Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 81 of 318
Found at i:27711752 original size:13 final size:14
Alignment explanation
Indices: 27711724--27711757 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
27711714 CTTTTTCCAA
27711724 AAATAAAATGAAAT
1 AAATAAAATGAAAT
*
27711738 AAATAACAT-AAAT
1 AAATAAAATGAAAT
27711751 AAATAAA
1 AAATAAA
27711758 TGTATATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (14 bp):
AAATAAAATGAAAT
Found at i:27725056 original size:13 final size:14
Alignment explanation
Indices: 27725022--27725053 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
27725012 AGGGCATGTT
*
27725022 ATTTTAGTTAATGG
1 ATTTTAATTAATGG
27725036 ATTTTAATTAATGG
1 ATTTTAATTAATGG
27725050 ATTT
1 ATTT
27725054 AATGGCTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (14 bp):
ATTTTAATTAATGG
Found at i:27732926 original size:6 final size:6
Alignment explanation
Indices: 27732915--27732953 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
27732905 TCACCGATAA
*
27732915 ATAGAT ATAGAT ATAGAT ATAGAT ATAGAT ATGGAT ATA
1 ATAGAT ATAGAT ATAGAT ATAGAT ATAGAT ATAGAT ATA
27732954 AATCCATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (6 bp):
ATAGAT
Found at i:27739634 original size:42 final size:42
Alignment explanation
Indices: 27739576--27739659 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
27739566 CTTTAGTAGG
* *
27739576 CGGTTCCTGGCTACCATCTGCCCCAAAATTCTCAACTTTACC
1 CGGTTCCTGACCACCATCTGCCCCAAAATTCTCAACTTTACC
* * *
27739618 CGGTTCCTGACCACCATCTGCCTCAAATTTCTCATCTTTACC
1 CGGTTCCTGACCACCATCTGCCCCAAAATTCTCAACTTTACC
27739660 TAACTCAGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.20, C:0.38, G:0.11, T:0.31
Consensus pattern (42 bp):
CGGTTCCTGACCACCATCTGCCCCAAAATTCTCAACTTTACC
Found at i:27742057 original size:63 final size:61
Alignment explanation
Indices: 27741953--27742069 Score: 139
Period size: 63 Copynumber: 1.9 Consensus size: 61
27741943 ATTTTTAATT
*
27741953 TAATATTCTGAAAATAAAATATAAAATTTAGCTAATATTATAATTTTAATTTAATATCTTTTGC
1 TAATATTCTGAAAATAAAATATAAAATTTAACTAATATTAT-ATTTT--TTTAATATCTTTTGC
* * * *
27742017 TAATATT-T-AAAATATATATATAAATTTTAACTATTTTTATATTTTTTTAATAT
1 TAATATTCTGAAAATA-AAATATAAAATTTAACTAATATTATATTTTTTTAATAT
27742070 TTAAAAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
60 8 0.17
62 11 0.23
63 21 0.45
64 7 0.15
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (61 bp):
TAATATTCTGAAAATAAAATATAAAATTTAACTAATATTATATTTTTTTAATATCTTTTGC
Found at i:27749369 original size:33 final size:33
Alignment explanation
Indices: 27749320--27749417 Score: 108
Period size: 33 Copynumber: 3.0 Consensus size: 33
27749310 TGGAATGTTG
27749320 TTTGCATCTGTATGGTATACTTTTTAAGTTACC
1 TTTGCATCTGTATGGTATACTTTTTAAGTTACC
* * * *
27749353 TTTGGATCTGTCTGGTATGCTTTTTAAGTTATC
1 TTTGCATCTGTATGGTATACTTTTTAAGTTACC
* * * *
27749386 TTT-TATTTTGTATGATATGCTTTTTAAGTTAC
1 TTTGCA-TCTGTATGGTATACTTTTTAAGTTAC
27749418 ATTGTCACAT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
32 1 0.02
33 54 0.98
ACGTcount: A:0.19, C:0.11, G:0.16, T:0.53
Consensus pattern (33 bp):
TTTGCATCTGTATGGTATACTTTTTAAGTTACC
Found at i:27764647 original size:18 final size:19
Alignment explanation
Indices: 27764611--27764648 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
27764601 CTAAACCTCT
*
27764611 TAAACTTTTATATTTTTTA
1 TAAACTTTTATATTATTTA
*
27764630 TAAATTTTTA-ATTATTTA
1 TAAACTTTTATATTATTTA
27764648 T
1 T
27764649 TAACATGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
TAAACTTTTATATTATTTA
Found at i:27765385 original size:39 final size:39
Alignment explanation
Indices: 27765331--27765414 Score: 168
Period size: 39 Copynumber: 2.2 Consensus size: 39
27765321 GAGAAAGAAA
27765331 TTGTTTGGATTTTAGTTTGCAAATTTATGATGTTCAAAG
1 TTGTTTGGATTTTAGTTTGCAAATTTATGATGTTCAAAG
27765370 TTGTTTGGATTTTAGTTTGCAAATTTATGATGTTCAAAG
1 TTGTTTGGATTTTAGTTTGCAAATTTATGATGTTCAAAG
27765409 TTGTTT
1 TTGTTT
27765415 CATAAAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.24, C:0.05, G:0.20, T:0.51
Consensus pattern (39 bp):
TTGTTTGGATTTTAGTTTGCAAATTTATGATGTTCAAAG
Found at i:27767645 original size:46 final size:46
Alignment explanation
Indices: 27767580--27767899 Score: 439
Period size: 46 Copynumber: 7.0 Consensus size: 46
27767570 TTATCTTTAA
* * * *
27767580 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* * *
27767626 CATGTTGCCATGGTATCTTTCTACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*
27767672 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
27767718 CATGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* * *
27767764 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
27767810 CATGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*
27767856 CATGTTGCCATAGTATCTTTCAACCATGGTCTTACAT-ATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC-TCATTTCAT
27767900 TTCAGAGAGC
Statistics
Matches: 250, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
45 8 0.03
46 238 0.95
47 4 0.02
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.43
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:27767897 original size:21 final size:21
Alignment explanation
Indices: 27767827--27767898 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
27767817 CCATGATATC
*
27767827 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACATA
* * * * *
27767848 TTTCATATCATGTTGCCATAGTATC
1 TTTCA-ACCATG--GTCTTA-CATA
27767873 TTTCAACCATGGTCTTACATA
1 TTTCAACCATGGTCTTACATA
27767894 TTTCA
1 TTTCA
27767899 TTTCAGAGAG
Statistics
Matches: 36, Mismatches: 11, Indels: 8
0.65 0.20 0.15
Matches are distributed among these distances:
21 12 0.33
22 9 0.25
24 9 0.25
25 6 0.17
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACATA
Found at i:27769755 original size:11 final size:11
Alignment explanation
Indices: 27769739--27769786 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
27769729 CTTTATATAC
27769739 TAATAAAATAA
1 TAATAAAATAA
*
27769750 TAATAAAATATCT
1 TAATAAAATA--A
* *
27769763 TATTAAAATAT
1 TAATAAAATAA
27769774 TAATAAAATAA
1 TAATAAAATAA
27769785 TA
1 TA
27769787 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:27770447 original size:22 final size:25
Alignment explanation
Indices: 27770391--27770451 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 25
27770381 TACATTAAAC
27770391 ATTCAATTCACATTCATGTCACATAA
1 ATTCAATTCA-ATTCATGTCACATAA
27770417 ATATACAATTCAATTCAT-TCA-AT-A
1 AT-T-CAATTCAATTCATGTCACATAA
27770441 ATTCAATTCAA
1 ATTCAATTCAA
27770452 GCTGCACGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
22 8 0.24
23 1 0.03
24 3 0.09
25 2 0.06
26 5 0.15
27 7 0.21
28 7 0.21
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.36
Consensus pattern (25 bp):
ATTCAATTCAATTCATGTCACATAA
Found at i:27776883 original size:33 final size:33
Alignment explanation
Indices: 27776835--27776897 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
27776825 GATCAGAAGA
*
27776835 CAAAAACACTGGTAAAGGGTTTAGATTTGATGG
1 CAAAAACACTAGTAAAGGGTTTAGATTTGATGG
*
27776868 CAAAGACACTAGTAAAGGGTTTAGATTTGA
1 CAAAAACACTAGTAAAGGGTTTAGATTTGA
27776898 AGATGAAGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.27
Consensus pattern (33 bp):
CAAAAACACTAGTAAAGGGTTTAGATTTGATGG
Found at i:27776908 original size:33 final size:33
Alignment explanation
Indices: 27776830--27776900 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
27776820 ACTTGGATCA
* *
27776830 GAAGACAAAAACACTGGTAAAGGGTTTAGATTT
1 GAAGACAAAGACACTAGTAAAGGGTTTAGATTT
* *
27776863 GATGGCAAAGACACTAGTAAAGGGTTTAGATTT
1 GAAGACAAAGACACTAGTAAAGGGTTTAGATTT
27776896 GAAGA
1 GAAGA
27776901 TGAAGACATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.08, G:0.27, T:0.24
Consensus pattern (33 bp):
GAAGACAAAGACACTAGTAAAGGGTTTAGATTT
Found at i:27782738 original size:87 final size:87
Alignment explanation
Indices: 27782592--27782773 Score: 319
Period size: 87 Copynumber: 2.1 Consensus size: 87
27782582 CTTCATTACA
* *
27782592 ACTTCGTCGACAGTGGAACCATTCTCCCCAAGGAACTCAACCTCAGTAGCCTTTCTTTTGGCAAT
1 ACTTCATCGACAGTGGAACCATTCTCCCCAACGAACTCAACCTCAGTAGCCTTTCTTTTGGCAAT
*
27782657 GTCATGGCTTGGCGTATCTTCG
66 GCCATGGCTTGGCGTATCTTCG
*
27782679 ACTTCATCGACAGTGGAACCATTCTCCCCAACGAACTCGACCTCAGTAGCCTTTCTTTTGGCAAT
1 ACTTCATCGACAGTGGAACCATTCTCCCCAACGAACTCAACCTCAGTAGCCTTTCTTTTGGCAAT
*
27782744 GCCATGGCTTGGCGTCTCTTCG
66 GCCATGGCTTGGCGTATCTTCG
27782766 ACTTCATC
1 ACTTCATC
27782774 TTCCGAACTG
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 90 1.00
ACGTcount: A:0.20, C:0.31, G:0.19, T:0.30
Consensus pattern (87 bp):
ACTTCATCGACAGTGGAACCATTCTCCCCAACGAACTCAACCTCAGTAGCCTTTCTTTTGGCAAT
GCCATGGCTTGGCGTATCTTCG
Found at i:27785255 original size:4 final size:4
Alignment explanation
Indices: 27785246--27785270 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
27785236 ATTAGGTATT
27785246 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
27785271 GGTTAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:27789328 original size:58 final size:55
Alignment explanation
Indices: 27789237--27789363 Score: 131
Period size: 54 Copynumber: 2.3 Consensus size: 55
27789227 TTATAGAAAA
*
27789237 TAGATGGCCGGCACCACTTTTTTTATATTAAAAAAATATTTTTTAGGGCT-TTGG-ACAC
1 TAGATGGCCGGCACCACTTTTTTTATA-TAAAAAAA-A-ATTTT-GGG-TGTTGGCACAC
27789295 TAGATGGCCGGCACCA-TGTATTTTT-T-TCAAAAAAAAATTTTGGGTGTTGGCACAC
1 TAGATGGCCGGCACCACT-T-TTTTTATAT-AAAAAAAAATTTTGGGTGTTGGCACAC
27789350 T-GATGGCCGGCACC
1 TAGATGGCCGGCACC
27789364 CCAGTATTTG
Statistics
Matches: 63, Mismatches: 1, Indels: 14
0.81 0.01 0.18
Matches are distributed among these distances:
53 1 0.02
54 20 0.32
55 9 0.14
56 2 0.03
57 8 0.13
58 18 0.29
59 5 0.08
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (55 bp):
TAGATGGCCGGCACCACTTTTTTTATATAAAAAAAAATTTTGGGTGTTGGCACAC
Found at i:27790030 original size:22 final size:23
Alignment explanation
Indices: 27789987--27790031 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
27789977 AAAACTATAA
* *
27789987 TTTAAATATAAAAATGGTGAAAAT
1 TTTAAATAAAAAAAT-GAGAAAAT
27790011 TTTAAATAAAAAAAT-AGAAAA
1 TTTAAATAAAAAAATGAGAAAA
27790032 AGCCACAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
24 14 0.74
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (23 bp):
TTTAAATAAAAAAATGAGAAAAT
Found at i:27795531 original size:31 final size:31
Alignment explanation
Indices: 27795465--27795537 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
27795455 TTCAAAATGG
* * * * *
27795465 TCAAATAAAGGCCAAATCTTTTTTTAAAGTGC
1 TCAAAT-AAGGACAAAACTTTTTTAAAAATAC
27795497 TCAAATAAGGACAAAACTTTTTTAAAAATAC
1 TCAAATAAGGACAAAACTTTTTTAAAAATAC
*
27795528 TCAAGTAAGG
1 TCAAATAAGG
27795538 GCTTTTCAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
31 29 0.83
32 6 0.17
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (31 bp):
TCAAATAAGGACAAAACTTTTTTAAAAATAC
Found at i:27801668 original size:17 final size:17
Alignment explanation
Indices: 27801610--27801675 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 17
27801600 GCATACCTAT
*
27801610 TTATATTTAATAAAATAA
1 TTAT-TTTAATAAAATTA
* *
27801628 TAAATTTTAATATAATTAA
1 T-TATTTTAATAAAATT-A
*
27801647 TTATTTCAATAAAATTA
1 TTATTTTAATAAAATTA
27801664 TTATTTTAATAA
1 TTATTTTAATAA
27801676 TAAATTTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
17 12 0.31
18 23 0.59
19 4 0.10
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
TTATTTTAATAAAATTA
Found at i:27801714 original size:20 final size:20
Alignment explanation
Indices: 27801689--27801745 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
27801679 ATTTTAACAG
27801689 TAATAATAATATTAAAATTT
1 TAATAATAATATTAAAATTT
* * *
27801709 TAATAATATTTTTAATATTT
1 TAATAATAATATTAAAATTT
*
27801729 T-ATAATAATATTTAAAT
1 TAATAATAATATTAAAAT
27801746 AATAAATATA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TAATAATAATATTAAAATTT
Found at i:27801783 original size:58 final size:59
Alignment explanation
Indices: 27801665--27801783 Score: 133
Period size: 58 Copynumber: 2.0 Consensus size: 59
27801655 ATAAAATTAT
*
27801665 TATTTTAATAATAAATTTTAACAGTAATAATAATATTAAAATTTTAATAATATTTTTAA
1 TATTTTAATAATAAATTTTAACAGTAATAATAATATTAAAATTTTAATAATATTTGTAA
*
27801724 TATTTT-ATAAT-AATATTTAA-A-TAATAAATATATATTATAA-TTT-ATAAATATTTAGTAA
1 TATTTTAATAATAAAT-TTTAACAGTAAT-AATA-ATATTAAAATTTTAAT-AATATTT-GTAA
27801782 TA
1 TA
27801784 AATGGTTTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
56 6 0.11
57 18 0.34
58 23 0.43
59 6 0.11
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.48
Consensus pattern (59 bp):
TATTTTAATAATAAATTTTAACAGTAATAATAATATTAAAATTTTAATAATATTTGTAA
Found at i:27804284 original size:18 final size:18
Alignment explanation
Indices: 27804257--27804291 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27804247 ACTTTGAAAT
* *
27804257 TCACTTCACTTCAATATA
1 TCACTACACTTAAATATA
27804275 TCACTACACTTAAATAT
1 TCACTACACTTAAATAT
27804292 GTTATTTCAA
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:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (18 bp):
TCACTACACTTAAATATA
Found at i:27822268 original size:23 final size:23
Alignment explanation
Indices: 27822238--27822386 Score: 89
Period size: 23 Copynumber: 6.5 Consensus size: 23
27822228 TGAGCTGATG
27822238 AACAGTAAGCTCTATTAAGCTGA
1 AACAGTAAGCTCTATTAAGCTGA
* **
27822261 AACGGTAAGCTCTATCGAGCTG-
1 AACAGTAAGCTCTATTAAGCTGA
* **
27822283 ACCAGTAAGCTCTATCGAGCTG-
1 AACAGTAAGCTCTATTAAGCTGA
*
27822305 ACCAGTAAGCTC-A-TACGAGCTGA
1 AACAGTAAGCTCTATTA--AGCTGA
* *
27822328 AAC-GATAAGGTCTAATGAA-CTGAA
1 AACAG-TAAGCTCT-ATTAAGCTG-A
27822352 AACAGTAAGCTC-A-TACGAGCTGA
1 AACAGTAAGCTCTATTA--AGCTGA
*
27822375 AACGGTAAGCTC
1 AACAGTAAGCTC
27822387 CAATGAGTTG
Statistics
Matches: 101, Mismatches: 13, Indels: 24
0.73 0.09 0.17
Matches are distributed among these distances:
21 2 0.02
22 39 0.39
23 43 0.43
24 14 0.14
25 2 0.02
26 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (23 bp):
AACAGTAAGCTCTATTAAGCTGA
Found at i:27822293 original size:22 final size:22
Alignment explanation
Indices: 27822240--27822327 Score: 115
Period size: 22 Copynumber: 4.0 Consensus size: 22
27822230 AGCTGATGAA
** *
27822240 CAGTAAGCTCTATTAAGCTGAAA
1 CAGTAAGCTCTATCGAGCTG-AC
*
27822263 CGGTAAGCTCTATCGAGCTGAC
1 CAGTAAGCTCTATCGAGCTGAC
27822285 CAGTAAGCTCTATCGAGCTGAC
1 CAGTAAGCTCTATCGAGCTGAC
27822307 CAGTAAGCTC-ATACGAGCTGA
1 CAGTAAGCTCTAT-CGAGCTGA
27822328 AACGATAAGG
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
21 2 0.03
22 40 0.68
23 17 0.29
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (22 bp):
CAGTAAGCTCTATCGAGCTGAC
Found at i:27822304 original size:45 final size:44
Alignment explanation
Indices: 27822240--27822374 Score: 123
Period size: 45 Copynumber: 3.0 Consensus size: 44
27822230 AGCTGATGAA
* *
27822240 CAGTAAGCTCTATTAAGCTGAAACGGTAAGCTC-TATCGAGCTGAC
1 CAGTAAGCTCTATCAAGCTG-AACAGTAAGCTCATA-CGAGCTGAC
* *
27822285 CAGTAAGCTCTATCGAGCTGACCAGTAAGCTCATACGAGCTGA-
1 CAGTAAGCTCTATCAAGCTGAACAGTAAGCTCATACGAGCTGAC
* * *
27822328 AACGATAAGGTCTAATGAA-CTGAAAACAGTAAGCTCATACGAGCTGA
1 CA-G-TAAGCTCT-ATCAAGCTG--AACAGTAAGCTCATACGAGCTGA
27822375 AACGGTAAGC
Statistics
Matches: 75, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 19 0.25
45 30 0.40
46 3 0.04
47 22 0.29
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.21
Consensus pattern (44 bp):
CAGTAAGCTCTATCAAGCTGAACAGTAAGCTCATACGAGCTGAC
Found at i:27822361 original size:47 final size:47
Alignment explanation
Indices: 27822307--27822423 Score: 162
Period size: 47 Copynumber: 2.5 Consensus size: 47
27822297 TCGAGCTGAC
* *
27822307 CAGTAAGCTCATACGAGCTGAAACGATAAGGTCTAATGAACTGAAAA
1 CAGTAAGCTCATACGAGCTGAAACGATAAGCTCCAATGAACTGAAAA
* **
27822354 CAGTAAGCTCATACGAGCTGAAACGGTAAGCTCCAATGAGTTGAAAA
1 CAGTAAGCTCATACGAGCTGAAACGATAAGCTCCAATGAACTGAAAA
* * *
27822401 CAATAATCTCATACGAGTTGAAA
1 CAGTAAGCTCATACGAGCTGAAA
27822424 TATCGGTAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 62 1.00
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.21
Consensus pattern (47 bp):
CAGTAAGCTCATACGAGCTGAAACGATAAGCTCCAATGAACTGAAAA
Found at i:27823138 original size:17 final size:18
Alignment explanation
Indices: 27823118--27823151 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
27823108 AAGTGAATTG
27823118 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
27823135 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
27823152 ATGAGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:27823889 original size:20 final size:20
Alignment explanation
Indices: 27823866--27823905 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
27823856 TGAAATTCTA
27823866 AAAGATAAAT-ACAAATAAAT
1 AAAGATAAATGA-AAATAAAT
27823886 AAAGATAAATGAAAATAAAT
1 AAAGATAAATGAAAATAAAT
27823906 CCTAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAGATAAATGAAAATAAAT
Found at i:27824868 original size:17 final size:18
Alignment explanation
Indices: 27824848--27824881 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
27824838 AAGTGAATTG
27824848 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
27824865 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
27824882 ATGAGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:27825648 original size:23 final size:26
Alignment explanation
Indices: 27825622--27825672 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 26
27825612 ATAATAAAGA
*
27825622 TAAATGAAAAT-AAATCC-TAA-AAT
1 TAAATCAAAATAAAATCCTTAATAAT
*
27825645 TAAATCTAAATAAAATCCTTAATAAT
1 TAAATCAAAATAAAATCCTTAATAAT
27825671 TA
1 TA
27825673 TCCTAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 9 0.39
24 6 0.26
25 3 0.13
26 5 0.22
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (26 bp):
TAAATCAAAATAAAATCCTTAATAAT
Found at i:27826470 original size:96 final size:97
Alignment explanation
Indices: 27826300--27826481 Score: 267
Period size: 96 Copynumber: 1.9 Consensus size: 97
27826290 TTTTATTTTA
* * * * *
27826300 TTTATTTTTATTTAGGAATATATTGAACCTTTTGACGCCAAGAGAGATGACAGCCAAGGACCCCA
1 TTTATTTTTATTTAAGAACATATCGAACCTTTTGACGCCAAGAGAGATGACAGCAAAGCACCCCA
*
27826365 CCCCGGTTACTCAACCCAACATACTCCTAATT
66 ACCCGGTTACTCAACCCAACATACTCCTAATT
* *
27826397 TTTATTTTT-TTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCAAAGCACCTCA
1 TTTATTTTTATTTAAGAACATATCGAACCTTTTGACGCCAAGAGAGATGACAGCAAAGCACCCCA
* *
27826461 ACCCTGTTACTCAGCCCAACA
66 ACCCGGTTACTCAACCCAACA
27826482 CATTCTTAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
96 66 0.88
97 9 0.12
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (97 bp):
TTTATTTTTATTTAAGAACATATCGAACCTTTTGACGCCAAGAGAGATGACAGCAAAGCACCCCA
ACCCGGTTACTCAACCCAACATACTCCTAATT
Found at i:27827228 original size:15 final size:14
Alignment explanation
Indices: 27827208--27827272 Score: 71
Period size: 15 Copynumber: 4.5 Consensus size: 14
27827198 TTAATATCTG
27827208 AAAATAATAAATAAT
1 AAAATAATAAA-AAT
*
27827223 AAAATAATAAGAA-
1 AAAATAATAAAAAT
27827236 AAAATAAATAAAAAT
1 AAAAT-AATAAAAAT
27827251 AAAATAA-ACTAAAAT
1 AAAATAATA--AAAAT
27827266 AAAATAA
1 AAAATAA
27827273 AAATAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
13 6 0.14
14 11 0.25
15 27 0.61
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (14 bp):
AAAATAATAAAAAT
Found at i:27827255 original size:11 final size:11
Alignment explanation
Indices: 27827213--27827280 Score: 61
Period size: 11 Copynumber: 6.2 Consensus size: 11
27827203 ATCTGAAAAT
27827213 AATAAATAATAA
1 AATAAA-AATAA
* *
27827225 AATAATAAGAA
1 AATAAAAATAA
27827236 AA-AATAAATAA
1 AATAA-AAATAA
27827247 AA-ATAAAATAA
1 AATA-AAAATAA
*
27827258 ACT-AAAATAA
1 AATAAAAATAA
27827268 AATAAAAATAA
1 AATAAAAATAA
27827279 AA
1 AA
27827281 ATTGGGTCGC
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
10 11 0.24
11 29 0.63
12 6 0.13
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.19
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:27827256 original size:5 final size:5
Alignment explanation
Indices: 27827220--27827280 Score: 59
Period size: 5 Copynumber: 11.4 Consensus size: 5
27827210 AATAATAAAT
* * *
27827220 AATAA AATAA TAAGAA AAAATA AATAAA AATAA AATAA ACTAA AATAA
1 AATAA AATAA -AATAA AATA-A AAT-AA AATAA AATAA AATAA AATAA
27827268 AATAAA AATAA AA
1 AAT-AA AATAA AA
27827281 ATTGGGTCGC
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
5 30 0.64
6 16 0.34
7 1 0.02
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:27827256 original size:25 final size:25
Alignment explanation
Indices: 27827207--27827280 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 25
27827197 ATTAATATCT
*
27827207 GAAAATAATAAATAATAAA-ATAATAA
1 GAAAA-AATAAATAA-AAATAAAATAA
27827233 GAAAAAATAAATAAAAATAAAATAA
1 GAAAAAATAAATAAAAATAAAATAA
*
27827258 -ACTAAAATAAAATAAAAATAAAA
1 GA-AAAAAT-AAATAAAAATAAAA
27827281 ATTGGGTCGC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.09
25 20 0.47
26 19 0.44
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (25 bp):
GAAAAAATAAATAAAAATAAAATAA
Found at i:27830264 original size:17 final size:18
Alignment explanation
Indices: 27830244--27830277 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
27830234 AAGTTAATTG
27830244 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
27830261 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
27830278 ATGAGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:27831015 original size:10 final size:10
Alignment explanation
Indices: 27831002--27831035 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
27830992 AAGATAAAAA
27831002 AAATAAAGAT
1 AAATAAAGAT
27831012 AAATAAAGAT
1 AAATAAAGAT
27831022 AAATGAAA-AT
1 AAAT-AAAGAT
27831032 AAAT
1 AAAT
27831036 CCTAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 20 0.87
11 3 0.13
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (10 bp):
AAATAAAGAT
Found at i:27831023 original size:16 final size:16
Alignment explanation
Indices: 27830991--27831034 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
27830981 TGAAATTCTA
27830991 AAAGATAAA-AAAAAT
1 AAAGATAAATAAAAAT
*
27831006 AAAGATAAATAAAGAT
1 AAAGATAAATAAAAAT
27831022 AAATGA-AAATAAA
1 AAA-GATAAATAAA
27831035 TCCTAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 9 0.35
16 15 0.58
17 2 0.08
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (16 bp):
AAAGATAAATAAAAAT
Found at i:27834799 original size:34 final size:34
Alignment explanation
Indices: 27834755--27834831 Score: 136
Period size: 34 Copynumber: 2.3 Consensus size: 34
27834745 TTTCGTTATT
* *
27834755 TTTACCAAATTAAGCATTTAAACGGTGAAATTTC
1 TTTACGAAATTAAGCATTTAAACGGTAAAATTTC
27834789 TTTACGAAATTAAGCATTTAAACGGTAAAATTTC
1 TTTACGAAATTAAGCATTTAAACGGTAAAATTTC
27834823 TTTACGAAA
1 TTTACGAAA
27834832 CTTTCACATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (34 bp):
TTTACGAAATTAAGCATTTAAACGGTAAAATTTC
Found at i:27837834 original size:16 final size:18
Alignment explanation
Indices: 27837809--27837850 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
27837799 AGCCAATTTC
*
27837809 AACCACTCAA-CA-ATTA
1 AACCATTCAATCACATTA
27837825 AACCATTCAATCACATTA
1 AACCATTCAATCACATTA
*
27837843 AATCATTC
1 AACCATTC
27837851 TCCAAGCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 9 0.41
17 2 0.09
18 11 0.50
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (18 bp):
AACCATTCAATCACATTA
Found at i:27841762 original size:12 final size:12
Alignment explanation
Indices: 27841745--27841769 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27841735 GTTTATGCCA
27841745 AGTTTAAGTTTG
1 AGTTTAAGTTTG
27841757 AGTTTAAGTTTG
1 AGTTTAAGTTTG
27841769 A
1 A
27841770 ATTTTAGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (12 bp):
AGTTTAAGTTTG
Found at i:27842958 original size:13 final size:13
Alignment explanation
Indices: 27842940--27842968 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
27842930 CTCTCTAAAC
27842940 GTACAAGATATTA
1 GTACAAGATATTA
27842953 GTACAAGATATTA
1 GTACAAGATATTA
27842966 GTA
1 GTA
27842969 ACTAAAGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.31
Consensus pattern (13 bp):
GTACAAGATATTA
Found at i:27850646 original size:5 final size:5
Alignment explanation
Indices: 27850636--27850682 Score: 87
Period size: 5 Copynumber: 9.6 Consensus size: 5
27850626 CTGTGTGTTC
27850636 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
27850683 CATAAATTGG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.10
5 37 0.90
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:27854927 original size:50 final size:50
Alignment explanation
Indices: 27854852--27855027 Score: 253
Period size: 50 Copynumber: 3.5 Consensus size: 50
27854842 TATGGCAACC
27854852 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGAA
1 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGAA
** * *
27854902 AGTGATAAGCAATAGCTTCAGCTACACTTATCTGATCAAAGATAAGTGAA
1 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGAA
* * * *
27854952 AGTGATAAGTGATAGCTTCGGCTACGCTTATCAGATCAAGGACAAATGACA
1 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA-A
* *
27855003 AGTGAAAAGTGGTAGCTTCGGCTAC
1 AGTGATAAGTGATAGCTTCGGCTAC
27855028 CTGATCAGTG
Statistics
Matches: 111, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 87 0.78
51 24 0.22
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (50 bp):
AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGAA
Found at i:27855041 original size:31 final size:31
Alignment explanation
Indices: 27855003--27855151 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
27854993 ACAAATGACA
27855003 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
27855034 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
27855065 AGTGAAAAGTGGTAGCTTCGACTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
27855096 AGTGAAAAATGGTAG-TTCTGGGTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
27855127 AGTGAATAGTGGTAGCTTCGACTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
27855152 AAGTGACAAG
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
30 3 0.03
31 100 0.94
32 3 0.03
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:27855313 original size:41 final size:41
Alignment explanation
Indices: 27855251--27855467 Score: 202
Period size: 42 Copynumber: 5.0 Consensus size: 41
27855241 GCATCAGTGA
* * * *
27855251 GATAGGTGATTCGAGTAAGACCATAGTTGGGCTATGGCATC
1 GATATGTGATACGTGTAAGACCATAGCTGGGCTATGGCATC
* *
27855292 GATATGTGATCCGTGTAAGACCATAGCTGGGCTATGACATC
1 GATATGTGATACGTGTAAGACCATAGCTGGGCTATGGCATC
*
27855333 GATATGTGATATGTGATTACGTGTAAGACTATAGCTGGGCTATGGCATC
1 -------GATATGTGA-TACGTGTAAGACCATAGCTGGGCTATGGCATC
* *
27855382 GATATATGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTG-ATACGTGTAAGACCATAGCTGGGCTATGGCATC
* * * **
27855424 -ATTATGTGAAGATGTGTAAGACCATAGTTGAACTATGGCATC
1 GA-TATGTG-ATACGTGTAAGACCATAGCTGGGCTATGGCATC
27855466 GA
1 GA
27855468 GAAAACGAAG
Statistics
Matches: 149, Mismatches: 16, Indels: 20
0.81 0.09 0.11
Matches are distributed among these distances:
41 37 0.25
42 72 0.48
43 2 0.01
48 9 0.06
49 29 0.19
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (41 bp):
GATATGTGATACGTGTAAGACCATAGCTGGGCTATGGCATC
Found at i:27855367 original size:49 final size:48
Alignment explanation
Indices: 27855292--27855423 Score: 168
Period size: 49 Copynumber: 2.9 Consensus size: 48
27855282 CTATGGCATC
* *
27855292 GATATGTGATCCGTGTAAGACCATAGCTGGGCTATGACATCGATATGT
1 GATATGTGATACGTGTAAGACCATAGCTGGGCTATGACATCGATATAT
* *
27855340 GATATGTGATTACGTGTAAGACTATAGCTGGGCTATGGCATCGATATAT
1 GATATGTGA-TACGTGTAAGACCATAGCTGGGCTATGACATCGATATAT
*
27855389 GA-A--T-AT--GTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGATACGTGTAAGACCATAGCTGGGCTATGACATC
27855424 ATTATGTGAA
Statistics
Matches: 78, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
42 28 0.36
44 1 0.01
45 1 0.01
46 1 0.01
48 10 0.13
49 37 0.47
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (48 bp):
GATATGTGATACGTGTAAGACCATAGCTGGGCTATGACATCGATATAT
Found at i:27855430 original size:91 final size:88
Alignment explanation
Indices: 27855220--27855432 Score: 275
Period size: 91 Copynumber: 2.4 Consensus size: 88
27855210 TGCTACTATA
* * * * *
27855220 TAAGACCATATCTGGGATATGGCATCA-GTGAGATAGGTGATTCGAGTAAGACCATAGTTGGGCT
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATAGGTGATTCGAGTAAGACCATAGCTGGGCT
* *
27855284 ATGGCATCGATATGTGATCCGTG
66 ATGGCATCGATATATGATACGTG
* * * *
27855307 TAAGACCATAGCTGGGCTATGACATCGATATGTGATATGTGATTACGTGTAAGACTATAGCTGGG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATAGGTGATT-CGAGTAAGACCATAGCTGGG
*
27855372 CTATGGCATCGATATATGAATATGTG
64 CTATGGCATCGATATATG-ATACGTG
27855398 TAAGACCATAGCTGGGCTATGGCATCATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCA-TATGTGA
27855433 AGATGTGTAA
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
87 23 0.21
88 1 0.01
89 12 0.11
90 35 0.32
91 37 0.34
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (88 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGTGATAGGTGATTCGAGTAAGACCATAGCTGGGCT
ATGGCATCGATATATGATACGTG
Found at i:27858305 original size:19 final size:20
Alignment explanation
Indices: 27858259--27858299 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
27858249 AAAAGCAGGG
27858259 AAAGAAAGAAAGAAAGGAGA
1 AAAGAAAGAAAGAAAGGAGA
27858279 AAAGAAAG-AAGAAAGG-GA
1 AAAGAAAGAAAGAAAGGAGA
27858297 AAA
1 AAA
27858300 TTAAAGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (20 bp):
AAAGAAAGAAAGAAAGGAGA
Found at i:27859070 original size:53 final size:53
Alignment explanation
Indices: 27858957--27859075 Score: 184
Period size: 53 Copynumber: 2.2 Consensus size: 53
27858947 CTGTTACCGT
* **
27858957 TACTGTTACTGTTTCAGATTTGTTCTGATGAGGTACTCTGTGTACCGTAATGT
1 TACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAATAC
* * *
27859010 TAATGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTACTAC
1 TACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAATAC
27859063 TACTGTTACTGTT
1 TACTGTTACTGTT
27859076 ACTGTTCCGG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 59 1.00
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (53 bp):
TACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAATAC
Found at i:27859459 original size:18 final size:18
Alignment explanation
Indices: 27859186--27859463 Score: 159
Period size: 18 Copynumber: 15.1 Consensus size: 18
27859176 AAAGGTATAA
*
27859186 AATAACTGATTATTACTG
1 AATAACTGATTGTTACTG
* * *
27859204 AATAATTGACTGTTACCG
1 AATAACTGATTGTTACTG
* * *
27859222 GATAATTGACTGTTACTG
1 AATAACTGATTGTTACTG
* * *
27859240 GAT-ATTAGACTGTTACTG
1 AATAACT-GATTGTTACTG
* *
27859258 AATAACTGAATATTACTG
1 AATAACTGATTGTTACTG
*
27859276 AATAACTGATTGTCACTG
1 AATAACTGATTGTTACTG
* *
27859294 AATGAA-TAACTGTTACTG
1 AAT-AACTGATTGTTACTG
* *
27859312 AATAACCTAATTGTTAATG
1 AATAA-CTGATTGTTACTG
*
27859331 AATATCTGATT-TTACTG
1 AATAACTGATTGTTACTG
* *
27859348 AATAATTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
27859366 GATAACCAATCAATTGATCGATACTG
1 AATAA-C--T-GATTG-T---TACTG
* * *
27859392 AATAACTGGTTATTATTG
1 AATAACTGATTGTTACTG
* *
27859410 AATAATTGATTGTTACCG
1 AATAACTGATTGTTACTG
*
27859428 AATAACTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
27859446 AATAAATAATTGTT-CTG
1 AATAACTGATTGTTACTG
27859463 A
1 A
27859464 GTGTTAATGA
Statistics
Matches: 202, Mismatches: 44, Indels: 29
0.73 0.16 0.11
Matches are distributed among these distances:
17 22 0.11
18 143 0.71
19 18 0.09
21 2 0.01
22 5 0.02
23 2 0.01
25 1 0.00
26 9 0.04
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
AATAACTGATTGTTACTG
Found at i:27864023 original size:208 final size:208
Alignment explanation
Indices: 27863665--27864091 Score: 741
Period size: 208 Copynumber: 2.1 Consensus size: 208
27863655 GGTAAGATGT
*
27863665 ATTTAATAGTCATACGAACTTACTAAGCTTAATTACTTACTTTGTTTATGTTTTCTGTGTTTTAT
1 ATTTAATAGTCATACGAACTGACTAAGCTTAATTACTTACTTTGTTTATGTTTTCTGTGTTTTAT
* * * *
27863730 TGTATTTTGGAAGCACTTGTTTCGGAAGCCGTCAGAGATCGTGCCACACTATCAAACTCTTATTT
66 AGTATTTTGGAAGCACTCGGTTCGGAAGCCGTCAGAGATCATGCCACACTATCAAACTCTTATTT
*
27863795 TGGCATTTTAGACTTTACATTTTGGGTTAAATGGCATGTATAGGTATTTTGGCTAATATGGCGTA
131 TGGCATTTTAGACTTTACATTTTGGGTTAAATGGCATGTATAGGTATTTTGGCTAATATGGCCTA
27863860 TATGTCTTGTTGA
196 TATGTCTTGTTGA
*
27863873 ATTTAATAGTCATACGAACTGACTAAGCTTAATTGCTTACTTTGTTTATGTTTTCTGTGTTTTAT
1 ATTTAATAGTCATACGAACTGACTAAGCTTAATTACTTACTTTGTTTATGTTTTCTGTGTTTTAT
*
27863938 AGTATTTTGGAAGCGCTCGGTTCGGAAGCCGTCAGAGATCATGCCACACTATCAAACTCTTATTT
66 AGTATTTTGGAAGCACTCGGTTCGGAAGCCGTCAGAGATCATGCCACACTATCAAACTCTTATTT
* * *
27864003 TGGTATTTTGGACTTTACATTTTGGGTTAAATGGCATGTATTGGTATTTTGGCTAATATGGCCTA
131 TGGCATTTTAGACTTTACATTTTGGGTTAAATGGCATGTATAGGTATTTTGGCTAATATGGCCTA
27864068 TATGTCTTGTTGA
196 TATGTCTTGTTGA
27864081 ATTT--TAGTCAT
1 ATTTAATAGTCAT
27864092 TTGTTTTGGC
Statistics
Matches: 208, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
206 7 0.03
208 201 0.97
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (208 bp):
ATTTAATAGTCATACGAACTGACTAAGCTTAATTACTTACTTTGTTTATGTTTTCTGTGTTTTAT
AGTATTTTGGAAGCACTCGGTTCGGAAGCCGTCAGAGATCATGCCACACTATCAAACTCTTATTT
TGGCATTTTAGACTTTACATTTTGGGTTAAATGGCATGTATAGGTATTTTGGCTAATATGGCCTA
TATGTCTTGTTGA
Found at i:27866795 original size:102 final size:101
Alignment explanation
Indices: 27866619--27866849 Score: 293
Period size: 102 Copynumber: 2.3 Consensus size: 101
27866609 GAATTGACGG
* * *
27866619 GTAAGACCATGGTTGGACCATGACAATATTTATAAGTAAGACCATAGCTGGGCTATGCCATTTTA
1 GTAAGACCATGGTTGGACCATGACAATATTTATAAGTAAGAACATAGCTGAGCTATGCCATTCTA
27866684 ATGAAAAGACCATAACTGGGTTATGACACTTATGAAC
66 ATGAAAAGACCATAACTGGGTTATGACAC-TATGAAC
* * * *
27866721 GTAAGACCATGGTTGGACCAT-AGTAGTATTTATAAGTAAGAACATAGTTGAGCTATGGCATTCT
1 GTAAGACCATGGTTGGACCATGA-CAATATTTATAAGTAAGAACATAGCTGAGCTATGCCATTCT
* * * *
27866785 GATGATAAGACCATAACTGGGTTATGGCACTATGAAT
65 AATGAAAAGACCATAACTGGGTTATGACACTATGAAC
* * * * *
27866822 GTAAAACTATGGCTGGGCCATGGCAATA
1 GTAAGACCATGGTTGGACCATGACAATA
27866850 CATGTGTAAG
Statistics
Matches: 109, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
101 27 0.25
102 82 0.75
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (101 bp):
GTAAGACCATGGTTGGACCATGACAATATTTATAAGTAAGAACATAGCTGAGCTATGCCATTCTA
ATGAAAAGACCATAACTGGGTTATGACACTATGAAC
Found at i:27869044 original size:18 final size:18
Alignment explanation
Indices: 27869018--27869056 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27869008 CAGGGGAAAG
27869018 AAAGAAAAAAAAAAGGAGA
1 AAAGAAAAAAAAAAGGA-A
*
27869037 AAAG-AAAAAGAAAGGAA
1 AAAGAAAAAAAAAAGGAA
27869054 AAA
1 AAA
27869057 CTAGGGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 11 0.58
19 4 0.21
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAAAAAAGGAA
Found at i:27877804 original size:53 final size:53
Alignment explanation
Indices: 27877739--27877843 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 53
27877729 TGTTTGAGTT
* *
27877739 TATTTATTTGCATAATGCAATATTGGTAGTTGTACTTGTAGTTATTCTAAGTC
1 TATTTATTTGCATAATGCAATATTGGCAGTTATACTTGTAGTTATTCTAAGTC
*
27877792 TATTTATTTGCATATTGCAATATTGGCAGTTATACTTGTAGTTATTCTAAGT
1 TATTTATTTGCATAATGCAATATTGGCAGTTATACTTGTAGTTATTCTAAGT
27877844 AAAGCAATGT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.48
Consensus pattern (53 bp):
TATTTATTTGCATAATGCAATATTGGCAGTTATACTTGTAGTTATTCTAAGTC
Found at i:27880165 original size:19 final size:20
Alignment explanation
Indices: 27880141--27880215 Score: 82
Period size: 19 Copynumber: 3.6 Consensus size: 20
27880131 TATTTACTTA
27880141 ATATTTAA-AAATTAAAAAT
1 ATATTTAACAAATTAAAAAT
*
27880160 ATATTTAACAAATATAATTAATT
1 ATATTTAACAAAT-TAA--AAAT
27880183 AATATTTAA-AAATTAAAAAT
1 -ATATTTAACAAATTAAAAAT
*
27880203 ATATTTAAGAAAT
1 ATATTTAACAAAT
27880216 CTGCGGATCA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
19 16 0.33
20 11 0.23
21 3 0.06
22 3 0.06
23 7 0.15
24 8 0.17
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (20 bp):
ATATTTAACAAATTAAAAAT
Found at i:27881100 original size:24 final size:24
Alignment explanation
Indices: 27881068--27881147 Score: 160
Period size: 24 Copynumber: 3.3 Consensus size: 24
27881058 CAGAGAACAG
27881068 GAAGGTGGCAAGAGTAAGACACAA
1 GAAGGTGGCAAGAGTAAGACACAA
27881092 GAAGGTGGCAAGAGTAAGACACAA
1 GAAGGTGGCAAGAGTAAGACACAA
27881116 GAAGGTGGCAAGAGTAAGACACAA
1 GAAGGTGGCAAGAGTAAGACACAA
27881140 GAAGGTGG
1 GAAGGTGG
27881148 AAACAAGACT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.44, C:0.11, G:0.36, T:0.09
Consensus pattern (24 bp):
GAAGGTGGCAAGAGTAAGACACAA
Found at i:27882179 original size:39 final size:39
Alignment explanation
Indices: 27882122--27882201 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
27882112 ATCACATTAC
*
27882122 ATATATAATAAGGGTAATTACATATTATTATTTACTATT
1 ATATATAATAAGGATAATTACATATTATTATTTACTATT
* *
27882161 ATATATAATAAGGATAATTATATATTATTATTTATTATT
1 ATATATAATAAGGATAATTACATATTATTATTTACTATT
27882200 AT
1 AT
27882202 GATAAGTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (39 bp):
ATATATAATAAGGATAATTACATATTATTATTTACTATT
Found at i:27882226 original size:52 final size:52
Alignment explanation
Indices: 27882170--27882276 Score: 205
Period size: 52 Copynumber: 2.1 Consensus size: 52
27882160 TATATATAAT
*
27882170 AAGGATAATTATATATTATTATTTATTATTATGATAAGTTTGTCCAAATTAA
1 AAGGATAATTACATATTATTATTTATTATTATGATAAGTTTGTCCAAATTAA
27882222 AAGGATAATTACATATTATTATTTATTATTATGATAAGTTTGTCCAAATTAA
1 AAGGATAATTACATATTATTATTTATTATTATGATAAGTTTGTCCAAATTAA
27882274 AAG
1 AAG
27882277 TGATCTAATT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (52 bp):
AAGGATAATTACATATTATTATTTATTATTATGATAAGTTTGTCCAAATTAA
Found at i:27896152 original size:345 final size:345
Alignment explanation
Indices: 27895521--27896211 Score: 1382
Period size: 345 Copynumber: 2.0 Consensus size: 345
27895511 AACAAAGGAG
27895521 AAATTAAAAAGTAAATGAAAAGTTGTCATTGCTGGGGCACATAAAGTGATTCTCAGCTTATGCGG
1 AAATTAAAAAGTAAATGAAAAGTTGTCATTGCTGGGGCACATAAAGTGATTCTCAGCTTATGCGG
27895586 TAGAGAAATGCAGTGTGGTATGACACTGATCAATTGGAGTATTTAGAGAGAGTAAATAGGGTTCG
66 TAGAGAAATGCAGTGTGGTATGACACTGATCAATTGGAGTATTTAGAGAGAGTAAATAGGGTTCG
27895651 AGAGGTGAAAAGATTGTGAAGAGAATTCCTGATTTCATTTCATAATTCTACTTGTCCTTACAAGG
131 AGAGGTGAAAAGATTGTGAAGAGAATTCCTGATTTCATTTCATAATTCTACTTGTCCTTACAAGG
27895716 AAATTGCTGTCGTACCAGGACGGTTATTTTTATACAGCTGGCATAACAGAAAATAAAATAGCTAA
196 AAATTGCTGTCGTACCAGGACGGTTATTTTTATACAGCTGGCATAACAGAAAATAAAATAGCTAA
27895781 TAGCTGAGTCATCAATAACTCTGGACCATCTCTTTTTGTTGGACTGTGCCCATCAATAGATCTGC
261 TAGCTGAGTCATCAATAACTCTGGACCATCTCTTTTTGTTGGACTGTGCCCATCAATAGATCTGC
27895846 TCCCAATAGGCCCATATCTC
326 TCCCAATAGGCCCATATCTC
27895866 AAATTAAAAAGTAAATGAAAAGTTGTCATTGCTGGGGCACATAAAGTGATTCTCAGCTTATGCGG
1 AAATTAAAAAGTAAATGAAAAGTTGTCATTGCTGGGGCACATAAAGTGATTCTCAGCTTATGCGG
27895931 TAGAGAAATGCAGTGTGGTATGACACTGATCAATTGGAGTATTTAGAGAGAGTAAATAGGGTTCG
66 TAGAGAAATGCAGTGTGGTATGACACTGATCAATTGGAGTATTTAGAGAGAGTAAATAGGGTTCG
27895996 AGAGGTGAAAAGATTGTGAAGAGAATTCCTGATTTCATTTCATAATTCTACTTGTCCTTACAAGG
131 AGAGGTGAAAAGATTGTGAAGAGAATTCCTGATTTCATTTCATAATTCTACTTGTCCTTACAAGG
27896061 AAATTGCTGTCGTACCAGGACGGTTATTTTTATACAGCTGGCATAACAGAAAATAAAATAGCTAA
196 AAATTGCTGTCGTACCAGGACGGTTATTTTTATACAGCTGGCATAACAGAAAATAAAATAGCTAA
27896126 TAGCTGAGTCATCAATAACTCTGGACCATCTCTTTTTGTTGGACTGTGCCCATCAATAGATCTGC
261 TAGCTGAGTCATCAATAACTCTGGACCATCTCTTTTTGTTGGACTGTGCCCATCAATAGATCTGC
27896191 TCCCAATAGGCCCATATCTC
326 TCCCAATAGGCCCATATCTC
27896211 A
1 A
27896212 GTGTTGCGTG
Statistics
Matches: 346, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
345 346 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (345 bp):
AAATTAAAAAGTAAATGAAAAGTTGTCATTGCTGGGGCACATAAAGTGATTCTCAGCTTATGCGG
TAGAGAAATGCAGTGTGGTATGACACTGATCAATTGGAGTATTTAGAGAGAGTAAATAGGGTTCG
AGAGGTGAAAAGATTGTGAAGAGAATTCCTGATTTCATTTCATAATTCTACTTGTCCTTACAAGG
AAATTGCTGTCGTACCAGGACGGTTATTTTTATACAGCTGGCATAACAGAAAATAAAATAGCTAA
TAGCTGAGTCATCAATAACTCTGGACCATCTCTTTTTGTTGGACTGTGCCCATCAATAGATCTGC
TCCCAATAGGCCCATATCTC
Found at i:27898635 original size:2 final size:2
Alignment explanation
Indices: 27898628--27898668 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
27898618 ATGAATGCTC
* * *
27898628 AG AG AG AG AG AG AG AG AG AG AG GG AA AG GG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
27898669 ACCAGAATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27903144 original size:20 final size:20
Alignment explanation
Indices: 27903104--27903143 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
27903094 TTATGTATTA
*
27903104 TGTTCTTTTGAAATTCATTT
1 TGTTATTTTGAAATTCATTT
*
27903124 TGTTATTTTTAAATTC-TTT
1 TGTTATTTTGAAATTCATTT
27903143 T
1 T
27903144 TCAATGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.65
Consensus pattern (20 bp):
TGTTATTTTGAAATTCATTT
Found at i:27907052 original size:42 final size:42
Alignment explanation
Indices: 27906993--27907076 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
27906983 CAAGAAGATG
27906993 ATAGAAAAAAGGATGGAGGGATAAATGAAAGCTTGCTTCTAT
1 ATAGAAAAAAGGATGGAGGGATAAATGAAAGCTTGCTTCTAT
*
27907035 ATAGAAAAAAGGATGGAGGGGTAAATGAAAGCTTGCTTCTAT
1 ATAGAAAAAAGGATGGAGGGATAAATGAAAGCTTGCTTCTAT
27907077 CACGTGTAGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.42, C:0.07, G:0.27, T:0.24
Consensus pattern (42 bp):
ATAGAAAAAAGGATGGAGGGATAAATGAAAGCTTGCTTCTAT
Found at i:27909123 original size:19 final size:19
Alignment explanation
Indices: 27909099--27909138 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
27909089 TTACTGAGTT
27909099 ATATTGGTGTGGTGGAAGG
1 ATATTGGTGTGGTGGAAGG
27909118 ATATTGGTGTGGTGGAAGG
1 ATATTGGTGTGGTGGAAGG
27909137 AT
1 AT
27909139 GTATTGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.45, T:0.33
Consensus pattern (19 bp):
ATATTGGTGTGGTGGAAGG
Found at i:27909959 original size:28 final size:28
Alignment explanation
Indices: 27909928--27909989 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
27909918 TTAGTTAACT
27909928 ATGTAAAATAAGTGGATGTTGGTATATG
1 ATGTAAAATAAGTGGATGTTGGTATATG
27909956 ATGTAAAATAAGTGGATGTTGGTATATG
1 ATGTAAAATAAGTGGATGTTGGTATATG
27909984 ATGTAA
1 ATGTAA
27909990 GCTTGTGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.35
Consensus pattern (28 bp):
ATGTAAAATAAGTGGATGTTGGTATATG
Found at i:27910085 original size:48 final size:48
Alignment explanation
Indices: 27910028--27910123 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
27910018 AATATGGAGT
27910028 AAACAGTAAAATTGTCATGTTGATGTTATTTGGTTTGAATGTGTTTTG
1 AAACAGTAAAATTGTCATGTTGATGTTATTTGGTTTGAATGTGTTTTG
27910076 AAACAGTAAAATTGTCATGTTGATGTTATTTGGTTTGAATGTGTTTTG
1 AAACAGTAAAATTGTCATGTTGATGTTATTTGGTTTGAATGTGTTTTG
27910124 TGTCATTTGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.27, C:0.04, G:0.23, T:0.46
Consensus pattern (48 bp):
AAACAGTAAAATTGTCATGTTGATGTTATTTGGTTTGAATGTGTTTTG
Found at i:27913956 original size:14 final size:14
Alignment explanation
Indices: 27913933--27913962 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27913923 TTGAAAATAT
27913933 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
27913947 GTTGATTTGGATTG
1 GTTGAATTGGATTG
27913961 GT
1 GT
27913963 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:27914865 original size:25 final size:25
Alignment explanation
Indices: 27914806--27914918 Score: 88
Period size: 25 Copynumber: 4.5 Consensus size: 25
27914796 GTACATGTAT
* * * *
27914806 GCTCATACGAACTATAAATCGGTAT
1 GCTCATACGAGCTATGAATCAGTAA
* *
27914831 GC-CCTCACGAGCTGTGAATC-GATAA
1 GCTCAT-ACGAGCTATGAATCAG-TAA
*
27914856 GCTCATACGAGCTAAGAATCAGTAA
1 GCTCATACGAGCTATGAATCAGTAA
* **
27914881 GCTC-TCACAAGCTACAAATCAGTAA
1 GCTCAT-ACGAGCTATGAATCAGTAA
27914906 GCTCATACGAGCT
1 GCTCATACGAGCT
27914919 GTGGTGTGTC
Statistics
Matches: 70, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
24 4 0.06
25 62 0.89
26 4 0.06
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCTATGAATCAGTAA
Found at i:27914888 original size:50 final size:50
Alignment explanation
Indices: 27914806--27914918 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 50
27914796 GTACATGTAT
* * * * ***
27914806 GCTCATACGAACTATAAATCGGTATGCCCTCACGAGCTGTGAATC-GATAA
1 GCTCATACGAGCTATAAATCAGTAAGCCCTCACAAGCTACAAATCAG-TAA
*
27914856 GCTCATACGAGCTA-AGAATCAGTAAGCTCTCACAAGCTACAAATCAGTAA
1 GCTCATACGAGCTATA-AATCAGTAAGCCCTCACAAGCTACAAATCAGTAA
27914906 GCTCATACGAGCT
1 GCTCATACGAGCT
27914919 GTGGTGTGTC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 1 0.02
50 51 0.96
51 1 0.02
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.22
Consensus pattern (50 bp):
GCTCATACGAGCTATAAATCAGTAAGCCCTCACAAGCTACAAATCAGTAA
Found at i:27915255 original size:16 final size:17
Alignment explanation
Indices: 27915229--27915262 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
27915219 ATAAATTTAA
27915229 CTCATTTCAATATAATT
1 CTCATTTCAATATAATT
*
27915246 CTCA-TTCAATTTAATT
1 CTCATTTCAATATAATT
27915262 C
1 C
27915263 AATATGGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (17 bp):
CTCATTTCAATATAATT
Found at i:27916645 original size:36 final size:35
Alignment explanation
Indices: 27916604--27916677 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 35
27916594 TCTTATTTTT
27916604 ATTTTTTTAATAATTAATATGTGTTTTTATATGATC
1 ATTTTTTTAATAATTAATATGTG-TTTTATATGATC
*
27916640 ATTTTTTTAATGATTAATATGTGTTTTATATGATC
1 ATTTTTTTAATAATTAATATGTGTTTTATATGATC
27916675 ATT
1 ATT
27916678 CAATGTTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 15 0.41
36 22 0.59
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (35 bp):
ATTTTTTTAATAATTAATATGTGTTTTATATGATC
Found at i:27921070 original size:16 final size:15
Alignment explanation
Indices: 27921044--27921093 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
27921034 TTAAGTGAAT
27921044 AAAGTAATAAAATAAAG
1 AAAG-AATAAAA-AAAG
*
27921061 AATGAATAAAAGAAAG
1 AAAGAATAAAA-AAAG
27921077 AAAGAA-AAAAAAAG
1 AAAGAATAAAAAAAG
27921091 AAA
1 AAA
27921094 TAGTGACAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 7 0.23
15 4 0.13
16 16 0.53
17 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (15 bp):
AAAGAATAAAAAAAG
Found at i:27922479 original size:23 final size:23
Alignment explanation
Indices: 27922448--27922493 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
27922438 TCAAAGGTTC
* *
27922448 ATGAGTTATTTTATGTCTCATTG
1 ATGAGTTATTTTATCTATCATTG
*
27922471 ATGATTTATTTTATCTATCATTG
1 ATGAGTTATTTTATCTATCATTG
27922494 GAAATGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.09, G:0.13, T:0.54
Consensus pattern (23 bp):
ATGAGTTATTTTATCTATCATTG
Found at i:27923114 original size:20 final size:20
Alignment explanation
Indices: 27923089--27923146 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
27923079 TGCCCATGGG
*
27923089 CAGGCCACACGGCCATGTTC
1 CAGGCCACACGGCCATGTCC
*
27923109 CAGGCCACACGACCATGTCC
1 CAGGCCACACGGCCATGTCC
* *
27923129 CAGGCCATACGGGCATGT
1 CAGGCCACACGGCCATGT
27923147 GTAACACCCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.22, C:0.38, G:0.26, T:0.14
Consensus pattern (20 bp):
CAGGCCACACGGCCATGTCC
Found at i:27924051 original size:38 final size:38
Alignment explanation
Indices: 27923976--27924136 Score: 178
Period size: 38 Copynumber: 4.2 Consensus size: 38
27923966 GAATCCAGTC
* * *
27923976 ACCAGCACAAAACCTGCGGGACTTTAAGCTCGAATATAAT
1 ACCAGCACAAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
* * * *
27924016 ACCAGTACTATGCCTGTGGGATTTAACCCGGATATAAT
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAAT
* * * *
27924054 ACCAACACGAAGCCTGCGGGATTTAACCCAGATATATT
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAAT
* * *
27924092 ACCAGCACAAAGCCTGCGAGATTTATCCTGGATATAAT
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAAT
27924130 ACCAGCA
1 ACCAGCA
27924137 TATAGCCTAC
Statistics
Matches: 100, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
38 79 0.79
39 5 0.05
40 16 0.16
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (38 bp):
ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:27924267 original size:31 final size:31
Alignment explanation
Indices: 27924232--27924294 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
27924222 TCATTAGTAG
27924232 TCATTTGCTACATTCGGATACAAGCTCCATA
1 TCATTTGCTACATTCGGATACAAGCTCCATA
27924263 TCATTTGCTACATTCGGATACAAGCTCCATA
1 TCATTTGCTACATTCGGATACAAGCTCCATA
27924294 T
1 T
27924295 AAACATCATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (31 bp):
TCATTTGCTACATTCGGATACAAGCTCCATA
Found at i:27929174 original size:23 final size:22
Alignment explanation
Indices: 27929126--27929196 Score: 83
Period size: 21 Copynumber: 3.3 Consensus size: 22
27929116 ATCAGTATAA
* * *
27929126 GACACATAAAGTGCCT-AAAAC
1 GACACACAAGGTGCCTGAATAC
27929147 GACACACAAGGTGCCTG-ATAC
1 GACACACAAGGTGCCTGAATAC
*
27929168 GACACACGAGGTGCCTGAAATAC
1 GACACACAAGGTGCCTG-AATAC
27929191 GACACA
1 GACACA
27929197 TAAAGTGTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 33 0.77
23 10 0.23
ACGTcount: A:0.39, C:0.27, G:0.21, T:0.13
Consensus pattern (22 bp):
GACACACAAGGTGCCTGAATAC
Found at i:27929604 original size:15 final size:15
Alignment explanation
Indices: 27929579--27929636 Score: 98
Period size: 15 Copynumber: 3.8 Consensus size: 15
27929569 TCATATATAT
27929579 TATACAATTCAATCAA
1 TATA-AATTCAATCAA
27929595 TATAAATTCAATCAA
1 TATAAATTCAATCAA
*
27929610 AATAAATTCAATCAA
1 TATAAATTCAATCAA
27929625 TATAAATTCAAT
1 TATAAATTCAAT
27929637 AAAACAGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
15 36 0.90
16 4 0.10
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:27929790 original size:2 final size:2
Alignment explanation
Indices: 27929785--27929831 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
27929775 TCTCATTCAT
*
27929785 AC AC AC AC AC AC AC AC AC AC AC AC AT AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
27929827 AC AC A
1 AC AC A
27929832 TATATATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.47, G:0.00, T:0.02
Consensus pattern (2 bp):
AC
Found at i:27935790 original size:21 final size:21
Alignment explanation
Indices: 27935764--27935847 Score: 80
Period size: 21 Copynumber: 3.9 Consensus size: 21
27935754 ATCAGTATAA
27935764 GACACATAAAGTGCCTGATAC
1 GACACATAAAGTGCCTGATAC
**
27935785 GACACA-CGAGATGCCTGATAC
1 GACACATAAAG-TGCCTGATAC
** *
27935806 GACACACGAGGTGCCTGAAATAC
1 GACACATAAAGTGCCTG--ATAC
*
27935829 GACACATAAAGTGTCTGAT
1 GACACATAAAGTGCCTGAT
27935848 CGATAAAGCC
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
20 2 0.04
21 30 0.60
22 1 0.02
23 17 0.34
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.18
Consensus pattern (21 bp):
GACACATAAAGTGCCTGATAC
Found at i:27935812 original size:23 final size:21
Alignment explanation
Indices: 27935775--27935834 Score: 93
Period size: 21 Copynumber: 2.8 Consensus size: 21
27935765 ACACATAAAG
27935775 TGCCTGATACGACACACGAGA
1 TGCCTGATACGACACACGAGA
*
27935796 TGCCTGATACGACACACGAGG
1 TGCCTGATACGACACACGAGA
27935817 TGCCTGAAATACGACACA
1 TGCCTG--ATACGACACA
27935835 TAAAGTGTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 26 0.72
23 10 0.28
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.15
Consensus pattern (21 bp):
TGCCTGATACGACACACGAGA
Found at i:27936242 original size:15 final size:15
Alignment explanation
Indices: 27936217--27936274 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
27936207 TCATGTATAT
27936217 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
27936233 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
27936248 AATAATTTCAATCAA
1 TATAAATTCAATCAA
27936263 TATAAATTCAAT
1 TATAAATTCAAT
27936275 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:27937418 original size:41 final size:41
Alignment explanation
Indices: 27937211--27937407 Score: 367
Period size: 41 Copynumber: 4.8 Consensus size: 41
27937201 TTTATCGTTA
* *
27937211 GTGACATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
27937252 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
27937293 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
27937334 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
27937375 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
27937408 AAGAGCCGGT
Statistics
Matches: 153, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 153 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:27937684 original size:33 final size:32
Alignment explanation
Indices: 27937628--27937691 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
27937618 ATGTATATAT
27937628 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
27937660 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
27937692 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:27937708 original size:33 final size:33
Alignment explanation
Indices: 27937635--27937708 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
27937625 TATATATATA
* * **
27937635 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
27937667 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
27937700 TGTATGTAT
1 TATATGTAT
27937709 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:27945020 original size:41 final size:41
Alignment explanation
Indices: 27944854--27945009 Score: 285
Period size: 41 Copynumber: 3.8 Consensus size: 41
27944844 TTTATCGTTA
* *
27944854 GTGACATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
27944895 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
27944936 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
27944977 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
27945010 AAGAGCCGGT
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 112 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:27945282 original size:33 final size:32
Alignment explanation
Indices: 27945226--27945289 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
27945216 AGATATGTAT
27945226 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
27945258 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
27945290 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:27945306 original size:33 final size:33
Alignment explanation
Indices: 27945233--27945306 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
27945223 TATATATATA
* * **
27945233 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
27945265 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
27945298 TGTATGTAT
1 TATATGTAT
27945307 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:27947240 original size:5 final size:5
Alignment explanation
Indices: 27947225--27947261 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
27947215 TTGTATAGTT
27947225 TATATA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA T
27947262 TAAAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:27950381 original size:38 final size:38
Alignment explanation
Indices: 27950338--27950493 Score: 224
Period size: 38 Copynumber: 4.1 Consensus size: 38
27950328 TAAGCTCGAT
27950338 TATAATACCAGCACTAAGCCTGCGGGATTTAACCCGGA
1 TATAATACCAGCACTAAGCCTGCGGGATTTAACCCGGA
* * *
27950376 TATAATACCAGCACGAAGCCTGCGGAATTTAACCCAGA
1 TATAATACCAGCACTAAGCCTGCGGGATTTAACCCGGA
* *
27950414 TATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGA
1 TATAATACCAGCACTAAGCCTGCGGGATTTAACCCGGA
*
27950452 TATAATACCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGA
1 TATAATACCAGCACTA-AGCCTGCGGG-ATTTAA-CCCGGA
27950492 TA
1 TA
27950494 CACATAAAAT
Statistics
Matches: 105, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
37 1 0.01
38 91 0.87
39 5 0.05
40 8 0.08
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.22
Consensus pattern (38 bp):
TATAATACCAGCACTAAGCCTGCGGGATTTAACCCGGA
Found at i:27952779 original size:7 final size:7
Alignment explanation
Indices: 27952767--27952793 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
27952757 AATATTAGTA
27952767 TAACATT
1 TAACATT
27952774 TAACATT
1 TAACATT
27952781 TAACATT
1 TAACATT
27952788 TAACAT
1 TAACAT
27952794 ATTATGTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (7 bp):
TAACATT
Found at i:27953564 original size:16 final size:16
Alignment explanation
Indices: 27953540--27953570 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27953530 TGTAAAACTA
27953540 ATGTATGATATTTTTT
1 ATGTATGATATTTTTT
*
27953556 ATGTTTGATATTTTT
1 ATGTATGATATTTTT
27953571 ATACTATGCT
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:0.23, C:0.00, G:0.13, T:0.65
Consensus pattern (16 bp):
ATGTATGATATTTTTT
Found at i:27957380 original size:21 final size:21
Alignment explanation
Indices: 27957356--27957408 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
27957346 CATTATTTCT
** *
27957356 AATCTCACTGCTATAGTATCC
1 AATCTCACCACTATAGTAACC
*
27957377 AATCTCACCACTATAGTAACT
1 AATCTCACCACTATAGTAACC
27957398 AATCTCACCAC
1 AATCTCACCAC
27957409 CACCGCTGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.32, G:0.06, T:0.28
Consensus pattern (21 bp):
AATCTCACCACTATAGTAACC
Found at i:27957603 original size:39 final size:40
Alignment explanation
Indices: 27957549--27957630 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 40
27957539 TTTCTTTCTT
27957549 TTTGCATTTTATAATAAAAGGTTAAATTTTAGTTTTA-TA
1 TTTGCATTTTATAATAAAAGGTTAAATTTTAGTTTTAGTA
27957588 TTTGCATTTTATAATAAAAGGTTAAATTTTAGTTTTAGTA
1 TTTGCATTTTATAATAAAAGGTTAAATTTTAGTTTTAGTA
27957628 TTT
1 TTT
27957631 TAATATGCCT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 37 0.88
40 5 0.12
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.52
Consensus pattern (40 bp):
TTTGCATTTTATAATAAAAGGTTAAATTTTAGTTTTAGTA
Found at i:27962517 original size:70 final size:70
Alignment explanation
Indices: 27962435--27962575 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
27962425 TCTTTCTGTT
27962435 ATATGGTTTGAAAGGCATAGTTTAAGTTGCAGTGGTTTTCATGAAGAAAAAGTATTATATATTTA
1 ATATGGTTTGAAAGGCATAGTTTAAGTTGCAGTGGTTTTCATGAAGAAAAAGTATTATATATTTA
27962500 CTCCA
66 CTCCA
27962505 ATATGGTTTGAAAGGCATAGTTTAAGTTGCAGTGGTTTTCATGAAGAAAAAGTATTATATATTTA
1 ATATGGTTTGAAAGGCATAGTTTAAGTTGCAGTGGTTTTCATGAAGAAAAAGTATTATATATTTA
27962570 CTCCA
66 CTCCA
27962575 A
1 A
27962576 ATAGATTCCA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.37
Consensus pattern (70 bp):
ATATGGTTTGAAAGGCATAGTTTAAGTTGCAGTGGTTTTCATGAAGAAAAAGTATTATATATTTA
CTCCA
Found at i:27969068 original size:15 final size:15
Alignment explanation
Indices: 27969048--27969079 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
27969038 TCCACCGACA
27969048 CTTTAATTCAATTTT
1 CTTTAATTCAATTTT
27969063 CTTTAATTCAATTTT
1 CTTTAATTCAATTTT
27969078 CT
1 CT
27969080 CTTTCCTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (15 bp):
CTTTAATTCAATTTT
Found at i:27979859 original size:15 final size:15
Alignment explanation
Indices: 27979839--27979870 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
27979829 CCAATAGCCA
27979839 TAGCCTCAACATAAG
1 TAGCCTCAACATAAG
27979854 TAGCCTCAACATAAG
1 TAGCCTCAACATAAG
27979869 TA
1 TA
27979871 ATGAACTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.22
Consensus pattern (15 bp):
TAGCCTCAACATAAG
Found at i:27985799 original size:15 final size:14
Alignment explanation
Indices: 27985779--27985819 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
27985769 ACTTTTAACT
27985779 AAAATTATATATTTA
1 AAAATTAT-TATTTA
*
27985794 AAAATTATTAATTA
1 AAAATTATTATTTA
*
27985808 AAATTTATTATT
1 AAAATTATTATT
27985820 AAATATTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AAAATTATTATTTA
Found at i:27985827 original size:14 final size:14
Alignment explanation
Indices: 27985773--27985832 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
27985763 AATTTTACTT
*
27985773 TTAACTAAAA-TTA
1 TTAATTAAAATTTA
* *
27985786 TATATTTAAAAATTA
1 T-TAATTAAAATTTA
27985801 TTAATTAAAATTTA
1 TTAATTAAAATTTA
*
27985815 TT-ATTAAATATTTG
1 TTAATTAAA-ATTTA
27985829 TTAA
1 TTAA
27985833 GAATAAAGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
13 7 0.18
14 26 0.68
15 5 0.13
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (14 bp):
TTAATTAAAATTTA
Found at i:27991693 original size:16 final size:16
Alignment explanation
Indices: 27991660--27991693 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27991650 TGGTAGTGTT
* *
27991660 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
27991676 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
27991692 AA
1 AA
27991694 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:27994521 original size:21 final size:21
Alignment explanation
Indices: 27994495--27994535 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27994485 AGACGAGCAA
* *
27994495 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
27994516 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
27994536 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:27996474 original size:16 final size:16
Alignment explanation
Indices: 27996441--27996474 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27996431 GGAGATTGTT
* *
27996441 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
27996457 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
27996473 AA
1 AA
27996475 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:28006580 original size:41 final size:41
Alignment explanation
Indices: 28006527--28006606 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
28006517 TGTGTTAACC
*
28006527 CACTGGACGAGGCAGTCGTATGTTAACCCATGTTGCCTTAA
1 CACTGGACGAGGCAGTCGTATGTTAACCAATGTTGCCTTAA
28006568 CACTGGACGAGGCAGTCGTATGTTAACCAATGTTGCCTT
1 CACTGGACGAGGCAGTCGTATGTTAACCAATGTTGCCTT
28006607 CGTAATCTGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.28
Consensus pattern (41 bp):
CACTGGACGAGGCAGTCGTATGTTAACCAATGTTGCCTTAA
Found at i:28009885 original size:18 final size:17
Alignment explanation
Indices: 28009845--28009885 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
28009835 AAATGTCTTC
28009845 CCAACACGGTTCATTCT
1 CCAACACGGTTCATTCT
**
28009862 TAAACACGGTTCCATTCT
1 CCAACACGGTT-CATTCT
28009880 CCAACA
1 CCAACA
28009886 TAATTGGTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.29, C:0.34, G:0.10, T:0.27
Consensus pattern (17 bp):
CCAACACGGTTCATTCT
Found at i:28018279 original size:2 final size:2
Alignment explanation
Indices: 28018268--28018297 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
28018258 ATCTATTTGG
28018268 TA TA -A 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
28018298 TATTCTGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:28019792 original size:25 final size:25
Alignment explanation
Indices: 28019764--28019816 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
28019754 CCTTAACATA
28019764 ATTTAAGTTT-ATATAAGTTTATATG
1 ATTT-AGTTTGATATAAGTTTATATG
* * *
28019789 ATTTATTTTGTTATAAGTTTTTATG
1 ATTTAGTTTGATATAAGTTTATATG
28019814 ATT
1 ATT
28019817 AAAACTACAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.58
Consensus pattern (25 bp):
ATTTAGTTTGATATAAGTTTATATG
Found at i:28024096 original size:2 final size:2
Alignment explanation
Indices: 28024045--28024077 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
28024035 CTAAACTTAA
*
28024045 CT CT CT CT CT CT CT CT CT CA CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
28024078 ATGGATTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.03, C:0.52, G:0.00, T:0.45
Consensus pattern (2 bp):
CT
Found at i:28029034 original size:22 final size:22
Alignment explanation
Indices: 28029003--28029046 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
28028993 TACACCAAAA
*
28029003 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
28029025 TAGGCCTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
28029047 AGCGCCACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.20, G:0.27, T:0.43
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCGCTTTTT
Found at i:28029178 original size:43 final size:43
Alignment explanation
Indices: 28029107--28029250 Score: 220
Period size: 43 Copynumber: 3.4 Consensus size: 43
28029097 ACGTCGCTAA
* * *
28029107 CTTTTGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCATGTT
1 CTTTAGCGGCGCTTTTCCCACAATCGCCGCTAAAGACCATGTT
28029150 CTTTAGCGGCGCTTTTCCCACAATCGCCGCTAAAGACCATGTT
1 CTTTAGCGGCGCTTTTCCCACAATCGCCGCTAAAGACCATGTT
*
28029193 CTTTAGCGGCGC-TTTCCCACAAAT-GCCGCTAAAGACCATGAT
1 CTTTAGCGGCGCTTTTCCCAC-AATCGCCGCTAAAGACCATGTT
*
28029235 CTTTAGCGACGCTTTT
1 CTTTAGCGGCGCTTTT
28029251 TATCTCAAAC
Statistics
Matches: 94, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
42 36 0.38
43 58 0.62
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.28
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAATCGCCGCTAAAGACCATGTT
Found at i:28029282 original size:85 final size:86
Alignment explanation
Indices: 28029107--28029311 Score: 243
Period size: 85 Copynumber: 2.4 Consensus size: 86
28029097 ACGTCGCTAA
* * * *
28029107 CTTTTGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTTCCCACA
1 CTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCATGATCTTTAGCGACGCTTTTACCACA
* * ***
28029172 ATCGCCGCTAAAGACCATGTT
66 AACGCCGCTAAAGAACATAAC
* * *
28029193 CTTTAGCGGCGCTT-TCCCACAAATGCCGCTAAAGACCATGATCTTTAGCGACGCTTTTTATCTC
1 CTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCATGATCTTTAGCGACGC-TTTTACCAC
*
28029257 AAACGCCGCTATAGAACA-AAC
65 AAACGCCGCTAAAGAACATAAC
* * *
28029278 CTTTAGCGACGCTTCTCGCAAAAACGCCGCTAAA
1 CTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAA
28029312 AACATATCAT
Statistics
Matches: 100, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
85 50 0.50
86 50 0.50
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (86 bp):
CTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCATGATCTTTAGCGACGCTTTTACCACA
AACGCCGCTAAAGAACATAAC
Found at i:28029368 original size:22 final size:24
Alignment explanation
Indices: 28029341--28029384 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
28029331 ATATTTTAAT
28029341 TAAATAATAT-TTAT-TTTTATGA
1 TAAATAATATATTATGTTTTATGA
*
28029363 TAAATATTATATTATGTTTTAT
1 TAAATAATATATTATGTTTTAT
28029385 TTTTTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (24 bp):
TAAATAATATATTATGTTTTATGA
Found at i:28033119 original size:50 final size:50
Alignment explanation
Indices: 28033064--28033162 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 50
28033054 CACCAATTAA
* * *
28033064 TCCTAAACCCTAAATCGTAAAATAGAAACTCTAAACCCCTAACCCCTATC
1 TCCTAAACCCTAAATCATAAAACAAAAACTCTAAACCCCTAACCCCTATC
28033114 TCCTAAACCCTAAATCATAAAACAAAAACTCTAAACCCCTAACCCCTAT
1 TCCTAAACCCTAAATCATAAAACAAAAACTCTAAACCCCTAACCCCTAT
28033163 TTTACAATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.42, C:0.34, G:0.02, T:0.21
Consensus pattern (50 bp):
TCCTAAACCCTAAATCATAAAACAAAAACTCTAAACCCCTAACCCCTATC
Found at i:28033282 original size:21 final size:21
Alignment explanation
Indices: 28033266--28033310 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
28033256 CACTAACTCT
*
28033266 TAACCTCTAACATCTAACCCC
1 TAACCCCTAACATCTAACCCC
28033287 TAACCCCTAAC-TACTAACCCC
1 TAACCCCTAACAT-CTAACCCC
28033308 TAA
1 TAA
28033311 ACCTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.22
Consensus pattern (21 bp):
TAACCCCTAACATCTAACCCC
Found at i:28034045 original size:15 final size:15
Alignment explanation
Indices: 28034025--28034056 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
28034015 CATAAACGCT
28034025 AATCCATAATCCCTA
1 AATCCATAATCCCTA
*
28034040 AATCCATACTCCCTA
1 AATCCATAATCCCTA
28034055 AA
1 AA
28034057 CATTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.25
Consensus pattern (15 bp):
AATCCATAATCCCTA
Found at i:28034680 original size:41 final size:41
Alignment explanation
Indices: 28034623--28034820 Score: 306
Period size: 41 Copynumber: 4.8 Consensus size: 41
28034613 AAGATAAAAT
* *
28034623 GCTTTAGCGGCGCTTCTTAAAAAACGCCCCTAAAGACCAAA
1 GCTTTAGCGGCGCTTCTTAAAAAACGCCGCTAAAGACCAGA
28034664 GCTTTAGCGGCGCTTCTTAAAAAACGCCGCTAAAGACCAGA
1 GCTTTAGCGGCGCTTCTTAAAAAACGCCGCTAAAGACCAGA
* *
28034705 GATTTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGA
1 GCTTTAGCGGCGCTTCTTAAAAAACGCCGCTAAAGACCAGA
* * * * *
28034746 GCATTAGTGGCGCTTCATCAAAAACGCCGCTAAAGACTAGA
1 GCTTTAGCGGCGCTTCTTAAAAAACGCCGCTAAAGACCAGA
*
28034787 GCATTAGCGGCGCTTCTTAAAAAACGCCGCTAAA
1 GCTTTAGCGGCGCTTCTTAAAAAACGCCGCTAAA
28034821 TCCCTAAAAA
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 145 1.00
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.20
Consensus pattern (41 bp):
GCTTTAGCGGCGCTTCTTAAAAAACGCCGCTAAAGACCAGA
Found at i:28034984 original size:40 final size:40
Alignment explanation
Indices: 28034860--28034997 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 40
28034850 TAGGTTTAGG
* * * *
28034860 TTTTT-GCGGCGCTTTTTGTAAAACGCCGCTAATG-CTCA
1 TTTTTAGCGGCGTTTTTTATAAAGCGCCGCTAATGATTCA
* * *
28034898 TTTTTAGTGGCG-TTTTTAGAAAAGCGCCGCTAAT-ACTCCA
1 TTTTTAGCGGCGTTTTTTA-TAAAGCGCCGCTAATGA-TTCA
* * *
28034938 TCTTTAGCGGCGTTTTTTATATAGCGCCGCTAATGATTGA
1 TTTTTAGCGGCGTTTTTTATAAAGCGCCGCTAATGATTCA
*
28034978 TTTTTAGCGGCATTTTTTAT
1 TTTTTAGCGGCGTTTTTTAT
28034998 TCAAACGCCA
Statistics
Matches: 80, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
38 10 0.12
39 18 0.22
40 45 0.56
41 7 0.09
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTTATAAAGCGCCGCTAATGATTCA
Found at i:28036508 original size:38 final size:38
Alignment explanation
Indices: 28036457--28036534 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
28036447 GAACTAATAG
28036457 TAGAATTGAACATATTCTTTTCAAATAAAATTAGTGGA
1 TAGAATTGAACATATTCTTTTCAAATAAAATTAGTGGA
*
28036495 TAGAATTTAACATATTCTTTTCAAATAAAATTAGTGGA
1 TAGAATTGAACATATTCTTTTCAAATAAAATTAGTGGA
28036533 TA
1 TA
28036535 TTTTCTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (38 bp):
TAGAATTGAACATATTCTTTTCAAATAAAATTAGTGGA
Found at i:28037778 original size:22 final size:22
Alignment explanation
Indices: 28037753--28037795 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
28037743 GGTTAGTTCG
*
28037753 TATGAGAT-TTATTTTGTTAATA
1 TATG-GATGTTATTGTGTTAATA
*
28037775 TATGGTTGTTATTGTGTTAAT
1 TATGGATGTTATTGTGTTAAT
28037796 TTTTTACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (22 bp):
TATGGATGTTATTGTGTTAATA
Found at i:28038309 original size:17 final size:17
Alignment explanation
Indices: 28038283--28038426 Score: 130
Period size: 17 Copynumber: 8.4 Consensus size: 17
28038273 CGAGATTTTT
28038283 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
*
28038301 TTTTCAAAACACCG-AAA
1 TTTTTAAAACA-CGAAAA
* **
28038318 TTTTTGAAAACAAGAGGA
1 TTTTT-AAAACACGAAAA
* *
28038336 TTTTTGAAATACGAAAAA
1 TTTTTAAAACACG-AAAA
*
28038354 TTTTGAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* *
28038371 TTTTTGAAACACGGAAA
1 TTTTTAAAACACGAAAA
*
28038388 TTTTTGAAA-ACGAAAA
1 TTTTTAAAACACGAAAA
* *
28038404 TTTTTGAAACACAAAAA
1 TTTTTAAAACACGAAAA
28038421 TTTTTA
1 TTTTTA
28038427 GAAGACACTA
Statistics
Matches: 102, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
16 15 0.15
17 57 0.56
18 30 0.29
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Done.