Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 88 of 345
Found at i:29070439 original size:5 final size:5
Alignment explanation
Indices: 29070431--29070464 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
29070421 TATTAAAGAC
*
29070431 ATTAC ATTAA ATTAA ATTAA ATTAA ATTAA ATTA
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTA
29070465 TATATGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTAA
Found at i:29071207 original size:17 final size:18
Alignment explanation
Indices: 29071185--29071259 Score: 77
Period size: 17 Copynumber: 4.2 Consensus size: 18
29071175 TTAATTTTTT
29071185 AAAATT-TAAAAATTTAA
1 AAAATTATAAAAATTTAA
29071202 AAAATT-TAAAAAATTT-A
1 AAAATTAT-AAAAATTTAA
* *
29071219 AAAATTATTAAAATTATTA
1 AAAATTATAAAAATT-TAA
29071238 AAAATGTATAAAAA-TTAA
1 AAAAT-TATAAAAATTTAA
29071256 AAAA
1 AAAA
29071260 AATATTTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
17 20 0.40
18 16 0.32
19 7 0.14
20 7 0.14
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (18 bp):
AAAATTATAAAAATTTAA
Found at i:29071260 original size:9 final size:9
Alignment explanation
Indices: 29071185--29071259 Score: 70
Period size: 9 Copynumber: 8.4 Consensus size: 9
29071175 TTAATTTTTT
29071185 AAAATT-TA
1 AAAATTATA
29071193 AAAATT-TAA
1 AAAATTAT-A
29071202 AAAATT-TAA
1 AAAATTAT-A
29071211 AAAATT-TA
1 AAAATTATA
*
29071219 AAAATTATT
1 AAAATTATA
29071228 AAAATTATTA
1 AAAATTA-TA
29071238 AAAATGTATA
1 AAAAT-TATA
29071248 AAAATTA-A
1 AAAATTATA
29071256 AAAA
1 AAAA
29071260 AATATTTTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
8 19 0.31
9 27 0.44
10 13 0.21
11 2 0.03
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:29071260 original size:20 final size:19
Alignment explanation
Indices: 29071185--29071262 Score: 65
Period size: 20 Copynumber: 4.3 Consensus size: 19
29071175 TTAATTTTTT
*
29071185 AAAATT-TAAAAATTTAAA
1 AAAATTATAAAAATTAAAA
* *
29071203 AAATTTA-AAAAATT--TA
1 AAAATTATAAAAATTAAAA
* **
29071219 AAAATTATTAAAATTATTA
1 AAAATTATAAAAATTAAAA
29071238 AAAATGTATAAAAATTAAAA
1 AAAAT-TATAAAAATTAAAA
29071258 AAAAT
1 AAAAT
29071263 ATTTTTTTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
16 7 0.15
17 6 0.12
18 12 0.25
19 7 0.15
20 16 0.33
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (19 bp):
AAAATTATAAAAATTAAAA
Found at i:29072802 original size:39 final size:39
Alignment explanation
Indices: 29072742--29072820 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
29072732 ATCTTAAGAA
*
29072742 ACCAAAAAAATAATTTTCCTTTTTTCACCAACTAACTCT
1 ACCAAAAAAATAATTTGCCTTTTTTCACCAACTAACTCT
* * *
29072781 ACCAAAAATATAGTTTGCCTTTTTTCACCAACTAGCTCT
1 ACCAAAAAAATAATTTGCCTTTTTTCACCAACTAACTCT
29072820 A
1 A
29072821 GCAGAATTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.35
Consensus pattern (39 bp):
ACCAAAAAAATAATTTGCCTTTTTTCACCAACTAACTCT
Found at i:29074075 original size:17 final size:17
Alignment explanation
Indices: 29074057--29074102 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
29074047 TAAATTAATA
29074057 AAATAAA-AATAAAAAT
1 AAATAAATAATAAAAAT
*
29074073 AAATAAATAATAAAACT
1 AAATAAATAATAAAAAT
*
29074090 AACTAAAATAATA
1 AAAT-AAATAATA
29074103 TCTTCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 7 0.27
17 11 0.42
18 8 0.31
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (17 bp):
AAATAAATAATAAAAAT
Found at i:29084567 original size:17 final size:17
Alignment explanation
Indices: 29084549--29084594 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
29084539 TAAATTAATA
29084549 AAATAAA-AATAAAAAT
1 AAATAAATAATAAAAAT
*
29084565 AAATAAATAATAAAACT
1 AAATAAATAATAAAAAT
*
29084582 AACTAAAATAATA
1 AAAT-AAATAATA
29084595 TTTTCTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 7 0.27
17 11 0.42
18 8 0.31
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (17 bp):
AAATAAATAATAAAAAT
Found at i:29096482 original size:47 final size:46
Alignment explanation
Indices: 29096409--29096632 Score: 190
Period size: 47 Copynumber: 4.8 Consensus size: 46
29096399 TATTTGTGTG
*
29096409 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCGAGACGA
* *
29096456 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGACGTA
1 -AGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCTCGAGACG-A
* * * *
29096503 AGCCAGTGTAAGA-CATGTCTAGGACAT-GCGTCGGCTACGAGATGA
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAGACGA
* * * * *
29096548 TAG-TCAGCGTAAGACCATGTCTGGGACATGGCTTCGACTTGAGA-TA
1 -AGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGACGA
* * *
29096594 TGAGCCAGTGTAAGACCATGTCTAGGACATGACATCGGC
1 --AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
29096633 ACCTTACCCC
Statistics
Matches: 144, Mismatches: 23, Indels: 19
0.77 0.12 0.10
Matches are distributed among these distances:
45 4 0.03
46 57 0.40
47 64 0.44
48 19 0.13
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (46 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGACGA
Found at i:29096511 original size:46 final size:46
Alignment explanation
Indices: 29096408--29096630 Score: 193
Period size: 46 Copynumber: 4.8 Consensus size: 46
29096398 TTATTTGTGT
* * *
29096408 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATC-GCCTCGAGACGA
* *
29096456 GTGCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCCTCGAGACGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATC-GCCTCGAGACG-A
* * * *
29096503 -AGCCAGTGTAAGA-CATGTCTAGGACATGCGTCGGCTACGAGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGCCT-CGAGACGA
* * * * * * *
29096548 TAGTCAGCGTAAGACCATGTCTGGGACATGGCTTCGACTTGAGA-TA
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGCCTCGAGACGA
*
29096594 TGAGCCAGTGTAAGACCATGTCTAGGACATGACATCG
1 -GAGCCAGTGTAAGACCATGTCTGGGACATG-CATCG
29096631 GCACCTTACC
Statistics
Matches: 146, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
45 4 0.03
46 61 0.42
47 61 0.42
48 20 0.14
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGCCTCGAGACGA
Found at i:29097826 original size:21 final size:22
Alignment explanation
Indices: 29097787--29097827 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
29097777 TTAGATTGAT
29097787 CACACGGGTGTGTTGCCCCTTC
1 CACACGGGTGTGTTGCCCCTTC
29097809 CACACGGGTGTG-TGCCCCT
1 CACACGGGTGTGTTGCCCCT
29097828 GTGTTAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.10, C:0.37, G:0.29, T:0.24
Consensus pattern (22 bp):
CACACGGGTGTGTTGCCCCTTC
Found at i:29098267 original size:12 final size:12
Alignment explanation
Indices: 29098250--29098274 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29098240 CTGTATGTTC
29098250 TTTATTTTATTT
1 TTTATTTTATTT
29098262 TTTATTTTATTT
1 TTTATTTTATTT
29098274 T
1 T
29098275 ATTTTCTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:29102434 original size:16 final size:18
Alignment explanation
Indices: 29102399--29102436 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
29102389 ATCCTTATTT
*
29102399 AAATAAAATACAGTAGTA
1 AAATAAAATACAGAAGTA
29102417 AAATAAAATA-A-AAGTA
1 AAATAAAATACAGAAGTA
29102433 AAAT
1 AAAT
29102437 TCATATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAGAAGTA
Found at i:29102693 original size:5 final size:5
Alignment explanation
Indices: 29102683--29102710 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
29102673 CTGTGTGTTC
29102683 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
29102711 CTCATAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:29104675 original size:26 final size:26
Alignment explanation
Indices: 29104605--29104683 Score: 72
Period size: 26 Copynumber: 3.0 Consensus size: 26
29104595 TTTTCTCATC
* * *
29104605 ACAATTTCACCATCAATAAAATTTTG
1 ACAATTTGACCCTCAGTAAAATTTTG
* *
29104631 ACAATTTTACCCTCGGTAAAATTTTG
1 ACAATTTGACCCTCAGTAAAATTTTG
*
29104657 A-AGATTTGACCC-CTAGTAAAACTTTG
1 ACA-ATTTGACCCTC-AGTAAAATTTTG
29104683 A
1 A
29104684 GAAAATTTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
25 2 0.05
26 42 0.95
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (26 bp):
ACAATTTGACCCTCAGTAAAATTTTG
Found at i:29109692 original size:46 final size:45
Alignment explanation
Indices: 29109543--29109712 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 45
29109533 CATATCGGTA
* * *
29109543 CCGATGCCATATCCCAGATATGGTCTTACACTGGCTCTCACA-CATCAATG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-ACATC-TCGA-G
* * *
29109593 CCAATGCATGTCTCAGACATGTCTTACACTAGC--ACATCTCGTAG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCG-AG
29109637 CCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAG
29109682 CCCGATGCATGTCCCAGACATGTCTTACACT
1 -CCGATGCATGTCCCAGACATGTCTTACACT
29109713 AACTCACATG
Statistics
Matches: 106, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
44 36 0.34
45 4 0.04
46 38 0.36
48 12 0.11
49 11 0.10
50 5 0.05
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAG
Found at i:29109700 original size:90 final size:94
Alignment explanation
Indices: 29109543--29109713 Score: 237
Period size: 90 Copynumber: 1.9 Consensus size: 94
29109533 CATATCGGTA
* *
29109543 CCGATGCCATATCCCAGATATGGTCTTACACTGGCTCTCACACATCAATGCCAATGCATGTCTCA
1 CCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCACACATCAATGCCAATGCATGTCCCA
29109608 GACATGTCTTACACTAGCACATCTCGTAG
66 GACATGTCTTACACTAGCACATCTCGTAG
* * *
29109637 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-ACATC-TCGA-GCCCGATGCATGTCC
1 CCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCACA-CATCAATG-CCAATGCATGTCC
29109696 CAGACATGTCTTACACTA
64 CAGACATGTCTTACACTA
29109714 ACTCACATGA
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
89 1 0.01
90 35 0.50
91 2 0.03
92 14 0.20
93 12 0.17
94 6 0.09
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (94 bp):
CCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCACACATCAATGCCAATGCATGTCCCA
GACATGTCTTACACTAGCACATCTCGTAG
Found at i:29114600 original size:19 final size:19
Alignment explanation
Indices: 29114576--29114613 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
29114566 ACCATTGTCA
29114576 CCCACCATAATCAAATTTG
1 CCCACCATAATCAAATTTG
*
29114595 CCCACCATAATTAAATTTG
1 CCCACCATAATCAAATTTG
29114614 TTACTAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.29, G:0.05, T:0.29
Consensus pattern (19 bp):
CCCACCATAATCAAATTTG
Found at i:29119317 original size:102 final size:102
Alignment explanation
Indices: 29119141--29119343 Score: 370
Period size: 102 Copynumber: 2.0 Consensus size: 102
29119131 ACATGTTCAC
* * *
29119141 ATAGTTCAAACAATGTGAATATGACAATGCCTTGTACATGAGAAATTCTTCCACCGCAACAATCA
1 ATAGTTCAAACAATGTGAATATGACAATGCCTTGGACATGAGAAATTCTTCCACAGCAACAATAA
*
29119206 AAGGCAAAGGGTCTGTTGAACTATAATTCACTTCCAT
66 AAAGCAAAGGGTCTGTTGAACTATAATTCACTTCCAT
29119243 ATAGTTCAAACAATGTGAATATGACAATGCCTTGGACATGAGAAATTCTTCCACAGCAACAATAA
1 ATAGTTCAAACAATGTGAATATGACAATGCCTTGGACATGAGAAATTCTTCCACAGCAACAATAA
29119308 AAAGCAAAGGGTCTGTTGAACTATAATTCACTTCCA
66 AAAGCAAAGGGTCTGTTGAACTATAATTCACTTCCA
29119344 GAAAAGTTTT
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 97 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (102 bp):
ATAGTTCAAACAATGTGAATATGACAATGCCTTGGACATGAGAAATTCTTCCACAGCAACAATAA
AAAGCAAAGGGTCTGTTGAACTATAATTCACTTCCAT
Found at i:29119940 original size:21 final size:19
Alignment explanation
Indices: 29119914--29120004 Score: 91
Period size: 21 Copynumber: 4.8 Consensus size: 19
29119904 TAATGTTTCT
29119914 TTTAAATCGATTGTCTATATG
1 TTTAAATCGATTGT-T-TATG
*
29119935 TTTAAATCTATTG-TTATG
1 TTTAAATCGATTGTTTATG
* *
29119953 TTGAAAT--ATTGTTTCT-
1 TTTAAATCGATTGTTTATG
29119969 TTTAAATCGATTGTTTATATG
1 TTTAAATCGATTG-TT-TATG
29119990 TTTAAATCGATTGTT
1 TTTAAATCGATTGTT
29120005 ACATTGGAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
16 10 0.17
17 3 0.05
18 14 0.24
19 3 0.05
20 4 0.07
21 25 0.42
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (19 bp):
TTTAAATCGATTGTTTATG
Found at i:29119991 original size:55 final size:55
Alignment explanation
Indices: 29119902--29120116 Score: 259
Period size: 55 Copynumber: 3.9 Consensus size: 55
29119892 AAATTTTTGG
* * * *
29119902 AATAATGTTTCTTTTAAATCGATTGTCTATATGTTTAAATCTATTGTTATGTTGA
1 AATATTGTTTCTTTTAAATCGATTGTTTATATGTTTAAATCGATTGTTATATTGA
* *
29119957 AATATTGTTTCTTTTAAATCGATTGTTTATATGTTTAAATCGATTGTTACATTGG
1 AATATTGTTTCTTTTAAATCGATTGTTTATATGTTTAAATCGATTGTTATATTGA
** * * ** *
29120012 AATATTACTTCTTTTAAATCAATTGTTTATATGTCTAAATTAATTGTTATATTAA
1 AATATTGTTTCTTTTAAATCGATTGTTTATATGTTTAAATCGATTGTTATATTGA
* * * *
29120067 AATACTGTTTTTTTTTTGAATCGATTGTTTATATTTTTAAATCGATTGTT
1 AATA-T-TGTTTCTTTTAAATCGATTGTTTATATGTTTAAATCGATTGTT
29120117 GTGTAGCATA
Statistics
Matches: 134, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
55 99 0.74
56 1 0.01
57 34 0.25
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.53
Consensus pattern (55 bp):
AATATTGTTTCTTTTAAATCGATTGTTTATATGTTTAAATCGATTGTTATATTGA
Found at i:29122429 original size:48 final size:48
Alignment explanation
Indices: 29122345--29122437 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
29122335 GCTCATGTGG
* * *
29122345 GTTCATTTTTCTACAAAGGAAGTGTAGTACAGAGACTAGAAGATGTAA
1 GTTCATTTTTCTACAAAGGAAGTGCAGCACAAAGACTAGAAGATGTAA
*
29122393 GTTCCTTTTTCTACAAAGGAAGTGCAGCACAAAGACTAGAAGATG
1 GTTCATTTTTCTACAAAGGAAGTGCAGCACAAAGACTAGAAGATG
29122438 GAAGCATTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.27
Consensus pattern (48 bp):
GTTCATTTTTCTACAAAGGAAGTGCAGCACAAAGACTAGAAGATGTAA
Found at i:29128472 original size:16 final size:16
Alignment explanation
Indices: 29128453--29128483 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29128443 CTTCTTCACT
29128453 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
29128469 TACTTACTTACTTAA
1 TACTCACTTACTTAA
29128484 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:29128489 original size:20 final size:20
Alignment explanation
Indices: 29128450--29128489 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
29128440 AAACTTCTTC
* *
29128450 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
29128470 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
29128490 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:29128864 original size:55 final size:53
Alignment explanation
Indices: 29128722--29128929 Score: 229
Period size: 55 Copynumber: 3.8 Consensus size: 53
29128712 ATCCTTTTGA
* *
29128722 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAG
* ** * *
29128775 AACTCACCAATGCCATGCCTTGGTATGGTTTTACATGGGACCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG
* * * * *
29128829 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAG
* *
29128884 ACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AACTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
29128930 AACCCTAATG
Statistics
Matches: 126, Mismatches: 23, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
52 2 0.02
53 42 0.33
54 10 0.08
55 70 0.56
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG
Found at i:29128866 original size:108 final size:110
Alignment explanation
Indices: 29128722--29128922 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
29128712 ATCCTTTTGA
* *
29128722 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGA-A-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAGACCTCACCAA
* *
29128785 -TGCCATGCCTTGGTATGGTTTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
29128830 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAGACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAGACCTCACCAAT
29128895 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
29128923 TATCCTTAAC
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 2 0.02
108 48 0.58
109 7 0.08
110 26 0.31
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAGACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:29132340 original size:14 final size:14
Alignment explanation
Indices: 29132321--29132347 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29132311 TGTCCAAGAA
29132321 AACTTCTCGTAACT
1 AACTTCTCGTAACT
29132335 AACTTCTCGTAAC
1 AACTTCTCGTAAC
29132348 CAGAACTCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (14 bp):
AACTTCTCGTAACT
Found at i:29136055 original size:16 final size:16
Alignment explanation
Indices: 29136036--29136082 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
29136026 CTTCTTCACT
29136036 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
29136052 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
29136068 TACTTACTTACTTAA
1 TACTCACTTACTTAA
29136083 TCAAATTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.40
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:29136456 original size:50 final size:52
Alignment explanation
Indices: 29136331--29136524 Score: 169
Period size: 50 Copynumber: 3.7 Consensus size: 52
29136321 AACTTACCAT
* * *
29136331 TGCCATGTCTTGACATGGTCTTATATGGTATCCTTGCCTTATGAACTCACCAA
1 TGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-AACTCAACAA
* * *
29136384 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTAT-AGT-AACAA
1 TGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTATAACTCAACAA
* *** * * *
29136434 TGCCATATCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAGACCTTACCAA
1 TGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATA-A-CTCAACAA
* * * *
29136488 CTGGCATGCCTTGGCATGGTCTTACATGGTATCCTTG
1 -TGCCATGTCTTGACATGGTCTTACATGGGATCCTTG
29136525 AACCCTAATG
Statistics
Matches: 113, Mismatches: 21, Indels: 12
0.77 0.14 0.08
Matches are distributed among these distances:
50 36 0.32
51 4 0.04
52 3 0.03
53 36 0.32
54 4 0.04
55 30 0.27
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.35
Consensus pattern (52 bp):
TGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATAACTCAACAA
Found at i:29136510 original size:55 final size:53
Alignment explanation
Indices: 29136274--29136524 Score: 223
Period size: 53 Copynumber: 4.8 Consensus size: 53
29136264 ACGCGGGTAT
* ** * * *
29136274 CTTACCATTGCCATGAATTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAGA
* * *
29136323 CTTACCATTGCCATGTCTTGACATGGTCTTATATGGTATCCTTGCCTTATGA-A
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAGA
* * * *
29136376 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG-
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAGAGA
* ** * *
29136428 --TAACAATGCCATATCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAGA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAGA
* *
29136479 CCTTACCAACTGGCATGCCTTGGCATGGTCTTACATGGTATCCTTG
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
29136525 AACCCTAATG
Statistics
Matches: 161, Mismatches: 28, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
49 38 0.24
50 38 0.24
51 2 0.01
52 5 0.03
53 41 0.25
54 7 0.04
55 30 0.19
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAGA
Found at i:29142995 original size:32 final size:32
Alignment explanation
Indices: 29142925--29143019 Score: 154
Period size: 32 Copynumber: 2.9 Consensus size: 32
29142915 ACATGAAGTA
* *
29142925 CCCATCATCCACTAACTATTAAAAAAGCTAATG
1 CCCATCATCCATTAACTATT-AAAATGCTAATG
*
29142958 TCCATCATCCATTAACTATTAAAATGCTAATG
1 CCCATCATCCATTAACTATTAAAATGCTAATG
29142990 CCCATCATCCATTAACTATTAAAATGCTAA
1 CCCATCATCCATTAACTATTAAAATGCTAA
29143020 AATGCATACA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 40 0.69
33 18 0.31
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.29
Consensus pattern (32 bp):
CCCATCATCCATTAACTATTAAAATGCTAATG
Found at i:29143928 original size:43 final size:43
Alignment explanation
Indices: 29143854--29143960 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 43
29143844 TTCGAATGTC
** * * *
29143854 CACACGGCCT-GTGACATGGGCGTGTCTCTTGGCCTTGTGAGA
1 CACACGGCCTAGCCACACGGGCATGTCTCTTGGCCATGTGAGA
*
29143896 CACACGGCCTAGCCGCACGGGCATGTCTCTTGGCCATGTGAGA
1 CACACGGCCTAGCCACACGGGCATGTCTCTTGGCCATGTGAGA
*
29143939 CACACGGCCTGGCCACACGGGC
1 CACACGGCCTAGCCACACGGGC
29143961 TTGTGTCCCC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 10 0.18
43 46 0.82
ACGTcount: A:0.17, C:0.33, G:0.32, T:0.19
Consensus pattern (43 bp):
CACACGGCCTAGCCACACGGGCATGTCTCTTGGCCATGTGAGA
Found at i:29145939 original size:46 final size:46
Alignment explanation
Indices: 29145871--29146042 Score: 131
Period size: 46 Copynumber: 3.7 Consensus size: 46
29145861 TGATATGTGT
* *
29145871 GCTAGTGTAAGACATGGT-TGGGACATACATCGGCCACATTACGAGA
1 GCTAGTGTAAGAC-TTGTCTGGGACATGCATCGGCCACATTACGAGA
*
29145917 GCTAGTGTAAGACTTGTCTGGGACATGCA---GCGACATTGAGACGAGA
1 GCTAGTGTAAGACTTGTCTGGGACATGCATCGGCCACATT---ACGAGA
* * * * *
29145963 GCTAGTATAAGACATGTTTGGGACATGTATCGGCCTCGAGATATAC-A-A
1 GCTAGTGTAAGACTTGTCTGGGACATGCATCGG-C-C-ACAT-TACGAGA
* *
29146011 GCTAGTGTAAGACCTGTCTAGGACATGGCATC
1 GCTAGTGTAAGACTTGTCTGGGACAT-GCATC
29146043 AGCTTGTTGT
Statistics
Matches: 100, Mismatches: 14, Indels: 21
0.74 0.10 0.16
Matches are distributed among these distances:
43 7 0.07
45 3 0.03
46 54 0.54
48 23 0.23
49 6 0.06
50 3 0.03
52 3 0.03
53 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACTTGTCTGGGACATGCATCGGCCACATTACGAGA
Found at i:29146159 original size:49 final size:49
Alignment explanation
Indices: 29145970--29146183 Score: 158
Period size: 49 Copynumber: 4.5 Consensus size: 49
29145960 AGAGCTAGTA
* * * *
29145970 TAAGACATGTTTGGGACAT-GTATCGGCCTCGAGATAT-ACAAG-CTAGTG
1 TAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGA-AAGTC-AGTG
* * * * *
29146018 TAAGACCTGTCTAGGACATGGCATCAG-CTTG-T-TGTG--TGTCAGTG
1 TAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTCAGTG
* * ** * * * *
29146062 TAAGACCTGCCTGGGACATGACATCTACAC-CAATAGATGAGAGCCAGTG
1 TAAGACCTGTCTGGGACATGGCATCGGC-CTCGATATATGAAAGTCAGTG
* *
29146111 TAAGACCTGTTTGGGACATGGCATCGGCCTCGATATCTGAAAGTCAGTG
1 TAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTCAGTG
*
29146160 TAAGACCTGTCTGGGACGTGGCAT
1 TAAGACCTGTCTGGGACATGGCAT
29146184 TGACTTTGAT
Statistics
Matches: 124, Mismatches: 32, Indels: 19
0.71 0.18 0.11
Matches are distributed among these distances:
44 27 0.22
45 1 0.01
46 4 0.03
47 2 0.02
48 20 0.16
49 70 0.56
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (49 bp):
TAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTCAGTG
Found at i:29154204 original size:80 final size:80
Alignment explanation
Indices: 29154067--29154226 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
29154057 TACCTCTCAA
29154067 GTCGGACATTGCCTTTCTACTTAAGGCATCAACCACTATATTAGCTTTTCCAAGGTGATACTCAA
1 GTCGGACATTGCCTTTCTACTTAAGGCATCAACCACTATATTAGCTTTTCCAAGGTGATACTCAA
29154132 TTGTACAGTCATAGT
66 TTGTACAGTCATAGT
*
29154147 GTCGGACATTGCCTTTCTACTTAAGGCATCAACCACTATATTAGCTTTTCCAGGGTGATACTCAA
1 GTCGGACATTGCCTTTCTACTTAAGGCATCAACCACTATATTAGCTTTTCCAAGGTGATACTCAA
*
29154212 TTGTGCAGTCATAGT
66 TTGTACAGTCATAGT
29154227 CTTTCAACAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (80 bp):
GTCGGACATTGCCTTTCTACTTAAGGCATCAACCACTATATTAGCTTTTCCAAGGTGATACTCAA
TTGTACAGTCATAGT
Found at i:29161181 original size:49 final size:50
Alignment explanation
Indices: 29161115--29161243 Score: 188
Period size: 50 Copynumber: 2.6 Consensus size: 50
29161105 ATCTGGTACG
* *
29161115 CATAGTAGCCTACACTTAGTACTACACATGCGACC-AACAATCCGGTACA
1 CATAGTAGCCTACACTTAGTACTACACACGCGACCTAACAATCCGATACA
* * * * *
29161164 CGTAGTAGCCTTCACTTAGTACTACACACGTGACCTAACCATCTGATACA
1 CATAGTAGCCTACACTTAGTACTACACACGCGACCTAACAATCCGATACA
29161214 CATAGTAGCCTACACTTAGTACTACACACG
1 CATAGTAGCCTACACTTAGTACTACACACG
29161244 TGATTGAAGT
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 31 0.44
50 39 0.56
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.23
Consensus pattern (50 bp):
CATAGTAGCCTACACTTAGTACTACACACGCGACCTAACAATCCGATACA
Found at i:29161302 original size:101 final size:100
Alignment explanation
Indices: 29161105--29161340 Score: 258
Period size: 99 Copynumber: 2.3 Consensus size: 100
29161095 AACCGAAGCT
* * * *
29161105 ATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGT
1 ATCTGATACACATAGTAGCCTACACTTAGTACTACACACGCGACCAACAATCCGGTACACATAGT
*
29161170 AGCCTTCACTTAGTACTACACACGTGACCT-AACC
66 AGCCTGCACTTAGTACTACACACGTGACCTAAACC
* ** *** * *
29161204 ATCTGATACACATAGTAGCCTACACTTAGTACTACACACGTGATTGAAGTTGTCGGGTACGCATA
1 ATCTGATACACATAGTAGCCTACACTTAGTACTACACACGCGA-CCAA-CAATCCGGTACACATA
* *
29161269 GTAGCCTGCACTTAGTACTACACATGTGGCCTAAAACC
64 GTAGCCTGCACTTAGTACTACACACGTGACCT-AAACC
* * * * *
29161307 ATCTTAAACACATAGTAGCTTGCACATAGTACTA
1 ATCTGATACACATAGTAGCCTACACTTAGTACTA
29161341 AACATGTTTT
Statistics
Matches: 113, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
99 39 0.35
100 2 0.02
101 39 0.35
103 33 0.29
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (100 bp):
ATCTGATACACATAGTAGCCTACACTTAGTACTACACACGCGACCAACAATCCGGTACACATAGT
AGCCTGCACTTAGTACTACACACGTGACCTAAACC
Found at i:29166139 original size:22 final size:22
Alignment explanation
Indices: 29166111--29166154 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
29166101 TTTAATTACT
*
29166111 TAGCCATTTAGTCATGCCCGAC
1 TAGCCATTTAGCCATGCCCGAC
29166133 TAGCCATTTAGCCATGCCCGAC
1 TAGCCATTTAGCCATGCCCGAC
29166155 CTGCAAGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (22 bp):
TAGCCATTTAGCCATGCCCGAC
Found at i:29169537 original size:40 final size:39
Alignment explanation
Indices: 29169482--29169561 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 39
29169472 CTAGTAGGAG
*
29169482 TCTATGAAGAATTTGGCTAGCATGAAATTAAAAAAGAAAT
1 TCTATGAAAAATTTGGCTAGCATGAAATT-AAAAAGAAAT
*
29169522 TCTATGAAAAATTTGGCTAGCATGAAATTAGAAAGAAAT
1 TCTATGAAAAATTTGGCTAGCATGAAATTAAAAAGAAAT
29169561 T
1 T
29169562 GTGTAATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 10 0.26
40 28 0.74
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.29
Consensus pattern (39 bp):
TCTATGAAAAATTTGGCTAGCATGAAATTAAAAAGAAAT
Found at i:29170022 original size:43 final size:44
Alignment explanation
Indices: 29169971--29170137 Score: 198
Period size: 43 Copynumber: 3.9 Consensus size: 44
29169961 GATTACCGAG
*
29169971 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
** *
29170015 -TGTGATTATGTGTAAGACCATGTCTAGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * * *
29170057 ATATGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
29170100 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
29170138 TGTACAAGCT
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 7 0.07
43 97 0.93
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:29173159 original size:41 final size:41
Alignment explanation
Indices: 29173083--29173265 Score: 169
Period size: 40 Copynumber: 4.5 Consensus size: 41
29173073 AATACTCGAT
* * * *
29173083 ATCTCGCACACTAAGTGCCAAAGCATAGCTGAAGCTATTATA
1 ATCTCGCACACTAAGTGCCATATCATAGCCGAAGCTATT-CA
* * *
29173125 ATCTTGTACACTAAGTGCC-TTTCATAGCCGAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCATATCATAGCCGAAGCTAT-TCA
* *
29173166 GTCTCGCACACTAAGTGCCATAT-ATAGCCGAAGCTATTCCG
1 ATCTCGCACACTAAGTGCCATATCATAGCCGAAGCTATT-CA
** * *
29173207 AT-TCGCACACTAAGTGCTTTAT-ATAGCCAAAGCTATCTCG
1 ATCTCGCACACTAAGTGCCATATCATAGCCGAAGCTAT-TCA
*
29173247 AT-ACGCACACTAAGTGCCA
1 ATCTCGCACACTAAGTGCCA
29173266 AACATAATTG
Statistics
Matches: 118, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
40 50 0.42
41 48 0.41
42 20 0.17
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCATATCATAGCCGAAGCTATTCA
Found at i:29173240 original size:81 final size:83
Alignment explanation
Indices: 29173083--29173271 Score: 219
Period size: 81 Copynumber: 2.3 Consensus size: 83
29173073 AATACTCGAT
* * * *
29173083 ATCTCGCACACTAAGTGCCAAAGCATAGCTGAAGCTATTATAATCTTGTACACTAAGTGCCTTTC
1 ATCTCGCACACTAAGTGCCAAAGCATAGCCGAAGCTATTACAATCTCGCACACTAAGTGCCTTTC
*
29173148 ATAGCCGAAGCTATCTC-
66 ATAGCCAAAGCTATCTCG
* * * *
29173165 AGTCTCGCACACTAAGTGCCATA-TATAGCCGAAGCTATTCCGAT-TCGCACACTAAGTG-CTTT
1 A-TCTCGCACACTAAGTGCCAAAGCATAGCCGAAGCTATTACAATCTCGCACACTAAGTGCCTTT
*
29173227 ATATAGCCAAAGCTATCTCG
65 -CATAGCCAAAGCTATCTCG
*
29173247 AT-ACGCACACTAAGTGCCAAA-CATA
1 ATCTCGCACACTAAGTGCCAAAGCATA
29173272 ATTGATTCGA
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
80 24 0.26
81 29 0.32
82 18 0.20
83 20 0.22
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (83 bp):
ATCTCGCACACTAAGTGCCAAAGCATAGCCGAAGCTATTACAATCTCGCACACTAAGTGCCTTTC
ATAGCCAAAGCTATCTCG
Found at i:29183242 original size:40 final size:39
Alignment explanation
Indices: 29183187--29183301 Score: 151
Period size: 40 Copynumber: 2.9 Consensus size: 39
29183177 AAGTTCAGTA
*
29183187 TGTTATATCCAGGCTAAGTCCCTAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCC-AAGAGCATTCGTGCTGG
*
29183227 TGTTATATCCGGGCTAAGTCCCAACGAGCATTCATGCTGG
1 TGTTATATCCGGGCTAAGTCCCAA-GAGCATTCGTGCTGG
* * *
29183267 TGATGTATCCGGGCTAAGCCCCGAAG-GCATTCGTG
1 TGTTATATCCGGGCTAAGTCCC-AAGAGCATTCGTG
29183302 TTGGGACAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
39 10 0.15
40 55 0.82
41 2 0.03
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (39 bp):
TGTTATATCCGGGCTAAGTCCCAAGAGCATTCGTGCTGG
Found at i:29183595 original size:25 final size:25
Alignment explanation
Indices: 29183548--29183599 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
29183538 AGTGTAATAA
29183548 CGAATGAATATAGGAACTATGTGTG
1 CGAATGAATATAGGAACTATGTGTG
* *
29183573 CGAATGAAT-TGAGGCACTGTGTGTG
1 CGAATGAATAT-AGGAACTATGTGTG
29183598 CG
1 CG
29183600 GATTTCGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.29, C:0.12, G:0.33, T:0.27
Consensus pattern (25 bp):
CGAATGAATATAGGAACTATGTGTG
Found at i:29191112 original size:41 final size:40
Alignment explanation
Indices: 29191067--29191195 Score: 120
Period size: 40 Copynumber: 3.2 Consensus size: 40
29191057 TTATAATCTT
* *
29191067 GCACACTAAGTGCCTTTCATAGCCCAAGCTCTCTCAG-TCTC
1 GCACACTAAGTGCCTTT-ATAGCCAAAGCTATCTCAGAT-TC
* * * *
29191108 GCACACTAAGTACCATATATAGCCGAAGCTAT-TCCGATTC
1 GCACACTAAGTGCC-TTTATAGCCAAAGCTATCTCAGATTC
* *
29191148 GCACACTAAGTGCTTTATATAGCCAAAGCTATCTC-GATAC
1 GCACACTAAGTGCCTT-TATAGCCAAAGCTATCTCAGATTC
*
29191188 GTACACTA
1 GCACACTA
29191196 TTAGTCGTCG
Statistics
Matches: 73, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
39 1 0.01
40 42 0.58
41 28 0.38
42 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (40 bp):
GCACACTAAGTGCCTTTATAGCCAAAGCTATCTCAGATTC
Found at i:29191167 original size:40 final size:41
Alignment explanation
Indices: 29191067--29191182 Score: 121
Period size: 40 Copynumber: 2.9 Consensus size: 41
29191057 TTATAATCTT
* * *
29191067 GCACACTAAGTGCCTTT-CATAGCCCAAGCTCTCTCAGTCTC
1 GCACACTAAGTG-CTTTATATAGCCAAAGCTATCTCAGTCTC
* ** * *
29191108 GCACACTAAGTACCATATATAGCCGAAGCTAT-TCCGAT-TC
1 GCACACTAAGTGCTTTATATAGCCAAAGCTATCTCAG-TCTC
29191148 GCACACTAAGTGCTTTATATAGCCAAAGCTATCTC
1 GCACACTAAGTGCTTTATATAGCCAAAGCTATCTC
29191183 GATACGTACA
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
40 35 0.57
41 26 0.43
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (41 bp):
GCACACTAAGTGCTTTATATAGCCAAAGCTATCTCAGTCTC
Found at i:29193037 original size:32 final size:31
Alignment explanation
Indices: 29192974--29193048 Score: 77
Period size: 32 Copynumber: 2.5 Consensus size: 31
29192964 TATAAAATTT
* *
29192974 TATTAAATGCAAAAATATATAAATTTATTAAA
1 TATTAAAT-TAAAAATACATAAATTTATTAAA
29193006 TATTAAATTAAAAATAACATAATATTT-TTAAA
1 TATTAAATTAAAAAT-ACATAA-ATTTATTAAA
29193038 -A--AAATTAAAAA
1 TATTAAATTAAAAA
29193049 ATATGTATGA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
29 10 0.26
31 7 0.18
32 18 0.46
33 4 0.10
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (31 bp):
TATTAAATTAAAAATACATAAATTTATTAAA
Found at i:29195628 original size:30 final size:30
Alignment explanation
Indices: 29195589--29195645 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
29195579 TTTTATAAGT
29195589 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
29195619 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
29195646 AATAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:29195832 original size:13 final size:13
Alignment explanation
Indices: 29195816--29195841 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29195806 TTTTAAACCA
29195816 AACTTTTCAAAAG
1 AACTTTTCAAAAG
29195829 AACTTTTCAAAAG
1 AACTTTTCAAAAG
29195842 CATTGCCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
AACTTTTCAAAAG
Found at i:29214332 original size:16 final size:15
Alignment explanation
Indices: 29214311--29214375 Score: 64
Period size: 16 Copynumber: 4.3 Consensus size: 15
29214301 ACCCTAGAAG
29214311 AAAAACCTTAAACCCT
1 AAAAA-CTTAAACCCT
*
29214327 AAAAACTTAAAACCTT
1 AAAAACTT-AAACCCT
29214343 AAAAACTCTAAACCC-
1 AAAAACT-TAAACCCT
*
29214358 -AAACCTT-AACCCT
1 AAAAACTTAAACCCT
29214371 AAAAA
1 AAAAA
29214376 AACCAACCAG
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
12 5 0.12
13 1 0.02
14 8 0.20
15 3 0.07
16 23 0.56
17 1 0.02
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAAACTTAAACCCT
Found at i:29214514 original size:35 final size:31
Alignment explanation
Indices: 29214441--29214503 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
29214431 TTGCCTAGTT
29214441 AGAAGAAATCATGTAAGCGCGCTTTTAACTA
1 AGAAGAAATCATGTAAGCGCGCTTTTAACTA
29214472 AGAAGAAATCATGTAAGCGCGCTTTTAACTA
1 AGAAGAAATCATGTAAGCGCGCTTTTAACTA
29214503 A
1 A
29214504 CTTGGCAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (31 bp):
AGAAGAAATCATGTAAGCGCGCTTTTAACTA
Found at i:29215694 original size:18 final size:19
Alignment explanation
Indices: 29215660--29215700 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
29215650 TTACAAAAAG
*
29215660 AAAAATCAAAATAATTTTT
1 AAAAATCAAAATAATTTAT
*
29215679 AAAATTCAAAAT-ATTTAT
1 AAAAATCAAAATAATTTAT
29215697 AAAA
1 AAAA
29215701 GATAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATCAAAATAATTTAT
Found at i:29215992 original size:5 final size:5
Alignment explanation
Indices: 29215982--29216020 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
29215972 ACAATTTCAC
* * *
29215982 TCGAT TCGAT TCGAT TCGAT TTGAT TCGGT TCGGT TCGA
1 TCGAT TCGAT TCGAT TCGAT TCGAT TCGAT TCGAT TCGA
29216021 CTCAACTCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.15, C:0.18, G:0.26, T:0.41
Consensus pattern (5 bp):
TCGAT
Found at i:29217147 original size:19 final size:19
Alignment explanation
Indices: 29217123--29217166 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
29217113 ATATGGCAGC
29217123 ATTTTAAATTAATATGTGA
1 ATTTTAAATTAATATGTGA
*
29217142 ATTTTAAATTAATTTGTGA
1 ATTTTAAATTAATATGTGA
29217161 AGTTTT
1 A-TTTT
29217167 TTTATTCTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (19 bp):
ATTTTAAATTAATATGTGA
Found at i:29226460 original size:45 final size:45
Alignment explanation
Indices: 29226389--29226476 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
29226379 TTTGCAAATT
**
29226389 AAAGTTGCTAATACGATATGGGTAAACCACT-AATCGGTGTAGATA
1 AAAGTTGCTAATACGATATGAATAAACCACTAAAT-GGTGTAGATA
* *
29226434 AAAGTTGCTAATACGGTGTGAATAAACCACTAAATGGTGTAGA
1 AAAGTTGCTAATACGATATGAATAAACCACTAAATGGTGTAGA
29226477 GAAGCTGCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 35 0.92
46 3 0.08
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (45 bp):
AAAGTTGCTAATACGATATGAATAAACCACTAAATGGTGTAGATA
Found at i:29226627 original size:34 final size:34
Alignment explanation
Indices: 29226589--29226653 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
29226579 AGAACAACAT
*
29226589 AGTAGCAATCAATATGCTTATAACAGTTCAATAC
1 AGTAGCAATCAATATGCTTAAAACAGTTCAATAC
*
29226623 AGTAGCAATTAATATGCTTAAAACAGTTCAA
1 AGTAGCAATCAATATGCTTAAAACAGTTCAA
29226654 CTCAATAGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.29
Consensus pattern (34 bp):
AGTAGCAATCAATATGCTTAAAACAGTTCAATAC
Found at i:29226663 original size:34 final size:34
Alignment explanation
Indices: 29226591--29226664 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
29226581 AACAACATAG
* *
29226591 TAGCAATCAATATGCTTATAACAGTTCAATACAG
1 TAGCAATCAATATGCTTAAAACAGTTCAATACAA
*
29226625 TAGCAATTAATATGCTTAAAACAGTTCAACT-CAA
1 TAGCAATCAATATGCTTAAAACAGTTCAA-TACAA
29226659 TAGCAA
1 TAGCAA
29226665 AAGTCATGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 35 0.97
35 1 0.03
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.28
Consensus pattern (34 bp):
TAGCAATCAATATGCTTAAAACAGTTCAATACAA
Found at i:29229638 original size:26 final size:25
Alignment explanation
Indices: 29229608--29229700 Score: 77
Period size: 23 Copynumber: 3.8 Consensus size: 25
29229598 GAACTCACCA
29229608 CAGCTCGTATGAGCTTACTGATTTAT
1 CAGCTCGTATGAGCTTACTGATTT-T
* * *
29229634 CAGCTCGAAAGAGGTTACT-ATTTT
1 CAGCTCGTATGAGCTTACTGATTTT
* * *
29229658 TAGCTCAT-TGGAGCTTACCG--TTT
1 CAGCTCGTAT-GAGCTTACTGATTTT
*
29229681 CAACTCGTATGAGCTTACTG
1 CAGCTCGTATGAGCTTACTG
29229701 TTCAGCTAGA
Statistics
Matches: 51, Mismatches: 13, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
23 17 0.33
24 14 0.27
25 4 0.08
26 16 0.31
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACTGATTTT
Found at i:29229694 original size:23 final size:23
Alignment explanation
Indices: 29229668--29229727 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
29229658 TAGCTCATTG
* * *
29229668 GAGCTTACCGTTTCAACTCGTAT
1 GAGCTTACCGTTTCAACTAGAAA
* *
29229691 GAGCTTACTG-TTCAGCTAGAAA
1 GAGCTTACCGTTTCAACTAGAAA
29229713 GAGCTTACCGTTTCA
1 GAGCTTACCGTTTCA
29229728 GCTCAATAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (23 bp):
GAGCTTACCGTTTCAACTAGAAA
Found at i:29229716 original size:22 final size:22
Alignment explanation
Indices: 29229691--29229749 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
29229681 CAACTCGTAT
29229691 GAGCTTACTGTTCAGCT-AGAAA
1 GAGCTTACTGTTCAGCTCA-AAA
* *
29229713 GAGCTTACCGTTTCAGCTCAATA
1 GAGCTTACTG-TTCAGCTCAAAA
*
29229736 GAGCTTACTATTCA
1 GAGCTTACTGTTCA
29229750 TCAGCTCAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 13 0.42
23 17 0.55
24 1 0.03
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTCAAAA
Found at i:29229738 original size:23 final size:23
Alignment explanation
Indices: 29229659--29229743 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 23
29229649 TACTATTTTT
* *
29229659 AGCTCATTGGAGCTTACCGTTTC
1 AGCTCAATAGAGCTTACCGTTTC
* * *
29229682 AACTC-GTATGAGCTTACTG-TTC
1 AGCTCAATA-GAGCTTACCGTTTC
*
29229704 AGCT-AGAAAGAGCTTACCGTTTC
1 AGCTCA-ATAGAGCTTACCGTTTC
29229727 AGCTCAATAGAGCTTAC
1 AGCTCAATAGAGCTTAC
29229744 TATTCATCAG
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
22 16 0.33
23 31 0.65
24 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (23 bp):
AGCTCAATAGAGCTTACCGTTTC
Found at i:29231978 original size:19 final size:19
Alignment explanation
Indices: 29231954--29231992 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
29231944 TAAGCTTTTA
29231954 ACTCAAATTACAAGTCCTT
1 ACTCAAATTACAAGTCCTT
29231973 ACTCAAATTACAAGTCCTT
1 ACTCAAATTACAAGTCCTT
29231992 A
1 A
29231993 GTTATTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (19 bp):
ACTCAAATTACAAGTCCTT
Found at i:29232374 original size:18 final size:18
Alignment explanation
Indices: 29232336--29232376 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
29232326 TTTAAGGACT
*
29232336 AAATTTTATATAAACTAA
1 AAATTTTATATAAAATAA
* *
29232354 AAATTTTGTATAAAATGA
1 AAATTTTATATAAAATAA
29232372 AAATT
1 AAATT
29232377 GATTGTGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (18 bp):
AAATTTTATATAAAATAA
Found at i:29235087 original size:50 final size:51
Alignment explanation
Indices: 29235023--29235143 Score: 172
Period size: 51 Copynumber: 2.4 Consensus size: 51
29235013 ATGCCACACA
*
29235023 GCCTGGACACATGCCCGTGTGATTCCAAAACAT-AAACAGTAAGTTACATG
1 GCCTGGACACATGCCCGTGTGATTCCAAAACATAAAAAAGTAAGTTACATG
* * * * *
29235073 GCCTAGACACATGCCCATGTGGTTCTAAAACATAAAAAAGTGAGTTACATG
1 GCCTGGACACATGCCCGTGTGATTCCAAAACATAAAAAAGTAAGTTACATG
*
29235124 GCCTGGATACATGCCCGTGT
1 GCCTGGACACATGCCCGTGT
29235144 CCTTGCCCGT
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 29 0.48
51 32 0.52
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (51 bp):
GCCTGGACACATGCCCGTGTGATTCCAAAACATAAAAAAGTAAGTTACATG
Found at i:29235138 original size:51 final size:50
Alignment explanation
Indices: 29235023--29235139 Score: 162
Period size: 50 Copynumber: 2.3 Consensus size: 50
29235013 ATGCCACACA
* *
29235023 GCCTGGACACATGCCCGTGTGATTCCAAAACATAAACAGTAAGTTACATG
1 GCCTGGACACATGCCCATGTGATTCCAAAACATAAAAAGTAAGTTACATG
* * * *
29235073 GCCTAGACACATGCCCATGTGGTTCTAAAACATAAAAAAGTGAGTTACATG
1 GCCTGGACACATGCCCATGTGATTCCAAAACAT-AAAAAGTAAGTTACATG
*
29235124 GCCTGGATACATGCCC
1 GCCTGGACACATGCCC
29235140 GTGTCCTTGC
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 29 0.50
51 29 0.50
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (50 bp):
GCCTGGACACATGCCCATGTGATTCCAAAACATAAAAAGTAAGTTACATG
Found at i:29235533 original size:105 final size:105
Alignment explanation
Indices: 29235351--29235565 Score: 340
Period size: 105 Copynumber: 2.0 Consensus size: 105
29235341 GGCCATACAT
* * *
29235351 GGCCTGGACACACGCCCGTGTGCCTTCCTCGTGTGGCCCCAAATTGATGAACAGTGAGTTACACG
1 GGCCTGGACACACGCCCATGTGCCTTCCTCGTGTGGCCCCAAATTGATGAACAATGAGTTACACA
*
29235416 GCCAACCACACAGCCTAGCACACGGGCATATGGCTCACAC
66 ACCAACCACACAGCCTAGCACACGGGCATATGGCTCACAC
* *
29235456 GGCCTGGACACAGGCCCATGTGCCTTCCTCGTGTGGCCCTAAATTGATGAACAATGAGTTACACA
1 GGCCTGGACACACGCCCATGTGCCTTCCTCGTGTGGCCCCAAATTGATGAACAATGAGTTACACA
* * * *
29235521 ACCAACTACACAGCCTAGCACACGGGCGTATGGTTTACAC
66 ACCAACCACACAGCCTAGCACACGGGCATATGGCTCACAC
29235561 GGCCT
1 GGCCT
29235566 AGATACATGC
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 100 1.00
ACGTcount: A:0.25, C:0.32, G:0.24, T:0.19
Consensus pattern (105 bp):
GGCCTGGACACACGCCCATGTGCCTTCCTCGTGTGGCCCCAAATTGATGAACAATGAGTTACACA
ACCAACCACACAGCCTAGCACACGGGCATATGGCTCACAC
Found at i:29237338 original size:23 final size:23
Alignment explanation
Indices: 29237311--29237358 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
29237301 TTTTCCTCAA
*
29237311 ATAGTATAGGAAAAAATTTAATT
1 ATAGTATAGGAAAAAAATTAATT
*
29237334 ATAGTATAGGAAAAAAATTATTT
1 ATAGTATAGGAAAAAAATTAATT
29237357 AT
1 AT
29237359 CGAAAGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.35
Consensus pattern (23 bp):
ATAGTATAGGAAAAAAATTAATT
Found at i:29237380 original size:23 final size:23
Alignment explanation
Indices: 29237349--29237399 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
29237339 ATAGGAAAAA
*
29237349 AATTA-TTTATCGAAAGAATATG
1 AATTATTTTATCAAAAGAATATG
* *
29237371 ATTTATTTTATCAAAATAATATG
1 AATTATTTTATCAAAAGAATATG
29237394 AATTAT
1 AATTAT
29237400 ATATGAATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (23 bp):
AATTATTTTATCAAAAGAATATG
Found at i:29237848 original size:6 final size:5
Alignment explanation
Indices: 29237828--29237861 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
29237818 CTATGTTTTC
*
29237828 TTTAT TTTCT TTTATT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTT
29237862 CACAAATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:29237849 original size:16 final size:16
Alignment explanation
Indices: 29237828--29237861 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
29237818 CTATGTTTTC
*
29237828 TTTATTTTCTTTTATT
1 TTTATTTTATTTTATT
29237844 TTTATTTTATTTTATT
1 TTTATTTTATTTTATT
29237860 TT
1 TT
29237862 CACAAATTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTATTTTATTTTATT
Found at i:29241160 original size:19 final size:19
Alignment explanation
Indices: 29241136--29241174 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
29241126 AAATAAAAGT
29241136 AAAATCCATATAGAACTAC
1 AAAATCCATATAGAACTAC
29241155 AAAATCCATATAGAACTAC
1 AAAATCCATATAGAACTAC
29241174 A
1 A
29241175 CTTCTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.21, G:0.05, T:0.21
Consensus pattern (19 bp):
AAAATCCATATAGAACTAC
Found at i:29245484 original size:15 final size:14
Alignment explanation
Indices: 29245460--29245500 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
29245450 AGATTTTCGG
29245460 AAAAAGAATAAAAATT
1 AAAAA-AATAAAAA-T
29245476 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
*
29245490 AAAAAACTAAA
1 AAAAAAATAAA
29245501 TCAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 11 0.46
15 8 0.33
16 5 0.21
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:29245883 original size:51 final size:54
Alignment explanation
Indices: 29245786--29245891 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 54
29245776 TAAGACTAGG
* *
29245786 ATAAAAAATAGCAAAATTTCTAAAAGTGGGACTTGAACCTAAGACCTCAAGCAC
1 ATAAAAAATAGCAAAATTTCTAAAAGTAGGACTTGAACCCAAGACCTCAAGCAC
* *
29245840 ATAAAAAATAGCAGAATTT-T-CAA-TAGGACTTGAACCCAAGACCTCAAGCAC
1 ATAAAAAATAGCAAAATTTCTAAAAGTAGGACTTGAACCCAAGACCTCAAGCAC
29245891 A
1 A
29245892 CCCAACATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
51 27 0.56
52 2 0.04
53 1 0.02
54 18 0.38
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (54 bp):
ATAAAAAATAGCAAAATTTCTAAAAGTAGGACTTGAACCCAAGACCTCAAGCAC
Found at i:29246910 original size:17 final size:16
Alignment explanation
Indices: 29246888--29246929 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
29246878 ACTCCCTACT
29246888 ATCCCACTAACCAACAA
1 ATCCCACTAA-CAACAA
*
29246905 ATCCCACCAA-AACAA
1 ATCCCACTAACAACAA
29246920 A-CCCACTAAC
1 ATCCCACTAAC
29246930 TCTCATCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 7 0.32
15 6 0.27
17 9 0.41
ACGTcount: A:0.48, C:0.43, G:0.00, T:0.10
Consensus pattern (16 bp):
ATCCCACTAACAACAA
Found at i:29251339 original size:31 final size:26
Alignment explanation
Indices: 29251248--29251355 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
29251238 GTACAAATTC
29251248 ATAATAGGTTAGGTAAATG-TTCAATG
1 ATAATAGGTTAGGTAAATGTTTC-ATG
*
29251274 ATAATAGGTTAGGTAAATGTTCCATG
1 ATAATAGGTTAGGTAAATGTTTCATG
29251300 ATAATAGGTTAGGTAAATGTTTCATG
1 ATAATAGGTTAGGTAAATGTTTCATG
*
29251326 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATAGGTTAGGTAAATGTTTCATG
29251352 ATAA
1 ATAA
29251356 GAATTTCATG
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 76 0.97
27 2 0.03
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (26 bp):
ATAATAGGTTAGGTAAATGTTTCATG
Found at i:29252555 original size:16 final size:15
Alignment explanation
Indices: 29252529--29252560 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
29252519 ACTAGATTGG
29252529 CAAAAGCCGAAAAGT
1 CAAAAGCCGAAAAGT
29252544 CAAAATGCCGAAAAGT
1 CAAAA-GCCGAAAAGT
29252560 C
1 C
29252561 GGTATTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.22, G:0.19, T:0.09
Consensus pattern (15 bp):
CAAAAGCCGAAAAGT
Found at i:29253010 original size:27 final size:27
Alignment explanation
Indices: 29252969--29253081 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 27
29252959 GAGGAAGCGT
*
29252969 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
29252996 TCTGATGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
29253023 TCTGGTGGCTCTGCCACGATTATTTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
29253051 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
29253077 TCTGG
1 TCTGG
29253082 CATCCATGCT
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
26 5 0.07
27 51 0.72
28 15 0.21
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:29253074 original size:54 final size:54
Alignment explanation
Indices: 29252967--29253081 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
29252957 TGGAGGAAGC
*
29252967 GTTCTGGTGGCTATGCCACAAATATCTGATCTGATGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGATGACTCTGCCACATATATCT
* * * * * *
29253021 GTTCTGGTGGCTCTGCCACGATTATTTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGATGACTCTGCCACATATATCT
29253075 GTTCTGG
1 GTTCTGG
29253082 CATCCATGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 36 0.68
55 17 0.32
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGATGACTCTGCCACATATATCT
Found at i:29257086 original size:26 final size:26
Alignment explanation
Indices: 29257050--29257157 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
29257040 GGTACAAATT
*
29257050 ATAATAGGTTAGGTAAATGTTCAATG
1 ATAATAGGTTAGGTAAATGTTCCATG
29257076 ATAATAGGTTAGGTAAATGTTCCATG
1 ATAATAGGTTAGGTAAATGTTCCATG
* *
29257102 ATAATAGGTTAGGTAAATGCTCCATT
1 ATAATAGGTTAGGTAAATGTTCCATG
* *
29257128 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATAGGTTAGGTAAATGTTCCATG
29257154 ATAA
1 ATAA
29257158 GAATTTCATG
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.35
Consensus pattern (26 bp):
ATAATAGGTTAGGTAAATGTTCCATG
Found at i:29258810 original size:27 final size:27
Alignment explanation
Indices: 29258769--29258895 Score: 148
Period size: 27 Copynumber: 4.7 Consensus size: 27
29258759 GAGGAAGCGT
*
29258769 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
29258796 TCTGATGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
29258823 TTTGATGGCTCTGCCACATATATCT-A
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
29258849 TTCTGGTGGCTCTGCCACGATTATCTGTA
1 -TCTGGTGGCTCTGCCACAAATATCTG-A
* *
29258878 TCTGGTGACTCTGTCACA
1 TCTGGTGGCTCTGCCACA
29258896 TTATCTCTGG
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 68 0.80
28 15 0.18
29 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:29269127 original size:89 final size:89
Alignment explanation
Indices: 29268959--29269127 Score: 214
Period size: 89 Copynumber: 1.9 Consensus size: 89
29268949 TGTGTGTGTT
* * *
29268959 CTTGCAATTTTGTCACTTTGGGGGCAAGGTTAAATTGTTTTCTTACTGGTTATGAGCTTATACTT
1 CTTGCAATTTTGTCACTTTGGGGGCAAGGTTAAATTGTTTTCTTACTGGTTATGAACTCATACCT
** * * *
29269024 CTTGTTTATGTATGTATTATTTTC
66 CCGGCTCATATATGTATTATTTTC
* * * *
29269048 CTTGCAATTTTGTTACTTTGGGGGCAGGGTTGAA-TGTTTTTCTTACTGGTTATGAACTCATGCC
1 CTTGCAATTTTGTCACTTTGGGGGCAAGGTTAAATTG-TTTTCTTACTGGTTATGAACTCATACC
29269112 TCCGGCTCATATATGT
65 TCCGGCTCATATATGT
29269128 TTGTGGGTGT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
88 2 0.03
89 65 0.97
ACGTcount: A:0.18, C:0.15, G:0.21, T:0.46
Consensus pattern (89 bp):
CTTGCAATTTTGTCACTTTGGGGGCAAGGTTAAATTGTTTTCTTACTGGTTATGAACTCATACCT
CCGGCTCATATATGTATTATTTTC
Found at i:29271214 original size:26 final size:26
Alignment explanation
Indices: 29271185--29271237 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
29271175 ATATATCGAT
29271185 CCAACTCTTCATTTTTGTTGAAATAC
1 CCAACTCTTCATTTTTGTTGAAATAC
29271211 CCAACTCTTCATTTTTGTTGAAATAC
1 CCAACTCTTCATTTTTGTTGAAATAC
29271237 C
1 C
29271238 ATGTTTGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.25, G:0.08, T:0.42
Consensus pattern (26 bp):
CCAACTCTTCATTTTTGTTGAAATAC
Found at i:29271811 original size:242 final size:243
Alignment explanation
Indices: 29271385--29271873 Score: 908
Period size: 242 Copynumber: 2.0 Consensus size: 243
29271375 TAGCTTCATT
* *
29271385 AGTTGGCCGATGTGTATTTTTTTTGAAAACCCAAAACCCAAAATTTCCTATATCAAGTTCTGGTT
1 AGTTGGCCAATGCGTATTTTTTTTGAAAACCCAAAACCCAAAATTTCCTATATCAAGTTCTGGTT
*
29271450 AGGTTTTTTAAATTTCGCATCAGTTAACAGATTTTTTTTTTCATAAAAAAGTCCAACCTAGAAGG
66 AGGTTTTTTAAATTTCGCATCAGTTAACAGATTTTTTTTTTCATAAAAAAGTCCAACCTAGAAAG
*
29271515 GCCAGCAAGGTGGGACTAACACTAAGAAAAAGCAGCACCGTGAAAGGGAGGAAAGATCTTATTAA
131 GCCAACAAGGTGGGACTAACACTAAGAAAAAGCAGCACCGTGAAAGGGAGGAAAGATCTTATTAA
29271580 AGACATGCTATCAACCCAATGCCCCTTAAAAACTATTAGAGCTGCCAC
196 AGACATGCTATCAACCCAATGCCCCTTAAAAACTATTAGAGCTGCCAC
* *
29271628 AGTTGGCCAATGCGTA-TTTTTTTGAAAACCCATAACCCAAAATTTCCTATATCAAGTTTTGGTT
1 AGTTGGCCAATGCGTATTTTTTTTGAAAACCCAAAACCCAAAATTTCCTATATCAAGTTCTGGTT
*
29271692 AGGTTTTTTAAATTTCGCATCAGTTAACAGATTTTTTTTTTCTTAAAAAAGTCCAACCTAGAAAG
66 AGGTTTTTTAAATTTCGCATCAGTTAACAGATTTTTTTTTTCATAAAAAAGTCCAACCTAGAAAG
29271757 GCCAACAAGGTGGGACTAACACTAAGAAAAAGCAGCACCGTGAAAGGGAGGAAAGATCTTATTAA
131 GCCAACAAGGTGGGACTAACACTAAGAAAAAGCAGCACCGTGAAAGGGAGGAAAGATCTTATTAA
29271822 AGACATGCTATCAACCCAATGCCCCTTAAAAACTATTAGAGCTGCCAC
196 AGACATGCTATCAACCCAATGCCCCTTAAAAACTATTAGAGCTGCCAC
29271870 AGTT
1 AGTT
29271874 ATCATGTGAT
Statistics
Matches: 239, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
242 225 0.94
243 14 0.06
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (243 bp):
AGTTGGCCAATGCGTATTTTTTTTGAAAACCCAAAACCCAAAATTTCCTATATCAAGTTCTGGTT
AGGTTTTTTAAATTTCGCATCAGTTAACAGATTTTTTTTTTCATAAAAAAGTCCAACCTAGAAAG
GCCAACAAGGTGGGACTAACACTAAGAAAAAGCAGCACCGTGAAAGGGAGGAAAGATCTTATTAA
AGACATGCTATCAACCCAATGCCCCTTAAAAACTATTAGAGCTGCCAC
Found at i:29272939 original size:29 final size:30
Alignment explanation
Indices: 29272892--29272959 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
29272882 GGTTTCATTT
* *
29272892 CAGTCACTCAACTT-TTAAAAGTTACAAAA
1 CAGTCACTCAACTTATAAAAAGTGACAAAA
29272921 CAGTCAC-CAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTCAAC-TTAT-AAAAAGTGACAAAA
*
29272952 TAGTCACT
1 CAGTCACT
29272960 GATTAACGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 4 0.12
29 9 0.28
30 1 0.03
31 18 0.56
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.24
Consensus pattern (30 bp):
CAGTCACTCAACTTATAAAAAGTGACAAAA
Found at i:29273506 original size:6 final size:6
Alignment explanation
Indices: 29273497--29273536 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
29273487 TTCAATTTTA
* * *
29273497 ATTTCG ATTTTG ATTTTG ATTTCG ATTTCT ATTTCG ATTT
1 ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTT
29273537 TTATTACAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.10, G:0.12, T:0.60
Consensus pattern (6 bp):
ATTTCG
Found at i:29273535 original size:18 final size:18
Alignment explanation
Indices: 29273479--29273536 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
29273469 AATTAGGGTT
* * *
29273479 ATTTCGGTTTCAATTTTA
1 ATTTCGATTTCGATTTTG
*
29273497 ATTTCGATTTTGATTTTG
1 ATTTCGATTTCGATTTTG
* *
29273515 ATTTCGATTTCTATTTCG
1 ATTTCGATTTCGATTTTG
29273533 ATTT
1 ATTT
29273537 TTATTACAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.19, C:0.10, G:0.12, T:0.59
Consensus pattern (18 bp):
ATTTCGATTTCGATTTTG
Found at i:29273846 original size:64 final size:64
Alignment explanation
Indices: 29273745--29273948 Score: 372
Period size: 64 Copynumber: 3.2 Consensus size: 64
29273735 CATGATGTTT
*
29273745 ATTGTTTGTATCTGCCATTGTACGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTC
1 ATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTC
*
29273809 ATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGCC
1 ATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTC
* *
29273873 ATTGTTTGTTTCTGCCATTGTATGAATGCCATTATCAAACTAATGTTTATTGTGTATATCTGTC
1 ATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTC
29273937 ATTGTTTGTATC
1 ATTGTTTGTATC
29273949 CAAGCTCCTA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 134 1.00
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.46
Consensus pattern (64 bp):
ATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTC
Found at i:29274276 original size:15 final size:15
Alignment explanation
Indices: 29274256--29274284 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29274246 GAAGAAAACA
29274256 TGTCTGGTAGTGATG
1 TGTCTGGTAGTGATG
29274271 TGTCTGGTAGTGAT
1 TGTCTGGTAGTGAT
29274285 AGTGATGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.38, T:0.41
Consensus pattern (15 bp):
TGTCTGGTAGTGATG
Found at i:29275675 original size:13 final size:13
Alignment explanation
Indices: 29275657--29275681 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29275647 CCTATGTTTT
29275657 ATGTTTCTTACTA
1 ATGTTTCTTACTA
29275670 ATGTTTCTTACT
1 ATGTTTCTTACT
29275682 GGAAGCAAGA
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:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
ATGTTTCTTACTA
Found at i:29276005 original size:40 final size:40
Alignment explanation
Indices: 29275901--29276008 Score: 164
Period size: 40 Copynumber: 2.7 Consensus size: 40
29275891 GCTATTTTAG
* * *
29275901 TGAATGTTTTTTAATATGTATGCACTGATTGTTGGTGTGT
1 TGAATATTTTTTAATATGCATGCAGTGATTGTTGGTGTGT
29275941 TGAATATTTTTTAATATGCATGCAGTGATTGTTGGTGTGT
1 TGAATATTTTTTAATATGCATGCAGTGATTGTTGGTGTGT
*
29275981 T-ACCTATTTTTTAATATGCATGCAGTGA
1 TGA-ATATTTTTTAATATGCATGCAGTGA
29276009 GTATTTTTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
39 1 0.02
40 62 0.98
ACGTcount: A:0.23, C:0.07, G:0.22, T:0.47
Consensus pattern (40 bp):
TGAATATTTTTTAATATGCATGCAGTGATTGTTGGTGTGT
Found at i:29276073 original size:37 final size:38
Alignment explanation
Indices: 29276031--29276106 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
29276021 ATAATATGCA
29276031 TGTTGGTGGGACT-GTTTTTTAGGGGTGTGTGTATCAT
1 TGTTGGTGGGACTAGTTTTTTAGGGGTGTGTGTATCAT
* *
29276068 TGTTGGTGGGGCTATTTTTTTAGGGGTGTGTGTATCAT
1 TGTTGGTGGGACTAGTTTTTTAGGGGTGTGTGTATCAT
29276106 T
1 T
29276107 TTTTTAGTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 12 0.33
38 24 0.67
ACGTcount: A:0.11, C:0.05, G:0.37, T:0.47
Consensus pattern (38 bp):
TGTTGGTGGGACTAGTTTTTTAGGGGTGTGTGTATCAT
Found at i:29276778 original size:21 final size:21
Alignment explanation
Indices: 29276726--29276778 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
29276716 TTGGTGTTCC
* *
29276726 AACTCAGCAACAGGCTACCCG
1 AACTCAGCAAGAGGATACCCG
* *
29276747 AAATCAGCAAGAGGATACCCT
1 AACTCAGCAAGAGGATACCCG
*
29276768 AACTCAACAAG
1 AACTCAGCAAG
29276779 CTGCCCTAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.42, C:0.30, G:0.17, T:0.11
Consensus pattern (21 bp):
AACTCAGCAAGAGGATACCCG
Found at i:29276827 original size:21 final size:19
Alignment explanation
Indices: 29276764--29276829 Score: 55
Period size: 21 Copynumber: 3.3 Consensus size: 19
29276754 CAAGAGGATA
29276764 CCCTAACTCA-ACAAGCTG
1 CCCTAACTCATACAAGCTG
* *
29276782 CCCTAACTCAGTTACCTA-CTA
1 CCCTAACTCA--TA-CAAGCTG
29276803 CCCTAACTCATCAGCAAGCTG
1 CCCTAACTCAT-A-CAAGCTG
29276824 CCCTAA
1 CCCTAA
29276830 GACAAAAGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
18 10 0.27
19 1 0.03
20 3 0.08
21 21 0.57
22 2 0.05
ACGTcount: A:0.30, C:0.39, G:0.09, T:0.21
Consensus pattern (19 bp):
CCCTAACTCATACAAGCTG
Found at i:29282513 original size:23 final size:23
Alignment explanation
Indices: 29282483--29282608 Score: 103
Period size: 23 Copynumber: 5.3 Consensus size: 23
29282473 ATATAATATA
*
29282483 GTAAGCTCTAACAAGCTGAAACG
1 GTAAGCTCTAACGAGCTGAAACG
* *
29282506 GTAAGCTCTATCGAGCTG-AACA
1 GTAAGCTCTAACGAGCTGAAACG
29282528 GTAAGCTC-ATACGAGCTGAAACG
1 GTAAGCTCTA-ACGAGCTGAAACG
* * * **
29282551 GTAAGCTCCAATGAACTGAAAATA
1 GTAAGCTCTAACGAGCTG-AAACG
* *
29282575 GTAAGCTCTTATGAGCTGATATATCG
1 GTAAGCTCTAACGAGCTGA-A-A-CG
29282601 GTAAGCTC
1 GTAAGCTC
29282609 ATACAAGCTG
Statistics
Matches: 82, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
21 1 0.01
22 18 0.22
23 34 0.41
24 20 0.24
25 1 0.01
26 8 0.10
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (23 bp):
GTAAGCTCTAACGAGCTGAAACG
Found at i:29282570 original size:45 final size:46
Alignment explanation
Indices: 29282482--29282608 Score: 125
Period size: 45 Copynumber: 2.7 Consensus size: 46
29282472 CATATAATAT
* * *
29282482 AGTAAGCTCTAACAAGCTGAAACGGTAAGCT-CTATCGAGCTG-AAC
1 AGTAAGCTCT-ACGAGCTGAAACGGTAAGCTCCAATCGAACTGAAAC
*
29282527 AGTAAGCTCATACGAGCTGAAACGGTAAGCTCCAAT-GAACTGAAAAT
1 AGTAAGCTC-TACGAGCTGAAACGGTAAGCTCCAATCGAACTG-AAAC
*
29282574 AGTAAGCTCTTATGAGCTGATATATCGGTAAGCTC
1 AGTAAGCTC-TACGAGCTGA-A-A-CGGTAAGCTC
29282609 ATACAAGCTG
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
45 33 0.48
46 4 0.06
47 20 0.29
48 1 0.01
49 1 0.01
50 10 0.14
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (46 bp):
AGTAAGCTCTACGAGCTGAAACGGTAAGCTCCAATCGAACTGAAAC
Found at i:29283056 original size:28 final size:28
Alignment explanation
Indices: 29283025--29283082 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
29283015 TACTTTGCAA
*
29283025 TTTCAATGAGTCTTTATTAGTCCATATT
1 TTTCAATGAGTCCTTATTAGTCCATATT
29283053 TTTCAATGAGTCCTTATTAGTCCATATT
1 TTTCAATGAGTCCTTATTAGTCCATATT
29283081 TT
1 TT
29283083 ACATTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.24, C:0.16, G:0.10, T:0.50
Consensus pattern (28 bp):
TTTCAATGAGTCCTTATTAGTCCATATT
Found at i:29285051 original size:199 final size:199
Alignment explanation
Indices: 29284711--29285111 Score: 777
Period size: 199 Copynumber: 2.0 Consensus size: 199
29284701 AGTTTTTTTT
29284711 AACCTATTTACAAGTGGGAACACATGTATTTAGTGACCTACTGATGCCAGAAATAACATTTTGTA
1 AACCTATTTACAAGTGGGAACACATGTATTTAGTGACCTACTGATGCCAGAAATAACATTTTGTA
29284776 TAGCGCCCAAGATTGTAGCAATATTAGGTAGCCACCTAAATCGACAGTTCTGTGCTTTGTTGCCC
66 TAGCGCCCAAGATTGTAGCAATATTAGGTAGCCACCTAAATCGACAGTTCTGTGCTTTGTTGCCC
29284841 GGAAAAGCTCACGATATAGCATGGCTAGTACTACCGAACTCCAACTGTATGAACAGGCACCTTGC
131 GGAAAAGCTCACGATATAGCATGGCTAGTACTACCGAACTCCAACTGTATGAACAGGCACCTTGC
29284906 AATG
196 AATG
29284910 AACCTATTTACAAGTGGGAACACATGTATTTAGTGACCTACTGATGCCAGAAATAACATTTTGTA
1 AACCTATTTACAAGTGGGAACACATGTATTTAGTGACCTACTGATGCCAGAAATAACATTTTGTA
*
29284975 TAGCGCCCAAGATTGTAGCAGTATTAGGTAGCCACCTAAATCGACAGTTCTGTGCTTTGTTGCCC
66 TAGCGCCCAAGATTGTAGCAATATTAGGTAGCCACCTAAATCGACAGTTCTGTGCTTTGTTGCCC
29285040 -GACAAAGCTCACGATATAGCATGGCTAGTACTACCGAACTCCAACTGTATGAACAGGCACCTTG
131 GGA-AAAGCTCACGATATAGCATGGCTAGTACTACCGAACTCCAACTGTATGAACAGGCACCTTG
29285104 CAATG
195 CAATG
29285109 AAC
1 AAC
29285112 TAAGTAAGGG
Statistics
Matches: 200, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
198 2 0.01
199 198 0.99
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (199 bp):
AACCTATTTACAAGTGGGAACACATGTATTTAGTGACCTACTGATGCCAGAAATAACATTTTGTA
TAGCGCCCAAGATTGTAGCAATATTAGGTAGCCACCTAAATCGACAGTTCTGTGCTTTGTTGCCC
GGAAAAGCTCACGATATAGCATGGCTAGTACTACCGAACTCCAACTGTATGAACAGGCACCTTGC
AATG
Found at i:29288297 original size:16 final size:16
Alignment explanation
Indices: 29288276--29288309 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
29288266 CCTTATATAA
29288276 TTCCTTTTT-TTTTCTT
1 TTCCTTTTTCTTTT-TT
29288292 TTCCTTTTTCTTTTTT
1 TTCCTTTTTCTTTTTT
29288308 TT
1 TT
29288310 TTCACAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTCCTTTTTCTTTTTT
Found at i:29296084 original size:3 final size:3
Alignment explanation
Indices: 29296078--29296123 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
29296068 GGCGCTATAA
29296078 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
29296124 CAACAGTATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:29302831 original size:176 final size:176
Alignment explanation
Indices: 29302531--29302875 Score: 609
Period size: 176 Copynumber: 2.0 Consensus size: 176
29302521 ATTCATGAAG
* * * *
29302531 GAGTTCAGAAAGGCTTTAATTCTGCCTTAATTATGAGAATTCTTTTGTTGTTAAAGTTGCTAAGT
1 GAGTTCAGAAAGGCTCTAAGTCTGCCTTAATTATGAGAATTCTTTTGCTGTTAAAGCTGCTAAGT
* * *
29302596 CACTGGGATCTTCAGCATATCCCAAGAGAAGAGAATGAAATTGTAGATAGGATAGTTAAGCTCAG
66 CACTGGGATCTTCAACATATCCCAAGAGAAGAGAATGAAATTGTAGATAGGACAGTTAAGCCCAG
*
29302661 GAGAGATAGGAAACAATGATTGCGGTTAATAGACCAGGATCTTCAT
131 GAGAGATAGGAAACAATGATTACGGTTAATAGACCAGGATCTTCAT
29302707 GAGTTCAGAAAGGCTCTAAGTCTGCCTTAATTATGAGAATTCTTTTGCTGTTAAAGCTGCTAAGT
1 GAGTTCAGAAAGGCTCTAAGTCTGCCTTAATTATGAGAATTCTTTTGCTGTTAAAGCTGCTAAGT
29302772 CACTGGGATCTTCAACATATCCCAAGAGAAGAGAATGAAATTGTAGATAGGACAGTTAAGCCCAG
66 CACTGGGATCTTCAACATATCCCAAGAGAAGAGAATGAAATTGTAGATAGGACAGTTAAGCCCAG
*
29302837 GAGAGATAGGAAACAATGATTACGGTTAATAGACTAGGA
131 GAGAGATAGGAAACAATGATTACGGTTAATAGACCAGGA
29302876 AAATGTACTG
Statistics
Matches: 160, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
176 160 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (176 bp):
GAGTTCAGAAAGGCTCTAAGTCTGCCTTAATTATGAGAATTCTTTTGCTGTTAAAGCTGCTAAGT
CACTGGGATCTTCAACATATCCCAAGAGAAGAGAATGAAATTGTAGATAGGACAGTTAAGCCCAG
GAGAGATAGGAAACAATGATTACGGTTAATAGACCAGGATCTTCAT
Found at i:29312186 original size:13 final size:14
Alignment explanation
Indices: 29312168--29312196 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
29312158 TTAGTTTACA
29312168 TTTTGGTTT-ATTT
1 TTTTGGTTTAATTT
29312181 TTTTGGTTTAATTT
1 TTTTGGTTTAATTT
29312195 TT
1 TT
29312197 AACTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.10, C:0.00, G:0.14, T:0.76
Consensus pattern (14 bp):
TTTTGGTTTAATTT
Found at i:29318164 original size:81 final size:80
Alignment explanation
Indices: 29318059--29318221 Score: 308
Period size: 81 Copynumber: 2.0 Consensus size: 80
29318049 TAAATGTTTT
*
29318059 TAACTCAAAAGCAAAAGATGATAATTATTAATATATAATTATATCCATTATAATATATATTAATT
1 TAACTCAAAAACAAAAGATGATAATTATTAATATATAATTATATCCATTATAATATATATTAATT
29318124 ATTATCAACTTTATC
66 ATTATCAACTTTATC
29318139 TAACTCAAAAAACAAAAGATGATAATTATTAATATATAATTATATCCATTATAATATATATTAAT
1 TAACTC-AAAAACAAAAGATGATAATTATTAATATATAATTATATCCATTATAATATATATTAAT
29318204 TATTATCAACTTTATC
65 TATTATCAACTTTATC
29318220 TA
1 TA
29318222 GAGTTAGGAT
Statistics
Matches: 81, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
80 6 0.07
81 75 0.93
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (80 bp):
TAACTCAAAAACAAAAGATGATAATTATTAATATATAATTATATCCATTATAATATATATTAATT
ATTATCAACTTTATC
Found at i:29321627 original size:26 final size:26
Alignment explanation
Indices: 29321597--29321647 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
29321587 ACCAATGAAC
*
29321597 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
29321623 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
29321648 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:29321687 original size:103 final size:104
Alignment explanation
Indices: 29321503--29321725 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
29321493 AATGGATATC
29321503 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
29321568 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
29321607 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
29321671 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
29321710 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
29321726 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 94 0.84
104 18 0.16
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:29332330 original size:36 final size:36
Alignment explanation
Indices: 29332266--29332353 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 36
29332256 GTTTAATTAT
* * *
29332266 GAACCATGTTAACTTGGTGAATTATATTATTATGGA
1 GAACTATGTTAATTTGGTGAATTATATTAATATGGA
* * *
29332302 GAACTGTGTTAATTTGGTG-ATCTGTATTAATATGGC
1 GAACTATGTTAATTTGGTGAAT-TATATTAATATGGA
*
29332338 GAACTATATTAATTTG
1 GAACTATGTTAATTTG
29332354 CCAAATTGTG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 2 0.05
36 41 0.95
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (36 bp):
GAACTATGTTAATTTGGTGAATTATATTAATATGGA
Found at i:29332331 original size:18 final size:18
Alignment explanation
Indices: 29332302--29332353 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
29332292 TTATTATGGA
* *
29332302 GAACTGTGTTAATTTGGT
1 GAACTGTATTAATTTGGC
* *
29332320 GATCTGTATTAATATGGC
1 GAACTGTATTAATTTGGC
*
29332338 GAACTATATTAATTTG
1 GAACTGTATTAATTTG
29332354 CCAAATTGTG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (18 bp):
GAACTGTATTAATTTGGC
Found at i:29333066 original size:51 final size:51
Alignment explanation
Indices: 29332971--29333074 Score: 129
Period size: 51 Copynumber: 2.0 Consensus size: 51
29332961 ATGGAGCATA
* * *
29332971 AACTATTATTTTGAATGAATTGTTATTCAGTATGAACTGATATTTCATATG
1 AACTATTATTTTGAATGAATTGTCATTAAGTAAGAACTGATATTTCATATG
* * * *
29333022 AACTATTATTTTGCATGAGTTGTCA-TAAGGTAAGAATTGTTATTTCATATG
1 AACTATTATTTTGAATGAATTGTCATTAA-GTAAGAACTGATATTTCATATG
29333073 AA
1 AA
29333075 TAGATGTTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 2 0.04
51 43 0.96
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.43
Consensus pattern (51 bp):
AACTATTATTTTGAATGAATTGTCATTAAGTAAGAACTGATATTTCATATG
Found at i:29334986 original size:69 final size:69
Alignment explanation
Indices: 29334856--29334989 Score: 189
Period size: 69 Copynumber: 1.9 Consensus size: 69
29334846 TATCGACCCT
*
29334856 ACGGACTACCTAGGTTGCCATAGTACAACTATGGTCTTAAACCTTATATTCCCCGTGTTTACTGT
1 ACGGACTACCTAGGTTGCCATAGTACAACTATGGTCTTAAACCTTATATTCCCCGTATTTACTGT
29334921 CCTG
66 CCTG
* * ** **
29334925 ACGGACTACCT-GGATTGCCATTGTTCAACTATGGTCTTACGCCTTATATTCCTTGTATTTACTG
1 ACGGACTACCTAGG-TTGCCATAGTACAACTATGGTCTTAAACCTTATATTCCCCGTATTTACTG
29334989 T
65 T
29334990 TGGAAACGCG
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
68 2 0.04
69 55 0.96
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.37
Consensus pattern (69 bp):
ACGGACTACCTAGGTTGCCATAGTACAACTATGGTCTTAAACCTTATATTCCCCGTATTTACTGT
CCTG
Found at i:29336017 original size:20 final size:18
Alignment explanation
Indices: 29335984--29336020 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
29335974 TGTGATGTTG
29335984 ATATGTTTAATTTAATTA
1 ATATGTTTAATTTAATTA
29336002 ATATGTCTTAAATTTAATT
1 ATATGT-TT-AATTTAATT
29336021 CGTGTCAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
ATATGTTTAATTTAATTA
Found at i:29337018 original size:45 final size:45
Alignment explanation
Indices: 29336912--29337035 Score: 121
Period size: 45 Copynumber: 2.8 Consensus size: 45
29336902 AAAAACCAGG
* *
29336912 ATGCCATAGCATCTTTCAGCCATGG-CTTTAGTC-TTGTTTCCATG
1 ATGCCATAGCATCTTTCAGCCATGGTC-TTACTCATTGTTTCCATA
* ** *
29336956 ATGCCATGGTGTCTTTCAGCCATGGTCGTACTCATT-TATAT-CATA
1 ATGCCATAGCATCTTTCAGCCATGGTCTTACTCATTGT-T-TCCATA
* *
29337001 ATGCCATAGCATCTTTCAGCTATGATCTTACTCAT
1 ATGCCATAGCATCTTTCAGCCATGGTCTTACTCAT
29337036 CTTTAAGCGT
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
44 27 0.42
45 36 0.56
46 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (45 bp):
ATGCCATAGCATCTTTCAGCCATGGTCTTACTCATTGTTTCCATA
Found at i:29339777 original size:39 final size:38
Alignment explanation
Indices: 29339724--29339849 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 38
29339714 AGACTTTAGC
* * * **
29339724 CCGGACATATTTCCAGCACGTAGCCTATGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACC-TAAGT
*
29339763 CCGAATATAATTCCAGCACATAGCCTGCGGATCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGA-CCTAAGT
29339802 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGA-CCTAAGT
29339841 CCGGATATA
1 CCGGATATA
29339850 CATCACTGAA
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 76 0.97
40 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (38 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCTAAGT
Found at i:29339779 original size:78 final size:78
Alignment explanation
Indices: 29339690--29339849 Score: 171
Period size: 78 Copynumber: 2.1 Consensus size: 78
29339680 TTAAACCCAG
* * * * * *
29339690 TATAATACCAGCTCGA-AGCCTACGAGA-CTTTAGCCCGGACATATTTCCAGCACGTAGCCTATG
1 TATAATACCAGCAC-ATAGCCTACG-GATCCTAAGCCCGGACATAATTCCAGCACATAGCCTACG
*
29339753 GACCTTAAGTCCGAA
64 GACCCTAAGTCCGAA
* * * * *
29339768 TATAATTCCAGCACATAGCCTGCGGATCCTAAGTCCGGATATAATTCCAGCACATAGCCTGCGGA
1 TATAATACCAGCACATAGCCTACGGATCCTAAGCCCGGACATAATTCCAGCACATAGCCTACGGA
*
29339833 CCCTAAGTCCGGA
66 CCCTAAGTCCGAA
29339846 TATA
1 TATA
29339850 CATCACTGAA
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
77 3 0.04
78 64 0.96
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (78 bp):
TATAATACCAGCACATAGCCTACGGATCCTAAGCCCGGACATAATTCCAGCACATAGCCTACGGA
CCCTAAGTCCGAA
Found at i:29341978 original size:18 final size:18
Alignment explanation
Indices: 29341957--29342003 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
29341947 AATTGAACAA
*
29341957 AAATGACTAAATTGTGTC
1 AAATGACTAAATTGTGGC
* *
29341975 AAATG-CAAAATTGTGGG
1 AAATGACTAAATTGTGGC
*
29341992 AAATGATTAAAT
1 AAATGACTAAAT
29342004 AGCTTAAATG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.30
Consensus pattern (18 bp):
AAATGACTAAATTGTGGC
Found at i:29345922 original size:40 final size:40
Alignment explanation
Indices: 29345878--29345977 Score: 164
Period size: 40 Copynumber: 2.5 Consensus size: 40
29345868 AACCATGGGC
*
29345878 CTGCTCACACAAGTTGTCAGTCAAGACGTAACTACACGGG
1 CTGCTCACACAAGCTGTCAGTCAAGACGTAACTACACGGG
*
29345918 CTGCTCACACAAGCTGTCAGTCAAGATGTAACTACACGGG
1 CTGCTCACACAAGCTGTCAGTCAAGACGTAACTACACGGG
* *
29345958 CTACTCGCACAAGCTGTCAG
1 CTGCTCACACAAGCTGTCAG
29345978 GTATTCGCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (40 bp):
CTGCTCACACAAGCTGTCAGTCAAGACGTAACTACACGGG
Found at i:29349715 original size:50 final size:50
Alignment explanation
Indices: 29349592--29349840 Score: 266
Period size: 50 Copynumber: 4.8 Consensus size: 50
29349582 GATAATAACA
* * ** * *
29349592 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* * *
29349643 TGCCCATGCCATGTCCCAGACATAGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
29349693 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
29349743 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* * *
29349798 ATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
29349841 TTACCCAAAT
Statistics
Matches: 167, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.54
51 32 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:29349771 original size:100 final size:104
Alignment explanation
Indices: 29349591--29349840 Score: 339
Period size: 100 Copynumber: 2.4 Consensus size: 104
29349581 TGATAATAAC
**
29349591 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
29349656 TCCCAGACATAGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATAGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
29349693 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
*
29349756 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATAGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* * *
29349798 ATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
29349841 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.37
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATAGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:29349956 original size:13 final size:13
Alignment explanation
Indices: 29349935--29349966 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
29349925 GCTTGGATCA
*
29349935 TCATCAAATAAAT
1 TCATAAAATAAAT
29349948 TCATAAAATAAAT
1 TCATAAAATAAAT
29349961 TCATAA
1 TCATAA
29349967 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:29350212 original size:30 final size:30
Alignment explanation
Indices: 29350178--29350235 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
29350168 CCTCGACTCT
*
29350178 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
29350208 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
29350236 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:29364846 original size:11 final size:11
Alignment explanation
Indices: 29364830--29364860 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
29364820 TGATATGAAC
29364830 AATCACAAACT
1 AATCACAAACT
29364841 AATCACAAACT
1 AATCACAAACT
*
29364852 AAACACAAA
1 AATCACAAA
29364861 ACATAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.61, C:0.26, G:0.00, T:0.13
Consensus pattern (11 bp):
AATCACAAACT
Found at i:29364944 original size:22 final size:21
Alignment explanation
Indices: 29364918--29364967 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
29364908 TAAAAACCGG
29364918 TAGAATTGTAATTCTCAAAAAA
1 TAGAATTGT-ATTCTCAAAAAA
* *
29364940 TAGAATT-TATTCTTAGAAAA
1 TAGAATTGTATTCTCAAAAAA
29364960 TA-AATTGT
1 TAGAATTGT
29364968 TACTACTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 4 0.16
20 13 0.52
21 1 0.04
22 7 0.28
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (21 bp):
TAGAATTGTATTCTCAAAAAA
Found at i:29365127 original size:24 final size:21
Alignment explanation
Indices: 29365084--29365130 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
29365074 TAGTAAAACA
*
29365084 AAAATAATATTTATTTAGTAG
1 AAAATAATATTTATTAAGTAG
29365105 AAAATAATATTATACTATAAGTAG
1 AAAATAATATT-TA-T-TAAGTAG
29365129 AA
1 AA
29365131 TAGGGTGGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 11 0.50
22 2 0.09
23 1 0.05
24 8 0.36
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (21 bp):
AAAATAATATTTATTAAGTAG
Done.