size:2 final size:2
Alignment explanation
Indices: 15983718--15983742 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15983708 TAATGTTGAC
15983718 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 A
15983743 CTATGTCGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15984796 original size:29 final size:28
Alignment explanation
Indices: 15984714--15984851 Score: 195
Period size: 29 Copynumber: 4.9 Consensus size: 28
15984704 AAAAATTTTA
* *
15984714 TCTTGTCTAAATTGAGACAAATATATTT
1 TCTTGTCTAAATTAAGACAAACATATTT
* * *
15984742 TCTTGACTAAATTAAGATAAAAATATTT
1 TCTTGTCTAAATTAAGACAAACATATTT
*
15984770 TCTTGTCTTAAATTAAGGCAAACATATTT
1 TCTTGTC-TAAATTAAGACAAACATATTT
*
15984799 TCTTGTCTAAATTAAGACCAAACATGTTT
1 TCTTGTCTAAATTAAGA-CAAACATATTT
15984828 TCTTGTCTAAATTAAGACAAACAT
1 TCTTGTCTAAATTAAGACAAACAT
15984852 GTCAAAGCTG
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
28 46 0.47
29 52 0.53
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.39
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATATTT
Found at i:15984797 original size:57 final size:56
Alignment explanation
Indices: 15984704--15984851 Score: 199
Period size: 57 Copynumber: 2.6 Consensus size: 56
15984694 TAAGACAAAA
* * *
15984704 AAAAATTTTATCTTGTCTAAATTGAGACAAATATATTTTCTTGACTAAATTAAGA-T
1 AAAAATTTT-TCTTGTCTAAATTAAGACAAACATATTTTCTTGACTAAATTAAGACC
* *
15984760 AAAAATATTTTCTTGTCTTAAATTAAGGCAAACATATTTTCTTGTCTAAATTAAGACC
1 AAAAAT-TTTTCTTGTC-TAAATTAAGACAAACATATTTTCTTGACTAAATTAAGACC
*
15984818 AAACATGTTTTCTTGTCTAAATTAAGACAAACAT
1 AAAAAT-TTTTCTTGTCTAAATTAAGACAAACAT
15984852 GTCAAAGCTG
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
56 13 0.16
57 53 0.65
58 15 0.19
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (56 bp):
AAAAATTTTTCTTGTCTAAATTAAGACAAACATATTTTCTTGACTAAATTAAGACC
Found at i:15993025 original size:16 final size:16
Alignment explanation
Indices: 15993004--15993035 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15992994 CCAAAATTTA
15993004 GATTTTGATTCTTTTG
1 GATTTTGATTCTTTTG
*
15993020 GATTTTGATTGTTTTG
1 GATTTTGATTCTTTTG
15993036 ATATTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.03, G:0.22, T:0.62
Consensus pattern (16 bp):
GATTTTGATTCTTTTG
Found at i:15994845 original size:24 final size:25
Alignment explanation
Indices: 15994807--15994860 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 25
15994797 TCTCAACCAT
* *
15994807 GTATATCAACTCGTGGCCTTGCCAC
1 GTATATCAACCCGTGGCCTTGCCAA
15994832 GTATA-CAACCCGTGGCCTTGCCAA
1 GTATATCAACCCGTGGCCTTGCCAA
15994856 GTATA
1 GTATA
15994861 ATCACAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (25 bp):
GTATATCAACCCGTGGCCTTGCCAA
Found at i:15997248 original size:2 final size:2
Alignment explanation
Indices: 15997243--15997287 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
15997233 AGAAAAGAGA
15997243 AT AT AT AT AT AT AT -T 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 AT AT AT AT AT
15997284 AT AT
1 AT AT
15997288 GCATATAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:16005020 original size:68 final size:68
Alignment explanation
Indices: 16004911--16005175 Score: 219
Period size: 68 Copynumber: 3.9 Consensus size: 68
16004901 CATGTTTGGT
* * *
16004911 ATGATGAATGCCATAAGATTACGTATATGATGTAAATTCCATGTACCATGGGAGATGATTAAGTA
1 ATGATGAATGCCATAAGATTACGTATATGATGTAAACTCCATATACCATAGGAGATGATTAAGTA
16004976 TGC
66 TGC
* * ** * *
16004979 ATGATGTATGCTATAAGATTGTGTATATGATGTAAACTCCATATACCATATGAGGTGATTAAGTA
1 ATGATGAATGCCATAAGATTACGTATATGATGTAAACTCCATATACCATAGGAGATGATTAAGTA
16005044 TGC
66 TGC
* * * * * *** * * * * *
16005047 ATGATAAATGGCATGAGA--ATGTATATGATATATTTTCCATATACTACATGAGATGATTGAGAA
1 ATGATGAATGCCATAAGATTACGTATATGATGTAAACTCCATATACCATAGGAGATGATTAAGTA
*
16005110 AGC
66 TGC
* * ** *** * * *
16005113 ATAATGAATGCCATGAGATTATATATATGATGTATTTTCCATATACCTTATGAGATGAGTAAG
1 ATGATGAATGCCATAAGATTACGTATATGATGTAAACTCCATATACCATAGGAGATGATTAAG
16005176 CTTGTATGTG
Statistics
Matches: 160, Mismatches: 35, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
66 52 0.32
68 108 0.68
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (68 bp):
ATGATGAATGCCATAAGATTACGTATATGATGTAAACTCCATATACCATAGGAGATGATTAAGTA
TGC
Found at i:16005098 original size:66 final size:67
Alignment explanation
Indices: 16005016--16005175 Score: 178
Period size: 66 Copynumber: 2.4 Consensus size: 67
16005006 TGATGTAAAC
* * * * * * *
16005016 TCCATATACCATATGAGGTGATTAAGTATGCATGATAAATGGCATGAGA-ATGTATATGATATAT
1 TCCATATACCACATGAGATGATTAAGAAAGCATAATAAATGCCATGAGATATATATATGATATAT
16005080 TT
66 TT
* * * *
16005082 TCCATATACTACATGAGATGATTGAGAAAGCATAATGAATGCCATGAGATTATATATATGATGTA
1 TCCATATACCACATGAGATGATTAAGAAAGCATAATAAATGCCATGAGA-TATATATATGATATA
16005147 TTT
65 TTT
** *
16005150 TCCATATACCTTATGAGATGAGTAAG
1 TCCATATACCACATGAGATGATTAAG
16005176 CTTGTATGTG
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
66 40 0.53
68 36 0.47
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.34
Consensus pattern (67 bp):
TCCATATACCACATGAGATGATTAAGAAAGCATAATAAATGCCATGAGATATATATATGATATAT
TT
Found at i:16006980 original size:20 final size:21
Alignment explanation
Indices: 16006942--16006993 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 21
16006932 ACCCCTTTCT
*
16006942 ATAGCATATAAAAACATAT-C
1 ATAGCATATATAAACATATAC
* *
16006962 ATAGCATATATATATATATAC
1 ATAGCATATATAAACATATAC
*
16006983 A-AGCATGTATA
1 ATAGCATATATA
16006994 CAACCACCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 25 0.93
21 2 0.07
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.31
Consensus pattern (21 bp):
ATAGCATATATAAACATATAC
Found at i:16007089 original size:35 final size:35
Alignment explanation
Indices: 16007045--16007151 Score: 162
Period size: 35 Copynumber: 3.1 Consensus size: 35
16007035 ATAGCAGAAG
* *
16007045 TCATC-TGTGCACTCCCTACTCGCACACTTCAACA
1 TCATCGTGTGCACTCCCTACTCGCACACATCAATA
* *
16007079 TCATTGTGTGCATTCCCTACTCGCACACATCAATA
1 TCATCGTGTGCACTCCCTACTCGCACACATCAATA
*
16007114 TCATCGTGTGCACTCCCTATTCGCACACATCAATA
1 TCATCGTGTGCACTCCCTACTCGCACACATCAATA
16007149 TCA
1 TCA
16007152 CTATCCACAC
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
34 4 0.06
35 61 0.94
ACGTcount: A:0.25, C:0.36, G:0.10, T:0.29
Consensus pattern (35 bp):
TCATCGTGTGCACTCCCTACTCGCACACATCAATA
Found at i:16007886 original size:22 final size:22
Alignment explanation
Indices: 16007848--16007891 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
16007838 ACTTCCATCA
16007848 AACACTTTCTAAGTTTACATGT
1 AACACTTTCTAAGTTTACATGT
*
16007870 AACACTATTCTCA-TTTACATGT
1 AACACT-TTCTAAGTTTACATGT
16007892 TTACACCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (22 bp):
AACACTTTCTAAGTTTACATGT
Found at i:16009319 original size:46 final size:46
Alignment explanation
Indices: 16009257--16009389 Score: 164
Period size: 43 Copynumber: 3.0 Consensus size: 46
16009247 TCATTCATCG
* * *
16009257 TCATGTGCACTTCCTACTCGTACATAGCCCGGTCATCATCATCAGC
1 TCATGTGCACTCCCTACTCGCACATAGCCAGGTCATCATCATCAGC
* * * *
16009303 TCATGTACACTCCCTACTCGCACATAG-CTGG--GTCATCATCGGC
1 TCATGTGCACTCCCTACTCGCACATAGCCAGGTCATCATCATCAGC
* *
16009346 TTATGCGCACTCCCTACTCGCACATAGCCAGGTCATCATCATCA
1 TCATGTGCACTCCCTACTCGCACATAGCCAGGTCATCATCATCA
16009390 CACAACATTA
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
43 34 0.47
44 3 0.04
45 3 0.04
46 32 0.44
ACGTcount: A:0.23, C:0.35, G:0.16, T:0.26
Consensus pattern (46 bp):
TCATGTGCACTCCCTACTCGCACATAGCCAGGTCATCATCATCAGC
Found at i:16009406 original size:20 final size:21
Alignment explanation
Indices: 16009381--16009425 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
16009371 AGCCAGGTCA
16009381 TCATC-ATCACACAACAT-TAT
1 TCATCAAT-ACACAACATATAT
*
16009401 TCATCAATGCACAACATATAT
1 TCATCAATACACAACATATAT
16009422 TCAT
1 TCAT
16009426 ATATATACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.40, C:0.27, G:0.02, T:0.31
Consensus pattern (21 bp):
TCATCAATACACAACATATAT
Found at i:16012225 original size:11 final size:11
Alignment explanation
Indices: 16012209--16012242 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
16012199 CGTATGCGAG
*
16012209 AAAATAATATT
1 AAAATAATAAT
16012220 AAAATAATAAT
1 AAAATAATAAT
16012231 AAAATAATAAT
1 AAAATAATAAT
16012242 A
1 A
16012243 TTTTATCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAATAATAAT
Done.