Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 86 of 145
Found at i:28663785 original size:16 final size:17
Alignment explanation
Indices: 28663758--28663793 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
28663748 TTTTCTAACC
28663758 TATTTAATATATATAAA
1 TATTTAATATATATAAA
28663775 TATTT-ATATATATAAA
1 TATTTAATATATATAAA
28663791 TAT
1 TAT
28663794 CTATGTGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTTAATATATATAAA
Found at i:28663863 original size:20 final size:21
Alignment explanation
Indices: 28663821--28663865 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
28663811 CGAGTATATG
*
28663821 TATATATATATATAGTTTCTTT
1 TATATATATATATAG-TTATTT
*
28663843 TATATTTATATATA-TTATTT
1 TATATATATATATAGTTATTT
28663863 TAT
1 TAT
28663866 TTCATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
22 13 0.62
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
TATATATATATATAGTTATTT
Found at i:28663874 original size:24 final size:26
Alignment explanation
Indices: 28663823--28663875 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
28663813 AGTATATGTA
* *
28663823 TATATATATATAGTTTCTTTTATATT
1 TATATATATATAGTTTATTTCATATT
*
28663849 TATATATAT-TATTTTATTTCAT-TT
1 TATATATATATAGTTTATTTCATATT
28663873 TAT
1 TAT
28663876 TTTTTATATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.21
25 10 0.42
26 9 0.38
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (26 bp):
TATATATATATAGTTTATTTCATATT
Found at i:28665305 original size:20 final size:20
Alignment explanation
Indices: 28665288--28665326 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
28665278 TATTGATACT
*
28665288 TTTCTTAAGGTATCGATATA
1 TTTCCTAAGGTATCGATATA
28665308 TTTCCTAAGGTATCGATAT
1 TTTCCTAAGGTATCGATAT
28665327 TCCTGCTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (20 bp):
TTTCCTAAGGTATCGATATA
Found at i:28680327 original size:51 final size:50
Alignment explanation
Indices: 28680208--28680387 Score: 177
Period size: 51 Copynumber: 3.6 Consensus size: 50
28680198 GATGGTCATG
* * * * * *
28680208 TGTGTAGTACAATGTGCAGGCTACTACGTGTACCAGAAAG-ATAGGT-AGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAT-GATCA-CA
* *
28680258 TGTGTAGTACTATGTGCAGGGTACTATGCGTACCGGATAGCT-TCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TAT-GATCACA
* * * *
28680309 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-ATGATCACA
*
28680360 TGTGTAGTACTATGTGTAGGCTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTATG
28680388 TGAACATGTA
Statistics
Matches: 108, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
50 35 0.32
51 71 0.66
52 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTATGATCACA
Found at i:28685628 original size:51 final size:51
Alignment explanation
Indices: 28685573--28685712 Score: 176
Period size: 50 Copynumber: 2.8 Consensus size: 51
28685563 ATGTGAAAGT
*
28685573 GAAAGTGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-CTA
1 GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATC-A
** * *
28685624 GAAAGAAAT-GTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATCG
1 GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCA
* * * *
28685674 GATAGTGATGGTCACATGTGTAATACTACGTGTAGGCTA
1 GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTA
28685713 TTATGTGAAC
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
50 42 0.56
51 33 0.44
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (51 bp):
GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCA
Found at i:28703624 original size:29 final size:29
Alignment explanation
Indices: 28703578--28703637 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
28703568 TGTCAAATGA
28703578 AAGAATCTCTCCAATCCTATCTCTCTTCC
1 AAGAATCTCTCCAATCCTATCTCTCTTCC
* *
28703607 AAGAATCTCTTCAGTCCTATCTCTCTTCC
1 AAGAATCTCTCCAATCCTATCTCTCTTCC
28703636 AA
1 AA
28703638 TTTAGGGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.35, G:0.05, T:0.35
Consensus pattern (29 bp):
AAGAATCTCTCCAATCCTATCTCTCTTCC
Found at i:28707185 original size:28 final size:28
Alignment explanation
Indices: 28707154--28707232 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
28707144 CTCGCCATGT
* *
28707154 AGGCATCCTTTTAACAGAGTTTGCCAC-A
1 AGGCATCC-TTTAACAGAGATAGCCACAA
* * * *
28707182 AGGCATTCATTTAGCTGAGATAGGCACAA
1 AGGCA-TCCTTTAACAGAGATAGCCACAA
28707211 AGGCATCCTTTAACAGAGATAG
1 AGGCATCCTTTAACAGAGATAG
28707233 ACATAAATAG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
28 32 0.80
29 8 0.20
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (28 bp):
AGGCATCCTTTAACAGAGATAGCCACAA
Found at i:28714186 original size:13 final size:13
Alignment explanation
Indices: 28714168--28714194 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
28714158 ATCTCAGGTA
28714168 ATTCTCATAATTG
1 ATTCTCATAATTG
28714181 ATTCTCATAATTG
1 ATTCTCATAATTG
28714194 A
1 A
28714195 GGCTCAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (13 bp):
ATTCTCATAATTG
Found at i:28724446 original size:14 final size:15
Alignment explanation
Indices: 28724421--28724458 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
28724411 TGTGTAGAAA
28724421 TTAAATTAAACTAAG
1 TTAAATTAAACTAAG
28724436 TTAAA-TAAACTAA-
1 TTAAATTAAACTAAG
*
28724449 TGAAATTAAA
1 TTAAATTAAA
28724459 AATAACCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 4 0.19
14 12 0.57
15 5 0.24
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (15 bp):
TTAAATTAAACTAAG
Found at i:28727420 original size:137 final size:138
Alignment explanation
Indices: 28727174--28727448 Score: 543
Period size: 137 Copynumber: 2.0 Consensus size: 138
28727164 ATGGTCCTTG
28727174 GCCGGTTAAGTAGTGGAAGAATCACACTTCTATTCGAACTTTACCAAATAATTTGATTAACTATT
1 GCCGGTTAAGTAGTGGAAGAATCACACTTCTATTCGAACTTTACCAAATAATTTGATTAACTATT
28727239 ACAAATTATTATTTTAATAAATTTAATATTAAATTTAGTTTAATACTTATTTTGATAGTA-TTTA
66 ACAAATTATTATTTTAATAAATTTAATATTAAATTTAGTTTAATACTTATTTTGATAGTATTTTA
28727303 TTAATTTA
131 TTAATTTA
28727311 GCCGGTTAAGTAGTGGAAGAATCACACTTCTATTCGAACTTTACCAAATAATTTGATTAACTATT
1 GCCGGTTAAGTAGTGGAAGAATCACACTTCTATTCGAACTTTACCAAATAATTTGATTAACTATT
28727376 ACAAATTATTATTTTAATAAATTTAATATTAAATTTAGTTTAATACTTATTTTGATAGTATTTTA
66 ACAAATTATTATTTTAATAAATTTAATATTAAATTTAGTTTAATACTTATTTTGATAGTATTTTA
28727441 TTAATTTA
131 TTAATTTA
28727449 ATACTAAAGT
Statistics
Matches: 137, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
137 125 0.91
138 12 0.09
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (138 bp):
GCCGGTTAAGTAGTGGAAGAATCACACTTCTATTCGAACTTTACCAAATAATTTGATTAACTATT
ACAAATTATTATTTTAATAAATTTAATATTAAATTTAGTTTAATACTTATTTTGATAGTATTTTA
TTAATTTA
Found at i:28732505 original size:10 final size:10
Alignment explanation
Indices: 28732490--28732514 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
28732480 GCTTCATACG
28732490 AATGATTTAC
1 AATGATTTAC
28732500 AATGATTTAC
1 AATGATTTAC
28732510 AATGA
1 AATGA
28732515 CCGATACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (10 bp):
AATGATTTAC
Found at i:28747641 original size:13 final size:15
Alignment explanation
Indices: 28747623--28747654 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
28747613 ACTACCCTAG
28747623 CTTTTAAC-TA-AAA
1 CTTTTAACATAGAAA
28747636 CTTTTAACATAGAAA
1 CTTTTAACATAGAAA
28747651 CTTT
1 CTTT
28747655 AGATTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 2 0.12
15 7 0.41
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.41
Consensus pattern (15 bp):
CTTTTAACATAGAAA
Found at i:28757038 original size:14 final size:15
Alignment explanation
Indices: 28757019--28757050 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
28757009 GTGGTTATAG
28757019 TTAAAATA-ATAAAA
1 TTAAAATAGATAAAA
28757033 TTAAAATAGATAAAA
1 TTAAAATAGATAAAA
28757048 TTA
1 TTA
28757051 TGATGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
TTAAAATAGATAAAA
Found at i:28767693 original size:17 final size:17
Alignment explanation
Indices: 28767667--28767699 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
28767657 ATAAGTACAC
*
28767667 ATTATTATTACATTTTT
1 ATTATCATTACATTTTT
28767684 ATTATCATTACATTTT
1 ATTATCATTACATTTT
28767700 AGTGCATTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTATCATTACATTTTT
Found at i:28773619 original size:8 final size:8
Alignment explanation
Indices: 28773606--28773630 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
28773596 GTACCCCAAT
28773606 AATATATA
1 AATATATA
28773614 AATATATA
1 AATATATA
28773622 AATATATA
1 AATATATA
28773630 A
1 A
28773631 TATTTTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AATATATA
Found at i:28789278 original size:20 final size:20
Alignment explanation
Indices: 28789255--28789301 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
28789245 CCCTTTGTGC
28789255 AAATTTGTCGAAAA-GAATCA
1 AAATTTGTC-AAAATGAATCA
** *
28789275 AAATTAATCAAAATTAATCA
1 AAATTTGTCAAAATGAATCA
28789295 AAATTTG
1 AAATTTG
28789302 ATATAAAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.30
Consensus pattern (20 bp):
AAATTTGTCAAAATGAATCA
Found at i:28789285 original size:10 final size:10
Alignment explanation
Indices: 28789270--28789322 Score: 61
Period size: 10 Copynumber: 5.0 Consensus size: 10
28789260 TGTCGAAAAG
28789270 AATCAAAATT
1 AATCAAAATT
28789280 AATCAAAATT
1 AATCAAAATT
28789290 AATCAAAATTT
1 AATCAAAA-TT
*
28789301 GATATAAAAATT
1 -A-ATCAAAATT
*
28789313 AATTAAAATT
1 AATCAAAATT
28789323 CAACATGTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
10 26 0.68
11 3 0.08
12 3 0.08
13 6 0.16
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (10 bp):
AATCAAAATT
Found at i:28802992 original size:46 final size:45
Alignment explanation
Indices: 28802920--28803087 Score: 144
Period size: 46 Copynumber: 3.7 Consensus size: 45
28802910 AGGCTATGTG
* * * *
28802920 TTGTGTAGGTTCAACCTTAACCGGTGACCAGACACAATTATCCGAT
1 TTGTGTAGGTTAAACCTTAACGGGTGACCAG-CACTATTATCCAAT
* *
28802966 TTGTGTAGGTTTAAACC-TAACGGGTGACGAGGCACTATTATCAAAT
1 TTGTGTAGG-TTAAACCTTAACGGGTGACCA-GCACTATTATCCAAT
* * *
28803012 TCT-TGTAGGTTCAACCTTAACGAGTGACCATGCACTATTATTCAAT
1 T-TGTGTAGGTTAAACCTTAACGGGTGACCA-GCACTATTATCCAAT
** * *
28803058 TCATGTAGGTTCAATCC-TAATGGGTGACCA
1 TTGTGTAGGTT-AAACCTTAACGGGTGACCA
28803088 ATACTACTTT
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
45 6 0.06
46 82 0.83
47 11 0.11
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (45 bp):
TTGTGTAGGTTAAACCTTAACGGGTGACCAGCACTATTATCCAAT
Found at i:28806855 original size:42 final size:43
Alignment explanation
Indices: 28806745--28806856 Score: 136
Period size: 42 Copynumber: 2.6 Consensus size: 43
28806735 CACTGCCATA
* ** * *
28806745 TCCCAGATATGGTCTTACATGTTATAATATATCGATGCCACTG
1 TCCCAGACATGGTCTTACATGAAATCATATATCGATGCAACTG
* ** *
28806788 TCCCAGACAGGGTCTTACACAAAATCATATA-CGATGCAATTG
1 TCCCAGACATGGTCTTACATGAAATCATATATCGATGCAACTG
28806830 TCCCAGACATGGTCTTACATGAAATCA
1 TCCCAGACATGGTCTTACATGAAATCA
28806857 CACCTCGGAA
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
42 33 0.58
43 24 0.42
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGAAATCATATATCGATGCAACTG
Found at i:28813687 original size:17 final size:19
Alignment explanation
Indices: 28813665--28813700 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
28813655 TGTCCAAGTA
28813665 CTAGTT-AGTTT-ATTTTT
1 CTAGTTCAGTTTAATTTTT
28813682 CTAGTTCAGTTTAATTTTT
1 CTAGTTCAGTTTAATTTTT
28813701 AGTACAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.19, C:0.08, G:0.11, T:0.61
Consensus pattern (19 bp):
CTAGTTCAGTTTAATTTTT
Found at i:28824197 original size:11 final size:11
Alignment explanation
Indices: 28824175--28824203 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
28824165 CACCTTCACC
28824175 CATTTA-TTTT
1 CATTTATTTTT
28824185 CATTTATTTTT
1 CATTTATTTTT
28824196 CATTTATT
1 CATTTATT
28824204 CAAACCTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (11 bp):
CATTTATTTTT
Found at i:28826373 original size:17 final size:18
Alignment explanation
Indices: 28826341--28826375 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
28826331 ATCATAGAGA
*
28826341 GCTCGCATAGGGAGCTTG
1 GCTCGCATAAGGAGCTTG
28826359 GCTCGCA-AAGGAGCTTG
1 GCTCGCATAAGGAGCTTG
28826376 CATAGAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.20, C:0.23, G:0.37, T:0.20
Consensus pattern (18 bp):
GCTCGCATAAGGAGCTTG
Found at i:28841007 original size:17 final size:18
Alignment explanation
Indices: 28840977--28841012 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
28840967 ACTCACGAGC
28840977 CCGTGTGAGCCCACACGG
1 CCGTGTGAGCCCACACGG
28840995 CCGTGTG-GCCCACACGG
1 CCGTGTGAGCCCACACGG
28841012 C
1 C
28841013 TACACCCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.14, C:0.42, G:0.33, T:0.11
Consensus pattern (18 bp):
CCGTGTGAGCCCACACGG
Found at i:28848521 original size:13 final size:14
Alignment explanation
Indices: 28848503--28848531 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
28848493 TCTACTCGTA
28848503 TGGA-TTTTCTTTT
1 TGGATTTTTCTTTT
28848516 TGGATTTTTCTTTT
1 TGGATTTTTCTTTT
28848530 TG
1 TG
28848532 TATTGCACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.07, C:0.07, G:0.17, T:0.69
Consensus pattern (14 bp):
TGGATTTTTCTTTT
Found at i:28856859 original size:40 final size:40
Alignment explanation
Indices: 28856814--28856891 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
28856804 ATCATCTTTA
28856814 ATGTTCATGATTTGAGATTGCCTATATCACTGTTTCATAG
1 ATGTTCATGATTTGAGATTGCCTATATCACTGTTTCATAG
28856854 ATGTTCATGATTTGAGATTGCCTATATCACTGTTTCAT
1 ATGTTCATGATTTGAGATTGCCTATATCACTGTTTCAT
28856892 TCGATTTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (40 bp):
ATGTTCATGATTTGAGATTGCCTATATCACTGTTTCATAG
Found at i:28869177 original size:44 final size:44
Alignment explanation
Indices: 28869114--28869290 Score: 354
Period size: 44 Copynumber: 4.0 Consensus size: 44
28869104 ACCCCATACC
28869114 TGTGTAAAGCATTAGCAACTAATTTTCTATCAAAATGAGAACCT
1 TGTGTAAAGCATTAGCAACTAATTTTCTATCAAAATGAGAACCT
28869158 TGTGTAAAGCATTAGCAACTAATTTTCTATCAAAATGAGAACCT
1 TGTGTAAAGCATTAGCAACTAATTTTCTATCAAAATGAGAACCT
28869202 TGTGTAAAGCATTAGCAACTAATTTTCTATCAAAATGAGAACCT
1 TGTGTAAAGCATTAGCAACTAATTTTCTATCAAAATGAGAACCT
28869246 TGTGTAAAGCATTAGCAACTAATTTTCTATCAAAATGAGAACCT
1 TGTGTAAAGCATTAGCAACTAATTTTCTATCAAAATGAGAACCT
28869290 T
1 T
28869291 CATCACTAAT
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 133 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (44 bp):
TGTGTAAAGCATTAGCAACTAATTTTCTATCAAAATGAGAACCT
Found at i:28878019 original size:25 final size:25
Alignment explanation
Indices: 28877964--28878050 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 25
28877954 TACCGATTTT
* * *
28877964 AGCTCTTATGAGCTTACCGATAC-TC
1 AGCTCGTATAAGCTTACC-ATTCTTC
*
28877989 AACTCGTATAAGCTTACCATTCTTC
1 AGCTCGTATAAGCTTACCATTCTTC
* ** *
28878014 AGCTCGAAGGAGCTTACCATT-TAC
1 AGCTCGTATAAGCTTACCATTCTTC
*
28878038 AGCTCATATAAGC
1 AGCTCGTATAAGC
28878051 ATACATGTAC
Statistics
Matches: 48, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
24 14 0.29
25 34 0.71
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (25 bp):
AGCTCGTATAAGCTTACCATTCTTC
Found at i:28885133 original size:25 final size:25
Alignment explanation
Indices: 28885058--28885140 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
28885048 TAGCTCTTAT
* * * * *
28885058 GAGCTTACTGATACTCAGCTTGTAT
1 GAGCTTACTGTTATTCAGCTCGGAG
*
28885083 GAGCTTA-TCGTTATTCAGCTCAGAG
1 GAGCTTACT-GTTATTCAGCTCGGAG
28885108 GAGCTTACTGTTATTCAGCTCGGAG
1 GAGCTTACTGTTATTCAGCTCGGAG
28885133 GAGCTTAC
1 GAGCTTAC
28885141 CGTTTACAGC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
24 1 0.02
25 47 0.96
26 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (25 bp):
GAGCTTACTGTTATTCAGCTCGGAG
Found at i:28894012 original size:3 final size:3
Alignment explanation
Indices: 28894004--28894029 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
28893994 TGCTTCAATA
28894004 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
28894030 AACTAATGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:28896448 original size:8 final size:8
Alignment explanation
Indices: 28896435--28896459 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
28896425 TTAGGGTAGA
28896435 CCCATGAT
1 CCCATGAT
28896443 CCCATGAT
1 CCCATGAT
28896451 CCCATGAT
1 CCCATGAT
28896459 C
1 C
28896460 TTTTTCCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCATGAT
Found at i:28899595 original size:27 final size:27
Alignment explanation
Indices: 28899555--28899702 Score: 129
Period size: 27 Copynumber: 5.5 Consensus size: 27
28899545 GACAAGTTAA
*
28899555 CCCCAGTTCACAACTCAACTGGGAAAC
1 CCCCAGTTCGCAACTCAACTGGGAAAC
* * *
28899582 CCCTAGTTCGCAACTTAACT-TGATAAC
1 CCCCAGTTCGCAACTCAACTGGGA-AAC
* * *
28899609 CCCTAGTTCGCAACACAACTGGTAAAC
1 CCCCAGTTCGCAACTCAACTGGGAAAC
* * ***
28899636 CCCCAATTCTCAACTCAACTCATAAAC
1 CCCCAGTTCGCAACTCAACTGGGAAAC
* *
28899663 CCCCAATTCACAACTCAACTGGCG-AAC
1 CCCCAGTTCGCAACTCAACTGG-GAAAC
*
28899690 CCCCAGTTTGCAA
1 CCCCAGTTCGCAA
28899703 GTTAACTATT
Statistics
Matches: 97, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
26 2 0.02
27 94 0.97
28 1 0.01
ACGTcount: A:0.32, C:0.36, G:0.11, T:0.20
Consensus pattern (27 bp):
CCCCAGTTCGCAACTCAACTGGGAAAC
Found at i:28899636 original size:54 final size:53
Alignment explanation
Indices: 28899552--28899709 Score: 165
Period size: 54 Copynumber: 2.9 Consensus size: 53
28899542 TTTGACAAGT
* * *
28899552 TAACCCCAGTTCACAACTCAACTGGGAAACCCCTAGTTCGCAACTTAACTTGA
1 TAACCCCAGTTCACAACTCAACTGGCAAACCCCCAGTTCGCAACTTAACTTCA
* * * * * *
28899605 TAACCCCTAGTTCGCAACACAACTGGTAAACCCCCAATTCTCAACTCAAC-TCA
1 TAACCCC-AGTTCACAACTCAACTGGCAAACCCCCAGTTCGCAACTTAACTTCA
* * * *
28899658 TAAACCCCCAATTCACAACTCAACTGGCGAACCCCCAGTTTGCAAGTTAACT
1 T-AA-CCCCAGTTCACAACTCAACTGGCAAACCCCCAGTTCGCAACTTAACT
28899710 ATTAAACCCC
Statistics
Matches: 83, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
53 10 0.12
54 69 0.83
55 4 0.05
ACGTcount: A:0.33, C:0.35, G:0.11, T:0.22
Consensus pattern (53 bp):
TAACCCCAGTTCACAACTCAACTGGCAAACCCCCAGTTCGCAACTTAACTTCA
Found at i:28899716 original size:54 final size:53
Alignment explanation
Indices: 28899555--28899727 Score: 163
Period size: 54 Copynumber: 3.2 Consensus size: 53
28899545 GACAAGTTAA
* * * *
28899555 CCCCAGTTCACAACTCAACTGGGAAACCCCTAGTTCGCAACTTAACT-TGATAAC
1 CCCCAATTCACAACTCAACTGGG-AACCCCCAGTTTGCAACTTAACTATTA-AAC
* * * * * * *
28899609 CCCTAGTTCGCAACACAACTGGTAAACCCCCAATTCT-CAACTCAACTCA-TAAAC
1 CCCCAATTCACAACTCAACTGG-GAACCCCCAGTT-TGCAACTTAACT-ATTAAAC
*
28899663 CCCCAATTCACAACTCAACTGGCGAACCCCCAGTTTGCAAGTTAACTATTAAAC
1 CCCCAATTCACAACTCAACTGG-GAACCCCCAGTTTGCAACTTAACTATTAAAC
28899717 CCCCAATTCAC
1 CCCCAATTCAC
28899728 CAAATAGTCT
Statistics
Matches: 95, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
53 2 0.02
54 92 0.97
55 1 0.01
ACGTcount: A:0.33, C:0.36, G:0.10, T:0.21
Consensus pattern (53 bp):
CCCCAATTCACAACTCAACTGGGAACCCCCAGTTTGCAACTTAACTATTAAAC
Found at i:28901907 original size:173 final size:173
Alignment explanation
Indices: 28901613--28901965 Score: 582
Period size: 173 Copynumber: 2.0 Consensus size: 173
28901603 TAGATGAATC
* * * *
28901613 AATTAGCTATGTTGGGATTTAGTTGAGATTTAATTAGAACTGAACTAAACTACTGTAGATGATTA
1 AATTGGCTATGTTGGGATTTAGTTGAGATTTAATTACAACTAAACTAAACTACTATAGATGATTA
* *
28901678 CACTTAAAACTTGTTAAGTGTGTTTAATCACGGGAATCAAGGGTGTTAGTGGGATTATCTAATTT
66 CACTTAAAACTTGTTAAGTGTGTTTAATCACGAGAATCAAGGGTGTTAATGGGATTATCTAATTT
28901743 CTCCACTAAACCTTGTCTCTATTGCATGACTATATAAGGTTAT
131 CTCCACTAAACCTTGTCTCTATTGCATGACTATATAAGGTTAT
*
28901786 AATTGGCTATGTTGGGATTTAGTTGAGATTTAATTACAACTAAACTAGACTACTATAGATGATTA
1 AATTGGCTATGTTGGGATTTAGTTGAGATTTAATTACAACTAAACTAAACTACTATAGATGATTA
* * *
28901851 GACTTAAAACTTGTTAAG-GTTGTTTAATCACTAGAATCAAGGGTGTTAATGGGATTATCTGATT
66 CACTTAAAACTTGTTAAGTG-TGTTTAATCACGAGAATCAAGGGTGTTAATGGGATTATCTAATT
* *
28901915 TCTCCACTAAACCTTGTCTCTGTTGCATGATTATATAAGGTTAT
130 TCTCCACTAAACCTTGTCTCTATTGCATGACTATATAAGGTTAT
28901959 AATTGGC
1 AATTGGC
28901966 CACCATTAGT
Statistics
Matches: 167, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
172 1 0.01
173 166 0.99
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.37
Consensus pattern (173 bp):
AATTGGCTATGTTGGGATTTAGTTGAGATTTAATTACAACTAAACTAAACTACTATAGATGATTA
CACTTAAAACTTGTTAAGTGTGTTTAATCACGAGAATCAAGGGTGTTAATGGGATTATCTAATTT
CTCCACTAAACCTTGTCTCTATTGCATGACTATATAAGGTTAT
Found at i:28902408 original size:15 final size:16
Alignment explanation
Indices: 28902378--28902410 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
28902368 CCTTTTTTAT
*
28902378 TTCCATGTATTGTAAA
1 TTCCATGTATTATAAA
28902394 TTCCAT-TATTATAAA
1 TTCCATGTATTATAAA
28902409 TT
1 TT
28902411 ATGTAAGGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (16 bp):
TTCCATGTATTATAAA
Found at i:28907859 original size:20 final size:20
Alignment explanation
Indices: 28907834--28907968 Score: 110
Period size: 20 Copynumber: 6.8 Consensus size: 20
28907824 AGGATTACAA
* *
28907834 TTTGGTGCCTCTATTTGTAG
1 TTTGGTGCCTCTGTTTGTAC
28907854 TTTGGTGCCTCTGTTTGTAC
1 TTTGGTGCCTCTGTTTGTAC
* *
28907874 TTTGATGCCTTTGTTT-TCAC
1 TTTGGTGCCTCTGTTTGT-AC
*
28907894 TTTGGTGCCTCTGTTTGCAC
1 TTTGGTGCCTCTGTTTGTAC
*** ** *
28907914 TTCAATGCCTCTGACTGCAC
1 TTTGGTGCCTCTGTTTGTAC
* * **
28907934 ATTCGTGCCTCTGTTTACAC
1 TTTGGTGCCTCTGTTTGTAC
*
28907954 TTTGGTGCCTGTGTT
1 TTTGGTGCCTCTGTT
28907969 ATGCATCCTC
Statistics
Matches: 91, Mismatches: 22, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
19 1 0.01
20 90 0.99
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (20 bp):
TTTGGTGCCTCTGTTTGTAC
Found at i:28908452 original size:80 final size:80
Alignment explanation
Indices: 28908319--28908557 Score: 451
Period size: 80 Copynumber: 3.0 Consensus size: 80
28908309 TGATTGTTAG
*
28908319 GGTATAGTTATGAAATCTCTTTTAATATCAATTTATAAGTTAAGGTAAGATGATATTGAATTCAT
1 GGTATAGTTATGAAAACTCTTTTAATATCAATTTATAAGTTAAGGTAAGATGATATTGAATTCAT
28908384 GAATCATATGGAAAA
66 GAATCATATGGAAAA
28908399 GGTATAGTTATGAAAACTCTTTTAATATCAATTTATAAGTTAAGGTAAGATGATATTGAATTCAT
1 GGTATAGTTATGAAAACTCTTTTAATATCAATTTATAAGTTAAGGTAAGATGATATTGAATTCAT
28908464 GAATCATATGGAAAA
66 GAATCATATGGAAAA
*
28908479 GGTATAGTTATGAAAACTCTTTTAATATCAATTTATAAGTTAAGGTAAGATGAAATTGAATTCAT
1 GGTATAGTTATGAAAACTCTTTTAATATCAATTTATAAGTTAAGGTAAGATGATATTGAATTCAT
*
28908544 GAATAATATGGAAA
66 GAATCATATGGAAA
28908558 TTTTATGTGA
Statistics
Matches: 156, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 156 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.36
Consensus pattern (80 bp):
GGTATAGTTATGAAAACTCTTTTAATATCAATTTATAAGTTAAGGTAAGATGATATTGAATTCAT
GAATCATATGGAAAA
Found at i:28909792 original size:18 final size:20
Alignment explanation
Indices: 28909769--28909808 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
28909759 GTGACCACTG
28909769 TTTT-CCAAAATTTTC-AAT
1 TTTTCCCAAAATTTTCTAAT
28909787 TTTTCCCAAAATTTTCTAAT
1 TTTTCCCAAAATTTTCTAAT
28909807 TT
1 TT
28909809 GTTTTGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.20
19 11 0.55
20 5 0.25
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTCCCAAAATTTTCTAAT
Found at i:28930660 original size:15 final size:17
Alignment explanation
Indices: 28930637--28930669 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
28930627 ATAGTTTTTT
28930637 AAATGTTTAA-AATATA
1 AAATGTTTAATAATATA
28930653 AAAT-TTTAATAATATA
1 AAATGTTTAATAATATA
28930669 A
1 A
28930670 GTCTTGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
AAATGTTTAATAATATA
Found at i:28932098 original size:49 final size:49
Alignment explanation
Indices: 28932013--28932147 Score: 165
Period size: 49 Copynumber: 2.9 Consensus size: 49
28932003 CATTCATCAT
* *
28932013 GTGTTCACCTTTTGATTCATGATATTAAAC------TTAATTTTATACA
1 GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTTTATAAA
* * * * *
28932056 GTGTTGAGCTTTTGATTCATGATATTGAATTTAATTTTAATTTTATAAA
1 GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTTTATAAA
28932105 GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTT
1 GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTT
28932148 GTTTTTTTTC
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
43 26 0.34
49 50 0.66
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (49 bp):
GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTTTATAAA
Found at i:28934128 original size:45 final size:44
Alignment explanation
Indices: 28934045--28934140 Score: 149
Period size: 45 Copynumber: 2.2 Consensus size: 44
28934035 ATTACAACAT
*
28934045 CATTCCATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
*
28934089 CATTACATTCAACCAAACA-ATTGAATTACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACA-AGAA-TACTATTACGCCTCTATTC
28934134 CATTACA
1 CATTACA
28934141 CCTCTATTCA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.44
45 26 0.54
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.30
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
Found at i:28934144 original size:16 final size:16
Alignment explanation
Indices: 28934119--28934156 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
28934109 TTGAATTACT
* *
28934119 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCA
28934135 ATTACACCTCTATTCA
1 ATTACACCTCTATTCA
28934151 ATTACA
1 ATTACA
28934157 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.29, C:0.32, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCA
Found at i:28947106 original size:26 final size:25
Alignment explanation
Indices: 28947071--28947131 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
28947061 ACACTTTTTG
28947071 TATTCATTTTTGAGCCAA-TAGTCTTT
1 TATTC-TTTTTGAG-CAATTAGTCTTT
* *
28947097 TATTCTTTTTGAGTAATTATTCTTT
1 TATTCTTTTTGAGCAATTAGTCTTT
28947122 TATTCTTTTT
1 TATTCTTTTT
28947132 TTCCACATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 2 0.06
25 25 0.78
26 5 0.16
ACGTcount: A:0.20, C:0.11, G:0.08, T:0.61
Consensus pattern (25 bp):
TATTCTTTTTGAGCAATTAGTCTTT
Found at i:28947162 original size:16 final size:19
Alignment explanation
Indices: 28947141--28947178 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
28947131 TTTCCACATC
28947141 ATTCAT-AA-TCATAT-TT
1 ATTCATAAATTCATATATT
28947157 ATTCATAAATTCATATATT
1 ATTCATAAATTCATATATT
28947176 ATT
1 ATT
28947179 TGTATATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 2 0.11
18 6 0.32
19 5 0.26
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTCATAAATTCATATATT
Found at i:28948971 original size:12 final size:12
Alignment explanation
Indices: 28948954--28948979 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
28948944 TGGAGCCTCG
28948954 AATGCTATGGGT
1 AATGCTATGGGT
28948966 AATGCTATGGGT
1 AATGCTATGGGT
28948978 AA
1 AA
28948980 CAGAATTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (12 bp):
AATGCTATGGGT
Found at i:28952017 original size:43 final size:44
Alignment explanation
Indices: 28951889--28952020 Score: 117
Period size: 44 Copynumber: 3.0 Consensus size: 44
28951879 GGTGAAATCT
*
28951889 TAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAATAA-AGC
1 TAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAA-AATAGC
* * *** * * * **
28951933 -AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAAATA-C
1 TAG-CCTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTTGAAAATAGC
28951977 TAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGC
1 TAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGC
28952021 AGATCTTGCC
Statistics
Matches: 62, Mismatches: 21, Indels: 10
0.67 0.23 0.11
Matches are distributed among these distances:
43 20 0.32
44 25 0.40
45 17 0.27
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (44 bp):
TAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGC
Found at i:28952347 original size:100 final size:101
Alignment explanation
Indices: 28952203--28952614 Score: 566
Period size: 100 Copynumber: 4.1 Consensus size: 101
28952193 ATTACAGTGG
*
28952203 AATAGATTGAAGCCGCAACAG-CAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAG-T
1 AATAGATTGAAGCCACAACAGTCAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGCT
* ** *
28952266 CACAACGACGAATCTTGTTTCCCCGACATTGTAGTTA
66 -ACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * *
28952303 AATAGATTGAAGCCAC-ACCGTCGAATTTTACTTTCCTGGTGGTGTAGGGGAACAGATTGAAGCT
1 AATAGATTGAAGCCACAACAGTCAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGCT
* *
28952367 ACGACGGTGAATCTTATTTCCCCGACATTGCAATTA
66 ACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* *
28952403 AATAGATTGAAGCCACAA-TG-GAGAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGC
1 AATAGATTGAAGCCACAACAGTCA-AATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGC
*
28952466 TACGACGGTGAATCTTGTTTCCCCGACATTGTAGTTA
65 TACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * *
28952503 AATAGATTGAAGCCACAACGGT-AAATCTTACATCCCTGGTGGTGTAGTGGAACAGACTGAAGCT
1 AATAGATTGAAGCCACAACAGTCAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGCT
*
28952567 ACGACGGTGAATCTTGTTTCCCCCACATTGCAGTTA
66 ACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
*
28952603 AACAGATTGAAG
1 AATAGATTGAAG
28952615 ATGGTAAGTC
Statistics
Matches: 277, Mismatches: 29, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
99 3 0.01
100 270 0.97
101 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (101 bp):
AATAGATTGAAGCCACAACAGTCAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGCT
ACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
Found at i:28952546 original size:200 final size:200
Alignment explanation
Indices: 28952203--28952614 Score: 623
Period size: 200 Copynumber: 2.1 Consensus size: 200
28952193 ATTACAGTGG
*
28952203 AATAGATTGAAGCCGCAACAGCAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGTCA
1 AATAGATTGAAGCCACAACAGCAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGTCA
* *
28952268 CAACGACGAATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGCCACACCGTCGAATTTTA
66 CAACGACGAATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGCCACACCGTCAAATCTTA
* * * *
28952333 CTTTCCTGGTGGTGTAGGGGAACAGATTGAAGCTACGACGGTGAATCTTATTTCCCCGACATTGC
131 CATCCCTGGTGGTGTAGGGGAACAGACTGAAGCTACGACGGTGAATCTTATTTCCCCCACATTGC
28952398 AATTA
196 AATTA
* *
28952403 AATAGATTGAAGCCACAA-TGGAGAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAG-C
1 AATAGATTGAAGCCACAACAGCA-AATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGTC
* ** *
28952466 TACGACGGTGAATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGCCACAACGGT-AAATC
65 -ACAACGACGAATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGCCAC-ACCGTCAAATC
* *
28952530 TTACATCCCTGGTGGTGTAGTGGAACAGACTGAAGCTACGACGGTGAATCTTGTTTCCCCCACAT
128 TTACATCCCTGGTGGTGTAGGGGAACAGACTGAAGCTACGACGGTGAATCTTATTTCCCCCACAT
*
28952595 TGCAGTTA
193 TGCAATTA
*
28952603 AACAGATTGAAG
1 AATAGATTGAAG
28952615 ATGGTAAGTC
Statistics
Matches: 192, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
199 3 0.02
200 185 0.96
201 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (200 bp):
AATAGATTGAAGCCACAACAGCAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGTCA
CAACGACGAATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGCCACACCGTCAAATCTTA
CATCCCTGGTGGTGTAGGGGAACAGACTGAAGCTACGACGGTGAATCTTATTTCCCCCACATTGC
AATTA
Found at i:28952574 original size:50 final size:50
Alignment explanation
Indices: 28952226--28952581 Score: 239
Period size: 50 Copynumber: 7.1 Consensus size: 50
28952216 CGCAACAGCA
* * **
28952226 AATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAG-TCACAACGACG
1 AATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCT-ACGACGGTG
** * * ** ** * * *
28952276 AATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGCCAC-ACCGTCG
1 AATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGT-G
* * * *
28952326 AATTTTACTTTCCTGGTGGTGTAGGGGAACAGATTGAAGCTACGACGGTG
1 AATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTG
* * * ** * * ** * * * * *
28952376 AATCTTATTTCCCCGACATTGCAATTAAATAGATTGAAGCCACAATGGAG
1 AATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTG
*
28952426 AATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGCTACGACGGTG
1 AATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTG
** * * ** ** * * * *
28952476 AATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGCCACAACGGTA
1 AATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTG
* * *
28952526 AATCTTACATCCCTGGTGGTGTAGTGGAACAGACTGAAGCTACGACGGTG
1 AATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTG
28952576 AATCTT
1 AATCTT
28952582 GTTTCCCCCA
Statistics
Matches: 213, Mismatches: 90, Indels: 6
0.69 0.29 0.02
Matches are distributed among these distances:
49 2 0.01
50 207 0.97
51 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (50 bp):
AATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTG
Found at i:28964279 original size:10 final size:10
Alignment explanation
Indices: 28964256--28964303 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
28964246 AAAATTATTA
*
28964256 TTTTAGAAAAT
1 TTTTA-AAATT
28964267 TTTTAAAATT
1 TTTTAAAATT
*
28964277 TTTT-ACATT
1 TTTTAAAATT
*
28964286 TTTTAGAATT
1 TTTTAAAATT
28964296 TTTTAAAA
1 TTTTAAAA
28964304 ATATAAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
9 8 0.26
10 18 0.58
11 5 0.16
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:28964905 original size:18 final size:20
Alignment explanation
Indices: 28964875--28964916 Score: 70
Period size: 18 Copynumber: 2.2 Consensus size: 20
28964865 CAAAATTCGA
28964875 AATAAATAATTAATAAAT-T
1 AATAAATAATTAATAAATAT
28964894 AATAAA-AATTAATAAATAT
1 AATAAATAATTAATAAATAT
28964913 AATA
1 AATA
28964917 TTGAGCTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAAATAATTAATAAATAT
Found at i:28979583 original size:22 final size:22
Alignment explanation
Indices: 28979555--28979598 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
28979545 GAGAGAAGAG
28979555 AAGAAGCACATAAAGATTATAA
1 AAGAAGCACATAAAGATTATAA
* *
28979577 AAGAAGCACATATAGGTTATAA
1 AAGAAGCACATAAAGATTATAA
28979599 GGATAAAAGA
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:0.55, C:0.09, G:0.16, T:0.20
Consensus pattern (22 bp):
AAGAAGCACATAAAGATTATAA
Found at i:28984025 original size:982 final size:982
Alignment explanation
Indices: 28982122--28984085 Score: 3928
Period size: 982 Copynumber: 2.0 Consensus size: 982
28982112 TTCTCATAAC
28982122 CACACTTCTCACATTTATCAAATAACCTAAAGAAGTGAATAGAACAATACAAGACATGTATTTTT
1 CACACTTCTCACATTTATCAAATAACCTAAAGAAGTGAATAGAACAATACAAGACATGTATTTTT
28982187 CTCACTACCACACTTATTATTTTTAATCGATCAACTATGAATCATCTCATATATATATATCACAA
66 CTCACTACCACACTTATTATTTTTAATCGATCAACTATGAATCATCTCATATATATATATCACAA
28982252 TTATAACATTACATAATATAAATATTACAAACAATTATAAAATAAATATATAATGAGATAGATAA
131 TTATAACATTACATAATATAAATATTACAAACAATTATAAAATAAATATATAATGAGATAGATAA
28982317 TTAAAATAAAATTGCCATCCAAGGTTTCCATTGTTCTATTCTAGAAAATAAAATTACATAATGTT
196 TTAAAATAAAATTGCCATCCAAGGTTTCCATTGTTCTATTCTAGAAAATAAAATTACATAATGTT
28982382 TTCGCCACTAGGCATTGGTTTTCAACCGTATTGAATCTTTTCCTCCTCATGAATTCCTTTTGAAA
261 TTCGCCACTAGGCATTGGTTTTCAACCGTATTGAATCTTTTCCTCCTCATGAATTCCTTTTGAAA
28982447 AAATTACATTTAAGTCCTATGCCCATTTCCAGCTCACAAGAATTCTATGAATTTAAAAAAAATAT
326 AAATTACATTTAAGTCCTATGCCCATTTCCAGCTCACAAGAATTCTATGAATTTAAAAAAAATAT
28982512 ATAACAAATATATAATATCTCATCTATTCCCATATATAACTCAAAACATGTATAAGATCTAAAGA
391 ATAACAAATATATAATATCTCATCTATTCCCATATATAACTCAAAACATGTATAAGATCTAAAGA
28982577 ATGTCACTTTCTATGTAATGAAATCATTCAAGAAGAAGAGAAATTTATTTAGATTATTTATTTGT
456 ATGTCACTTTCTATGTAATGAAATCATTCAAGAAGAAGAGAAATTTATTTAGATTATTTATTTGT
28982642 ACTTATAGATAGAACACAACCTGGCTCATGATACCAATTGTTGGAAAATGCAGCGGAAAATAAAT
521 ACTTATAGATAGAACACAACCTGGCTCATGATACCAATTGTTGGAAAATGCAGCGGAAAATAAAT
28982707 TTAGGGAAAAACCAGAGTTTTAAAATTTTTTTTCAAAACAAGATCTTGGCTGTGATATCTAAAGT
586 TTAGGGAAAAACCAGAGTTTTAAAATTTTTTTTCAAAACAAGATCTTGGCTGTGATATCTAAAGT
28982772 AATAAAAACTTAATCAAAATTGTACCTTTTTAATTCATTTAGGATGAGCGCTTCGACCGAGTAGT
651 AATAAAAACTTAATCAAAATTGTACCTTTTTAATTCATTTAGGATGAGCGCTTCGACCGAGTAGT
28982837 CTTCTCTGCTACCCTCAAGCTCACGTCTACCGAGTGTGGGCTCGCTTCGAATCACAAAATTTTTC
716 CTTCTCTGCTACCCTCAAGCTCACGTCTACCGAGTGTGGGCTCGCTTCGAATCACAAAATTTTTC
28982902 ACGAAAATTACCAATGGGGTAATTTTGTAATTTCTCTAAAATTTTGGGTCAAGTTGTAAATTAGA
781 ACGAAAATTACCAATGGGGTAATTTTGTAATTTCTCTAAAATTTTGGGTCAAGTTGTAAATTAGA
28982967 AAAATATCTCTGGAAATTTTCTAGAATAATCTCTTCAAAGAATTTTCTCTCTACAACTTTCTCTT
846 AAAATATCTCTGGAAATTTTCTAGAATAATCTCTTCAAAGAATTTTCTCTCTACAACTTTCTCTT
28983032 GAATTCAATTGTATATAAATAATGACCAAAGGCTCTCTTTATATAGGGAGAGTTTAGAAAGTTCA
911 GAATTCAATTGTATATAAATAATGACCAAAGGCTCTCTTTATATAGGGAGAGTTTAGAAAGTTCA
28983097 ACTATAG
976 ACTATAG
28983104 CACACTTCTCACATTTATCAAATAACCTAAAGAAGTGAATAGAACAATACAAGACATGTATTTTT
1 CACACTTCTCACATTTATCAAATAACCTAAAGAAGTGAATAGAACAATACAAGACATGTATTTTT
28983169 CTCACTACCACACTTATTATTTTTAATCGATCAACTATGAATCATCTCATATATATATATCACAA
66 CTCACTACCACACTTATTATTTTTAATCGATCAACTATGAATCATCTCATATATATATATCACAA
28983234 TTATAACATTACATAATATAAATATTACAAACAATTATAAAATAAATATATAATGAGATAGATAA
131 TTATAACATTACATAATATAAATATTACAAACAATTATAAAATAAATATATAATGAGATAGATAA
28983299 TTAAAATAAAATTGCCATCCAAGGTTTCCATTGTTCTATTCTAGAAAATAAAATTACATAATGTT
196 TTAAAATAAAATTGCCATCCAAGGTTTCCATTGTTCTATTCTAGAAAATAAAATTACATAATGTT
28983364 TTCGCCACTAGGCATTGGTTTTCAACCGTATTGAATCTTTTCCTCCTCATGAATTCCTTTTGAAA
261 TTCGCCACTAGGCATTGGTTTTCAACCGTATTGAATCTTTTCCTCCTCATGAATTCCTTTTGAAA
28983429 AAATTACATTTAAGTCCTATGCCCATTTCCAGCTCACAAGAATTCTATGAATTTAAAAAAAATAT
326 AAATTACATTTAAGTCCTATGCCCATTTCCAGCTCACAAGAATTCTATGAATTTAAAAAAAATAT
28983494 ATAACAAATATATAATATCTCATCTATTCCCATATATAACTCAAAACATGTATAAGATCTAAAGA
391 ATAACAAATATATAATATCTCATCTATTCCCATATATAACTCAAAACATGTATAAGATCTAAAGA
28983559 ATGTCACTTTCTATGTAATGAAATCATTCAAGAAGAAGAGAAATTTATTTAGATTATTTATTTGT
456 ATGTCACTTTCTATGTAATGAAATCATTCAAGAAGAAGAGAAATTTATTTAGATTATTTATTTGT
28983624 ACTTATAGATAGAACACAACCTGGCTCATGATACCAATTGTTGGAAAATGCAGCGGAAAATAAAT
521 ACTTATAGATAGAACACAACCTGGCTCATGATACCAATTGTTGGAAAATGCAGCGGAAAATAAAT
28983689 TTAGGGAAAAACCAGAGTTTTAAAATTTTTTTTCAAAACAAGATCTTGGCTGTGATATCTAAAGT
586 TTAGGGAAAAACCAGAGTTTTAAAATTTTTTTTCAAAACAAGATCTTGGCTGTGATATCTAAAGT
28983754 AATAAAAACTTAATCAAAATTGTACCTTTTTAATTCATTTAGGATGAGCGCTTCGACCGAGTAGT
651 AATAAAAACTTAATCAAAATTGTACCTTTTTAATTCATTTAGGATGAGCGCTTCGACCGAGTAGT
28983819 CTTCTCTGCTACCCTCAAGCTCACGTCTACCGAGTGTGGGCTCGCTTCGAATCACAAAATTTTTC
716 CTTCTCTGCTACCCTCAAGCTCACGTCTACCGAGTGTGGGCTCGCTTCGAATCACAAAATTTTTC
28983884 ACGAAAATTACCAATGGGGTAATTTTGTAATTTCTCTAAAATTTTGGGTCAAGTTGTAAATTAGA
781 ACGAAAATTACCAATGGGGTAATTTTGTAATTTCTCTAAAATTTTGGGTCAAGTTGTAAATTAGA
28983949 AAAATATCTCTGGAAATTTTCTAGAATAATCTCTTCAAAGAATTTTCTCTCTACAACTTTCTCTT
846 AAAATATCTCTGGAAATTTTCTAGAATAATCTCTTCAAAGAATTTTCTCTCTACAACTTTCTCTT
28984014 GAATTCAATTGTATATAAATAATGACCAAAGGCTCTCTTTATATAGGGAGAGTTTAGAAAGTTCA
911 GAATTCAATTGTATATAAATAATGACCAAAGGCTCTCTTTATATAGGGAGAGTTTAGAAAGTTCA
28984079 ACTATAG
976 ACTATAG
28984086 TTAAACTTAA
Statistics
Matches: 982, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
982 982 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (982 bp):
CACACTTCTCACATTTATCAAATAACCTAAAGAAGTGAATAGAACAATACAAGACATGTATTTTT
CTCACTACCACACTTATTATTTTTAATCGATCAACTATGAATCATCTCATATATATATATCACAA
TTATAACATTACATAATATAAATATTACAAACAATTATAAAATAAATATATAATGAGATAGATAA
TTAAAATAAAATTGCCATCCAAGGTTTCCATTGTTCTATTCTAGAAAATAAAATTACATAATGTT
TTCGCCACTAGGCATTGGTTTTCAACCGTATTGAATCTTTTCCTCCTCATGAATTCCTTTTGAAA
AAATTACATTTAAGTCCTATGCCCATTTCCAGCTCACAAGAATTCTATGAATTTAAAAAAAATAT
ATAACAAATATATAATATCTCATCTATTCCCATATATAACTCAAAACATGTATAAGATCTAAAGA
ATGTCACTTTCTATGTAATGAAATCATTCAAGAAGAAGAGAAATTTATTTAGATTATTTATTTGT
ACTTATAGATAGAACACAACCTGGCTCATGATACCAATTGTTGGAAAATGCAGCGGAAAATAAAT
TTAGGGAAAAACCAGAGTTTTAAAATTTTTTTTCAAAACAAGATCTTGGCTGTGATATCTAAAGT
AATAAAAACTTAATCAAAATTGTACCTTTTTAATTCATTTAGGATGAGCGCTTCGACCGAGTAGT
CTTCTCTGCTACCCTCAAGCTCACGTCTACCGAGTGTGGGCTCGCTTCGAATCACAAAATTTTTC
ACGAAAATTACCAATGGGGTAATTTTGTAATTTCTCTAAAATTTTGGGTCAAGTTGTAAATTAGA
AAAATATCTCTGGAAATTTTCTAGAATAATCTCTTCAAAGAATTTTCTCTCTACAACTTTCTCTT
GAATTCAATTGTATATAAATAATGACCAAAGGCTCTCTTTATATAGGGAGAGTTTAGAAAGTTCA
ACTATAG
Found at i:28988347 original size:5 final size:5
Alignment explanation
Indices: 28988339--28988364 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
28988329 AACCTTTTGT
28988339 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
28988365 CAAATTACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:28996046 original size:40 final size:40
Alignment explanation
Indices: 28995973--28996252 Score: 375
Period size: 40 Copynumber: 7.0 Consensus size: 40
28995963 TATTAGTTTT
* * * *
28995973 AGGGTTACCAAAGTACAAATAGGGGCACGTATGTGCATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCATTC
* * *
28996013 AGGGGTATCGAAGTACAAATAGGGGTACATATGTGCATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCATTC
* *
28996053 AGGGGTACCG-AGTACAAACAAGGGCACCTATGTGCATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCATTC
* * *
28996092 AAGGGTACC-AACGTTCAAACAAGGGCACATATGTGCATTC
1 AGGGGTACCGAA-GTACAAACAGGGGCACATATGTGCATTC
* *
28996132 AGGGGTACTGAAGTACAAACAGGGGCACCTATGTGCATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCATTC
* * *
28996172 AAGGGTACCGACGTTCAAACAGGGGCACATATGTGCATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCATTC
*
28996212 AGGGGTACCAAAGTACAAACAGGGGCACATATGTGCATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCATTC
28996252 A
1 A
28996253 ACAATAATTA
Statistics
Matches: 210, Mismatches: 27, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
39 34 0.16
40 174 0.83
41 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (40 bp):
AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCATTC
Found at i:28996056 original size:20 final size:20
Alignment explanation
Indices: 28996033--28996252 Score: 79
Period size: 20 Copynumber: 11.1 Consensus size: 20
28996023 AAGTACAAAT
28996033 AGGGGTACATATGTGCATTC
1 AGGGGTACATATGTGCATTC
** * **
28996053 AGGGGTACCGA-GTACAAAC
1 AGGGGTACATATGTGCATTC
* * *
28996072 AAGGGCACCTATGTGCATTC
1 AGGGGTACATATGTGCATTC
* * * **
28996092 AAGGGTACCA-ACGTTCAAAC
1 AGGGGTA-CATATGTGCATTC
* *
28996112 AAGGGCACATATGTGCATTC
1 AGGGGTACATATGTGCATTC
* * **
28996132 AGGGGTAC-TGAAGTACAAAC
1 AGGGGTACAT-ATGTGCATTC
* *
28996152 AGGGGCACCTATGTGCATTC
1 AGGGGTACATATGTGCATTC
* ** * * **
28996172 AAGGGTACCGACGTTCAAAC
1 AGGGGTACATATGTGCATTC
*
28996192 AGGGGCACATATGTGCATTC
1 AGGGGTACATATGTGCATTC
* * **
28996212 AGGGGTACCA-AAGTACAAAC
1 AGGGGTA-CATATGTGCATTC
*
28996232 AGGGGCACATATGTGCATTC
1 AGGGGTACATATGTGCATTC
28996252 A
1 A
28996253 ACAATAATTA
Statistics
Matches: 135, Mismatches: 58, Indels: 14
0.65 0.28 0.07
Matches are distributed among these distances:
19 18 0.13
20 113 0.84
21 4 0.03
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (20 bp):
AGGGGTACATATGTGCATTC
Found at i:29002547 original size:40 final size:40
Alignment explanation
Indices: 29002363--29002539 Score: 196
Period size: 40 Copynumber: 4.4 Consensus size: 40
29002353 ATACTATTTG
* * * * *
29002363 ATTCA-AGGTTACCAAATTACAGACAGGGTCACATATGTGC
1 ATTCAGAGG-TACCGAAGTACAAACAGGGGCACGTATGTGC
* *
29002403 ATTCATAGGTACCGAAGTACAAACAGGGGCATGTATGTGC
1 ATTCAGAGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * *
29002443 ATTCAGAGGTACCGGAGTACAAATAGGGGCATGTATGTGC
1 ATTCAGAGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* *
29002483 ATTCA-AGGGTATCAAAGTACAAACAGGGGCACGTATGTGC
1 ATTCAGA-GGTACCGAAGTACAAACAGGGGCACGTATGTGC
* *
29002523 ATTCAGGGGTACTGAAG
1 ATTCAGAGGTACCGAAG
29002540 AATAAACATC
Statistics
Matches: 116, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 112 0.97
41 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.23
Consensus pattern (40 bp):
ATTCAGAGGTACCGAAGTACAAACAGGGGCACGTATGTGC
Found at i:29002556 original size:80 final size:80
Alignment explanation
Indices: 29002396--29002564 Score: 214
Period size: 80 Copynumber: 2.1 Consensus size: 80
29002386 CAGGGTCACA
* * * *
29002396 TATGTGCATTCATAGGTACCGAAGTACAAACAGGGGCATGTATGTGCATTCAGAGGTACCGGAGT
1 TATGTGCATTCATAGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGAGGTACCGAAGA
* * *
29002461 ACAAATAGGGGCATG
66 ACAAACAGCGACATG
* * *
29002476 TATGTGCATTCA-AGGGTATCAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACTGAAG
1 TATGTGCATTCATA-GGTACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGAGGTACCGAAG
* *
29002540 AATAAACATCGACATG
65 AACAAACAGCGACATG
29002556 TATGTGCAT
1 TATGTGCAT
29002565 ACAACAATAA
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
79 1 0.01
80 75 0.99
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.24
Consensus pattern (80 bp):
TATGTGCATTCATAGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGAGGTACCGAAGA
ACAAACAGCGACATG
Found at i:29005120 original size:36 final size:31
Alignment explanation
Indices: 29005053--29005115 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
29005043 TATTAACACG
*
29005053 ACTCAGTCTGTTAGTTTGAAGATGAAATACT
1 ACTCAGTCTGTCAGTTTGAAGATGAAATACT
29005084 ACTCAGTCTGTCAGTTTGAAGATGAAATACT
1 ACTCAGTCTGTCAGTTTGAAGATGAAATACT
29005115 A
1 A
29005116 TACTAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (31 bp):
ACTCAGTCTGTCAGTTTGAAGATGAAATACT
Found at i:29016326 original size:15 final size:16
Alignment explanation
Indices: 29016308--29016340 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
29016298 ATTAAATTGG
29016308 ATTAAATTA-GAATTA
1 ATTAAATTATGAATTA
*
29016323 ATTATATTATGAATTA
1 ATTAAATTATGAATTA
29016339 AT
1 AT
29016341 AGACATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (16 bp):
ATTAAATTATGAATTA
Found at i:29016483 original size:10 final size:10
Alignment explanation
Indices: 29016466--29016513 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
29016456 TAATTAATTG
29016466 AAAA-TAATC
1 AAAATTAATC
29016475 AAAATTAATC
1 AAAATTAATC
29016485 AAAATTTGAAT-
1 AAAA-TT-AATC
*
29016496 AAAATTAATT
1 AAAATTAATC
29016506 AAAATTAA
1 AAAATTAA
29016514 ACATATTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 7 0.20
10 19 0.54
11 6 0.17
12 3 0.09
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAATTAATC
Found at i:29021289 original size:25 final size:24
Alignment explanation
Indices: 29021235--29021293 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
29021225 TTAATCAGTA
* *
29021235 TAAAATATT-AATAATTCAATAATT
1 TAAAA-ATTAAATAATTAAATAAAT
29021259 TGAAAAATTAAATAATTAAATAAAAT
1 T-AAAAATTAAATAATTAAAT-AAAT
29021285 TAAAAATTA
1 TAAAAATTA
29021294 GTAGAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 4 0.13
25 22 0.73
26 4 0.13
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
TAAAAATTAAATAATTAAATAAAT
Found at i:29021301 original size:18 final size:18
Alignment explanation
Indices: 29021262--29021303 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
29021252 AATAATTTGA
*
29021262 AAAATTAAATAATTAAAT
1 AAAATTAAATAATTAAAG
*
29021280 AAAATTAAA-AATTAGTAG
1 AAAATTAAATAATTA-AAG
29021298 AAAATT
1 AAAATT
29021304 TTGTCTTACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (18 bp):
AAAATTAAATAATTAAAG
Found at i:29021960 original size:28 final size:29
Alignment explanation
Indices: 29021905--29021961 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
29021895 GCCTTTTAAA
* *
29021905 AATATTTACAAAAAGAGACATCTAATTTT
1 AATATTTACAAAAAGAGACACCAAATTTT
29021934 AATATTTACAAAAA-AGTA-ACCAAATTTT
1 AATATTTACAAAAAGAG-ACACCAAATTTT
29021962 GAAAATAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (29 bp):
AATATTTACAAAAAGAGACACCAAATTTT
Found at i:29025587 original size:30 final size:30
Alignment explanation
Indices: 29025553--29025629 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
29025543 TTTGGGCCTG
* * *
29025553 AGCCTTATACAGTAGCAGTGTGCGGGCCAT
1 AGCCTAATACAGTAACAGAGTGCGGGCCAT
* *
29025583 AGCCTAATACAGTAACAGAGTGTGGGCCTT
1 AGCCTAATACAGTAACAGAGTGCGGGCCAT
*
29025613 AGCCCAATACAGTAACA
1 AGCCTAATACAGTAACA
29025630 ATGCAAATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (30 bp):
AGCCTAATACAGTAACAGAGTGCGGGCCAT
Found at i:29026145 original size:81 final size:81
Alignment explanation
Indices: 29026006--29026347 Score: 392
Period size: 81 Copynumber: 4.2 Consensus size: 81
29025996 CATCTCATAG
* * * * *
29026006 GGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTGGTAATTTCACCCATTGAGGGTATTT-TA
1 GGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCGA
29026070 CTAATTTTACCCATCGA
66 -TAATTTTACCCATCGA
* * *
29026087 GGGTATTTAAGTAATTTTACCCA-CTGAGGGTATTTTACTAATTTTACCCATCGGGGGTATTTCG
1 GGGTATTTTAGTAATTTTACCCATC-GAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCG
*
29026151 ATAATTTTACCCTTCGA
65 ATAATTTTACCCATCGA
* *
29026168 GGGTA-TTTCGATAATTTTACCCATCGAGGGTATTTTAGTGATTTTACCCATC-AGAGGTATTTC
1 GGGTATTTTAG-TAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAG-GGTATTTC
*
29026231 GATAATTTTACCCTTCGA
64 GATAATTTTACCCATCGA
* * * * * *
29026249 GGGTATTTTGGTCATTTT-CCTATCGGGGGTA-TTTCGATAATTTTACCCATAGAGGGTATTTTC
1 GGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTAG-TAATTTTACCCATCGAGGGTA-TTTC
* *
29026312 G-TAATTTTACCTATCAA
64 GATAATTTTACCCATCGA
*
29026329 GGGTATTTCAGTAATTTTA
1 GGGTATTTTAGTAATTTTA
29026348 GAGGCCCATT
Statistics
Matches: 224, Mismatches: 27, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
79 4 0.02
80 60 0.27
81 154 0.69
82 6 0.03
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (81 bp):
GGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCGA
TAATTTTACCCATCGA
Found at i:29026346 original size:27 final size:26
Alignment explanation
Indices: 29026006--29026347 Score: 343
Period size: 27 Copynumber: 12.7 Consensus size: 26
29025996 CATCTCATAG
*
29026006 GGGTATTTTGGTAATTTTACCCATCGA
1 GGGTA-TTTCGTAATTTTACCCATCGA
* * *
29026033 GGGTATTTTGGTAATTTCACCCATTGA
1 GGGTA-TTTCGTAATTTTACCCATCGA
29026060 GGGTATTTTAC-TAATTTTACCCATCGA
1 GGGTA-TTT-CGTAATTTTACCCATCGA
*
29026087 GGGTATTTAAGTAATTTTACCCA-CTGA
1 GGGTATTT-CGTAATTTTACCCATC-GA
*
29026114 GGGTATTTTAC-TAATTTTACCCATCGG
1 GGGTA-TTT-CGTAATTTTACCCATCGA
*
29026141 GGGTATTTCGATAATTTTACCCTTCGA
1 GGGTATTTCG-TAATTTTACCCATCGA
29026168 GGGTATTTCGATAATTTTACCCATCGA
1 GGGTATTTCG-TAATTTTACCCATCGA
* *
29026195 GGGTATTTTAGTGATTTTACCCATC-A
1 GGGTA-TTTCGTAATTTTACCCATCGA
*
29026221 GAGGTATTTCGATAATTTTACCCTTCGA
1 G-GGTATTTCG-TAATTTTACCCATCGA
* * * *
29026249 GGGTATTTTGGTCATTTT-CCTATCGG
1 GGGTA-TTTCGTAATTTTACCCATCGA
*
29026275 GGGTATTTCGATAATTTTACCCATAGA
1 GGGTATTTCG-TAATTTTACCCATCGA
* *
29026302 GGGTATTTTCGTAATTTTACCTATCAA
1 GGGTA-TTTCGTAATTTTACCCATCGA
29026329 GGGTATTTCAGTAATTTTA
1 GGGTATTTC-GTAATTTTA
29026348 GAGGCCCATT
Statistics
Matches: 270, Mismatches: 29, Indels: 32
0.82 0.09 0.10
Matches are distributed among these distances:
25 5 0.02
26 34 0.13
27 211 0.78
28 20 0.07
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (26 bp):
GGGTATTTCGTAATTTTACCCATCGA
Found at i:29031255 original size:23 final size:25
Alignment explanation
Indices: 29031229--29031275 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
29031219 GGAATGGGGA
29031229 AGAAAA-TGA-AGAAGAA-TGAAGAG
1 AGAAAAGTGAGAG-AGAAGTGAAGAG
29031252 AGAAAAGTGAGAGAGAAGTGAAGA
1 AGAAAAGTGAGAGAGAAGTGAAGA
29031276 ATGAATGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.29
24 7 0.33
25 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.34, T:0.09
Consensus pattern (25 bp):
AGAAAAGTGAGAGAGAAGTGAAGAG
Found at i:29035502 original size:26 final size:26
Alignment explanation
Indices: 29035473--29035538 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
29035463 CACGATAGAT
*
29035473 AAAGAAAGCCTTTGTGGCATAATATG
1 AAAGAAAGCCTTTGTGGCATAATATA
* **
29035499 AAAGAAAGGCTTTGTGGTGTAATATA
1 AAAGAAAGCCTTTGTGGCATAATATA
29035525 AAATGAAAGCCTTT
1 AAA-GAAAGCCTTT
29035539 CTGACAAACC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 25 0.74
27 9 0.26
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAGAAAGCCTTTGTGGCATAATATA
Found at i:29037832 original size:27 final size:27
Alignment explanation
Indices: 29037802--29038019 Score: 183
Period size: 27 Copynumber: 8.2 Consensus size: 27
29037792 TTACACTGTT
* **
29037802 ATGATCGAAATATTCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* * * *
29037829 ATGACCGGAATACCCCTATATGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAGA
* *
29037856 ATGACCGAAATACACCTATAGGGTA-A
1 ATGACCGAAATACCCCCATAGGGTAGA
* * * *
29037882 ATAACCAAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAGA
* *
29037909 ATGACCCAAATACCCCCATAAGGT-GAA
1 ATGACCGAAATACCCCCATAGGGTAG-A
** *
29037936 ATGACTAAAATACCCTC--AGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* * * * *
29037961 ATGACTGAAATACACCTATAGAGTAGT
1 ATGACCGAAATACCCCCATAGGGTAGA
*
29037988 ATGACCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAGA
29038015 ATGAC
1 ATGAC
29038020 AATTATACCC
Statistics
Matches: 150, Mismatches: 36, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
25 18 0.12
26 22 0.15
27 110 0.73
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAGA
Found at i:29037992 original size:52 final size:53
Alignment explanation
Indices: 29037819--29038019 Score: 178
Period size: 53 Copynumber: 3.8 Consensus size: 53
29037809 AAATATTCCC
* ** *
29037819 ATAGGGTAGAATGACCGGAATACCC-CTATATGGTAAAATGACCGAAATACACCT
1 ATAGAGTAGAATGACCAAAATACCCTC-A-AGGGTAAAATGACCGAAATACACCT
* * * * *
29037873 ATAGGGTA-AATAACCAAAATACCCTCATAGGGTAAAATGACCCAAATACCCCC
1 ATAGAGTAGAATGACCAAAATACCCTCA-AGGGTAAAATGACCGAAATACACCT
* * *
29037926 ATA-AGGT-GAAATGACTAAAATACCCTC-AGGGTAGAATGACTGAAATACACCT
1 ATAGA-GTAG-AATGACCAAAATACCCTCAAGGGTAAAATGACCGAAATACACCT
* * *
29037978 ATAGAGTAGTATGACCGAAATACCCCCATAGGGTAAAATGAC
1 ATAGAGTAGAATGACCAAAATACCCTCA-AGGGTAAAATGAC
29038020 AATTATACCC
Statistics
Matches: 119, Mismatches: 20, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
52 39 0.33
53 43 0.36
54 37 0.31
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (53 bp):
ATAGAGTAGAATGACCAAAATACCCTCAAGGGTAAAATGACCGAAATACACCT
Found at i:29038003 original size:79 final size:80
Alignment explanation
Indices: 29037818--29038019 Score: 230
Period size: 79 Copynumber: 2.5 Consensus size: 80
29037808 GAAATATTCC
* * * * *
29037818 CATAGGGTAGAATGACCGGAATACCCCTATATGGTAAAATGACCGAAATACACCTATAGGGTAAA
1 CATAGGGTAGAATGACCGAAATACCCCCATAAGGTAAAATGACCAAAATACACCTACAGGGTAAA
29037883 TAACCAAAATACCCT
66 TAACCAAAATACCCT
* * * *
29037898 CATAGGGTAAAATGACCCAAATACCCCCATAAGGTGAAATGACTAAAATAC-CCT-CAGGGTAGA
1 CATAGGGTAGAATGACCGAAATACCCCCATAAGGTAAAATGACCAAAATACACCTACAGGGTA-A
* **
29037961 ATGACTGAAATACACCT
65 ATAACCAAAATAC-CCT
* * *
29037978 -ATAGAGTAGTATGACCGAAATACCCCCATAGGGTAAAATGAC
1 CATAGGGTAGAATGACCGAAATACCCCCATAAGGTAAAATGAC
29038020 AATTATACCC
Statistics
Matches: 102, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
78 6 0.06
79 50 0.49
80 46 0.45
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (80 bp):
CATAGGGTAGAATGACCGAAATACCCCCATAAGGTAAAATGACCAAAATACACCTACAGGGTAAA
TAACCAAAATACCCT
Found at i:29038028 original size:106 final size:104
Alignment explanation
Indices: 29037850--29038048 Score: 260
Period size: 106 Copynumber: 1.9 Consensus size: 104
29037840 ACCCCTATAT
* *
29037850 GGTAAAATGACCGAAATACACCTATAGGGTAAATAACCAAAATACCCTCATAGGGTAAAATGACC
1 GGTAAAATGACCGAAATACACCTATAGAGTAAATAACCAAAATACCCCCATAGGGTAAAATGA-C
29037915 CAAATACCCCCATAAG-G-TGAAATGACTAAAATACCCTCAG
65 CAAATA-CCCC-TAAGAGATGAAATGACTAAAATACCCTCAG
* * * * *
29037955 GGTAGAATGACTGAAATACACCTATAGAGTAGTATGACCGAAATACCCCCATAGGGTAAAATGA-
1 GGTAAAATGACCGAAATACACCTATAGAGTA-AATAACCAAAATACCCCCATAGGGTAAAATGAC
29038019 CAATTATACCCCTAAGAGATGAAATGACTA
65 CAA--ATACCCCTAAGAGATGAAATGACTA
29038049 TAATGGGCTT
Statistics
Matches: 82, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
104 7 0.09
105 33 0.40
106 42 0.51
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.20
Consensus pattern (104 bp):
GGTAAAATGACCGAAATACACCTATAGAGTAAATAACCAAAATACCCCCATAGGGTAAAATGACC
AAATACCCCTAAGAGATGAAATGACTAAAATACCCTCAG
Found at i:29039465 original size:13 final size:13
Alignment explanation
Indices: 29039431--29039463 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
29039421 CGTGTTGTAG
29039431 TTGTATTTACTCA
1 TTGTATTTACTCA
*
29039444 TTGTATTTACTTA
1 TTGTATTTACTCA
29039457 -TGTATTT
1 TTGTATTT
29039464 TAGTTTGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.61
Consensus pattern (13 bp):
TTGTATTTACTCA
Found at i:29060672 original size:9 final size:9
Alignment explanation
Indices: 29060658--29060694 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
29060648 TATAGTTTGA
29060658 TATTCGAAT
1 TATTCGAAT
29060667 TATTCGAAT
1 TATTCGAAT
*
29060676 TATTCGAGT
1 TATTCGAAT
29060685 TATTCGAAT
1 TATTCGAAT
29060694 T
1 T
29060695 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:29061289 original size:117 final size:117
Alignment explanation
Indices: 29061109--29061364 Score: 369
Period size: 120 Copynumber: 2.2 Consensus size: 117
29061099 TCTACCTAAA
*
29061109 TTAATAATAATTATATTAAAAATGTAATTAAATTATATTATTTTATTGAATTGTA-TT-TAATAA
1 TTAATAATAATTATATTAAAAATGTAATTAAATTATATTATTTTATTAAATTGTATTTATAATAA
29061172 TTATGTTAAAATATGATTAAATTATTT-ATTATGATTTTTATT-AATTCATAT
66 TTATGTTAAAATATGATTAAATTATTTAATTATGATTTTTATTAAATT-ATAT
* * *
29061223 TCTAATAATAATTATATTAAGATTGTTATTAAATTATATATTATTTTATTAAATTGTATTTAATA
1 T-TAATAATAATTATATTAAAAATGTAATTAAA-T-TATATTATTTTATTAAATTGTATTT-ATA
* *
29061288 ATAATTATGTTAAAATATGATTAAATTATTTAATTTTTATTTTTATTAAATTATAT
62 ATAATTATGTTAAAATATGATTAAATTATTTAATTATGATTTTTATTAAATTATAT
29061344 TTAATAATAATCT-TATTAAAA
1 TTAATAATAAT-TATATTAAAA
29061365 TTTAATAAAA
Statistics
Matches: 126, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
114 1 0.01
115 28 0.22
116 1 0.01
117 21 0.17
118 2 0.02
120 50 0.40
121 19 0.15
122 4 0.03
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (117 bp):
TTAATAATAATTATATTAAAAATGTAATTAAATTATATTATTTTATTAAATTGTATTTATAATAA
TTATGTTAAAATATGATTAAATTATTTAATTATGATTTTTATTAAATTATAT
Found at i:29061363 original size:62 final size:61
Alignment explanation
Indices: 29061109--29061365 Score: 258
Period size: 62 Copynumber: 4.4 Consensus size: 61
29061099 TCTACCTAAA
* * *
29061109 TTAATAATAATTATATTAAAA-ATG--T-AATTAAATTA-TATTA-TTTTATTGAATTGTAT
1 TTAATAATAATTATATTAAAATATGATTAAATT-ATTTATTATTATTTTTATTAAATTATAT
* *
29061165 TTAAT-A--ATTATGTTAAAATATGATTAAATTATTTATTATGATTTTTATT-AATTCATAT
1 TTAATAATAATTATATTAAAATATGATTAAATTATTTATTATTATTTTTATTAAATT-ATAT
* *
29061223 TCTAATAATAATTATATTAAGAT-TGTTATTAAATTA--TA-TATTA-TTTTATTAAATTGTAT
1 T-TAATAATAATTATATTAAAATATG--ATTAAATTATTTATTATTATTTTTATTAAATTATAT
* *
29061282 TTAATAATAATTATGTTAAAATATGATTAAATTATTTAATTTTTATTTTTATTAAATTATAT
1 TTAATAATAATTATATTAAAATATGATTAAATTATTT-ATTATTATTTTTATTAAATTATAT
29061344 TTAATAATAATCT-TATTAAAAT
1 TTAATAATAAT-TATATTAAAAT
29061366 TTAATAAAAA
Statistics
Matches: 167, Mismatches: 13, Indels: 36
0.77 0.06 0.17
Matches are distributed among these distances:
53 11 0.07
54 3 0.02
55 1 0.01
56 10 0.06
57 21 0.13
58 30 0.18
59 18 0.11
60 10 0.06
61 8 0.05
62 45 0.27
63 10 0.06
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (61 bp):
TTAATAATAATTATATTAAAATATGATTAAATTATTTATTATTATTTTTATTAAATTATAT
Found at i:29062349 original size:3 final size:3
Alignment explanation
Indices: 29062341--29062396 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
29062331 CATCAGAAAA
29062341 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
29062389 AAG AAG AA
1 AAG AAG AA
29062397 ATTGCCGCAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:29070341 original size:15 final size:15
Alignment explanation
Indices: 29070321--29070353 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
29070311 AACAAAGGGA
*
29070321 AGGAAAGGAGGGAGG
1 AGGAAAGGAGGGAAG
29070336 AGGAAAGGAGGGAAG
1 AGGAAAGGAGGGAAG
29070351 AGG
1 AGG
29070354 GGCGAAGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (15 bp):
AGGAAAGGAGGGAAG
Found at i:29070766 original size:41 final size:41
Alignment explanation
Indices: 29070721--29070798 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
29070711 GAGTATGATA
29070721 AATTTGAATAATTAATTAGGCCCCAAAATTATTATTTGAAT
1 AATTTGAATAATTAATTAGGCCCCAAAATTATTATTTGAAT
*
29070762 AATTTGAATAATTAATTAGGTCCCAAAATTATTATTT
1 AATTTGAATAATTAATTAGGCCCCAAAATTATTATTT
29070799 TAGGAAGTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (41 bp):
AATTTGAATAATTAATTAGGCCCCAAAATTATTATTTGAAT
Found at i:29070854 original size:10 final size:10
Alignment explanation
Indices: 29070815--29070856 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
29070805 GTTTTTAAAA
29070815 TTTT-AATTT
1 TTTTAAATTT
*
29070824 TTTTATATCTT
1 TTTTAAAT-TT
29070835 TTTTAGAATTT
1 TTTTA-AATTT
29070846 TTTTAAATTT
1 TTTTAAATTT
29070856 T
1 T
29070857 ATATTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 4 0.14
10 8 0.29
11 14 0.50
12 2 0.07
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:29071070 original size:9 final size:9
Alignment explanation
Indices: 29071056--29071080 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
29071046 ACTTGACTTG
29071056 AACTCGAAT
1 AACTCGAAT
29071065 AACTCGAAT
1 AACTCGAAT
29071074 AACTCGA
1 AACTCGA
29071081 TTTGATTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.20
Consensus pattern (9 bp):
AACTCGAAT
Found at i:29071617 original size:167 final size:168
Alignment explanation
Indices: 29071340--29071675 Score: 545
Period size: 167 Copynumber: 2.0 Consensus size: 168
29071330 ATGATAAAAT
* *
29071340 ATTTTTATTGGAATAATGTTCTCAAGAAAAAAAATAATGTCAACATTTTCATTGAAATATTTATT
1 ATTTTTATTAGAATAATGTTCTCAAGAAAAAAAATAATGTCAACATTTTCATTGAAATATTTAAT
29071405 AATATTTAACTATTTAAACTAACTAATGAAAGAGAATCAAATTATATTAAAAATTAAAGTATATA
66 AATATTTAACTATTTAAACTAACTAATGAAAGAGAATCAAATTATATTAAAAATTAAAGTATATA
*
29071470 GATT-AAATCTTAAGTTTCACCATAGTATAAAAGACAAA
131 GATTAAAAT-TTAAGTTTCAACATAGTATAAAAGACAAA
* *
29071508 ATTTTTATTAGAATAATGTTCTCAAG-AAAAAAATAATG-CAAGTATTTTGATTGAAATATTTAA
1 ATTTTTATTAGAATAATGTTCTCAAGAAAAAAAATAATGTCAA-CATTTTCATTGAAATATTTAA
* *
29071571 TAATATTTAACTATTTAAACTAACTAATGATAGATG-ATCAAATTATATTAGAAATTAAAGTATA
65 TAATATTTAACTATTTAAACTAACTAATGAAAGA-GAATCAAATTATATTAAAAATTAAAGTATA
*
29071635 TAGATTAAAATTTAAGTTTCAACATAGTATAGAAGACAAA
129 TAGATTAAAATTTAAGTTTCAACATAGTATAAAAGACAAA
29071675 A
1 A
29071676 CTGAAATTTG
Statistics
Matches: 157, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
166 3 0.02
167 124 0.79
168 30 0.19
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (168 bp):
ATTTTTATTAGAATAATGTTCTCAAGAAAAAAAATAATGTCAACATTTTCATTGAAATATTTAAT
AATATTTAACTATTTAAACTAACTAATGAAAGAGAATCAAATTATATTAAAAATTAAAGTATATA
GATTAAAATTTAAGTTTCAACATAGTATAAAAGACAAA
Found at i:29071830 original size:16 final size:17
Alignment explanation
Indices: 29071809--29071880 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 17
29071799 TGTTTTTTTT
29071809 AAATATTT-AATATATA
1 AAATATTTAAATATATA
*
29071825 AAATATTTAAATATATC
1 AAATATTTAAATATATA
* *
29071842 AAATGAATTAGAT-TA-A
1 AAAT-ATTTAAATATATA
29071858 ATAAT-TTTAAATATA-A
1 A-AATATTTAAATATATA
29071874 AAATATT
1 AAATATT
29071881 AATTGATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
15 8 0.18
16 15 0.33
17 16 0.36
18 6 0.13
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (17 bp):
AAATATTTAAATATATA
Found at i:29071889 original size:33 final size:33
Alignment explanation
Indices: 29071830--29071894 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
29071820 ATATAAAATA
**
29071830 TTTAAATATATCAAATGAATTAGATTAAATAAT
1 TTTAAATATAAAAAATGAATTAGATTAAATAAT
* *
29071863 TTTAAATATAAAAATATTAATT-GATTATATAA
1 TTTAAATATAAAAA-ATGAATTAGATTAAATAA
29071895 ATTATTCATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 21 0.78
34 6 0.22
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (33 bp):
TTTAAATATAAAAAATGAATTAGATTAAATAAT
Found at i:29073328 original size:37 final size:38
Alignment explanation
Indices: 29073276--29073360 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 38
29073266 ACTCCAATAT
* *
29073276 ATGCATCAAAATGCTCCACCCTACACTCCAAAAT-GAA
1 ATGCACCAAAATGCTCCAACCTACACTCCAAAATAGAA
* * * * *
29073313 ATGCACCAAATTGCTCCAACCTATACTCTAAGATAGTA
1 ATGCACCAAAATGCTCCAACCTACACTCCAAAATAGAA
29073351 ATGCACCAAA
1 ATGCACCAAA
29073361 GTGCCATAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 28 0.70
38 12 0.30
ACGTcount: A:0.40, C:0.29, G:0.09, T:0.21
Consensus pattern (38 bp):
ATGCACCAAAATGCTCCAACCTACACTCCAAAATAGAA
Found at i:29074211 original size:12 final size:12
Alignment explanation
Indices: 29074191--29074229 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
29074181 GAAAAGGTAG
*
29074191 AAAACAAAAAAT
1 AAAACAAAAAAC
*
29074203 AAAATAAAAAAC
1 AAAACAAAAAAC
29074215 AAAAC-AAAAAC
1 AAAACAAAAAAC
29074226 AAAA
1 AAAA
29074230 GGCGCAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (12 bp):
AAAACAAAAAAC
Found at i:29083242 original size:51 final size:49
Alignment explanation
Indices: 29083116--29083309 Score: 201
Period size: 51 Copynumber: 3.9 Consensus size: 49
29083106 GAAAGTGATG
* * *
29083116 GTCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAGAAT-GATA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATAGTTA
* *
29083165 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATAGCTTCA
1 -GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAG-TT-A
* * * ** *
29083217 ATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGTTAGTGATG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGT--TA
* * *
29083268 GTCACATGTGTAGTACTATGTGTAGGCTACTATGTGAACCGA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGA
29083310 TATCATTAAT
Statistics
Matches: 119, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 4 0.03
50 38 0.32
51 75 0.63
52 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGTTA
Found at i:29083309 original size:102 final size:101
Alignment explanation
Indices: 29083117--29083309 Score: 298
Period size: 102 Copynumber: 1.9 Consensus size: 101
29083107 AAAGTGATGG
*
29083117 TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTAC
*
29083182 TATGTGCAGGCTACTATGTGTACCGAATAGCTTCAA
66 TATGTGCAGGCTACTATGTGAACCGAATAGCTTCAA
* * * *
29083218 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGTTAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAG--AATGATAGGTCACATGTGTAGT
*
29083282 ACTATGTGTAGGCTACTATGTGAACCGA
64 ACTATGTGCAGGCTACTATGTGAACCGA
29083310 TATCATTAAT
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
101 38 0.46
102 40 0.48
103 5 0.06
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGTGAACCGAATAGCTTCAA
Found at i:29087697 original size:16 final size:16
Alignment explanation
Indices: 29087672--29087704 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
29087662 CCAAGAACAG
*
29087672 ACCTAGAATAAAAATT
1 ACCTAAAATAAAAATT
29087688 ACCTAAAATAAAAATT
1 ACCTAAAATAAAAATT
29087704 A
1 A
29087705 AACCTTCAAA
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:0.61, C:0.12, G:0.03, T:0.24
Consensus pattern (16 bp):
ACCTAAAATAAAAATT
Found at i:29088897 original size:28 final size:28
Alignment explanation
Indices: 29088857--29088914 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
29088847 GAGTCTACCG
29088857 GACCCTAAAAGTAGTTTAAAAATAGGCA
1 GACCCTAAAAGTAGTTTAAAAATAGGCA
29088885 GACCCTAAAAGTAGTTTAAAAATAGGCA
1 GACCCTAAAAGTAGTTTAAAAATAGGCA
29088913 GA
1 GA
29088915 GACTAATTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.21
Consensus pattern (28 bp):
GACCCTAAAAGTAGTTTAAAAATAGGCA
Found at i:29091576 original size:13 final size:13
Alignment explanation
Indices: 29091558--29091582 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29091548 ATAGCTTCAT
29091558 AAATATTTATTAA
1 AAATATTTATTAA
29091571 AAATATTTATTA
1 AAATATTTATTA
29091583 GTCTGATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATATTTATTAA
Found at i:29105312 original size:3 final size:3
Alignment explanation
Indices: 29105304--29105332 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
29105294 CTCATGCTTA
29105304 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
29105333 AGACAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:29106669 original size:19 final size:19
Alignment explanation
Indices: 29106647--29106684 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
29106637 TCAATCATCC
29106647 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
29106666 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
29106685 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:29119212 original size:50 final size:50
Alignment explanation
Indices: 29119097--29119339 Score: 317
Period size: 50 Copynumber: 4.8 Consensus size: 50
29119087 GATCATAACA
* **
29119097 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCA-CATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATC-TCGG
* * * *
29119148 TGCCCATGGCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
29119198 TGCCAGCGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
29119248 TGACAACACCATGTCCCAGACATGGTCTTACATGAGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
29119298 TGCCAATGCCATGTTCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
29119340 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 135 0.80
51 34 0.20
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:29122901 original size:23 final size:23
Alignment explanation
Indices: 29122871--29122924 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
29122861 TTTAGTGGGT
29122871 TAATAGGGAGTGAGCTTTGGAGA
1 TAATAGGGAGTGAGCTTTGGAGA
*
29122894 TAATAGGGAGTGAGTTTTGGAGA
1 TAATAGGGAGTGAGCTTTGGAGA
29122917 TAATAGGG
1 TAATAGGG
29122925 CAGAGGTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.31, C:0.02, G:0.39, T:0.28
Consensus pattern (23 bp):
TAATAGGGAGTGAGCTTTGGAGA
Found at i:29126245 original size:18 final size:18
Alignment explanation
Indices: 29126222--29126256 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
29126212 ATTGCAAGGA
29126222 ATGTGGTTCACCAAATCG
1 ATGTGGTTCACCAAATCG
29126240 ATGTGGTTCACCAAATC
1 ATGTGGTTCACCAAATC
29126257 TTGAACTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (18 bp):
ATGTGGTTCACCAAATCG
Found at i:29133812 original size:17 final size:16
Alignment explanation
Indices: 29133790--29133842 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
29133780 AAATGCTCGT
29133790 GAAAAAAAAGAAAAAAA
1 GAAAAAAAA-AAAAAAA
*
29133807 GAAAAAGAAAAATAAAA
1 GAAAAA-AAAAAAAAAA
*
29133824 GAAAAAGAACAAAAAAA
1 GAAAAA-AAAAAAAAAA
29133841 GA
1 GA
29133843 GAGCATATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 29 0.91
18 3 0.09
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.02
Consensus pattern (16 bp):
GAAAAAAAAAAAAAAA
Found at i:29133817 original size:11 final size:10
Alignment explanation
Indices: 29133791--29133842 Score: 52
Period size: 11 Copynumber: 5.0 Consensus size: 10
29133781 AATGCTCGTG
29133791 AAAAAAAAGA
1 AAAAAAAAGA
29133801 AAAAAAGAA-A
1 AAAAAA-AAGA
* *
29133811 AAGAAAAATA
1 AAAAAAAAGA
29133821 AAAGAAAAAGA
1 AAA-AAAAAGA
29133832 ACAAAAAAAGA
1 A-AAAAAAAGA
29133843 GAGCATATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
9 2 0.06
10 15 0.43
11 16 0.46
12 2 0.06
ACGTcount: A:0.85, C:0.02, G:0.12, T:0.02
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:29134574 original size:10 final size:10
Alignment explanation
Indices: 29134533--29134572 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
29134523 ATTAAATTTT
29134533 TTAATTTTAA
1 TTAATTTTAA
29134543 TTAATTTTATAA
1 TTAA-TTT-TAA
*
29134555 TTAATTTTGA
1 TTAATTTTAA
29134565 TTAATTTT
1 TTAATTTT
29134573 GAAATTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 14 0.52
11 6 0.22
12 7 0.26
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:29137767 original size:28 final size:28
Alignment explanation
Indices: 29137733--29137930 Score: 251
Period size: 28 Copynumber: 7.1 Consensus size: 28
29137723 GTGACAGTAC
*
29137733 AGTGTGGGCCTTAGCCCAATATAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
* *
29137761 AGTGTGGGCTTTAGCCCAATACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
29137789 AGTGTGGGCCTTAGCCCAATACA-TAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
* *
29137816 CAGTGTGGGACTTAGCCCAATATAG-AATT
1 -AGTGTGGGCCTTAGCCCAATACAGTAA-T
* * *
29137845 AGTGTGGGCCTTAGCCTAATACAATAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
*
29137873 AGTGTGGGCCTTAG-CCAATACA-AAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
*
29137899 CAGTGTGGGCCTTAGCCCAATACAATAAT
1 -AGTGTGGGCCTTAGCCCAATACAGTAAT
29137928 AGT
1 AGT
29137931 ACAGTACAAT
Statistics
Matches: 147, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
26 2 0.01
27 24 0.16
28 115 0.78
29 6 0.04
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAT
Found at i:29137848 original size:84 final size:83
Alignment explanation
Indices: 29137732--29137930 Score: 310
Period size: 84 Copynumber: 2.4 Consensus size: 83
29137722 AGTGACAGTA
* *
29137732 CAGTGTGGGCCTTAGCCCAATATAGTAATAGTGTGGGCTTTAGCCCAATACAGTAACAGTGTGGG
1 CAGTGTGGGCCTTAGCCCAATATAGTAATAGTGTGGGCCTTAGCCCAATACAATAACAGTGTGGG
*
29137797 CCTTAGCCCAATACATAAT
66 CCTTAG-CCAATACAAAAT
* *
29137816 CAGTGTGGGACTTAGCCCAATATAG-AATTAGTGTGGGCCTTAGCCTAATACAATAACAGTGTGG
1 CAGTGTGGGCCTTAGCCCAATATAGTAA-TAGTGTGGGCCTTAGCCCAATACAATAACAGTGTGG
29137880 GCCTTAGCCAATACAAAAT
65 GCCTTAGCCAATACAAAAT
* *
29137899 CAGTGTGGGCCTTAGCCCAATACAATAATAGT
1 CAGTGTGGGCCTTAGCCCAATATAGTAATAGT
29137931 ACAGTACAAT
Statistics
Matches: 105, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
83 39 0.37
84 66 0.63
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (83 bp):
CAGTGTGGGCCTTAGCCCAATATAGTAATAGTGTGGGCCTTAGCCCAATACAATAACAGTGTGGG
CCTTAGCCAATACAAAAT
Found at i:29138066 original size:26 final size:27
Alignment explanation
Indices: 29138037--29138107 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 27
29138027 ACCAATATCG
*
29138037 CAGCAAAGCTACCAGTAAT-AGCATCA
1 CAGCAAAGCTGCCAGTAATCAGCATCA
* * *
29138063 CAGCAGAGCTGCCAGT-ATCAGTATCG
1 CAGCAAAGCTGCCAGTAATCAGCATCA
*
29138089 TAGCAAAGCTGCCAGTAAT
1 CAGCAAAGCTGCCAGTAAT
29138108 TATATATGTG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 2 0.05
26 33 0.89
27 2 0.05
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.18
Consensus pattern (27 bp):
CAGCAAAGCTGCCAGTAATCAGCATCA
Found at i:29138340 original size:27 final size:27
Alignment explanation
Indices: 29138310--29138423 Score: 81
Period size: 27 Copynumber: 4.3 Consensus size: 27
29138300 TAATCTTCTA
*
29138310 GGGGTATAAAGATCATTTTACCCTTAG
1 GGGGTATAAAGATAATTTTACCCTTAG
* * *
29138337 GGGGTATTACGGTAATTTTACCCTTA-
1 GGGGTATAAAGATAATTTTACCCTTAG
** *
29138363 GGGGTATTTTA-ATAATTTTACCCTTTG
1 GGGGTA-TAAAGATAATTTTACCCTTAG
* ** *
29138390 AGGGTATTTTAG-TAATTTTACCCTTTG
1 GGGGTA-TAAAGATAATTTTACCCTTAG
*
29138417 AGGGTAT
1 GGGGTAT
29138424 TTCGGTAATT
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 20 0.27
27 55 0.73
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGGTATAAAGATAATTTTACCCTTAG
Found at i:29138424 original size:27 final size:27
Alignment explanation
Indices: 29138322--29138764 Score: 414
Period size: 27 Copynumber: 16.4 Consensus size: 27
29138312 GGTATAAAGA
* * *
29138322 TCATTTTACCCTTAGGGGGTATTACGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * ***
29138349 TAATTTTACCCTTAG-GGGTATTTTAA
1 TCATTTTACCCTTTGAGGGTATTTCGG
* **
29138375 TAATTTTACCCTTTGAGGGTATTTTAG
1 TCATTTTACCCTTTGAGGGTATTTCGG
*
29138402 TAATTTTACCCTTTGAGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * *
29138429 TAATTTTA-CATTTCGAGGGTATTTTGG
1 TCATTTTACCCTTT-GAGGGTATTTCGG
* **
29138456 TCATTTTA-CCTTTCGGGGGTATTTCAA
1 TCATTTTACCCTTT-GAGGGTATTTCGG
* *
29138483 TCATTTTACCC-TTCAGGGGTATTTCGA
1 TCATTTTACCCTTTGA-GGGTATTTCGG
**
29138510 TCATTTTACCCTTCAAGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
*
29138537 TCATTTTA-CCTATTGGGGGTATTTCGG
1 TCATTTTACCCT-TTGAGGGTATTTCGG
* *
29138564 TCATTTTACCCTTTGGGGGTATTTTGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* **
29138591 TCATTTTA-CCTTTCAAGGGTATTTTAG
1 TCATTTTACCCTTT-GAGGGTATTTCGG
* * *
29138618 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * *
29138645 TCATTCTACCCTATGAGGGTATTTCAG
1 TCATTTTACCCTTTGAGGGTATTTCGG
*
29138672 TCATTTTACCCTAT-AGAGGTATTTCGG
1 TCATTTTACCCTTTGAG-GGTATTTCGG
* * *
29138699 TCAATTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * *
29138726 TCATTTTACCCTATCAGGGTATTTCAG
1 TCATTTTACCCTTTGAGGGTATTTCGG
29138753 TCATTTTACCCT
1 TCATTTTACCCT
29138765 ATGGGGGTCT
Statistics
Matches: 357, Mismatches: 48, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
26 35 0.10
27 310 0.87
28 12 0.03
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTTTGAGGGTATTTCGG
Found at i:29138494 original size:81 final size:81
Alignment explanation
Indices: 29138320--29138762 Score: 457
Period size: 81 Copynumber: 5.5 Consensus size: 81
29138310 GGGGTATAAA
* * * * * * ** *
29138320 GATCATTTTACCCTTAGGGGGTATTACGGTAATTTTACCCTTAG-GGGTATTTTAATAATTTTAC
1 GATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCTTTCGAGGGTATTTTGGTCATTTTAC
*
29138384 CCTTTGAGGGTATTT-
66 CCTTTGGGGGTATTTC
* * * *
29138399 TAGTAATTTTACCCTTTGAGGGTATTTCGGTAATTTTACATTTCGAGGGTATTTTGGTCATTTTA
1 GA-TCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCTTTCGAGGGTATTTTGGTCATTTTA
29138464 -CCTTTCGGGGGTATTTC
65 CCCTTT-GGGGGTATTTC
* * * * * *
29138481 AATCATTTTACCC-TTCAGGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCGGTCATTTTA
1 GATCATTTTACCCTTTGA-GGGTATTTCGGTCATTTTACCTTTCGAGGGTATTTTGGTCATTTTA
29138545 -CCTATTGGGGGTATTTC
65 CCCT-TTGGGGGTATTTC
* * * * *
29138562 GGTCATTTTACCCTTTGGGGGTATTTTGGTCATTTTACCTTTCAAGGGTATTTTAGTCATTTTAC
1 GATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCTTTCGAGGGTATTTTGGTCATTTTAC
*
29138627 CCTATGGGGGTATTTC
66 CCTTTGGGGGTATTTC
* * * * * * *
29138643 GATCATTCTACCCTATGAGGGTATTTCAGTCATTTTACCCTATAGA-GGTATTTCGGTCAATTTA
1 GATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTA-CCTTTCGAGGGTATTTTGGTCATTTTA
*
29138707 CCCTATGGGGGTATTTC
65 CCCTTTGGGGGTATTTC
* * * *
29138724 GGTCATTTTACCCTATCAGGGTATTTCAGTCATTTTACC
1 GATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACC
29138763 CTATGGGGGT
Statistics
Matches: 309, Mismatches: 46, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
79 1 0.00
80 45 0.15
81 250 0.81
82 13 0.04
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (81 bp):
GATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCTTTCGAGGGTATTTTGGTCATTTTAC
CCTTTGGGGGTATTTC
Found at i:29142051 original size:25 final size:25
Alignment explanation
Indices: 29142021--29142068 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
29142011 ATTTATTTGC
29142021 TTGTAAACTTACTAAGCTTTACGCT
1 TTGTAAACTTACTAAGCTTTACGCT
29142046 TTGTAAACTTACTAAGCTTTACG
1 TTGTAAACTTACTAAGCTTTACG
29142069 TTTACTCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (25 bp):
TTGTAAACTTACTAAGCTTTACGCT
Found at i:29144067 original size:21 final size:21
Alignment explanation
Indices: 29144024--29144069 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
29144014 AATTGGGAGG
* * *
29144024 TCTACCAATACAACTCTGGGT
1 TCTACCAATACAACCCAGAGT
*
29144045 TCTACCGATACAACCCAGAGT
1 TCTACCAATACAACCCAGAGT
29144066 TCTA
1 TCTA
29144070 TCGGTAGAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.26
Consensus pattern (21 bp):
TCTACCAATACAACCCAGAGT
Found at i:29165403 original size:22 final size:21
Alignment explanation
Indices: 29165370--29165414 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
29165360 ACGAAAAAAA
29165370 AACAGAAAAAATAAATAAAGC
1 AACAGAAAAAATAAATAAAGC
* *
29165391 AACATAAATAAATAATTAAAGC
1 AACAGAAA-AAATAAATAAAGC
29165413 AA
1 AA
29165415 AACTTGTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.69, C:0.09, G:0.07, T:0.16
Consensus pattern (21 bp):
AACAGAAAAAATAAATAAAGC
Found at i:29166244 original size:46 final size:46
Alignment explanation
Indices: 29166194--29166284 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
29166184 AATGGAATAA
* *
29166194 TAGAGAATTAATTATT-GTGTTAAATAATTATATGAGATTGTTTTAG
1 TAGAGAATTAATTATTAG-ATTAAATAATTATATAAGATTGTTTTAG
* *
29166240 TAGAGAATTAGTTATTAGATTAAATAATTATATAAGCTTGTTTTA
1 TAGAGAATTAATTATTAGATTAAATAATTATATAAGATTGTTTTA
29166285 ATTGAAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 39 0.98
47 1 0.03
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.45
Consensus pattern (46 bp):
TAGAGAATTAATTATTAGATTAAATAATTATATAAGATTGTTTTAG
Found at i:29167029 original size:18 final size:18
Alignment explanation
Indices: 29167002--29167036 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29166992 TAAACAAGTG
29167002 AGGTAACTTTTGAATTAC
1 AGGTAACTTTTGAATTAC
* *
29167020 AGGTATCTTTTTAATTA
1 AGGTAACTTTTGAATTA
29167037 TAACTATCAG
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:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (18 bp):
AGGTAACTTTTGAATTAC
Found at i:29168708 original size:22 final size:22
Alignment explanation
Indices: 29168683--29168733 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
29168673 CTCTCTAATC
* *
29168683 CTCTCAATTTTCTTCCAAACTT
1 CTCTCAATTTCCTTCCAAAATT
29168705 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
29168727 CTCTCAA
1 CTCTCAA
29168734 ACTCATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.25, C:0.33, G:0.00, T:0.41
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:29168815 original size:30 final size:31
Alignment explanation
Indices: 29168779--29168842 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
29168769 CTCAAATCCA
*
29168779 TTTTTTAAAATAATTAT-AATTTTTTTATAT
1 TTTTTTAAAATAATTATAAATTTTGTTATAT
*
29168809 TTTTTTAAAATAATTTTAAATTTTGTTATAT
1 TTTTTTAAAATAATTATAAATTTTGTTATAT
29168840 TTT
1 TTT
29168843 CATCAATGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (31 bp):
TTTTTTAAAATAATTATAAATTTTGTTATAT
Found at i:29169086 original size:17 final size:17
Alignment explanation
Indices: 29169064--29169097 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
29169054 GTTAGTAGAG
29169064 AACTACATGCGGGAAGC
1 AACTACATGCGGGAAGC
*
29169081 AACTACCTGCGGGAAGC
1 AACTACATGCGGGAAGC
29169098 GGGTTTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.29, T:0.12
Consensus pattern (17 bp):
AACTACATGCGGGAAGC
Found at i:29170637 original size:124 final size:125
Alignment explanation
Indices: 29170407--29170744 Score: 579
Period size: 127 Copynumber: 2.7 Consensus size: 125
29170397 CGCAAACTTG
*
29170407 CTACTGTAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTTG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
* * *
29170472 TAGAAACAATTTTATACTATTTGTTCAGAAACATC-AAAAAAATTTATTTCTTACATGAC
66 TAGAAACGATTTTATACTATTTGCTCAGAAAAATCAAAAAAAATTTATTTCTTACATGAC
*
29170531 CTACTGTAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAAAAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
29170596 TAGAAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAAATTTATTTCTTACATGAC
66 TAGAAACGATTTTATACTATTTGCTCAGAAAAATC--AAAAAAAATTTATTTCTTACATGAC
* *
29170658 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
*
29170723 TAGAAGCGATTTTATACTATTT
66 TAGAAACGATTTTATACTATTT
29170745 TACCAGAGAC
Statistics
Matches: 202, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
124 95 0.47
127 107 0.53
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
TAGAAACGATTTTATACTATTTGCTCAGAAAAATCAAAAAAAATTTATTTCTTACATGAC
Found at i:29172059 original size:6 final size:6
Alignment explanation
Indices: 29172025--29172055 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
29172015 TCTAATAAAT
29172025 TATTAA TATTAA TATTAA TATTAA TA-TAA TA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TA
29172056 ATAAAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TATTAA
Found at i:29176127 original size:131 final size:130
Alignment explanation
Indices: 29175741--29176214 Score: 604
Period size: 131 Copynumber: 3.6 Consensus size: 130
29175731 GACTATCATT
* * * *
29175741 TGATTTATGATCGCAACCTAATTTCATTTGAATTAAGATCATGAACAATTTTTATTTGAGTTAGC
1 TGATTTAAGATCACAACCTAAGTTCA-TTCAATTAAGATCATGAACAATTTTTATTTGAGTTAGC
* * * * * ** *
29175806 TGATTTAAGGTCGC-ACTACAAACAACTCGTTGATTTAAGGTCGCAGATGATATTATTAAGGTTC
65 TAATTTAAGATCGCAACTCCGAACAACTCATTGATTTAATATC-TAGATGATATTATTAAGGTTC
29175870 GC
129 GC
* * *
29175872 TGATTTAATATCACAACCTAAGTTCATTCAATTTAAGACCATCAACAATTTTTATTTGAGTTAGC
1 TGATTTAAGATCACAACCTAAGTTCATTCAA-TTAAGATCATGAACAATTTTTATTTGAGTTAGC
* *
29175937 TAATTTAAGATCGCAACTCCGAAGAACTCATTGATTTAATATCTCA-ACTGATATCATTAAGGTT
65 TAATTTAAGATCGCAACTCCGAACAACTCATTGATTTAATATCT-AGA-TGATATTATTAAGGTT
*
29176001 CAC
128 CGC
*
29176004 TGATTTAAGATCACAACCTAAGTTCATTCAATTTAAGATCATGAA-AAATTTTATTTGAGTTAGC
1 TGATTTAAGATCACAACCTAAGTTCATTCAA-TTAAGATCATGAACAATTTTTATTTGAGTTAGC
* * * *
29176068 TAATTTATGATCGCAACTCCGAACAGCTCACTT-TTTTAATATCATAGTTGATATTATTAAGGTT
65 TAATTTAAGATCGCAACTCCGAACAACTCA-TTGATTTAATATC-TAGATGATATTATTAAGGTT
29176132 CGC
128 CGC
29176135 TGATTTAAGATCACAACCTAAGTTCGA-T--A-TAAGATCATGAACAATTTTTATTTGAGTTAGC
1 TGATTTAAGATCACAACCTAAGTTC-ATTCAATTAAGATCATGAACAATTTTTATTTGAGTTAGC
29176196 TAATTTAAGATCGCAACTC
65 TAATTTAAGATCGCAACTC
29176215 TGAAAAGCTT
Statistics
Matches: 303, Mismatches: 31, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
127 12 0.04
128 36 0.12
129 1 0.00
130 4 0.01
131 164 0.54
132 86 0.28
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (130 bp):
TGATTTAAGATCACAACCTAAGTTCATTCAATTAAGATCATGAACAATTTTTATTTGAGTTAGCT
AATTTAAGATCGCAACTCCGAACAACTCATTGATTTAATATCTAGATGATATTATTAAGGTTCGC
Found at i:29176468 original size:132 final size:132
Alignment explanation
Indices: 29176229--29177919 Score: 1748
Period size: 132 Copynumber: 12.8 Consensus size: 132
29176219 AAGCTTGCTT
* * * *
29176229 ATTTAAGATCGCAACTTAAATTCATTGGATTTAAGATCATGAACAATTTTCATTTGAGTTA-CTT
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGC-T
* * * ** * * *
29176293 GATTTAATATCGTAGCTCAAAACAACTCGTTGATTTAAAATCGTAGCTGATATTATTAAAGTTCG
65 GATTTAAGATCGCAACTCTGAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCG
29176358 CTG
130 CTG
** * * *
29176361 ATTTAAGATCATAACCTAAGTTCATTCGATTTAAGATCATTAACAATTTTCATTTGAGTTAGTTG
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * * * * * ** *
29176426 ATTTCATATTGCAACTCTGAACAGCTCATTGATTTAAGATCGTAGAAGATATTATTAAGCTTCGC
66 ATTTAAGATCGCAACTCTGAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCGC
*
29176491 TT
131 TG
* ** *
29176493 ATTTAAGATCTCAACCTAAGTTCATTTTATTTAAGATCATGAACAATTTTTATTTTAGTTAGCTG
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * * * * * * * *
29176558 ATTTAAGATTGCAACTATGGATAGCTCGTTGATTTAAGATTGCAGTTGATATTATTAATGTTCAC
66 ATTTAAGATCGCAACTCTGAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCGC
29176623 TG
131 TG
* * * * *
29176625 ATTTAAGATTGCAACCTAAGTTCATTCGATTTAAGATCATTAATAATTTTTATTTGTGTTACCTG
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * * * * * ** *
29176690 ATTTAAAATTGTAACTCCGAATAACTCATTGATTTAAGATATCAACTGATATTATTAAGGTAT-G
66 ATTTAAGATCGCAACTCTGAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGT-TCG
*
29176754 CTA
130 CTG
* * * *
29176757 ATTTAAGATCGCAACCTAAGTTAATTC-ACTTTAAAATCAAGAACAAATTTTATTTGAGTTAGCT
1 ATTTAAGATCGCAACCTAAGTTCATTCGA-TTTAAGATCATGAACAATTTTTATTTGAGTTAGCT
* * * * *
29176821 GATTTAAGATCGCAACTCCGAACAACTCGCTGATTTAAGATCACAACTGATATTATTTAGGTTCG
65 GATTTAAGATCGCAACTCTGAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCG
*
29176886 TTG
130 CTG
** * * * * *
29176889 ATTTATTATCACAACCTAAGTTCATTCAATTTAAGATCATGAACAAATTTTATTTGAGTTAGTTA
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * * * * *
29176954 ATTTAAGATTGCAACTCCGAACCACTCGCTT-ATTTAAGATCGCAACTGATATTATTAAGGTCCA
66 ATTTAAGATCGCAACTCTGAACAACTCG-TTGATTTAAGATCGCAGCTGATATTATTAAGGTTCG
*
29177018 CTT
130 CTG
* * * * * * * *
29177021 ATTTAATATTGCAACCTAAGTTCATTGGATTTAAGGTTACGGACAATTTTTATTTGAGTTACCTG
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* ** * * * ** * * *
29177086 ATTTAATATCATAACT-TCGAACAACTCGCTAATTTAATATTACAGCTAAAATTATTAAGGTTTG
66 ATTTAAGATCGCAACTCT-GAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCG
29177150 CTG
130 CTG
* * *
29177153 ATTTAAGATCACAACCTAATTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGTTG
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * * * ** *
29177218 ATTTAAGATAGCAACTCTGAATACCTCGTTGATTTAAGATCACAAG-TGATATTATTAACATTTG
66 ATTTAAGATCGCAACTCTGAACAACTCGTTGATTTAAGATCGC-AGCTGATATTATTAAGGTTCG
*
29177282 TTG
130 CTG
* * *
29177285 ATTTAAGATCGCAGCCTAAGTTCATTCGATTTAAGATCATGAACAATTTTCATTTGAGTTAGTTG
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * * * * ** *
29177350 ATTTAATATCGCAAC-CTCGAAGAACTTGCTGATTTAATATCGCAATTGATTTTATTAAGGTTCG
66 ATTTAAGATCGCAACTCT-GAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCG
29177414 CTG
130 CTG
* * * *
29177417 ATCTAATATCGCAACCTAATTTCATTCGATTTGAGATCATGAACAATTTTTATTTGAGTTAGCTG
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * * * *
29177482 ATTTAAAATCGC-ACTAC-AAACAACTCGTTGATTTAAGGTCGTAGTTGATATTATTAAGGTTCG
66 ATTTAAGATCGCAACT-CTGAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCG
29177545 CTG
130 CTG
* * * * * * *
29177548 ATTTAATATCACAACCTAAGTTCATTCAATTTAAGACCATCAACTATTTTTATTTGAGTTAGCTC
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * ** * * * * * *
29177613 ATTTAAAATTGCAACTCCAAAGAACTCATTGATTTAAGATCTCAACGGATATTATTAAGGTTCTC
66 ATTTAAGATCGCAACTCTGAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCGC
29177678 TG
131 TG
* * * *
29177680 ATTTAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTA
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * * * **
29177745 ATTTAAGATCACAACTCTGAACAATTCACTT-ATTTAAGATCACATTTGATATTATTAAGGTTCG
66 ATTTAAGATCGCAACTCTGAACAACTC-GTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCG
*
29177809 TTG
130 CTG
* * *
29177812 ATTTAAGATCACAACCTAAGTTCATTGGATTTAAGATCATGAACAATTTTTATTTGAG-TAGCTA
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* ** *
29177876 ATTTAAGATCGCAACTCCGAACAGTTCGCTGATTTAAGATCGCA
66 ATTTAAGATCGCAACTCTGAACAACTCGTTGATTTAAGATCGCA
29177920 ACCTAAGTTA
Statistics
Matches: 1296, Mismatches: 245, Indels: 37
0.82 0.16 0.02
Matches are distributed among these distances:
130 1 0.00
131 158 0.12
132 1128 0.87
133 9 0.01
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.38
Consensus pattern (132 bp):
ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
ATTTAAGATCGCAACTCTGAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCGC
TG
Found at i:29176562 original size:65 final size:65
Alignment explanation
Indices: 29176345--29177890 Score: 286
Period size: 65 Copynumber: 23.5 Consensus size: 65
29176335 GTAGCTGATA
* * * *
29176345 TTATTAAAGTTCGCTGATTTAAGATCAT-AACCTAAGTTCATTCGATTTAAGATCATTAACAATT
1 TTATTTAAGTTAGCTGATTTAAGATC-TCAACCTAAGTTCATTTGATTTAAGATCATGAACAATT
29176409 T
65 T
* * * * * * *
29176410 TCATTTGAGTTAGTTGATTTCATAT-TGCAACTCTGAACAGCTCA-TTGATTTAAGATCGTAGAA
1 TTATTTAAGTTAGCTGATTTAAGATCT-CAAC-CT--A-AGTTCATTTGATTTAAGATCAT-GAA
* *
29176473 -GA-TA
60 CAATTT
* * *
29176477 TTA-TTAAGCTTCGCTTATTTAAGATCTCAACCTAAGTTCATTTTATTTAAGATCATGAACAATT
1 TTATTTAAG-TTAGCTGATTTAAGATCTCAACCTAAGTTCATTTGATTTAAGATCATGAACAATT
29176541 T
65 T
* * * *
29176542 TTATTTTAGTTAGCTGATTTAAGAT-TGCAACTATGGATAGCTC-GTTGATTTAAGAT--TG--C
1 TTATTTAAGTTAGCTGATTTAAGATCT-CAAC-CT--A-AGTTCATTTGATTTAAGATCATGAAC
*
29176601 AGTTGAT
61 AATT--T
* * *
29176608 ATTA-TTAATGTTCA-CTGATTTAAGAT-TGCAACCTAAGTTCATTCGATTTAAGATCATTAATA
1 -TTATTTAA-GTT-AGCTGATTTAAGATCT-CAACCTAAGTTCATTTGATTTAAGATCATGAACA
29176670 ATTT
62 ATTT
** * * * * *
29176674 TTATTTGTGTTACCTGATTTAAAAT-TGTAACTCCGAATAA-CTCA-TTGATTTAAGAT-ATCAA
1 TTATTTAAGTTAGCTGATTTAAGATCT-CAA--CC---TAAGTTCATTTGATTTAAGATCATGAA
* *
29176735 CTGA-TA
60 C-AATTT
* * * * * * * *
29176741 TTA-TTAAGGTATGCTAATTTAAGATCGCAACCTAAGTT-AATTCACTTTAAAATCAAGAACAAA
1 TTATTTAAGTTA-GCTGATTTAAGATCTCAACCTAAGTTCATTTGA-TTTAAGATCATGAACAAT
29176804 TT
64 TT
* * * ** ** *
29176806 TTATTTGAGTTAGCTGATTTAAGATCGCAACTCCGAACAACTC-GCTGATTTAAGATCA-CAACT
1 TTATTTAAGTTAGCTGATTTAAGATCTCAA--CC-TA-AGTTCATTTGATTTAAGATCATGAAC-
* *
29176869 GA-TA
61 AATTT
* * * ** * ** *
29176873 TTATTTAGGTTCGTTGATTTATTATCACAACCTAAGTTCATTCAATTTAAGATCATGAACAAATT
1 TTATTTAAGTTAGCTGATTTAAGATCTCAACCTAAGTTCATTTGATTTAAGATCATGAACAATTT
* * * * ** **
29176938 TTATTTGAGTTAGTTAATTTAAGAT-TGCAACTCCGAACCACTCGCTT-ATTTAAGATC--GCAA
1 TTATTTAAGTTAGCTGATTTAAGATCT-CAA--CCTAA--GTTCATTTGATTTAAGATCATG-AA
* *
29176999 CTGA-TA
60 C-AATTT
* * * * * * * *
29177005 TTA-TTAAGGTCCA-CTTATTTAATAT-TGCAACCTAAGTTCATTGGATTTAAGGTTACGGACAA
1 TTATTTAA-GT-TAGCTGATTTAAGATCT-CAACCTAAGTTCATTTGATTTAAGATCATGAACAA
29177067 TTT
63 TTT
* * * * ** ** * * * * *
29177070 TTATTTGAGTTACCTGATTTAATATCAT-AACTTCGAACAACTC-GCTAATTTAATATTA-CAGC
1 TTATTTAAGTTAGCTGATTTAAGATC-TCAAC--C-TA-AGTTCATTTGATTTAAGATCATGAAC
**
29177132 TAA-AA
61 -AATTT
* * * *
29177137 TTA-TTAAGGTTTGCTGATTTAAGATCACAACCTAATTTCATTCGATTTAAGATCATGAACAATT
1 TTATTTAA-GTTAGCTGATTTAAGATCTCAACCTAAGTTCATTTGATTTAAGATCATGAACAATT
29177201 T
65 T
* * ** * * * *
29177202 TTATTTGAGTTAGTTGATTTAAGATAGCAACTCTGAA-TACCTCGTTGATTTAAGATCA-CAAGT
1 TTATTTAAGTTAGCTGATTTAAGATCTCAAC-CT-AAGTTCAT--TTGATTTAAGATCATGAA-C
* *
29177265 GA-TA
61 AATTT
* * * * * *
29177269 TTA-TTAACATTTGTTGATTTAAGATCGCAGCCTAAGTTCATTCGATTTAAGATCATGAACAATT
1 TTATTTAA-GTTAGCTGATTTAAGATCTCAACCTAAGTTCATTTGATTTAAGATCATGAACAATT
29177333 T
65 T
* * * * * ** *
29177334 TCATTTGAGTTAGTTGATTTAATATCGCAACCTCGAAGAAC-TTGCTGATTTAATATC--G--CA
1 TTATTTAAGTTAGCTGATTTAAGATCTCAACCT--AAGTTCATT--TGATTTAAGATCATGAACA
29177394 ATTGAT
62 ATT--T
* * * * * * *
29177400 TT-TATTAAGGTTCGCTGATCTAATATCGCAACCTAATTTCATTCGATTTGAGATCATGAACAAT
1 TTAT-TTAA-GTTAGCTGATTTAAGATCTCAACCTAAGTTCATTTGATTTAAGATCATGAACAAT
29177464 TT
64 TT
* * * ** ** * * * ***
29177466 TTATTTGAGTTAGCTGATTTAAAATCGCACTACAAACAACTC-GTTGATTTAAGGTCGT-AGTTG
1 TTATTTAAGTTAGCTGATTTAAGATCTCA--ACCTA-AGTTCATTTGATTTAAGATCATGA-ACA
*
29177529 A-TA
62 ATTT
* * * ** * * *
29177532 TTA-TTAAGGTTCGCTGATTTAATATCACAACCTAAGTTCATTCAATTTAAGACCATCAACTATT
1 TTATTTAA-GTTAGCTGATTTAAGATCTCAACCTAAGTTCATTTGATTTAAGATCATGAACAATT
29177596 T
65 T
* * * * * *
29177597 TTATTTGAGTTAGCTCATTTAAAAT-TGCAACTCCAAAGAACTCA-TTGATTTAAGATC-TCAAC
1 TTATTTAAGTTAGCTGATTTAAGATCT-CAA--CCTAAG--TTCATTTGATTTAAGATCATGAAC
* *
29177659 GGA-TA
61 -AATTT
** * * * **
29177664 TTA-TTAAGGTTCTCTGATTTAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATT
1 TTATTTAA-GTTAGCTGATTTAAGATCTCAACCTAAGTTCATTTGATTTAAGATCATGAACAATT
29177728 T
65 T
* * * * *
29177729 TTATTTGAGTTAGCTAATTTAAGATCACAACTCTGAACAATTCACTT-ATTTAAGATC----AC-
1 TTATTTAAGTTAGCTGATTTAAGATCTCAAC-CT--A-AGTTCATTTGATTTAAGATCATGAACA
29177788 ATTT
62 ATTT
* * * * *
29177792 GATATTATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTCATTGGATTTAAGATCATGAACA
1 -TTA-T-TTAA-GTTAGCTGATTTAAGATCTCAACCTAAGTTCATTTGATTTAAGATCATGAACA
29177857 ATTT
62 ATTT
* * *
29177861 TTATTTGAG-TAGCTAATTTAAGATCGCAAC
1 TTATTTAAGTTAGCTGATTTAAGATCTCAAC
29177891 TCCGAACAGT
Statistics
Matches: 1050, Mismatches: 291, Indels: 281
0.65 0.18 0.17
Matches are distributed among these distances:
62 4 0.00
63 42 0.04
64 162 0.15
65 277 0.26
66 123 0.12
67 265 0.25
68 137 0.13
69 37 0.04
70 3 0.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (65 bp):
TTATTTAAGTTAGCTGATTTAAGATCTCAACCTAAGTTCATTTGATTTAAGATCATGAACAATTT
Done.