Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
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: 5962497
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 30
Found at i:4772938 original size:64 final size:64
Alignment explanation
Indices: 4772837--4772966 Score: 260
Period size: 64 Copynumber: 2.0 Consensus size: 64
4772827 AGAAGGTCAA
4772837 TCCAGAGGGGCTTGATGATAACTAGAAGGTTGAGTTTATGTATTAATGAAGTTATAAGTCCGTC
1 TCCAGAGGGGCTTGATGATAACTAGAAGGTTGAGTTTATGTATTAATGAAGTTATAAGTCCGTC
4772901 TCCAGAGGGGCTTGATGATAACTAGAAGGTTGAGTTTATGTATTAATGAAGTTATAAGTCCGTC
1 TCCAGAGGGGCTTGATGATAACTAGAAGGTTGAGTTTATGTATTAATGAAGTTATAAGTCCGTC
4772965 TC
1 TC
4772967 AATTTGCATT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (64 bp):
TCCAGAGGGGCTTGATGATAACTAGAAGGTTGAGTTTATGTATTAATGAAGTTATAAGTCCGTC
Found at i:4779245 original size:4 final size:4
Alignment explanation
Indices: 4779236--4779262 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4779226 AAGGAAAAAG
4779236 ATGA ATGA ATGA ATGA ATGA ATGA ATG
1 ATGA ATGA ATGA ATGA ATGA ATGA ATG
4779263 CTACAAGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (4 bp):
ATGA
Found at i:4781195 original size:18 final size:18
Alignment explanation
Indices: 4781152--4781195 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4781142 TTTCAAGGGT
*
4781152 GATAAAAAAAACTAAGAT
1 GATAAAAAAAACTAAGAG
*
4781170 GATAAAAAAAACTAGGAGG
1 GATAAAAAAAACTAAGA-G
4781189 GATAAAA
1 GATAAAA
4781196 GGTATTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.64, C:0.05, G:0.18, T:0.14
Consensus pattern (18 bp):
GATAAAAAAAACTAAGAG
Found at i:4782765 original size:17 final size:17
Alignment explanation
Indices: 4782745--4782806 Score: 115
Period size: 17 Copynumber: 3.6 Consensus size: 17
4782735 TCAGCACTGT
4782745 TGCATGGCGTGGAAAGC
1 TGCATGGCGTGGAAAGC
4782762 TGCATGGCGTGGAAAGC
1 TGCATGGCGTGGAAAGC
*
4782779 TGCATGGCGTTGAAAGC
1 TGCATGGCGTGGAAAGC
4782796 TGCATGGCGTG
1 TGCATGGCGTG
4782807 AAATCTCTGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 43 1.00
ACGTcount: A:0.21, C:0.18, G:0.40, T:0.21
Consensus pattern (17 bp):
TGCATGGCGTGGAAAGC
Found at i:4782892 original size:25 final size:25
Alignment explanation
Indices: 4782858--4782908 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
4782848 CTCTGCATGT
*
4782858 TGGTGTCATTATTGGGCATCAATAA
1 TGGTGTCATTATTGGGCACCAATAA
*
4782883 TGGTGTCATTATTGTGCACCAATAA
1 TGGTGTCATTATTGGGCACCAATAA
4782908 T
1 T
4782909 TCAAGCCGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (25 bp):
TGGTGTCATTATTGGGCACCAATAA
Found at i:4783674 original size:38 final size:38
Alignment explanation
Indices: 4783595--4783675 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
4783585 ATAATGACAC
* * * ** *
4783595 TGGTAATTAATTATCCATTAATAACTCGGGTAGGTTGG
1 TGGTTATTAATTATCCATTAATAACCCGAGTACATTAG
4783633 TGGTTATTAATTATCCATTAATAACCCGAGTACATTAG
1 TGGTTATTAATTATCCATTAATAACCCGAGTACATTAG
4783671 TGGTT
1 TGGTT
4783676 GAACGGGAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (38 bp):
TGGTTATTAATTATCCATTAATAACCCGAGTACATTAG
Found at i:4783883 original size:38 final size:38
Alignment explanation
Indices: 4783838--4783971 Score: 160
Period size: 38 Copynumber: 3.3 Consensus size: 38
4783828 ACAATATCAA
* * * *
4783838 TAGGTTGGTGGTTAATAATTATCTATTAATAACTCGGG
1 TAGGTTGGTGGTTATTAATTATCCATTAATATCCCGGG
4783876 TAAGTTGGTGGTTGGTGGTTATTAATTATCCATTAATATCCCGGG
1 T-A---GGT---TGGTGGTTATTAATTATCCATTAATATCCCGGG
*
4783921 TAGGTTGGTGGTTATTAATTATCCATTAATATCCCGAG
1 TAGGTTGGTGGTTATTAATTATCCATTAATATCCCGGG
4783959 TAGGTTGGTGGTT
1 TAGGTTGGTGGTT
4783972 GGTGGTTGCA
Statistics
Matches: 84, Mismatches: 5, Indels: 14
0.82 0.05 0.14
Matches are distributed among these distances:
38 46 0.55
39 1 0.01
41 3 0.04
42 3 0.04
44 1 0.01
45 30 0.36
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (38 bp):
TAGGTTGGTGGTTATTAATTATCCATTAATATCCCGGG
Found at i:4783890 original size:45 final size:45
Alignment explanation
Indices: 4783840--4783978 Score: 157
Period size: 45 Copynumber: 3.2 Consensus size: 45
4783830 AATATCAATA
* *
4783840 GGTTGGTGGTTAATAATTATCTATTAATAACTCGGGTAAGTTGGT
1 GGTTGGTGGTTAATAATTATCCATTAATAACCCGGGTAAGTTGGT
* *
4783885 GGTTGGTGGTTATTAATTATCCATTAATATCCCGGGT-A------
1 GGTTGGTGGTTAATAATTATCCATTAATAACCCGGGTAAGTTGGT
* * * *
4783923 GGTTGGTGGTTATTAATTATCCATTAATATCCCGAGTAGGTTGGT
1 GGTTGGTGGTTAATAATTATCCATTAATAACCCGGGTAAGTTGGT
4783968 GGTTGGTGGTT
1 GGTTGGTGGTT
4783979 GCACGGGAAA
Statistics
Matches: 81, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
38 36 0.44
44 1 0.01
45 44 0.54
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.40
Consensus pattern (45 bp):
GGTTGGTGGTTAATAATTATCCATTAATAACCCGGGTAAGTTGGT
Found at i:4785978 original size:30 final size:30
Alignment explanation
Indices: 4785895--4785985 Score: 119
Period size: 31 Copynumber: 3.0 Consensus size: 30
4785885 TTTGATTAGA
*
4785895 TTTAATGGTTAAATTGATGTTTTATCTAAAG
1 TTTAA-GGTTAAATTGATATTTTATCTAAAG
* *
4785926 TTCAAGGATTAAGTTGATATTTTATCTAAAG
1 TTTAAGG-TTAAATTGATATTTTATCTAAAG
* *
4785957 TTTAAGGTCAAATTTATATTTTATCTAAA
1 TTTAAGGTTAAATTGATATTTTATCTAAA
4785986 ATTCAGAATT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
30 21 0.40
31 31 0.60
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.46
Consensus pattern (30 bp):
TTTAAGGTTAAATTGATATTTTATCTAAAG
Found at i:4788227 original size:16 final size:17
Alignment explanation
Indices: 4788206--4788243 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
4788196 TCTCTCTTAA
4788206 ATTTTTAAAAATTAT-T
1 ATTTTTAAAAATTATAT
* *
4788222 ATTTTTATATATTATAT
1 ATTTTTAAAAATTATAT
4788239 ATTTT
1 ATTTT
4788244 CTAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTTTTAAAAATTATAT
Found at i:4788505 original size:30 final size:31
Alignment explanation
Indices: 4788448--4788506 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
4788438 GGAAAAGCAG
*
4788448 CTTTATTTTAAGTTGCGGATGAAAAAAATAA
1 CTTTATTTTAAGTAGCGGATGAAAAAAATAA
*
4788479 CTTTATTTTAAGTAGTGGAT-AAAAAAAT
1 CTTTATTTTAAGTAGCGGATGAAAAAAAT
4788507 TCAGTAAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.37
Consensus pattern (31 bp):
CTTTATTTTAAGTAGCGGATGAAAAAAATAA
Found at i:4788840 original size:4 final size:4
Alignment explanation
Indices: 4788831--4788873 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
4788821 GAGCCGCATT
* *
4788831 TTTA TTTA TTT- TTTG TATTA TGTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTT
4788874 TTAGTTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
3 3 0.09
4 28 0.82
5 3 0.09
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:4789880 original size:2 final size:2
Alignment explanation
Indices: 4789875--4789914 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4789865 ATATATACGA
4789875 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
4789915 CTTTCCTCCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4797231 original size:19 final size:19
Alignment explanation
Indices: 4797203--4797239 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4797193 AGAACTCCAT
*
4797203 GGGGGTATCGATTCCCCTA
1 GGGGGAATCGATTCCCCTA
*
4797222 GGGGGAATCGGTTCCCCT
1 GGGGGAATCGATTCCCCT
4797240 TCAAAGGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.27, G:0.35, T:0.24
Consensus pattern (19 bp):
GGGGGAATCGATTCCCCTA
Found at i:4805491 original size:15 final size:15
Alignment explanation
Indices: 4805451--4805493 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
4805441 ATGGGCAAAT
*
4805451 TTTG-AAAATTAA-G
1 TTTGAAAAATCAATG
4805464 TTTGAAAAA-CAATG
1 TTTGAAAAATCAATG
4805478 TTTGAAAAATCAATG
1 TTTGAAAAATCAATG
4805493 T
1 T
4805494 GTAGTTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 6 0.23
14 14 0.54
15 6 0.23
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.35
Consensus pattern (15 bp):
TTTGAAAAATCAATG
Found at i:4805982 original size:20 final size:20
Alignment explanation
Indices: 4805957--4806005 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
4805947 AAACTGTGGA
4805957 GGGTATCGGCATCCTCAAGG
1 GGGTATCGGCATCCTCAAGG
* * *
4805977 GGGTATCAGTATCCTTAAGG
1 GGGTATCGGCATCCTCAAGG
4805997 GGGTATCGG
1 GGGTATCGG
4806006 TACCCATGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.18, G:0.37, T:0.24
Consensus pattern (20 bp):
GGGTATCGGCATCCTCAAGG
Found at i:4812768 original size:20 final size:20
Alignment explanation
Indices: 4812733--4812799 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
4812723 GAGACTGCAA
* *
4812733 GAACAATATTAGTACTGAAT
1 GAACAATATCAATACTGAAT
4812753 GAACAATATCAATACT-AAT
1 GAACAATATCAATACTGAAT
* *
4812772 AAAGAACAATATCGATGCTGAAT
1 ---GAACAATATCAATACTGAAT
4812795 GAACA
1 GAACA
4812800 GTACTGGTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 3 0.08
20 19 0.49
22 14 0.36
23 3 0.08
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.24
Consensus pattern (20 bp):
GAACAATATCAATACTGAAT
Found at i:4816930 original size:15 final size:15
Alignment explanation
Indices: 4816912--4816942 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4816902 TTCTATTTCC
4816912 TTCTTTTCTTCATCT
1 TTCTTTTCTTCATCT
*
4816927 TTCTTTTCTTGATCT
1 TTCTTTTCTTCATCT
4816942 T
1 T
4816943 CTTCTTCCTT
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:0.06, C:0.23, G:0.03, T:0.68
Consensus pattern (15 bp):
TTCTTTTCTTCATCT
Found at i:4825196 original size:2 final size:2
Alignment explanation
Indices: 4825189--4825218 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4825179 TTGTAACCAA
*
4825189 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4825219 GTGAACTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4827286 original size:3 final size:3
Alignment explanation
Indices: 4827278--4827318 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
4827268 ACATATACAT
*
4827278 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TT- TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
4827319 ATATGTGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:4829617 original size:28 final size:29
Alignment explanation
Indices: 4829568--4829622 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
4829558 TAAACAACAA
4829568 ATAAAAATAAATATACTAAATA-TTATTT
1 ATAAAAATAAATATACTAAATAGTTATTT
*
4829596 ATAAAAATAACATATGCT-AATAGTTAT
1 ATAAAAATAA-ATATACTAAATAGTTAT
4829623 AATATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (29 bp):
ATAAAAATAAATATACTAAATAGTTATTT
Found at i:4829982 original size:23 final size:22
Alignment explanation
Indices: 4829956--4829999 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
4829946 GCTTAACGAA
*
4829956 TAACTATAAATTAGTTGAAAATT
1 TAACAATAAATTA-TTGAAAATT
*
4829979 TAACAATAAATTATTTAAAAT
1 TAACAATAAATTATTGAAAAT
4830000 AAAGGGTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (22 bp):
TAACAATAAATTATTGAAAATT
Found at i:4832878 original size:64 final size:64
Alignment explanation
Indices: 4832762--4832884 Score: 167
Period size: 64 Copynumber: 1.9 Consensus size: 64
4832752 TACACTTGGG
* * * *
4832762 GTGTATCGGTACACTAATTGAATTCGATGTTTTAATAAAGCCAGAGTTTATCGATGCATAAGAT
1 GTGTATCGGTACACAAAATGAATTCGATGTTTTAATAAAGACAGAGTGTATCGATGCATAAGAT
* * *
4832826 GTGTATCGGTACACAAAATGCATTCGATGTTTTAATAAA-ATAGGGGTGTATCGATGCAT
1 GTGTATCGGTACACAAAATGAATTCGATGTTTTAATAAAGACA-GAGTGTATCGATGCAT
4832885 GGTTGTGCAT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 1 0.02
64 50 0.98
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (64 bp):
GTGTATCGGTACACAAAATGAATTCGATGTTTTAATAAAGACAGAGTGTATCGATGCATAAGAT
Found at i:4835149 original size:24 final size:23
Alignment explanation
Indices: 4835100--4835150 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
4835090 AAAACAAAAA
*
4835100 TTTTTTATTTGAAAATTTTTGAT
1 TTTTTTATTTGAAAATTTGTGAT
*
4835123 TTTTTTTTTTGAAAAATCTTGTG-T
1 TTTTTTATTTG-AAAAT-TTGTGAT
4835147 TTTT
1 TTTT
4835151 GATGAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.42
24 10 0.42
25 4 0.17
ACGTcount: A:0.22, C:0.02, G:0.10, T:0.67
Consensus pattern (23 bp):
TTTTTTATTTGAAAATTTGTGAT
Found at i:4835150 original size:23 final size:23
Alignment explanation
Indices: 4835100--4835143 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
4835090 AAAACAAAAA
* *
4835100 TTTTTTATTTGAAAATTTTTGAT
1 TTTTTTATTTGAAAAATCTTGAT
*
4835123 TTTTTTTTTTGAAAAATCTTG
1 TTTTTTATTTGAAAAATCTTG
4835144 TGTTTTTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.25, C:0.02, G:0.09, T:0.64
Consensus pattern (23 bp):
TTTTTTATTTGAAAAATCTTGAT
Found at i:4841455 original size:64 final size:62
Alignment explanation
Indices: 4841385--4841542 Score: 158
Period size: 64 Copynumber: 2.5 Consensus size: 62
4841375 TACACTTGGG
* *
4841385 GTGTATCGGTACACTAATTGCATTCGATGTTTTAATAAAGCCA-AAGTGTATCGATTCATAGGAT
1 GTGTATCGGTACACTAATTG-ATTCGATGTTTTAATAAA-ACAGAAGTGTATCGATGCAT-GGAT
* * * * * **
4841449 GTGTATCAGTACACAAAATGTATTTGATGTTTTAATAAAATAGGTGTGTATCGATGCATGGAT
1 GTGTATCGGTACACTAATTG-ATTCGATGTTTTAATAAAACAGAAGTGTATCGATGCATGGAT
*
4841512 GTGCATCGGTACA-TAAATTGACTTCGATGTT
1 GTGTATCGGTACACT-AATTGA-TTCGATGTT
4841543 GGGTGTGCAT
Statistics
Matches: 76, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
62 1 0.01
63 28 0.37
64 47 0.62
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (62 bp):
GTGTATCGGTACACTAATTGATTCGATGTTTTAATAAAACAGAAGTGTATCGATGCATGGAT
Found at i:4842400 original size:31 final size:32
Alignment explanation
Indices: 4842358--4842418 Score: 106
Period size: 31 Copynumber: 1.9 Consensus size: 32
4842348 AAAAATGTTA
*
4842358 AAAAATTATTGTTAATATATTTATATTTTTAT
1 AAAAATTATTGTTAATATATTTACATTTTTAT
4842390 AAAAA-TATTGTTAATATATTTACATTTTT
1 AAAAATTATTGTTAATATATTTACATTTTT
4842419 GAAACCTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 23 0.82
32 5 0.18
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (32 bp):
AAAAATTATTGTTAATATATTTACATTTTTAT
Found at i:4842746 original size:12 final size:12
Alignment explanation
Indices: 4842729--4842753 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4842719 ACTCAACAAA
4842729 TATTCCAATTAT
1 TATTCCAATTAT
4842741 TATTCCAATTAT
1 TATTCCAATTAT
4842753 T
1 T
4842754 GAGTTATTTG
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:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TATTCCAATTAT
Found at i:4845112 original size:35 final size:34
Alignment explanation
Indices: 4845073--4845194 Score: 116
Period size: 35 Copynumber: 3.7 Consensus size: 34
4845063 TCTTAGGTCC
4845073 ATAAGGAATTACCAGC-TGATCAGTGCTGAACATAT
1 ATAAGGAATTACCAGCTTGATCAGT-CTGAAC-TAT
*
4845108 ATAAGGAATAACCAGCTTGATCA----GAAC--T
1 ATAAGGAATTACCAGCTTGATCAGTCTGAACTAT
* **
4845136 ATAAGGAATTATCAG-TTGATTGGTACTGAACCTAT
1 ATAAGGAATTACCAGCTTGATCAGT-CTGAA-CTAT
4845171 ATAAGGAATTACCAGCTTGATCAG
1 ATAAGGAATTACCAGCTTGATCAG
4845195 AACTGAACCT
Statistics
Matches: 69, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
27 5 0.07
28 14 0.20
31 4 0.06
32 3 0.04
33 1 0.01
35 30 0.43
36 12 0.17
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (34 bp):
ATAAGGAATTACCAGCTTGATCAGTCTGAACTAT
Found at i:4845172 original size:63 final size:63
Alignment explanation
Indices: 4845073--4845198 Score: 189
Period size: 63 Copynumber: 2.0 Consensus size: 63
4845063 TCTTAGGTCC
*
4845073 ATAAGGAATTACCAGCTGATCAGTGCTGAACATATATAAGGAATAACCAGCTTGATCAGAACT
1 ATAAGGAATTACCAGCTGATCAGTACTGAACATATATAAGGAATAACCAGCTTGATCAGAACT
* * ** * *
4845136 ATAAGGAATTATCAGTTGATTGGTACTGAACCTATATAAGGAATTACCAGCTTGATCAGAACT
1 ATAAGGAATTACCAGCTGATCAGTACTGAACATATATAAGGAATAACCAGCTTGATCAGAACT
4845199 GAACCTGCAG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (63 bp):
ATAAGGAATTACCAGCTGATCAGTACTGAACATATATAAGGAATAACCAGCTTGATCAGAACT
Found at i:4845200 original size:36 final size:35
Alignment explanation
Indices: 4845135--4845204 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
4845125 TGATCAGAAC
* ** *
4845135 TATAAGGAATTATCAGTTGATTGGTACTGAACCTA
1 TATAAGGAATTACCAGTTGATCAGAACTGAACCTA
4845170 TATAAGGAATTACCAGCTTGATCAGAACTGAACCT
1 TATAAGGAATTACCAG-TTGATCAGAACTGAACCT
4845205 GCAGAGACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 15 0.50
36 15 0.50
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.30
Consensus pattern (35 bp):
TATAAGGAATTACCAGTTGATCAGAACTGAACCTA
Found at i:4846730 original size:27 final size:27
Alignment explanation
Indices: 4846696--4846759 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
4846686 GGTCGATCAT
*
4846696 TTTAATTCCATTCGATCACTCTCGAAC
1 TTTAATTCCATTCGATCACTCTCAAAC
4846723 TTTAATTCCATTCGATCACTCTCAAAC
1 TTTAATTCCATTCGATCACTCTCAAAC
4846750 TTTAATTCCA
1 TTTAATTCCA
4846760 CATCCCATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.28, C:0.28, G:0.05, T:0.39
Consensus pattern (27 bp):
TTTAATTCCATTCGATCACTCTCAAAC
Found at i:4850694 original size:20 final size:20
Alignment explanation
Indices: 4850669--4850709 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
4850659 CTTTCTATTT
4850669 TTTCTATCTA-GTTATTTAAA
1 TTTCTAT-TACGTTATTTAAA
*
4850689 TTTCTATTACTTTATTTAAA
1 TTTCTATTACGTTATTTAAA
4850709 T
1 T
4850710 CCTTTAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTCTATTACGTTATTTAAA
Found at i:4856559 original size:179 final size:181
Alignment explanation
Indices: 4856238--4856601 Score: 563
Period size: 179 Copynumber: 2.0 Consensus size: 181
4856228 ACCTTCAGGC
* * *
4856238 CATCCATAAGACCTCCGGACAGGATGTTTTCAAATGAGATTTTGGAATCTAAGCCTTTTAAGGGT
1 CATCCATAAGACCTCCGGACAAGATGTTTTCAAATGAGATTTTGGAAACTAAGCCTTTTAAGGGG
* * * * *
4856303 TTTTTTAATTATCTCAAAGAGTTGTTAAAGGAAGTTAAGCCTTTTAAGGGGATCCTTGAAAACTA
66 TTTCTTAAATATCTCAAAGAGTTGTTAAAGAAAGTTAAGCCTTCTAAGGGGATCCTTGAAAACCA
4856368 AGAAACTAAGCTTGATTTTCAAGGGTTTCTTGAT-ATTAAATCCTCCGGGT
131 AGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGATTAAATCCTCCGGGT
* ** *
4856418 CATCCATAAGATCTCCGGGTAAGATGTTTTCAAATGAGATTTTGGAAACTAAGCC-TTTCAGGGG
1 CATCCATAAGACCTCCGGACAAGATGTTTTCAAATGAGATTTTGGAAACTAAGCCTTTTAAGGGG
*
4856482 TTTCTTAAATATCTCAAAGAGTTGTTAAAGAAAGTTAAGCCTTCTAA-GGGATTCCTTGACAACC
66 TTTCTTAAATATCTCAAAGAGTTGTTAAAGAAAGTTAAGCCTTCTAAGGGGA-TCCTTGAAAACC
* *
4856546 AAGAAATTAAGCTTGATTTTCAAGGGTTTCTTGATGTTTAAATCCTCCGGGT
130 AAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGATTAAATCCTCCGGGT
4856598 CATC
1 CATC
4856602 TGTAAGCCTT
Statistics
Matches: 167, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
178 4 0.02
179 94 0.56
180 69 0.41
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (181 bp):
CATCCATAAGACCTCCGGACAAGATGTTTTCAAATGAGATTTTGGAAACTAAGCCTTTTAAGGGG
TTTCTTAAATATCTCAAAGAGTTGTTAAAGAAAGTTAAGCCTTCTAAGGGGATCCTTGAAAACCA
AGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGATTAAATCCTCCGGGT
Found at i:4860509 original size:25 final size:25
Alignment explanation
Indices: 4860481--4860533 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
4860471 CATGGAATCT
4860481 TAGAGTTTATGATAAATGATCAACC
1 TAGAGTTTATGATAAATGATCAACC
4860506 TAGAGTTTATGATAAATGATCAACC
1 TAGAGTTTATGATAAATGATCAACC
4860531 TAG
1 TAG
4860534 TTTGGTAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (25 bp):
TAGAGTTTATGATAAATGATCAACC
Found at i:4861249 original size:23 final size:23
Alignment explanation
Indices: 4861215--4861259 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
4861205 TTTTAGTCTT
4861215 AAAATAATTTCAAAACAATTTTAC
1 AAAATAATTTC-AAACAATTTTAC
*
4861239 AAAAT-ATTTCAAACCATTTTA
1 AAAATAATTTCAAACAATTTTA
4861260 AATCCAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 5 0.25
24 5 0.25
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAATAATTTCAAACAATTTTAC
Found at i:4865126 original size:12 final size:12
Alignment explanation
Indices: 4865109--4865133 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4865099 TTATTAATAC
4865109 AAATGACGTTAG
1 AAATGACGTTAG
4865121 AAATGACGTTAG
1 AAATGACGTTAG
4865133 A
1 A
4865134 GAATCATCAT
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:0.44, C:0.08, G:0.24, T:0.24
Consensus pattern (12 bp):
AAATGACGTTAG
Found at i:4867172 original size:23 final size:22
Alignment explanation
Indices: 4867130--4867211 Score: 96
Period size: 23 Copynumber: 3.8 Consensus size: 22
4867120 ATAGGGCAGA
* *
4867130 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATTCCCCCTTGAAG
4867152 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCC-TTGAAG
*
4867175 GGGAACCGATTCCCCCCT--AG
1 GGGAACCGATTCCCCCTTGAAG
* *
4867195 GGGAATCGATACCCCCT
1 GGGAACCGATTCCCCCT
4867212 GGGGTTCTGG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 16 0.30
22 15 0.28
23 22 0.42
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.18
Consensus pattern (22 bp):
GGGAACCGATTCCCCCTTGAAG
Found at i:4869480 original size:16 final size:17
Alignment explanation
Indices: 4869446--4869480 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
4869436 TTAACAAAAG
4869446 GGGGAGAAGTGTTTTAAA
1 GGGGAGAAGTG-TTTAAA
4869464 GGGGAGAAGTG-TTAAA
1 GGGGAGAAGTGTTTAAA
4869480 G
1 G
4869481 TAAGGGGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
18 11 0.65
ACGTcount: A:0.34, C:0.00, G:0.43, T:0.23
Consensus pattern (17 bp):
GGGGAGAAGTGTTTAAA
Found at i:4872773 original size:58 final size:58
Alignment explanation
Indices: 4872661--4872773 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 58
4872651 AACAAGAACG
* * * * * *
4872661 ATCAAAGAATCTTTGCATTTTCTAATTCTCCCAAAGATGTTTTTCTTTCAGTCTAGCT
1 ATCAAAGAATCTCTGCATTTCCTAATGCTCCCAAAGATGTTTCTATTCCAGTCTAGCT
*
4872719 ATCAAAGAATCTCTGCATTTCCTAATGCTCCCAAAGATGTTTCTATTCCGGTCTA
1 ATCAAAGAATCTCTGCATTTCCTAATGCTCCCAAAGATGTTTCTATTCCAGTCTA
4872774 AGAGTTTTGG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 48 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.39
Consensus pattern (58 bp):
ATCAAAGAATCTCTGCATTTCCTAATGCTCCCAAAGATGTTTCTATTCCAGTCTAGCT
Found at i:4878992 original size:26 final size:22
Alignment explanation
Indices: 4878965--4879162 Score: 124
Period size: 22 Copynumber: 8.6 Consensus size: 22
4878955 ATAATACAAT
*
4878965 ATATATATTATGTAGTTTTGAAA
1 ATATATA-TATATAGTTTTGAAA
4878988 A-ATATATAATATAGTTTTGAAA
1 ATATATAT-ATATAGTTTTGAAA
* *
4879010 ACATAT-TATATAGTTTTAAAA
1 ATATATATATATAGTTTTGAAA
4879031 ATATAAAATATATATAGGTTTTG-AA
1 ATAT---ATATATATA-GTTTTGAAA
4879056 A-ATATATA-AT--TTTTGAAAA
1 ATATATATATATAGTTTTG-AAA
*
4879075 CATATATAATATATATTTTTTTGAAA
1 -ATATAT-ATATATA--GTTTTGAAA
*
4879101 ACATAT-TATATAGTTTTTGAAA
1 ATATATATATATAG-TTTTGAAA
* *
4879123 ATATAATGTATATTAAAGTTTTTTAAA
1 ATAT-A--TATA-TATAG-TTTTGAAA
4879150 ATATATATATATA
1 ATATATATATATA
4879163 TATTTAGTTA
Statistics
Matches: 142, Mismatches: 10, Indels: 46
0.72 0.05 0.23
Matches are distributed among these distances:
17 5 0.04
19 2 0.01
20 3 0.02
21 26 0.18
22 34 0.24
23 17 0.12
24 8 0.06
25 15 0.11
26 11 0.08
27 21 0.15
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.45
Consensus pattern (22 bp):
ATATATATATATAGTTTTGAAA
Found at i:4879015 original size:21 final size:21
Alignment explanation
Indices: 4878977--4879123 Score: 86
Period size: 21 Copynumber: 6.6 Consensus size: 21
4878967 ATATATTATG
*
4878977 TAGTTTTGAAAAATATATAATA
1 TAGTTTTG-AAAACATATAATA
*
4878999 TAGTTTTGAAAACATATTATA
1 TAGTTTTGAAAACATATAATA
* *
4879020 TAGTTTTAAAAATATAAAATATATA
1 TAGTTTTGAAAACAT---ATA-ATA
4879045 TAGGTTTTG-AAA-ATAT-ATA
1 TA-GTTTTGAAAACATATAATA
*
4879064 -ATTTTTGAAAACATATATAATATA
1 TAGTTTTGAAAAC--ATAT-A-ATA
* *
4879088 TATTTTTTTGAAAACATATTATA
1 TA--GTTTTGAAAACATATAATA
4879111 TAGTTTTTGAAAA
1 TAG-TTTTGAAAA
4879124 TATAATGTAT
Statistics
Matches: 100, Mismatches: 9, Indels: 32
0.71 0.06 0.23
Matches are distributed among these distances:
17 5 0.05
18 4 0.04
19 3 0.03
21 30 0.30
22 17 0.17
23 5 0.05
24 7 0.07
25 13 0.13
26 5 0.05
27 11 0.11
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (21 bp):
TAGTTTTGAAAACATATAATA
Found at i:4879059 original size:19 final size:18
Alignment explanation
Indices: 4879035--4879082 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
4879025 TTAAAAATAT
4879035 AAAATATATATAGGTTTTG
1 AAAATATATATA-GTTTTG
*
4879054 AAAATATATA-ATTTTTG
1 AAAATATATATAGTTTTG
*
4879071 AAAACATATATA
1 AAAATATATATA
4879083 ATATATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 14 0.54
18 2 0.08
19 10 0.38
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (18 bp):
AAAATATATATAGTTTTG
Found at i:4879103 original size:27 final size:26
Alignment explanation
Indices: 4879056--4879106 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
4879046 AGGTTTTGAA
4879056 AATATATAATTTTTGAAAACATATAT
1 AATATATAATTTTTGAAAACATATAT
*
4879082 AATATATATTTTTTTGAAAACATAT
1 AATATATA-ATTTTTGAAAACATAT
4879107 TATATAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (26 bp):
AATATATAATTTTTGAAAACATATAT
Found at i:4879127 original size:45 final size:44
Alignment explanation
Indices: 4878969--4879136 Score: 150
Period size: 45 Copynumber: 3.8 Consensus size: 44
4878959 TACAATATAT
* *
4878969 ATATTATGTAGTTTTGAAAA-AT-ATATAATATAGTTTTGAAAAC
1 ATATTATATAGTTTTGAAAATATAATAT-ATATTGTTTTGAAAAC
* *
4879012 ATATTATATAGTTTTAAAAATATAAAATATATATAGGTTTTG-AAA-
1 ATATTATATAGTTTTGAAAATAT--AATATATAT-TGTTTTGAAAAC
* *
4879057 ATA-TATA-ATTTTTGAAAACATATATAATATATATTTTTTTGAAAAC
1 ATATTATATAGTTTTG--AA-A-ATATAATATATATTGTTTTGAAAAC
*
4879103 ATATTATATAGTTTTTGAAAATATAATGTATATT
1 ATATTATATAG-TTTTGAAAATATAATATATATT
4879137 AAAGTTTTTT
Statistics
Matches: 102, Mismatches: 9, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
43 23 0.23
44 11 0.11
45 30 0.29
46 12 0.12
47 20 0.20
48 1 0.01
49 5 0.05
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (44 bp):
ATATTATATAGTTTTGAAAATATAATATATATTGTTTTGAAAAC
Found at i:4879135 original size:47 final size:46
Alignment explanation
Indices: 4878969--4879162 Score: 177
Period size: 43 Copynumber: 4.2 Consensus size: 46
4878959 TACAATATAT
*
4878969 ATATTATGTAGTTTTGAAAA-AT-ATATA-ATATAGTTTTGAAAAC
1 ATATTATATAGTTTTGAAAATATAATATATATATAGTTTTGAAAAC
* *
4879012 ATATTATATAGTTTTAAAAATATAAAATATATATAGGTTTTG-AAA-
1 ATATTATATAGTTTTGAAAATATAATATATATATA-GTTTTGAAAAC
* * **
4879057 ATA-TATA-ATTTTTGAAAACATATATAATATATATTTTTTTGAAAAC
1 ATATTATATAGTTTTGAAAATATA-AT-ATATATATAGTTTTGAAAAC
* * * *
4879103 ATATTATATAGTTTTTGAAAATATAATGTATATTAAAGTTTTTTAAAAT
1 ATATTATATAG-TTTTGAAAATATAATATATA-TATAG-TTTTGAAAAC
4879152 ATATATATATA
1 ATAT-TATATA
4879163 TATTTAGTTA
Statistics
Matches: 120, Mismatches: 17, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
43 30 0.25
44 12 0.10
45 18 0.15
46 11 0.09
47 14 0.12
48 5 0.04
49 24 0.20
50 6 0.05
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.45
Consensus pattern (46 bp):
ATATTATATAGTTTTGAAAATATAATATATATATAGTTTTGAAAAC
Found at i:4879144 original size:27 final size:30
Alignment explanation
Indices: 4879103--4879171 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 30
4879093 TTTTGAAAAC
*
4879103 ATATTATATAGTTTTTGAAAATATA-ATGT
1 ATATTATATAGTTTTTGAAAATATATATAT
*
4879132 ATATTA-A-AGTTTTTTAAAATATATATAT
1 ATATTATATAGTTTTTGAAAATATATATAT
*
4879160 ATA-TATTTAGTT
1 ATATTATATAGTT
4879172 ATATATTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 17 0.50
28 7 0.21
29 10 0.29
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (30 bp):
ATATTATATAGTTTTTGAAAATATATATAT
Found at i:4886014 original size:143 final size:144
Alignment explanation
Indices: 4885794--4886075 Score: 379
Period size: 143 Copynumber: 2.0 Consensus size: 144
4885784 AGCCTACATG
* * * ** *
4885794 TAGGCTAGGGATATAATTTTTCGATGCATGTAAAATTCTAGTTCTTATCCTGAAACTCTCGAGTA
1 TAGGCTAAGGATATAAGTTTTCAATGCACATAAAATTCTAGTTCTTATCCAGAAACTCTCGAGTA
* * * *
4885859 TTCAAGATAGGCTAGGGATGTAAGTTTTTTATGTACGTAAAATTTCAGTTCTTACCCCAAAACTC
66 TTCAAGATAGGCTAAGGATGTAAGTTTTTTATGAACATAAAATTTCAGTTCTTACCCCAAAACTA
*
4885924 TCGAGTATTTAAGA
131 TCAAGTATTTAAGA
* * *
4885938 TAGGCTAAGGATGTAAGTTTTCAATGCACATAAAATT-TCGTTTCTTA-CCAGAAACTCTCTAGT
1 TAGGCTAAGGATATAAGTTTTCAATGCACATAAAATTCTAG-TTCTTATCCAGAAACTCTCGAGT
* * * *
4886001 ATTTAAGATAGGCTAAGGATGTAAGTTTTTTATGAACATAAAATTTCGGTTTTTACCCCAAGACT
65 ATTCAAGATAGGCTAAGGATGTAAGTTTTTTATGAACATAAAATTTCAGTTCTTACCCCAAAACT
4886066 ATCAAGTATT
130 ATCAAGTATT
4886076 CAAGGTGGGC
Statistics
Matches: 119, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
143 82 0.69
144 37 0.31
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (144 bp):
TAGGCTAAGGATATAAGTTTTCAATGCACATAAAATTCTAGTTCTTATCCAGAAACTCTCGAGTA
TTCAAGATAGGCTAAGGATGTAAGTTTTTTATGAACATAAAATTTCAGTTCTTACCCCAAAACTA
TCAAGTATTTAAGA
Found at i:4886019 original size:71 final size:72
Alignment explanation
Indices: 4885794--4886058 Score: 304
Period size: 72 Copynumber: 3.7 Consensus size: 72
4885784 AGCCTACATG
* * * * ** * *
4885794 TAGGCTAGGGATATAATTTTTCGATGCATGTAAAA-TTCTAGTTCTTATCCTGAAACTCTCGAGT
1 TAGGCTAAGGATGTAAGTTTTCTATGCACATAAAATTTC-AGTTCTTACCCAGAAACTCTCGAGT
*
4885858 ATTCAAGA
65 ATTTAAGA
* * * *
4885866 TAGGCTAGGGATGTAAGTTTTTTATGTACGTAAAATTTCAGTTCTTACCCCA-AAACTCTCGAGT
1 TAGGCTAAGGATGTAAGTTTTCTATGCACATAAAATTTCAGTTCTTA-CCCAGAAACTCTCGAGT
4885930 ATTTAAGA
65 ATTTAAGA
* *
4885938 TAGGCTAAGGATGTAAGTTTTCAATGCACATAAAATTTC-GTTTCTTA-CCAGAAACTCTCTAGT
1 TAGGCTAAGGATGTAAGTTTTCTATGCACATAAAATTTCAG-TTCTTACCCAGAAACTCTCGAGT
4886001 ATTTAAGA
65 ATTTAAGA
* * * *
4886009 TAGGCTAAGGATGTAAGTTTTTTATGAACATAAAATTTCGGTTTTTACCC
1 TAGGCTAAGGATGTAAGTTTTCTATGCACATAAAATTTCAGTTCTTACCC
4886059 CAAGACTATC
Statistics
Matches: 168, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
70 3 0.02
71 61 0.36
72 99 0.59
73 5 0.03
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (72 bp):
TAGGCTAAGGATGTAAGTTTTCTATGCACATAAAATTTCAGTTCTTACCCAGAAACTCTCGAGTA
TTTAAGA
Found at i:4887249 original size:21 final size:21
Alignment explanation
Indices: 4887223--4887272 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
4887213 GCATTTGACT
*
4887223 CCATTTGTTGTAACAATTCCG
1 CCATTTGTTGTAACAATTCCA
4887244 CCATTTGTTGTAACAATTCCA
1 CCATTTGTTGTAACAATTCCA
*
4887265 CAATTTGT
1 CCATTTGT
4887273 CGGGTGTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (21 bp):
CCATTTGTTGTAACAATTCCA
Found at i:4888602 original size:14 final size:14
Alignment explanation
Indices: 4888583--4888612 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4888573 AAAATCGGAC
4888583 AACAGATTCTGCAA
1 AACAGATTCTGCAA
4888597 AACAGATTCTGCAA
1 AACAGATTCTGCAA
4888611 AA
1 AA
4888613 TAAATTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (14 bp):
AACAGATTCTGCAA
Found at i:4889844 original size:48 final size:45
Alignment explanation
Indices: 4889741--4889956 Score: 242
Period size: 48 Copynumber: 4.8 Consensus size: 45
4889731 GTAAGTATGC
* *
4889741 AAATAAGCTTACGAGCTTAT-GAAT-AATGGCAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAATATATTGATA
* * *
4889784 AAATAATCTTACGAGCTTATGGAATTTAAATGGTAAATATTTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAATA-TATTGATA
* *
4889832 AAATAAGCTTACGAGCTTAT-GAAT-AATGGCAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAATATATTGATA
* * * *
4889875 AAATAAGATAACGAGCTTATGGAATTTAAATGGTAAATATTTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAATA-TATTGATA
*
4889923 AAATAAGCTTACGAGCTTATGGGATAAATGGTAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAA
4889957 GAGATTTTAT
Statistics
Matches: 144, Mismatches: 19, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
43 43 0.30
44 15 0.10
45 1 0.01
46 12 0.08
47 21 0.15
48 52 0.36
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAATATATTGATA
Found at i:4889896 original size:91 final size:91
Alignment explanation
Indices: 4889741--4889943 Score: 379
Period size: 91 Copynumber: 2.2 Consensus size: 91
4889731 GTAAGTATGC
** *
4889741 AAATAAGCTTACGAGCTTATGAATAATGGCAAGTATATTGATAAAATAATCTTACGAGCTTATGG
1 AAATAAGCTTACGAGCTTATGAATAATGGCAAGTATATTGATAAAATAAGATAACGAGCTTATGG
4889806 AATTTAAATGGTAAATATTTTTGGTA
66 AATTTAAATGGTAAATATTTTTGGTA
4889832 AAATAAGCTTACGAGCTTATGAATAATGGCAAGTATATTGATAAAATAAGATAACGAGCTTATGG
1 AAATAAGCTTACGAGCTTATGAATAATGGCAAGTATATTGATAAAATAAGATAACGAGCTTATGG
4889897 AATTTAAATGGTAAATATTTTTGGTA
66 AATTTAAATGGTAAATATTTTTGGTA
4889923 AAATAAGCTTACGAGCTTATG
1 AAATAAGCTTACGAGCTTATG
4889944 GGATAAATGG
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 109 1.00
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.33
Consensus pattern (91 bp):
AAATAAGCTTACGAGCTTATGAATAATGGCAAGTATATTGATAAAATAAGATAACGAGCTTATGG
AATTTAAATGGTAAATATTTTTGGTA
Found at i:4896799 original size:48 final size:46
Alignment explanation
Indices: 4896692--4896907 Score: 237
Period size: 48 Copynumber: 4.7 Consensus size: 46
4896682 GTAAGTATGC
** * * *
4896692 AAATAAGCTTACGAGCTTAT-GAAT-AATGACAAGTA-TATTGATA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAATATTTTTGGTA
*
4896735 AAATAATCTTACGAGCTTATGGAATTTAAATGGTAAATATTTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAATATTTTTGGTA
* * * * * *
4896783 AAATAAGCTTATGAGCTTA-AGAAT-AATGGCAAGTA-TATTGATA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAATATTTTTGGTA
4896826 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAATATTTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAATATTTTTGGTA
*
4896874 AAATAAGCTTACGAGCTTATGGGATAAATGGTAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAA
4896908 GAGATTTTAT
Statistics
Matches: 143, Mismatches: 20, Indels: 17
0.79 0.11 0.09
Matches are distributed among these distances:
43 43 0.30
44 15 0.10
45 1 0.01
46 12 0.08
47 20 0.14
48 52 0.36
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAATATTTTTGGTA
Found at i:4896847 original size:91 final size:91
Alignment explanation
Indices: 4896692--4896892 Score: 366
Period size: 91 Copynumber: 2.2 Consensus size: 91
4896682 GTAAGTATGC
* *
4896692 AAATAAGCTTACGAGCTTATGAATAATGACAAGTATATTGATAAAATAATCTTACGAGCTTATGG
1 AAATAAGCTTACGAGCTTAAGAATAATGACAAGTATATTGATAAAATAAGCTTACGAGCTTATGG
4896757 AATTTAAATGGTAAATATTTTTGGTA
66 AATTTAAATGGTAAATATTTTTGGTA
* *
4896783 AAATAAGCTTATGAGCTTAAGAATAATGGCAAGTATATTGATAAAATAAGCTTACGAGCTTATGG
1 AAATAAGCTTACGAGCTTAAGAATAATGACAAGTATATTGATAAAATAAGCTTACGAGCTTATGG
4896848 AATTTAAATGGTAAATATTTTTGGTA
66 AATTTAAATGGTAAATATTTTTGGTA
4896874 AAATAAGCTTACGAGCTTA
1 AAATAAGCTTACGAGCTTA
4896893 TGGGATAAAT
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 105 1.00
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (91 bp):
AAATAAGCTTACGAGCTTAAGAATAATGACAAGTATATTGATAAAATAAGCTTACGAGCTTATGG
AATTTAAATGGTAAATATTTTTGGTA
Found at i:4898135 original size:16 final size:17
Alignment explanation
Indices: 4898104--4898137 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4898094 CAGTGGAGTG
*
4898104 TTAATAAAAATTAAATT
1 TTAATAAAAATCAAATT
4898121 TTAATAAAAA-CAAATT
1 TTAATAAAAATCAAATT
4898137 T
1 T
4898138 ATCAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAATAAAAATCAAATT
Found at i:4901435 original size:18 final size:19
Alignment explanation
Indices: 4901412--4901462 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 19
4901402 GTAGACCTCG
4901412 AGAAGAATGAT-GAGAAAA
1 AGAAGAATGATGGAGAAAA
4901430 AGAAGAA-GATGGAGAAAA
1 AGAAGAATGATGGAGAAAA
* *
4901448 AGGAGAATGTTGGAG
1 AGAAGAATGATGGAG
4901463 TTGCTCTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 3 0.10
18 20 0.69
19 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (19 bp):
AGAAGAATGATGGAGAAAA
Found at i:4911648 original size:17 final size:17
Alignment explanation
Indices: 4911626--4911659 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4911616 CTCTGATACC
4911626 AATAAAGTAAGGGGGAG
1 AATAAAGTAAGGGGGAG
4911643 AATAAAGTAAGGGGGAG
1 AATAAAGTAAGGGGGAG
4911660 TAATTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.41, T:0.12
Consensus pattern (17 bp):
AATAAAGTAAGGGGGAG
Found at i:4912916 original size:2 final size:2
Alignment explanation
Indices: 4912909--4912947 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4912899 AATTAATTAG
4912909 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4912948 GTGTGTGTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4912952 original size:2 final size:2
Alignment explanation
Indices: 4912947--4912976 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4912937 TATATATATA
4912947 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
4912977 CGCGCGCGCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:4913021 original size:16 final size:16
Alignment explanation
Indices: 4912992--4913028 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4912982 GCGCGCGCGC
* *
4912992 GCGTGTGTATGTGCGT
1 GCGTGCGTACGTGCGT
4913008 GCGTGCGTACGTGCGT
1 GCGTGCGTACGTGCGT
4913024 GCGTG
1 GCGTG
4913029 TGTGTGTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.05, C:0.19, G:0.46, T:0.30
Consensus pattern (16 bp):
GCGTGCGTACGTGCGT
Found at i:4913218 original size:2 final size:2
Alignment explanation
Indices: 4913213--4913237 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4913203 TTTTAATGAT
4913213 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 T
4913238 GAAATCATTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4919549 original size:14 final size:14
Alignment explanation
Indices: 4919525--4919563 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
4919515 TTTCTGTCTA
*
4919525 TTGCAGAGATTT-T
1 TTGCAGGGATTTAT
4919538 TATGCAGGGATTTAT
1 T-TGCAGGGATTTAT
4919553 TTGCAGGGATT
1 TTGCAGGGATT
4919564 ACTTCCCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 1 0.04
14 20 0.87
15 2 0.09
ACGTcount: A:0.23, C:0.08, G:0.28, T:0.41
Consensus pattern (14 bp):
TTGCAGGGATTTAT
Found at i:4923577 original size:2 final size:2
Alignment explanation
Indices: 4923570--4923601 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4923560 TTGAATAAAA
4923570 TC TC TC TC TC TC TC T- TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4923602 ATATATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:4923590 original size:15 final size:15
Alignment explanation
Indices: 4923570--4923599 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4923560 TTGAATAAAA
4923570 TCTCTCTCTCTCTCT
1 TCTCTCTCTCTCTCT
4923585 TCTCTCTCTCTCTCT
1 TCTCTCTCTCTCTCT
4923600 CTATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (15 bp):
TCTCTCTCTCTCTCT
Found at i:4923906 original size:95 final size:95
Alignment explanation
Indices: 4923738--4923925 Score: 277
Period size: 95 Copynumber: 2.0 Consensus size: 95
4923728 AAGGACTTAA
* * **
4923738 AATAGAAGTAATATCCTATATAATTATTAGGATTTGTTTTTACAATCTAAAACTCTATTAGTTTT
1 AATAAAAGTAATATCCTATATAATTATTAGGATTTATTTACACAATCTAAAACTCTATTAGTTTT
* * * *
4923803 ATATATTTTTAGGATTGTTGGATTGAGAAC
66 ACACATTTTTAAGATTGTTAGATTGAGAAC
** *
4923833 AATAAAAGTAATATCCTATATAATTATTAGGATTTATTTACACTGTCTAAAACTCTTTTAGTTTT
1 AATAAAAGTAATATCCTATATAATTATTAGGATTTATTTACACAATCTAAAACTCTATTAGTTTT
4923898 ACACATTTTTAAGATTGTTAGATTGAGA
66 ACACATTTTTAAGATTGTTAGATTGAGA
4923926 GAAATCAAAG
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 82 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.44
Consensus pattern (95 bp):
AATAAAAGTAATATCCTATATAATTATTAGGATTTATTTACACAATCTAAAACTCTATTAGTTTT
ACACATTTTTAAGATTGTTAGATTGAGAAC
Found at i:4927084 original size:13 final size:13
Alignment explanation
Indices: 4927066--4927091 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4927056 AACATGAACA
4927066 ATGATAAAATTAT
1 ATGATAAAATTAT
4927079 ATGATAAAATTAT
1 ATGATAAAATTAT
4927092 TTTTTTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
ATGATAAAATTAT
Found at i:4927532 original size:36 final size:36
Alignment explanation
Indices: 4927490--4927602 Score: 97
Period size: 36 Copynumber: 3.1 Consensus size: 36
4927480 AGTGAAACTT
4927490 TCTCAAGCGAGAAAAAGTTTGTTTTAAGAAAAATAA
1 TCTCAAGCGAGAAAAAGTTTGTTTTAAGAAAAATAA
* * * * *
4927526 TCTCAAGTGAGATAAA--TTGCTATTTCAAGTGAAACT-T
1 TCTCAAGCGAGAAAAAGTTTG-T-TTT-AAG-AAAAATAA
** *
4927563 TCTCAAGCGAGAAGCAGTTTGTTTTAAGAAAAACAA
1 TCTCAAGCGAGAAAAAGTTTGTTTTAAGAAAAATAA
4927599 TCTC
1 TCTC
4927603 GAGTGAGATA
Statistics
Matches: 57, Mismatches: 13, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
34 3 0.05
35 4 0.07
36 24 0.42
37 18 0.32
38 5 0.09
39 3 0.05
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (36 bp):
TCTCAAGCGAGAAAAAGTTTGTTTTAAGAAAAATAA
Found at i:4927557 original size:73 final size:73
Alignment explanation
Indices: 4927436--4927761 Score: 501
Period size: 73 Copynumber: 4.5 Consensus size: 73
4927426 TATCTGGAAA
**
4927436 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTTGAGTGAAACTTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGCGAG
4927501 AAAAAGTT
66 AAAAAGTT
*
4927509 TGTTTTAAGAAAAATAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGCGAG
**
4927574 AAGCAGTT
66 AAAAAGTT
*
4927582 TGTTTTAAGAAAAACAATCTCGAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGCGAG
**
4927647 AAGTAGTT
66 AAAAAGTT
* * * *
4927655 TGTTTTAAGAATAACAATCTCGAGTGAGATAAATTTCTATTTCAAGTGAAACTTTCTCCAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGCGAG
*
4927720 AAACAA-AT
66 AAA-AAGTT
* *
4927728 TGTTTTAAGAAAAAAAATATCAAGTGAGATAAAT
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT
4927762 CTTTACTTTG
Statistics
Matches: 234, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
73 233 1.00
74 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (73 bp):
TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGCGAG
AAAAAGTT
Found at i:4929163 original size:23 final size:24
Alignment explanation
Indices: 4929119--4929168 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
4929109 GATATGAGCC
4929119 TTCAAAATGCCTCAACACGATC-T
1 TTCAAAATGCCTCAACACGATCAT
*
4929142 TTCAAAATGCC-CTACACGGATCAT
1 TTCAAAATGCCTCAACAC-GATCAT
4929166 TTC
1 TTC
4929169 TGTCTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 5 0.21
23 15 0.62
24 4 0.17
ACGTcount: A:0.32, C:0.30, G:0.10, T:0.28
Consensus pattern (24 bp):
TTCAAAATGCCTCAACACGATCAT
Found at i:4929323 original size:52 final size:51
Alignment explanation
Indices: 4929241--4929488 Score: 309
Period size: 52 Copynumber: 4.8 Consensus size: 51
4929231 ATATCCCAAC
* * * * *
4929241 CTTTTCATGCTGGTGTGATCCTTCAAGATGCCCCACGTGGATTATTTCTGT
1 CTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCTAT
* * *
4929292 CTTTATCATGGTGATGTGAGCCTTCAAGATGCCCCACATGAATTACTTCTGT
1 CTTT-TCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCTAT
* * *
4929344 CTTTTTCATGCTGATATGAGCCTTCAAGATGTCCCAGATGGATTACTTCTAT
1 C-TTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCTAT
* * *
4929396 CTTTTTCATGCTGATGTAAGCCTTCAAAATACCCCACATGGATTACTTCTAT
1 C-TTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCTAT
* **
4929448 CTTTTCATGCTGACGTGAGCCTTCAAG-TTACCCACATGGAT
1 CTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGAT
4929489 AATATGGACC
Statistics
Matches: 172, Mismatches: 23, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
50 12 0.07
51 27 0.16
52 130 0.76
53 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (51 bp):
CTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCTAT
Found at i:4930984 original size:5 final size:5
Alignment explanation
Indices: 4930974--4931088 Score: 80
Period size: 5 Copynumber: 23.2 Consensus size: 5
4930964 GATTCAATTT
* **
4930974 TTTTC TTTTC TTTTC TTTTC TTTCTC TTTTC TCTT- TTCCC TTTT- TTCTT-
1 TTTTC TTTTC TTTTC TTTTC TTT-TC TTTTC TTTTC TTTTC TTTTC TT-TTC
* *
4931023 TTTTC TTTTTC TTTTTC TTTTTC TTTTC TTTT- TTTTC -CTTA TTTTC
1 TTTTC -TTTTC -TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
* *
4931069 TCTTA TTTTC TTTT- TTTTC T
1 TTTTC TTTTC TTTTC TTTTC T
4931089 CTGATGGATG
Statistics
Matches: 88, Mismatches: 14, Indels: 16
0.75 0.12 0.14
Matches are distributed among these distances:
4 15 0.17
5 51 0.58
6 22 0.25
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:4931006 original size:7 final size:7
Alignment explanation
Indices: 4930972--4931055 Score: 70
Period size: 7 Copynumber: 12.6 Consensus size: 7
4930962 TTGATTCAAT
*
4930972 TTTTTTC
1 TTTTCTC
*
4930979 TTTTCTT
1 TTTTCTC
*
4930986 TTCTTTTC
1 TT-TTCTC
4930994 -TTTCTC
1 TTTTCTC
4931000 TTTTCTC
1 TTTTCTC
*
4931007 TTTTCCC
1 TTTTCTC
*
4931014 TTTTTTC
1 TTTTCTC
*
4931021 TTTTTTC
1 TTTTCTC
4931028 TTTT-TC
1 TTTTCTC
4931034 TTTT-TC
1 TTTTCTC
4931040 TTTT-TC
1 TTTTCTC
4931046 TTTTCT-
1 TTTTCTC
4931052 TTTT
1 TTTT
4931056 TTTCCTTATT
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
6 26 0.39
7 37 0.56
8 3 0.05
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTCTC
Found at i:4931008 original size:28 final size:26
Alignment explanation
Indices: 4930971--4931090 Score: 100
Period size: 28 Copynumber: 4.4 Consensus size: 26
4930961 CTTGATTCAA
4930971 TTTTTT-TCTTTTCTTTTCTTTTCTT
1 TTTTTTCTCTTTTCTTTTCTTTTCTT
**
4930996 TCTCTTTTCTCTTTTCCCTT-TTTTCTTT
1 T-T-TTTTCTCTTTTCTTTTCTTTTC-TT
*
4931024 TTTCTTTTTCTTTTTCTTTTTCTTTTCTT
1 TTT-TTTCTC-TTTTC-TTTTCTTTTCTT
* * *
4931053 TTTTTTCCTTATTTTCTCTTATTTTCTT
1 TTTTTT-C-TCTTTTCTTTTCTTTTCTT
4931081 TTTTTTCTCT
1 TTTTTTCTCT
4931091 GATGGATGAG
Statistics
Matches: 75, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
25 1 0.01
26 4 0.05
27 16 0.21
28 36 0.48
29 12 0.16
30 6 0.08
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (26 bp):
TTTTTTCTCTTTTCTTTTCTTTTCTT
Found at i:4931020 original size:23 final size:23
Alignment explanation
Indices: 4930971--4931082 Score: 72
Period size: 23 Copynumber: 4.9 Consensus size: 23
4930961 CTTGATTCAA
*
4930971 TTTTTT-TC-TTT-TCTTTT-CT
1 TTTTTTCTCTTTTCTCTTTTCCC
4930990 TTTCTTTCTCTTTTCTCTTTTCCC
1 TTT-TTTCTCTTTTCTCTTTTCCC
* **
4931014 TTTTTTCTTTTTTCT-TTTTCTT
1 TTTTTTCTCTTTTCTCTTTTCCC
* * *
4931036 TTTCTTTTTCTTTTCTTTTTTTTCC
1 TTT-TTTCTCTTTTC-TCTTTTCCC
*
4931061 TTATTTTCTCTTATTTTCTTTT
1 TT-TTTTCTCTT-TTCTCTTTT
4931083 TTTTCTCTGA
Statistics
Matches: 71, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
19 3 0.04
20 3 0.04
21 2 0.03
22 11 0.15
23 26 0.37
24 5 0.07
25 18 0.25
26 3 0.04
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTTTCTCTTTTCTCTTTTCCC
Found at i:4931031 original size:6 final size:6
Alignment explanation
Indices: 4930973--4931055 Score: 84
Period size: 6 Copynumber: 13.8 Consensus size: 6
4930963 TGATTCAATT
* *
4930973 TTTTTC -TTTTC -TTTTC -TTTTC TTTCTC TTTTCTC TTTTCCC TTTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT-TC TTTT-TC -TTTTTC
4931021 TTTTTTC TTTTTC TTTTTC TTTTTC -TTTTC TTTTT
1 -TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
4931056 TTTCCTTATT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
5 20 0.29
6 29 0.42
7 16 0.23
8 4 0.06
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:4931067 original size:11 final size:10
Alignment explanation
Indices: 4931046--4931090 Score: 51
Period size: 9 Copynumber: 4.8 Consensus size: 10
4931036 TTTCTTTTTC
*
4931046 TTTTCT-TTT
1 TTTTCTCTTA
4931055 TTTTC-CTTA
1 TTTTCTCTTA
4931064 TTTTCTCTTA
1 TTTTCTCTTA
*
4931074 TTTTCT-TTT
1 TTTTCTCTTA
4931083 TTTTCTCT
1 TTTTCTCT
4931091 GATGGATGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 20 0.65
10 11 0.35
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTCTCTTA
Found at i:4931084 original size:46 final size:46
Alignment explanation
Indices: 4930971--4931085 Score: 112
Period size: 47 Copynumber: 2.5 Consensus size: 46
4930961 CTTGATTCAA
*
4930971 TTTTTT-TCTTTTCTTT-TC-TTTTCTTTCTCTTTTCTCTTTTCCC
1 TTTTTTCTCTTATCTTTCTCTTTTTCTTTCTCTTTTCTCTTTTCCC
* * * * * *
4931014 TTTTTTCTTTTTTCTTTTTCTTTTTCTTTTTCTTTTCTTTTTTTTCC
1 TTTTTTCTCTTATCTTTCTCTTTTTCTTTCTCTTTTC-TCTTTTCCC
*
4931061 TTATTTTCTCTTAT-TTTCTTTTTTT
1 TT-TTTTCTCTTATCTTTCTCTTTTT
4931086 TCTCTGATGG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
43 6 0.10
44 9 0.15
45 2 0.03
46 15 0.25
47 18 0.31
48 9 0.15
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (46 bp):
TTTTTTCTCTTATCTTTCTCTTTTTCTTTCTCTTTTCTCTTTTCCC
Found at i:4933847 original size:42 final size:42
Alignment explanation
Indices: 4933788--4933868 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
4933778 ATTTGGTCAA
*
4933788 TTGTTCCTTTAAATCATCTTGAAACTTTTTTGCTTGATCCAT
1 TTGTTCCTTTAAATCATCCTGAAACTTTTTTGCTTGATCCAT
*
4933830 TTGTTCCTTTGAATCATCCTGAAACTTTTTTGCTTGATC
1 TTGTTCCTTTAAATCATCCTGAAACTTTTTTGCTTGATC
4933869 GATCATCTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.49
Consensus pattern (42 bp):
TTGTTCCTTTAAATCATCCTGAAACTTTTTTGCTTGATCCAT
Found at i:4934197 original size:20 final size:20
Alignment explanation
Indices: 4934160--4934198 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4934150 ACAAACGTAA
*
4934160 AAATGCAAAGATGCGAATGC
1 AAATGCAAAGATACGAATGC
*
4934180 AAATGCAAAGATATGAATG
1 AAATGCAAAGATACGAATG
4934199 TAAAATGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.23, T:0.18
Consensus pattern (20 bp):
AAATGCAAAGATACGAATGC
Found at i:4937474 original size:16 final size:16
Alignment explanation
Indices: 4937450--4937486 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4937440 AATTCAAATA
*
4937450 AATTAGAATATGTATG
1 AATTGGAATATGTATG
*
4937466 AATTGGAATCTGTATG
1 AATTGGAATATGTATG
4937482 AATTG
1 AATTG
4937487 AAATCTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.38
Consensus pattern (16 bp):
AATTGGAATATGTATG
Found at i:4937491 original size:16 final size:16
Alignment explanation
Indices: 4937460--4937492 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4937450 AATTAGAATA
*
4937460 TGTATGAATTGGAATC
1 TGTATGAATTGAAATC
4937476 TGTATGAATTGAAATC
1 TGTATGAATTGAAATC
4937492 T
1 T
4937493 AATTTCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.39
Consensus pattern (16 bp):
TGTATGAATTGAAATC
Found at i:4938158 original size:37 final size:38
Alignment explanation
Indices: 4938073--4938160 Score: 142
Period size: 39 Copynumber: 2.3 Consensus size: 38
4938063 CCTAAACCCG
*
4938073 AACCCGACCCGACTTGACCCGAATATCACACTTAAAAAA
1 AACCCGACCCGACTCGACCCGAATATCACACTT-AAAAA
*
4938112 AACCCGACCCGGCTCGACCCGAATATCACACTT-AAAA
1 AACCCGACCCGACTCGACCCGAATATCACACTTAAAAA
4938149 AACCCGACCCGA
1 AACCCGACCCGA
4938161 ACAAAATAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
37 15 0.33
39 31 0.67
ACGTcount: A:0.38, C:0.38, G:0.12, T:0.12
Consensus pattern (38 bp):
AACCCGACCCGACTCGACCCGAATATCACACTTAAAAA
Found at i:4938404 original size:37 final size:38
Alignment explanation
Indices: 4938320--4938404 Score: 129
Period size: 38 Copynumber: 2.3 Consensus size: 38
4938310 CCTAAACCCG
4938320 AACCCGACCCGCTCCGACCCAAATATCACACTTAAAAA
1 AACCCGACCCGCTCCGACCCAAATATCACACTTAAAAA
**
4938358 AACCCGACCCGACT-CGACCTGAATATCACACTT-AAAA
1 AACCCGACCCG-CTCCGACCCAAATATCACACTTAAAAA
4938395 AACCCGACCC
1 AACCCGACCC
4938405 AAACAAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 14 0.32
38 28 0.64
39 2 0.05
ACGTcount: A:0.38, C:0.40, G:0.09, T:0.13
Consensus pattern (38 bp):
AACCCGACCCGCTCCGACCCAAATATCACACTTAAAAA
Found at i:4938651 original size:27 final size:28
Alignment explanation
Indices: 4938590--4938656 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
4938580 CACGAACCCT
*
4938590 ACCCGACCTGAATATCACACTTAAAAAA
1 ACCCGACCCGAATATCACACTTAAAAAA
4938618 ACCCGACCCGAATATCACACTT-AAAAA
1 ACCCGACCCGAATATCACACTTAAAAAA
4938645 ACCCGACCCGAA
1 ACCCGACCCGAA
4938657 CAAAATAAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 17 0.45
28 21 0.55
ACGTcount: A:0.43, C:0.34, G:0.09, T:0.13
Consensus pattern (28 bp):
ACCCGACCCGAATATCACACTTAAAAAA
Found at i:4938696 original size:249 final size:242
Alignment explanation
Indices: 4938024--4938868 Score: 977
Period size: 249 Copynumber: 3.4 Consensus size: 242
4938014 TATAAGGTAA
* *
4938024 AATTATATATTTTTTTCAGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACTTG
1 AATTATATA-TATTTTCGGGTCGGTCC-GTTTTTTTCACCCTAAACCCGAACCCGA-CC--C--G
4938089 ACCCGAATATCACACTTAAAAAAAACCCGACCCGGCTCGACCCGAATATCACACTTAAAAAACCC
59 ACCCGAATATCACACTT--AAAAAA----A--C--C-CGACCCGAATATCACACTTAAAAAACCC
* *
4938154 GACCCGAACAAAATAAAGTTTCATCCGACCCGACCCCGAATATATGAATTAGAAAT---------
113 GACCCAAACAAAATAAAGTTTCATCCGACCCGA-CACGAATATATGAATTAGAAATCCAACCCGA
* *
4938210 -CCGACCCGAAATAGAAAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAA-T---CCAACC
177 CCCGACCCGAAATA-ATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATTGACCCGACC
4938270 CG
241 CG
*
4938272 AATTATATATATTTTCGGGTCGGTCCGGTTTTATTCACCCTAAACCCGAACCCGACCCGCTCCGA
1 AATTATATATATTTTCGGGTCGGTCC-GTTTTTTTCACCCTAAACCCGAACCCGA----C-CCGA
*
4938337 CCCAAATATCACACTTAAAAAAACCCGACCCGACTCGACCTGAATATCACACTTAAAAAACCCGA
60 CCCGAATATCACACTT-AAAAAA----ACCCGA--C--CC-GAATATCACACTTAAAAAACCCGA
* *
4938402 CCCAAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCGGACCTGACCC
115 CCCAAACAAAATAAAGTTTCATCCGACCCGACACGAATATATGAATTAGAAAT----CC-AACCC
4938467 GACCCGACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATCTGACCCGA
175 GACCCGACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAAT-TGACCCGA
4938532 CCCG
239 CCCG
* * *
4938536 AATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACACGAACCCTACCCGACCTGA
1 AATTATATATATTTTCGGGTCGGTCCG-TTTTTTTCACCCTAAACCCGAACCCGACCCGACCCGA
*
4938601 ATATCACACTTAAAAAAACCCGACCCGAATATCACACTTAAAAAACCCGACCCGAACAAAATAAA
65 ATATCACACTTAAAAAAACCCGACCCGAATATCACACTTAAAAAACCCGACCCAAACAAAATAAA
4938666 GTTTCATCCGACCCGACACGAATATATGAATTAGAAATCCAACCCGACCCGACCCGAAATAATAA
130 GTTTCATCCGACCCGACACGAATATATGAATTAGAAATCCAACCCGACCCGACCCGAAATAATAA
** * * **
4938731 AAAA--A-AATTATTTAATAAAAACAATGACTTCATTCGACCCGACTTG
195 AAAATTATTTTTATTTAATAAAAACAGTGACTTAATT-GACCCGACCCG
*
4938777 AATTATATATATTTTCGGGTCGGTCCGTTTTTTTCACCCTAAACCCGAACCCGACCCAACCCGAA
1 AATTATATATATTTTCGGGTCGGTCCGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCCGAA
*
4938842 TATCACACTTAAAAAAACCCGATCCGA
66 TATCACACTTAAAAAAACCCGACCCGA
4938869 CCCGACCAAA
Statistics
Matches: 539, Mismatches: 27, Indels: 70
0.85 0.04 0.11
Matches are distributed among these distances:
240 61 0.11
241 63 0.12
242 2 0.00
243 1 0.00
244 29 0.05
245 26 0.05
246 66 0.12
247 60 0.11
248 9 0.02
249 76 0.14
250 3 0.01
251 1 0.00
252 1 0.00
254 6 0.01
258 6 0.01
259 56 0.10
260 14 0.03
261 1 0.00
263 1 0.00
264 57 0.11
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.23
Consensus pattern (242 bp):
AATTATATATATTTTCGGGTCGGTCCGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCCGAA
TATCACACTTAAAAAAACCCGACCCGAATATCACACTTAAAAAACCCGACCCAAACAAAATAAAG
TTTCATCCGACCCGACACGAATATATGAATTAGAAATCCAACCCGACCCGACCCGAAATAATAAA
AAATTATTTTTATTTAATAAAAACAGTGACTTAATTGACCCGACCCG
Found at i:4941716 original size:2 final size:2
Alignment explanation
Indices: 4941709--4941750 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
4941699 GTTTGGTGTT
4941709 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
4941751 AATTGAGGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4944923 original size:21 final size:21
Alignment explanation
Indices: 4944899--4944978 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
4944889 GTCTTTCGGG
*
4944899 ATATATATGTAATCCTTTGGA
1 ATATATATGTGATCCTTTGGA
* *
4944920 ATATATATGTGGTTCTTTGGA
1 ATATATATGTGATCCTTTGGA
* * * * *
4944941 ACACATATTTGGTCATTTGGA
1 ATATATATGTGATCCTTTGGA
4944962 ATATATATGTGATCCTT
1 ATATATATGTGATCCTT
4944979 AAGGAGTGGT
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (21 bp):
ATATATATGTGATCCTTTGGA
Found at i:4947282 original size:77 final size:77
Alignment explanation
Indices: 4947150--4947303 Score: 290
Period size: 77 Copynumber: 2.0 Consensus size: 77
4947140 GTTATTGTCT
*
4947150 ACATTATAAGGGACATAATATGGATTTTCAAAGGTCAAAAGTAAGTGTACAATCGAAGGAGAGAA
1 ACATGATAAGGGACATAATATGGATTTTCAAAGGTCAAAAGTAAGTGTACAATCGAAGGAGAGAA
4947215 AAGATAGAAATG
66 AAGATAGAAATG
*
4947227 ACATGATAAGGGATATAATATGGATTTTCAAAGGTCAAAAGTAAGTGTACAATCGAAGGAGAGAA
1 ACATGATAAGGGACATAATATGGATTTTCAAAGGTCAAAAGTAAGTGTACAATCGAAGGAGAGAA
4947292 AAGATAGAAATG
66 AAGATAGAAATG
4947304 CATTGTGTTC
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.47, C:0.07, G:0.24, T:0.22
Consensus pattern (77 bp):
ACATGATAAGGGACATAATATGGATTTTCAAAGGTCAAAAGTAAGTGTACAATCGAAGGAGAGAA
AAGATAGAAATG
Found at i:4948405 original size:19 final size:19
Alignment explanation
Indices: 4948381--4948430 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
4948371 AATTGAAATT
4948381 GGGTATCGATACCATGGAA
1 GGGTATCGATACCATGGAA
4948400 GGGTATCGATACCATGGAA
1 GGGTATCGATACCATGGAA
4948419 GGGTATCGATAC
1 GGGTATCGATAC
4948431 TACAATCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.22
Consensus pattern (19 bp):
GGGTATCGATACCATGGAA
Found at i:4949168 original size:21 final size:20
Alignment explanation
Indices: 4949142--4949199 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
4949132 CTACGTGGTC
4949142 CTTTGGAACATATATGCGGTT
1 CTTTGGAACATATATGCGG-T
* **
4949163 CTTTGGAACACATATTTGGT
1 CTTTGGAACATATATGCGGT
*
4949183 CATTTGGAATATATATG
1 C-TTTGGAACATATATG
4949200 TGATCTTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 2 0.07
21 28 0.93
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.40
Consensus pattern (20 bp):
CTTTGGAACATATATGCGGT
Found at i:4952376 original size:43 final size:43
Alignment explanation
Indices: 4952187--4952376 Score: 177
Period size: 43 Copynumber: 4.4 Consensus size: 43
4952177 ATATAGTGGT
** * * *
4952187 TTTTTGGAACAAACACCACAAAAGGTCGAGATATATAGCGACG
1 TTTTTGGAACAAACGTCACAAAAGGTCGAGATCTATAACGACA
* * ** * * * *
4952230 TTTTTGGAACAAACGTCGCTATATATCTCGACATTTACAACGGCA
1 TTTTTGGAACAAACGTCAC-A-AAAGGTCGAGATCTATAACGACA
* * *
4952275 TTTTTGGAACAAACG-CTGCAAAAGGTCGAGATCTATAGCGGCA
1 TTTTTGGAACAAACGTC-ACAAAAGGTCGAGATCTATAACGACA
*
4952318 TTTTTGGAACAAACGTCACAAAAGGTC-AGATCTATAACGACG
1 TTTTTGGAACAAACGTCACAAAAGGTCGAGATCTATAACGACA
4952360 TTTTTGGATACAAACGT
1 TTTTTGGA-ACAAACGT
4952377 TGCTAATTAC
Statistics
Matches: 119, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
42 20 0.17
43 64 0.54
44 4 0.03
45 31 0.26
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (43 bp):
TTTTTGGAACAAACGTCACAAAAGGTCGAGATCTATAACGACA
Found at i:4955559 original size:47 final size:45
Alignment explanation
Indices: 4955465--4955590 Score: 191
Period size: 47 Copynumber: 2.8 Consensus size: 45
4955455 GTAAGCATAC
* *
4955465 AAATAAGCTTACGAGCTTTTGGAAT-AATGGCAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
* *
4955509 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATGGGTA
4955556 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
4955591 GGATTTTATA
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
44 23 0.31
45 11 0.15
46 1 0.01
47 40 0.53
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
Found at i:4958333 original size:42 final size:42
Alignment explanation
Indices: 4958300--4958627 Score: 324
Period size: 42 Copynumber: 7.9 Consensus size: 42
4958290 AAGGTACGGA
*
4958300 TCTATTGTGACGTTTTAATAACAAACGCCACTAAGGTTCGCC
1 TCTATTGCGACGTTTTAATAACAAACGCCACTAAGGTTCGCC
* * * * * *
4958342 TCTATTGCGGCATTTTTATAACAAACGCCATTAAGGTACGAC
1 TCTATTGCGACGTTTTAATAACAAACGCCACTAAGGTTCGCC
* * * *
4958384 TCTATAT-CGACGTTTTAGTGACAAACGCTACTAAGTTTCGCC
1 TCTAT-TGCGACGTTTTAATAACAAACGCCACTAAGGTTCGCC
* * * *
4958426 TCTATTACGATGTTTTAGTAACAAACGCCACTAAGGTTCTCC
1 TCTATTGCGACGTTTTAATAACAAACGCCACTAAGGTTCGCC
* * * *
4958468 TCTATTGTGGCGTTTTTATAACAAACGCCACTAA-GTTACGTC
1 TCTATTGCGACGTTTTAATAACAAACGCCACTAAGGTT-CGCC
* ** * *
4958510 TCTGTAACGACGTTTTAGTGACAAACGCCACTAAGGTTCGCC
1 TCTATTGCGACGTTTTAATAACAAACGCCACTAAGGTTCGCC
* *
4958552 TCTATTGCGACATTTTAGTAACAAACGCCACTAAGGTT--CC
1 TCTATTGCGACGTTTTAATAACAAACGCCACTAAGGTTCGCC
* * * *
4958592 TCTATTGC-AGCATTTTTATAACAAACACCGCTAAGG
1 TCTATTGCGA-CGTTTTAATAACAAACGCCACTAAGG
4958628 GAAATATCTA
Statistics
Matches: 233, Mismatches: 48, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
39 1 0.00
40 32 0.14
41 4 0.02
42 192 0.82
43 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (42 bp):
TCTATTGCGACGTTTTAATAACAAACGCCACTAAGGTTCGCC
Found at i:4958495 original size:126 final size:126
Alignment explanation
Indices: 4958308--4958627 Score: 473
Period size: 126 Copynumber: 2.6 Consensus size: 126
4958298 GATCTATTGT
* * *
4958308 GACGTTTTAATAACAAACGCCACTAAGGTTCGCCTCTATTGCGGCATTTTTATAACAAACGCCAT
1 GACGTTTTAGTAACAAACGCCACTAAGGTTCTCCTCTATTGCGGCATTTTTATAACAAACGCCAC
* * *
4958373 TAAGGTACGACTCTATATCGACGTTTTAGTGACAAACGCTACTAAGTTTCGCCTCTATTAC
66 TAAGGTACGACTCTATAACGACGTTTTAGTGACAAACGCCACTAAGGTTCGCCTCTATTAC
* * *
4958434 GATGTTTTAGTAACAAACGCCACTAAGGTTCTCCTCTATTGTGGCGTTTTTATAACAAACGCCAC
1 GACGTTTTAGTAACAAACGCCACTAAGGTTCTCCTCTATTGCGGCATTTTTATAACAAACGCCAC
* * * *
4958499 TAAGTTACGTCTCTGTAACGACGTTTTAGTGACAAACGCCACTAAGGTTCGCCTCTATTGC
66 TAAGGTACGACTCTATAACGACGTTTTAGTGACAAACGCCACTAAGGTTCGCCTCTATTAC
* * * *
4958560 GACATTTTAGTAACAAACGCCACTAAGG-T-TCCTCTATTGCAGCATTTTTATAACAAACACCGC
1 GACGTTTTAGTAACAAACGCCACTAAGGTTCTCCTCTATTGCGGCATTTTTATAACAAACGCCAC
4958623 TAAGG
66 TAAGG
4958628 GAAATATCTA
Statistics
Matches: 173, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
124 33 0.19
125 1 0.01
126 139 0.80
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (126 bp):
GACGTTTTAGTAACAAACGCCACTAAGGTTCTCCTCTATTGCGGCATTTTTATAACAAACGCCAC
TAAGGTACGACTCTATAACGACGTTTTAGTGACAAACGCCACTAAGGTTCGCCTCTATTAC
Found at i:4959762 original size:23 final size:23
Alignment explanation
Indices: 4959709--4959799 Score: 87
Period size: 23 Copynumber: 4.0 Consensus size: 23
4959699 TGTCACATAG
** *
4959709 AATGTCCCGATGGACCACATAG-
1 AATGTCCCGAAAGACCACGTAGA
* *
4959731 -ATGTACCGAAAGACCGCGTAGA
1 AATGTCCCGAAAGACCACGTAGA
*
4959753 AATGTCCCGAAGGACCACGTAGA
1 AATGTCCCGAAAGACCACGTAGA
* * *
4959776 ATTGTCCCGAAGGATCACGTAGA
1 AATGTCCCGAAAGACCACGTAGA
4959799 A
1 A
4959800 CCCTCGACTC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
21 16 0.28
23 41 0.72
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.16
Consensus pattern (23 bp):
AATGTCCCGAAAGACCACGTAGA
Found at i:4966596 original size:23 final size:23
Alignment explanation
Indices: 4966511--4966630 Score: 97
Period size: 23 Copynumber: 5.3 Consensus size: 23
4966501 TGAAGTGCCG
4966511 CGTAGAAAATG-CACCGAAGTG-CCA
1 CGTAG-AAATGTC-CCGAAG-GACCA
* *
4966535 CATAG-AATGTCCCGATGGACCA
1 CGTAGAAATGTCCCGAAGGACCA
* **
4966557 CATAG--ATGTCCTAAAGGACCA
1 CGTAGAAATGTCCCGAAGGACCA
* *
4966578 TGTAGAAATGTTCCGAAGGACCA
1 CGTAGAAATGTCCCGAAGGACCA
* *
4966601 CGTAGAATTGTCCCGAAGGACCG
1 CGTAGAAATGTCCCGAAGGACCA
4966624 CGTAGAA
1 CGTAGAA
4966631 CCCTCGACTC
Statistics
Matches: 78, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
21 17 0.22
22 17 0.22
23 40 0.51
24 4 0.05
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGTCCCGAAGGACCA
Found at i:4969184 original size:14 final size:15
Alignment explanation
Indices: 4969154--4969187 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4969144 TCAAGCGTTT
*
4969154 TAAAAAAAGGGAGTA
1 TAAAAAAAGAGAGTA
4969169 TAAAAAAAGAGA-TA
1 TAAAAAAAGAGAGTA
4969183 TAAAA
1 TAAAA
4969188 CTTCTTGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (15 bp):
TAAAAAAAGAGAGTA
Found at i:4969390 original size:17 final size:17
Alignment explanation
Indices: 4969368--4969403 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
4969358 TCAAATGAGT
4969368 CATGAGTCGAGTCAAGC
1 CATGAGTCGAGTCAAGC
*
4969385 CATGAGTCGAGTCGAGC
1 CATGAGTCGAGTCAAGC
4969402 CA
1 CA
4969404 AGCAGTCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.25, G:0.31, T:0.17
Consensus pattern (17 bp):
CATGAGTCGAGTCAAGC
Found at i:4969399 original size:22 final size:23
Alignment explanation
Indices: 4969362--4969406 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
4969352 GAGTTCTCAA
*
4969362 ATGAGTCATGAGTCGAGTCAAGCC
1 ATGAGTCA-GAGTCGAGCCAAGCC
4969386 ATGAGTC-GAGTCGAGCCAAGC
1 ATGAGTCAGAGTCGAGCCAAGC
4969407 AGTCAAGCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
24 7 0.35
ACGTcount: A:0.29, C:0.22, G:0.31, T:0.18
Consensus pattern (23 bp):
ATGAGTCAGAGTCGAGCCAAGCC
Found at i:4970125 original size:21 final size:21
Alignment explanation
Indices: 4970100--4970152 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
4970090 ATTATTACTA
4970100 TCGCAATGCGATTTT-CCAATT
1 TCGCAATGCGATTTTCCCAA-T
*
4970121 TCGCATTGCGATTTTCCCAAT
1 TCGCAATGCGATTTTCCCAAT
*
4970142 TCACAATGCGA
1 TCGCAATGCGA
4970153 ATAAGTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCCAAT
Found at i:4970184 original size:20 final size:20
Alignment explanation
Indices: 4970161--4970275 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
4970151 GAATAAGTAA
*
4970161 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
4970181 ATCGAAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
4970202 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
4970222 TTCGCAACGCGATACTTACT
1 ATCGCAACGCGATACTGACT
*
4970242 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
4970262 TTCGCAACGAGATA
1 ATCGCAACGCGATA
4970276 ATACATAATC
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.03
20 62 0.78
21 13 0.16
22 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:4970204 original size:41 final size:41
Alignment explanation
Indices: 4970159--4970292 Score: 173
Period size: 41 Copynumber: 3.3 Consensus size: 41
4970149 GCGAATAAGT
* *
4970159 AAATCGCAATGCGATACTGACTATCGAAACGCGATAATACA
1 AAATCGCAATGCGATACTGACTTTCGCAACGCGATAATACA
*
4970200 AAATCGCAATGCGATACTGACTTTCGCAACGCGATACTTAC-
1 AAATCGCAATGCGATACTGACTTTCGCAACGCGATA-ATACA
** * *
4970241 -TTTCGCAACGCGATACTGACTTTCGCAACGAGATAATACA
1 AAATCGCAATGCGATACTGACTTTCGCAACGCGATAATACA
*
4970281 TAATCGCAATGC
1 AAATCGCAATGC
4970293 AATTTTCAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
39 3 0.04
40 31 0.39
41 42 0.53
42 3 0.04
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (41 bp):
AAATCGCAATGCGATACTGACTTTCGCAACGCGATAATACA
Found at i:4970490 original size:22 final size:22
Alignment explanation
Indices: 4970462--4970505 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4970452 CACTCTCTCA
*
4970462 CCCATCTCTGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
4970484 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
4970506 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:4970803 original size:20 final size:20
Alignment explanation
Indices: 4970754--4970812 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
4970744 TTTATTCTCT
* **
4970754 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
4970774 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
4970794 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
4970813 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:4971003 original size:25 final size:24
Alignment explanation
Indices: 4970949--4971003 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
4970939 TGTTTATTAT
* *
4970949 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
4970973 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
4970999 TGTTT
1 TGTTT
4971004 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:4972153 original size:18 final size:18
Alignment explanation
Indices: 4972132--4972179 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
4972122 TCCACTTCGG
4972132 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
4972150 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
4972168 GAGCCATCACCT
1 GAGCCATCACCT
4972180 AATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:4972781 original size:19 final size:19
Alignment explanation
Indices: 4972759--4972841 Score: 104
Period size: 19 Copynumber: 4.6 Consensus size: 19
4972749 GGAAATGGCT
*
4972759 ATCGCAATGCAAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4972778 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
4972792 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4972811 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4972830 ATCGCAATGCGA
1 ATCGCAATGCGA
4972842 TTTGTATTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 1 0.02
18 1 0.02
19 39 0.72
ACGTcount: A:0.47, C:0.20, G:0.19, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4972784 original size:39 final size:35
Alignment explanation
Indices: 4972730--4972827 Score: 103
Period size: 33 Copynumber: 2.7 Consensus size: 35
4972720 TCGTAACACG
**
4972730 AAAATGACTATCGCAACGCGGAAATGGCTATCGCAATGC
1 AAAATGAAAATCGCAACGC-GAAAT-G--ATCGCAATGC
4972769 AAAATGAAAATCGCAACGAC-AAA--ATCGCAATGC
1 AAAATGAAAATCGCAACG-CGAAATGATCGCAATGC
*
4972802 GAAATGAAAATCGCAACGCGAAATGA
1 AAAATGAAAATCGCAACGCGAAATGA
4972828 AAATCGCAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
32 1 0.02
33 30 0.58
35 1 0.02
38 3 0.06
39 16 0.31
40 1 0.02
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.14
Consensus pattern (35 bp):
AAAATGAAAATCGCAACGCGAAATGATCGCAATGC
Found at i:4972872 original size:14 final size:14
Alignment explanation
Indices: 4972853--4972911 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
4972843 TTGTATTTCG
4972853 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
4972867 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
4972884 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
4972900 CGTTGCGATTTT
1 CGTTGCGATTTT
4972912 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 18 0.47
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:4972884 original size:33 final size:33
Alignment explanation
Indices: 4972837--4972927 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
4972827 AAAATCGCAA
*
4972837 TGCGATTTGT-ATTTCGCGTTGCGATTTTGTCGT
1 TGCGATTT-TCATTTCGCATTGCGATTTTGTCGT
4972870 TGCGATTTTCATTTCGCATTGCGATTTTGTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTGTCGT
4972903 TGCGATTTTCATTTCGCATTGCGAT
1 TGCGATTTTCATTTCGCATTGCGAT
4972928 AGCCATTTTC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 1 0.02
33 55 0.98
ACGTcount: A:0.12, C:0.18, G:0.23, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTTTGTCGT
Found at i:4972939 original size:20 final size:20
Alignment explanation
Indices: 4972900--4973006 Score: 126
Period size: 20 Copynumber: 5.4 Consensus size: 20
4972890 GCGATTTTGT
**
4972900 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATAGTCATTTTCG
* *
4972919 CATTGCGATAGCCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
4972939 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTTCG
4972959 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* * *
4972979 CGTTGCGAAAGTAAGTTTCG
1 CGTTGCGATAGTCATTTTCG
*
4972999 TGTTGCGA
1 CGTTGCGA
4973007 AAGTAAACTA
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
19 10 0.13
20 65 0.87
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:4973412 original size:42 final size:42
Alignment explanation
Indices: 4973353--4973432 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
4973343 GACTCACCTG
* *
4973353 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCTTA
1 TCATCCCTCAAGAGTCCCCCCCAACCGTTCAAGAGGCCCTTA
*
4973395 TCATCCCTCAAGAGTCCCCCCCCACCGTTCAAGAGGCC
1 TCATCCCTCAAGAGTCCCCCCCAACCGTTCAAGAGGCC
4973433 ACTGTCATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.23, C:0.42, G:0.15, T:0.20
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCCCCCCAACCGTTCAAGAGGCCCTTA
Found at i:4974885 original size:14 final size:14
Alignment explanation
Indices: 4974851--4974889 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
4974841 TTGATTGTTT
4974851 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
4974865 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
4974879 TGTTGATTTGT
1 AATTGATTTGT
4974890 TTAATTGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:4975056 original size:19 final size:19
Alignment explanation
Indices: 4975029--4975112 Score: 115
Period size: 19 Copynumber: 4.7 Consensus size: 19
4975019 GCAACGAGAG
4975029 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
4975048 AATCACAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
4975067 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4975086 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
4975100 AATCGCAATGCGA
1 AATCGCAATGCGA
4975113 TTTTCATTTC
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
14 11 0.19
15 1 0.02
16 2 0.03
17 2 0.03
19 42 0.72
ACGTcount: A:0.48, C:0.18, G:0.19, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:4975156 original size:20 final size:20
Alignment explanation
Indices: 4975131--4975206 Score: 134
Period size: 20 Copynumber: 3.8 Consensus size: 20
4975121 TCACATTGCG
*
4975131 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
4975151 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
4975171 ATTTTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGCC
4975191 ATTTTCGCGTTGCGAT
1 ATTTTCGCGTTGCGAT
4975207 TTCCCCGTTG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:4975221 original size:34 final size:34
Alignment explanation
Indices: 4975126--4975225 Score: 110
Period size: 40 Copynumber: 2.8 Consensus size: 34
4975116 TCATTTCACA
* *
4975126 TTGCGATTTTCTCGTTGCGATAGCCATTTTCGCG
1 TTGCGATTTTCCCGTTGCGATAGTCATTTTCGCG
*
4975160 TTGCGATAGCCATTTTCGCGTTGCGATAGTCATTTTCGCG
1 TTGC----G--ATTTTCCCGTTGCGATAGTCATTTTCGCG
*
4975200 TTGCGATTTCCCCGTTGCGATAGTCA
1 TTGCGATTTTCCCGTTGCGATAGTCA
4975226 AATGAATGTC
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
34 23 0.41
36 1 0.02
38 1 0.02
40 31 0.55
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.38
Consensus pattern (34 bp):
TTGCGATTTTCCCGTTGCGATAGTCATTTTCGCG
Found at i:4975778 original size:20 final size:20
Alignment explanation
Indices: 4975757--4975864 Score: 135
Period size: 20 Copynumber: 5.4 Consensus size: 20
4975747 TGTATTATCT
* *
4975757 CGTTGCGATAGTCAGAATCT
1 CGTTGCGAAAGTCAGAATCG
*
4975777 CGTTGTGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
*
4975797 CGTTGTGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
* * *
4975817 TGTTACGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGAATCG
*
4975837 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGAATCG
*
4975857 AGTTGCGA
1 CGTTGCGA
4975865 TTTTGTATTA
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 78 1.00
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Found at i:4975881 original size:41 final size:41
Alignment explanation
Indices: 4975832--4975909 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
4975822 CGAAAGTCAG
4975832 TATCGCGTTGCGAAAGTCAGTATCG-AGTTGCGATTTTGTAT
1 TATCGCGTTGCGAAAGTCAGTATCGCA-TTGCGATTTTGTAT
* *
4975873 TATCGCGTTGCGATAGTTAGTATCGCATTGCGATTTT
1 TATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTT
4975910 CCAAATTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
41 33 0.97
42 1 0.03
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (41 bp):
TATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTTGTAT
Found at i:4975882 original size:21 final size:20
Alignment explanation
Indices: 4975830--4975909 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 20
4975820 TACGAAAGTC
*** *
4975830 AGTATCGCGTTGCGAAAGTC
1 AGTATCGCGTTGCGATTTTT
*
4975850 AGTATCGAGTTGCGATTTTGT
1 AGTATCGCGTTGCGATTTT-T
* **
4975871 ATTATCGCGTTGCGATAGTT
1 AGTATCGCGTTGCGATTTTT
*
4975891 AGTATCGCATTGCGATTTT
1 AGTATCGCGTTGCGATTTT
4975910 CCAAATTCGC
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
20 31 0.67
21 15 0.33
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (20 bp):
AGTATCGCGTTGCGATTTTT
Done.