Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 70 of 196
Found at i:20007897 original size:77 final size:77
Alignment explanation
Indices: 20007791--20008006 Score: 319
Period size: 77 Copynumber: 2.8 Consensus size: 77
20007781 TATTTATTTC
20007791 ATTTTTTTATTTAGTTGATATCA-CATGAACTTATATTCTGTCATACAATTTAGTACATTTGTAT
1 ATTTTTTTATTTAGTTGATATCATC-TGAACTTATATTCTGTCATACAATTTAGTACATTTGTAT
20007855 TTATTTGATTTTT
65 TTATTTGATTTTT
* * *
20007868 ATTTTTTTAATTAGTTGATATCATCTGAACTTATATTCTGTCACACAATTTAGTACATTCGTATT
1 ATTTTTTTATTTAGTTGATATCATCTGAACTTATATTCTGTCATACAATTTAGTACATTTGTATT
*
20007933 TGTTTGATTTTT
66 TATTTGATTTTT
* * **
20007945 A-TTTTTTATTTAGTTGATATCATTTGAACTTATATTTTGTCACGTGTAATTTAGTACATTTG
1 ATTTTTTTATTTAGTTGATATCATCTGAACTTATATTCTGTCA--TACAATTTAGTACATTTG
20008007 CACTAACACT
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
76 38 0.30
77 72 0.58
78 15 0.12
ACGTcount: A:0.26, C:0.10, G:0.11, T:0.53
Consensus pattern (77 bp):
ATTTTTTTATTTAGTTGATATCATCTGAACTTATATTCTGTCATACAATTTAGTACATTTGTATT
TATTTGATTTTT
Found at i:20009585 original size:30 final size:30
Alignment explanation
Indices: 20009551--20009611 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
20009541 TATTTGAGCG
* *
20009551 TCAATTAAATTTTAAGGGTTCACTTGAATA
1 TCAATTAAAATTTAAGAGTTCACTTGAATA
* *
20009581 TCAATTAAAATTTAAGAGTTTATTTGAATA
1 TCAATTAAAATTTAAGAGTTCACTTGAATA
20009611 T
1 T
20009612 TTTTAAGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (30 bp):
TCAATTAAAATTTAAGAGTTCACTTGAATA
Found at i:20009947 original size:19 final size:18
Alignment explanation
Indices: 20009914--20009966 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
20009904 GTCAACAATT
20009914 AATTTTTTAT-TTTTTTA
1 AATTTTTTATATTTTTTA
20009931 AATTTTTTATATCTTTTTA
1 AATTTTTTATAT-TTTTTA
* *
20009950 AAATTTTAATATTTTTT
1 AATTTTTTATATTTTTT
20009967 TTAAATTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 10 0.31
18 6 0.19
19 16 0.50
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
AATTTTTTATATTTTTTA
Found at i:20009967 original size:19 final size:19
Alignment explanation
Indices: 20009921--20009973 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
20009911 ATTAATTTTT
* *
20009921 TATTTTTTTAAATTTTTTA
1 TATTTTTTTAAAATTTTAA
*
20009940 TATCTTTTTAAAATTTTAA
1 TATTTTTTTAAAATTTTAA
*
20009959 TATTTTTTTTAAATT
1 TATTTTTTTAAAATT
20009974 CTTTTTGAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTTTTTTAAAATTTTAA
Found at i:20009977 original size:31 final size:31
Alignment explanation
Indices: 20009933--20009994 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
20009923 TTTTTTTAAA
*
20009933 TTTTTTATATCTTTTTAAAATTTT-AATATT
1 TTTTTTAAATCTTTTTAAAATTTTAAATATT
* *
20009963 TTTTTTAAATTCTTTTTGAAGTTTTAAATATT
1 TTTTTTAAA-TCTTTTTAAAATTTTAAATATT
20009995 AAAAATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 8 0.30
31 13 0.48
32 6 0.22
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (31 bp):
TTTTTTAAATCTTTTTAAAATTTTAAATATT
Found at i:20013234 original size:61 final size:61
Alignment explanation
Indices: 20013165--20013336 Score: 176
Period size: 61 Copynumber: 2.8 Consensus size: 61
20013155 TTTTAATAAG
* *
20013165 ATTATTATTATATATAATTTAATAAAAATAATAACAAATAATTTAATAATATT-TTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAA-AAATAATTTAATAAAATTCTTAACATA
* * * *
20013226 ATTATTATTAAATACAATATAAT-AAAATAAT--ATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAAAAATAATTTAATAAAATTCTTAACATA
* *
20013284 ATTATTATTAAAAATATGAA-TTAATAAAAATCATAATATATAATATT-ATAAAA
1 ATTATTATT--AAATAT-AATTTAATAAAAATAATAA-AAATAAT-TTAATAAAA
20013337 ATAATATATA
Statistics
Matches: 93, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
57 16 0.17
58 16 0.17
60 17 0.18
61 29 0.31
64 13 0.14
65 2 0.02
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (61 bp):
ATTATTATTAAATATAATTTAATAAAAATAATAAAAATAATTTAATAAAATTCTTAACATA
Found at i:20013311 original size:40 final size:40
Alignment explanation
Indices: 20013264--20013339 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
20013254 AATATATAAT
* * *
20013264 TTAATAAAATTCTTAATATA-ATTATTATTAAAAATATGAA
1 TTAATAAAAATCATAATATATAATATTA-TAAAAATATGAA
20013304 TTAATAAAAATCATAATATATAATATTATAAAAATA
1 TTAATAAAAATCATAATATATAATATTATAAAAATA
20013340 ATATATAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 26 0.81
41 6 0.19
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (40 bp):
TTAATAAAAATCATAATATATAATATTATAAAAATATGAA
Found at i:20014961 original size:20 final size:20
Alignment explanation
Indices: 20014936--20014982 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
20014926 ACCTTATATC
* *
20014936 TATATATCTTTTTATCTTAT
1 TATATATCTATATATCTTAT
*
20014956 TATATATCTATATGTCTTAT
1 TATATATCTATATATCTTAT
20014976 TATATAT
1 TATATAT
20014983 ATATCTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.60
Consensus pattern (20 bp):
TATATATCTATATATCTTAT
Found at i:20019554 original size:27 final size:30
Alignment explanation
Indices: 20019515--20019591 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 30
20019505 CAGATTCAAA
*
20019515 AAAAAAATCAAAATCAAAAT-AAA-AAAA-C
1 AAAAAAA-GAAAATCAAAATCAAACAAAAGC
**
20019543 AAAAAAAGAAAAGAAAAATCAAAGTCAAAAGC
1 AAAAAAAGAAAATCAAAATCAAA--CAAAAGC
20019575 AAAAAAAGAGAAATCAA
1 AAAAAAAGA-AAATCAA
20019592 TCAAAGTCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
27 9 0.24
28 10 0.26
31 4 0.11
32 10 0.26
33 5 0.13
ACGTcount: A:0.75, C:0.09, G:0.08, T:0.08
Consensus pattern (30 bp):
AAAAAAAGAAAATCAAAATCAAACAAAAGC
Found at i:20019578 original size:32 final size:31
Alignment explanation
Indices: 20019511--20019603 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 31
20019501 GGTTCAGATT
** * *
20019511 CAAAAAAA-AAATCAAAATCAAAATAAAAAAA
1 CAAAAAAAGAAAAAAAAATCAAAGT-CAAAAA
*
20019542 CAAAAAAAGAAAAGAAAAATCAAAGTCAAAAG
1 CAAAAAAAGAAAA-AAAAATCAAAGTCAAAAA
* **
20019574 CAAAAAAAGAGAAATCAATCAAAGTCAAAA
1 CAAAAAAAGAAAAAAAAATCAAAGTCAAAA
20019604 TAAAATATAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
31 23 0.44
32 19 0.37
33 10 0.19
ACGTcount: A:0.73, C:0.11, G:0.08, T:0.09
Consensus pattern (31 bp):
CAAAAAAAGAAAAAAAAATCAAAGTCAAAAA
Found at i:20020008 original size:6 final size:6
Alignment explanation
Indices: 20019999--20020030 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
20019989 AAAATGATGA
20019999 AAAATG AAAATG AAAATG AAAA-- AAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAA
20020031 GTAAAATGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.17
6 20 0.83
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (6 bp):
AAAATG
Found at i:20020016 original size:29 final size:28
Alignment explanation
Indices: 20019982--20020038 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
20019972 ATGAAGTTAA
**
20019982 AAAATGAAAAATGATGAAAAATGAAAATG
1 AAAATGAAAAAAAATGAAAAAT-AAAATG
*
20020011 AAAATGAAAAAAAATGAAAAGTAAAATG
1 AAAATGAAAAAAAATGAAAAATAAAATG
20020039 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (28 bp):
AAAATGAAAAAAAATGAAAAATAAAATG
Found at i:20020017 original size:22 final size:23
Alignment explanation
Indices: 20019982--20020038 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
20019972 ATGAAGTTAA
**
20019982 AAAATGAAAAATGATGAAAAATG
1 AAAATGAAAAATGAAAAAAAATG
20020005 AAAATG-AAAATGAAAAAAAATG
1 AAAATGAAAAATGAAAAAAAATG
*
20020027 AAAA-GTAAAATG
1 AAAATGAAAAATG
20020039 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 1 0.03
22 24 0.77
23 6 0.19
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (23 bp):
AAAATGAAAAATGAAAAAAAATG
Found at i:20020024 original size:10 final size:10
Alignment explanation
Indices: 20019988--20020030 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
20019978 TTAAAAAATG
**
20019988 AAAAATGATG
1 AAAAATGAAA
20019998 AAAAATGAAA
1 AAAAATGAAA
20020008 ATGAAAATGAAA
1 A--AAAATGAAA
20020020 AAAAATGAAA
1 AAAAATGAAA
20020030 A
1 A
20020031 GTAAAATGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 19 0.66
12 10 0.34
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (10 bp):
AAAAATGAAA
Found at i:20020036 original size:12 final size:11
Alignment explanation
Indices: 20019999--20020038 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
20019989 AAAATGATGA
20019999 AAAATGAAAAT
1 AAAATGAAAAT
20020010 GAAAATGAAAA-
1 -AAAATGAAAAT
20020021 AAAATGAAAAGT
1 AAAATGAAAA-T
20020033 AAAATG
1 AAAATG
20020039 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.38
12 16 0.62
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (11 bp):
AAAATGAAAAT
Found at i:20028250 original size:44 final size:44
Alignment explanation
Indices: 20028200--20028337 Score: 106
Period size: 44 Copynumber: 3.2 Consensus size: 44
20028190 AAAACAAAGC
20028200 CTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGAT
1 CTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGAT
* * * * * * * *
20028244 CTTGCCTTC-TTGCGTTAACAGTGAAG-TAGATCGAAA-ACAA-AG-C
1 CTTGCCTCCATCG-GTT-GCAGTGGAGCT-GGT-TAAAGATAACAGAT
* *
20028287 CTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGAT
1 CTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGAT
*
20028331 ATTGCCT
1 CTTGCCT
20028338 TTCTGCGTTA
Statistics
Matches: 66, Mismatches: 19, Indels: 18
0.64 0.18 0.17
Matches are distributed among these distances:
41 3 0.05
42 10 0.15
43 16 0.24
44 22 0.33
45 12 0.18
46 3 0.05
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (44 bp):
CTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGAT
Found at i:20028260 original size:87 final size:87
Alignment explanation
Indices: 20028102--20028452 Score: 488
Period size: 87 Copynumber: 4.0 Consensus size: 87
20028092 GTGAAGATAA
* *
20028102 AAAACAAAGCCTTACCTCCATCGATTGCAGTTGGAGCTGGTTAAAGATAAAAGATCTT-CCATTC
1 AAAACAAAGCCTTACCTCCATCGGTTGCAG-TGGAGCTGGTTAAAGATAACAGATCTTGCC-TTC
* *
20028166 CTACGTTAACAGTGAAGCAGACCG
64 CTGCGTTAACAGTGAAGCAGATCG
* *
20028190 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCTT
1 AAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
*
20028255 GCGTTAACAGTGAAGTAGATCG
66 GCGTTAACAGTGAAGCAGATCG
* * * * *
20028277 AAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATATTGCCTTTCT
1 AAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
** *
20028342 GCGTTAACAACGAAGCAGATCA
66 GCGTTAACAGTGAAGCAGATCG
* * *
20028364 AAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAAATCTTGCCCTCCT
1 AAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
** *
20028429 GCGTCGATAGTGAAGCAGATCG
66 GCGTTAACAGTGAAGCAGATCG
20028451 AA
1 AA
20028453 GATTACAAGT
Statistics
Matches: 234, Mismatches: 28, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
87 204 0.87
88 30 0.13
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (87 bp):
AAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
GCGTTAACAGTGAAGCAGATCG
Found at i:20028602 original size:44 final size:44
Alignment explanation
Indices: 20028545--20028862 Score: 183
Period size: 44 Copynumber: 7.3 Consensus size: 44
20028535 ATCGCATCGG
* **
20028545 GTCTTATCTCCCTGGAGTTGCAGCGGAGCAGACTG-AGAAAACAA
1 GTCTTATCTCCCTGAAGTCACAGCGGAGCAGACTGAAG-AAACAA
* * * *
20028589 GTCTTATCCCCCTGAAGTCACAGTGGGGCAGACTGAAGAAGCAA
1 GTCTTATCTCCCTGAAGTCACAGCGGAGCAGACTGAAGAAACAA
* * * * *
20028633 GTCTTATCTCCCT-AAG-CAGTAGTGGAGCATACAGAAGAAATGAA
1 GTCTTATCTCCCTGAAGTCA-CAGCGGAGCAGACTGAAGAAA-CAA
* ** * * * * *
20028677 -TCCTATCTCCCTGAAGTTGCAGTGGAGCGGA-TTAAAACAATATA
1 GTCTTATCTCCCTGAAGTCACAGCGGAGCAGACTGAAGA-AACA-A
* * * * * **
20028721 -TCTTATCTCCCT-AAG-CAGTAGTGGAGCAGA-T--CGCATCGG
1 GTCTTATCTCCCTGAAGTCA-CAGCGGAGCAGACTGAAGAAACAA
*
20028760 GTCTTATCTCCCTGAAGTTACAGCGGAGCAGACTG-AGAAAACAA
1 GTCTTATCTCCCTGAAGTCACAGCGGAGCAGACTGAAG-AAACAA
* * * *
20028804 GTCTTATCCCCCTGAAGTCACAGTGGGGCAGACTGAAGAAGCAA
1 GTCTTATCTCCCTGAAGTCACAGCGGAGCAGACTGAAGAAACAA
* *
20028848 ATCTTATTTCCCTGA
1 GTCTTATCTCCCTGA
20028863 GGTTCCAGTA
Statistics
Matches: 207, Mismatches: 52, Indels: 30
0.72 0.18 0.10
Matches are distributed among these distances:
40 13 0.06
41 13 0.06
42 4 0.02
43 49 0.24
44 124 0.60
45 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (44 bp):
GTCTTATCTCCCTGAAGTCACAGCGGAGCAGACTGAAGAAACAA
Found at i:20030682 original size:20 final size:20
Alignment explanation
Indices: 20030657--20030703 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
20030647 ACCTTATATC
* *
20030657 TATATATCTTTTTATCTTAT
1 TATATATCTATATATCTTAT
*
20030677 TATATATCTATATGTCTTAT
1 TATATATCTATATATCTTAT
20030697 TATATAT
1 TATATAT
20030704 ATATCTCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.60
Consensus pattern (20 bp):
TATATATCTATATATCTTAT
Found at i:20032703 original size:16 final size:16
Alignment explanation
Indices: 20032678--20032712 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
20032668 AATAGTATGC
*
20032678 ACAAACAACAAATTTA
1 ACAAAAAACAAATTTA
20032694 ACAAAAAACAAATTTA
1 ACAAAAAACAAATTTA
20032710 ACA
1 ACA
20032713 GTCTCATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (16 bp):
ACAAAAAACAAATTTA
Found at i:20041280 original size:58 final size:58
Alignment explanation
Indices: 20041218--20041428 Score: 198
Period size: 58 Copynumber: 3.6 Consensus size: 58
20041208 TATCACCATG
20041218 CCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCACATTCGATAGCCGAAGCTATC
* * * * * * * *
20041276 CCTTTTCATATTCGATGGTC-ATCA-CCATCCCTTTTCATAATT-GATGGTCGTCA-CCATC
1 CCTTTTCATAATCGATAGTCGA--AGCTATCCCTTTTCA-CATTCGATAGCCG-AAGCTATC
* * * * *
20041334 CCTTCTCATAATTGATAG-CTGAAGTTATCACTTTTCACATTCGATAGCAGAAGCTATC
1 CCTTTTCATAATCGATAGTC-GAAGCTATCCCTTTTCACATTCGATAGCCGAAGCTATC
* * *
20041392 CCTTTTCGTATTCGATAGTAGAAGCTATCCCTTTTCA
1 CCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCA
20041429 TTATCTGAGG
Statistics
Matches: 115, Mismatches: 28, Indels: 20
0.71 0.17 0.12
Matches are distributed among these distances:
57 7 0.06
58 102 0.89
59 6 0.05
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.36
Consensus pattern (58 bp):
CCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:20041300 original size:87 final size:87
Alignment explanation
Indices: 20041128--20041429 Score: 245
Period size: 87 Copynumber: 3.5 Consensus size: 87
20041118 GTTGTAACCG
* * * * * * * * * *
20041128 TCCCTTTTCATATTCGATGGTTGAAACCATCCCTTTTCATTAATCGATGGTCGTCA-CCATCCCT
1 TCCCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCA-TAATTGATAGCCG-AAGCTATCCCT
* *
20041192 TTTCATA-GCTGATGGTTATCACCA
64 TTTCATATTC-GATGGTCATCACCA
* *
20041216 TGCCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCA-CATTCGATAGCCGAAGCTATCCCTT
1 TCCCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCATAATT-GATAGCCGAAGCTATCCCTT
20041280 TTCATATTCGATGGTCATCACCA
65 TTCATATTCGATGGTCATCACCA
* * * * * * * *
20041303 TCCCTTTTCATAATTGATGGTCGTCA-CCATCCCTTCTCATAATTGATAGCTGAAGTTATCACTT
1 TCCCTTTTCATAATCGATAGTCG-AAGCTATCCCTTTTCATAATTGATAGCCGAAGCTATCCCTT
* * ** *
20041367 TTCACATTCGATAG-CAGAAGCTA
65 TTCATATTCGATGGTCATCA-CCA
* * *
20041390 TCCCTTTTCGTATTCGATAGTAGAAGCTATCCCTTTTCAT
1 TCCCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCAT
20041430 TATCTGAGGT
Statistics
Matches: 170, Mismatches: 37, Indels: 15
0.77 0.17 0.07
Matches are distributed among these distances:
86 7 0.04
87 125 0.74
88 38 0.22
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.37
Consensus pattern (87 bp):
TCCCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCATAATTGATAGCCGAAGCTATCCCTTT
TCATATTCGATGGTCATCACCA
Found at i:20041343 original size:116 final size:116
Alignment explanation
Indices: 20041128--20041407 Score: 364
Period size: 116 Copynumber: 2.4 Consensus size: 116
20041118 GTTGTAACCG
* * ** * * * *
20041128 TCCCTTTTCATATTCGATGGTTGAAACCATCCCTTTTCATTAATCGATGGTCGTCACCATCCCTT
1 TCCCTTTTCACATTCGATAGCAGAAGCTATCCCTTTTCA-TATTCGATGGTCATCACCATCCCTT
* * * *
20041193 TTCATAGCTGATGGTTATCACCATGCCTTTTCATAATCGATAG-TCGAAGCTA
65 TTCATAACTGATGGTCATCACCATCCCTTCTCATAATCGATAGCT-GAAGCTA
*
20041245 TCCCTTTTCACATTCGATAGCCGAAGCTATCCCTTTTCATATTCGATGGTCATCACCATCCCTTT
1 TCCCTTTTCACATTCGATAGCAGAAGCTATCCCTTTTCATATTCGATGGTCATCACCATCCCTTT
* * * *
20041310 TCATAATTGATGGTCGTCACCATCCCTTCTCATAATTGATAGCTGAAGTTA
66 TCATAACTGATGGTCATCACCATCCCTTCTCATAATCGATAGCTGAAGCTA
* *
20041361 TCACTTTTCACATTCGATAGCAGAAGCTATCCCTTTTCGTATTCGAT
1 TCCCTTTTCACATTCGATAGCAGAAGCTATCCCTTTTCATATTCGAT
20041408 AGTAGAAGCT
Statistics
Matches: 143, Mismatches: 19, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
116 109 0.76
117 34 0.24
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (116 bp):
TCCCTTTTCACATTCGATAGCAGAAGCTATCCCTTTTCATATTCGATGGTCATCACCATCCCTTT
TCATAACTGATGGTCATCACCATCCCTTCTCATAATCGATAGCTGAAGCTA
Found at i:20041344 original size:29 final size:29
Alignment explanation
Indices: 20041114--20041349 Score: 176
Period size: 29 Copynumber: 8.1 Consensus size: 29
20041104 TGTGCTAAAC
* * *
20041114 GATGGTTGTAACCGTCCCTTTTCAT-ATT
1 GATGGTCGTCACCATCCCTTTTCATAATT
* ** *
20041142 CGATGGTTGAAACCATCCCTTTTCATTAATC
1 -GATGGTCGTCACCATCCCTTTTCA-TAATT
**
20041173 GATGGTCGTCACCATCCCTTTTCATAGCT
1 GATGGTCGTCACCATCCCTTTTCATAATT
** * *
20041202 GATGGTTATCACCATGCCTTTTCATAATC
1 GATGGTCGTCACCATCCCTTTTCATAATT
* * * *
20041231 GATAGTCG-AAGCTATCCCTTTTCA-CATT
1 GATGGTCGTCA-CCATCCCTTTTCATAATT
* * * *
20041259 CGATAGCCG-AAGCTATCCCTTTTCAT-ATT
1 -GATGGTCGTCA-CCATCCCTTTTCATAATT
*
20041288 CGATGGTCATCACCATCCCTTTTCATAATT
1 -GATGGTCGTCACCATCCCTTTTCATAATT
*
20041318 GATGGTCGTCACCATCCCTTCTCATAATT
1 GATGGTCGTCACCATCCCTTTTCATAATT
20041347 GAT
1 GAT
20041350 AGCTGAAGTT
Statistics
Matches: 169, Mismatches: 31, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
28 3 0.02
29 138 0.82
30 26 0.15
31 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.36
Consensus pattern (29 bp):
GATGGTCGTCACCATCCCTTTTCATAATT
Found at i:20041391 original size:29 final size:29
Alignment explanation
Indices: 20041218--20041428 Score: 146
Period size: 29 Copynumber: 7.3 Consensus size: 29
20041208 TATCACCATG
* *
20041218 CCTTTTCATAATCGATAGTC-GAAGCTATC
1 CCTTTTCACATTCGATAG-CAGAAGCTATC
*
20041247 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCAGAAGCTATC
* * ** *
20041276 CCTTTTCATATTCGATGGTCATCA-CCATC
1 CCTTTTCACATTCGATAG-CAGAAGCTATC
* * * *
20041305 CCTTTTCATAATT-GATGGTC-GTCA-CCATC
1 CCTTTTCA-CATTCGATAG-CAG-AAGCTATC
* * * *
20041334 CCTTCTCATAATT-GATAGCTGAAGTTATC
1 CCTTTTCA-CATTCGATAGCAGAAGCTATC
*
20041363 ACTTTTCACATTCGATAGCAGAAGCTATC
1 CCTTTTCACATTCGATAGCAGAAGCTATC
** *
20041392 CCTTTTCGTATTCGATAGTAGAAGCTATC
1 CCTTTTCACATTCGATAGCAGAAGCTATC
20041421 CCTTTTCA
1 CCTTTTCA
20041429 TTATCTGAGG
Statistics
Matches: 150, Mismatches: 25, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
28 6 0.04
29 139 0.93
30 5 0.03
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.36
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCAGAAGCTATC
Found at i:20049435 original size:22 final size:22
Alignment explanation
Indices: 20049346--20049465 Score: 66
Period size: 22 Copynumber: 5.5 Consensus size: 22
20049336 ATCCCTTGCA
* * *
20049346 GATTATTTTATATCCCTTGAGG
1 GATTAATTTGTATCCCTAGAGG
* * * *
20049368 GATTAATTCGTATGCTTTGAGG
1 GATTAATTTGTATCCCTAGAGG
* * *
20049390 GATT-GTGTTATATACC-ATGAGG
1 GATTAAT-TTGTATCCCTA-GAGG
20049412 GATTAATTTGTATCCCCTAG-GG
1 GATTAATTTGTAT-CCCTAGAGG
* * * *
20049434 GATTGAGTTATATCCCTTGAGG
1 GATTAATTTGTATCCCTAGAGG
20049456 GATTAATTTG
1 GATTAATTTG
20049466 AGTATACTCA
Statistics
Matches: 71, Mismatches: 21, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
21 6 0.08
22 60 0.85
23 4 0.06
24 1 0.01
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (22 bp):
GATTAATTTGTATCCCTAGAGG
Found at i:20049464 original size:44 final size:44
Alignment explanation
Indices: 20049353--20049465 Score: 147
Period size: 44 Copynumber: 2.6 Consensus size: 44
20049343 GCAGATTATT
* * * * *
20049353 TTATATCCCTTGAGGGATTAATTCGTATGCTTTGAGGGATTGTG
1 TTATATCCCTTGAGGGATTAATTTGTATCCCTAGAGGGATTGAG
* *
20049397 TTATATACCATGAGGGATTAATTTGTATCCCCTAG-GGGATTGAG
1 TTATATCCCTTGAGGGATTAATTTGTAT-CCCTAGAGGGATTGAG
20049441 TTATATCCCTTGAGGGATTAATTTG
1 TTATATCCCTTGAGGGATTAATTTG
20049466 AGTATACTCA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 56 0.95
45 3 0.05
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.39
Consensus pattern (44 bp):
TTATATCCCTTGAGGGATTAATTTGTATCCCTAGAGGGATTGAG
Found at i:20066515 original size:16 final size:16
Alignment explanation
Indices: 20066479--20066515 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
20066469 TTGGTTCGCT
*
20066479 GTAATGGAATAGAGGC
1 GTAATGGAATAGAAGC
*
20066495 TTAATGGAATAGAAGC
1 GTAATGGAATAGAAGC
20066511 GTAAT
1 GTAAT
20066516 AGGTAATCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.30, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGAAGC
Found at i:20066550 original size:46 final size:44
Alignment explanation
Indices: 20066497--20066590 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 44
20066487 ATAGAGGCTT
*
20066497 AATGGAATAGAAGC-GTAATAGGTAATCTTTT-TGTTTGGTTGAATGA
1 AATGGAATAGAA-CTGTAATA-GT-AT-TTTTATATTTGGTTGAATGA
*
20066543 AATGGAATAGAACTGTAATAGTATTTTTATATTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTTTTATATTTGGTTGAATGA
20066587 AATG
1 AATG
20066591 ATATTGTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
43 4 0.09
44 19 0.43
45 3 0.07
46 18 0.41
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.38
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTTTTATATTTGGTTGAATGA
Found at i:20066766 original size:18 final size:18
Alignment explanation
Indices: 20066743--20066876 Score: 81
Period size: 18 Copynumber: 7.9 Consensus size: 18
20066733 TTATTATTAA
20066743 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
20066761 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
*
20066778 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
20066796 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* * *
20066812 ATAAAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
20066831 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
*
20066843 ATATAATTTAACAAAAAT
1 ATATAATTTAATAAAAAT
20066861 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
20066877 TTCTTAGTAT
Statistics
Matches: 86, Mismatches: 19, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
12 1 0.01
13 5 0.06
14 2 0.02
15 3 0.03
16 8 0.09
17 20 0.23
18 42 0.49
19 5 0.06
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:20067273 original size:13 final size:14
Alignment explanation
Indices: 20067243--20067274 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
20067233 TTCAATGTTG
20067243 TTTTCTTCTTTCAT
1 TTTTCTTCTTTCAT
20067257 TTTTCTTCTTTCAT
1 TTTTCTTCTTTCAT
20067271 TTTT
1 TTTT
20067275 AACTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTCTTCTTTCAT
Found at i:20079512 original size:18 final size:18
Alignment explanation
Indices: 20079478--20079514 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
20079468 TGAGTTTTCG
*
20079478 AATTCGAATAACCCGAAT
1 AATTCGAATAAACCGAAT
*
20079496 AATTCGAATAAATCGAAT
1 AATTCGAATAAACCGAAT
20079514 A
1 A
20079515 CCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (18 bp):
AATTCGAATAAACCGAAT
Found at i:20079827 original size:17 final size:17
Alignment explanation
Indices: 20079771--20079829 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
20079761 TATATTCTAC
*
20079771 TATTTATATTATTAAAT
1 TATTTATATTATTGAAT
* *
20079788 TAAATTTCATATT-TTGTAC
1 T--ATTT-ATATTATTGAAT
20079807 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
20079824 TATTTA
1 TATTTA
20079830 ATCATATTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 5 0.15
17 15 0.45
19 8 0.24
20 5 0.15
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (17 bp):
TATTTATATTATTGAAT
Found at i:20079997 original size:18 final size:18
Alignment explanation
Indices: 20079960--20079997 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
20079950 TAAAAATCAC
*
20079960 ATTTTTTACATTTAATAT
1 ATTTTTTACATTTAAAAT
20079978 ATTTTTTA-ATTTCAAAAT
1 ATTTTTTACATTT-AAAAT
20079996 AT
1 AT
20079998 ATAGTGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTTACATTTAAAAT
Found at i:20080745 original size:28 final size:30
Alignment explanation
Indices: 20080691--20080747 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 30
20080681 ATTGATAATA
*
20080691 TAATAATAAATCTAATAACTTTAACATAAG
1 TAATAATAAATCTAATAACGTTAACATAAG
*
20080721 TAATTATAAATC-AAT-ACGTTAACATAA
1 TAATAATAAATCTAATAACGTTAACATAA
20080748 TGATAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.44
29 3 0.12
30 11 0.44
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.33
Consensus pattern (30 bp):
TAATAATAAATCTAATAACGTTAACATAAG
Found at i:20080757 original size:28 final size:28
Alignment explanation
Indices: 20080695--20080757 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
20080685 ATAATATAAT
*
20080695 AATAAATCTAATAACTTTAACATAAGTA
1 AATAAATCTAATAACGTTAACATAAGTA
20080723 ATTATAAATC-AAT-ACGTTAACATAATGATA
1 A--ATAAATCTAATAACGTTAACATAA-G-TA
20080753 AATAA
1 AATAA
20080758 TAACATGGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
28 16 0.53
29 4 0.13
30 10 0.33
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.32
Consensus pattern (28 bp):
AATAAATCTAATAACGTTAACATAAGTA
Found at i:20081342 original size:3 final size:3
Alignment explanation
Indices: 20081334--20081430 Score: 194
Period size: 3 Copynumber: 32.3 Consensus size: 3
20081324 AGGATAAATG
20081334 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
20081382 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
20081430 A
1 A
20081431 AGAGATTTTT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 94 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:20082484 original size:18 final size:18
Alignment explanation
Indices: 20082457--20082494 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
20082447 AAAAGGCTTT
20082457 AAGAGCCCTTGAAAAGTG
1 AAGAGCCCTTGAAAAGTG
* *
20082475 AAGAGTCCTTGAAATGTG
1 AAGAGCCCTTGAAAAGTG
20082493 AA
1 AA
20082495 TTCTCTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.21
Consensus pattern (18 bp):
AAGAGCCCTTGAAAAGTG
Found at i:20097487 original size:17 final size:18
Alignment explanation
Indices: 20097453--20097495 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
20097443 TGCCCCATAG
20097453 CTAGATACAAACAGAATA
1 CTAGATACAAACAGAATA
*
20097471 CTAGATATAAA-AGAATA
1 CTAGATACAAACAGAATA
*
20097488 ATAGATAC
1 CTAGATAC
20097496 CAGAATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.21
Consensus pattern (18 bp):
CTAGATACAAACAGAATA
Found at i:20100370 original size:21 final size:21
Alignment explanation
Indices: 20100331--20100384 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
20100321 TATGCCAACT
*
20100331 GAAGCTCG-AA-AGCTGAACA
1 GAAGCTCGTAAGAGCTAAACA
20100350 GAAGCTCGTAAGAGCTAAACA
1 GAAGCTCGTAAGAGCTAAACA
*
20100371 GAAGCTTGTAAGAG
1 GAAGCTCGTAAGAG
20100385 TGATCCATCC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.26
20 2 0.06
21 21 0.68
ACGTcount: A:0.41, C:0.17, G:0.28, T:0.15
Consensus pattern (21 bp):
GAAGCTCGTAAGAGCTAAACA
Found at i:20101767 original size:24 final size:25
Alignment explanation
Indices: 20101721--20101783 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
20101711 CCAGTTGGAT
* *
20101721 ATCGAGGCAGAGG-AGGTTTATTTC
1 ATCGAGGTAGAGGCAGGTTCATTTC
*
20101745 ATCGAGGTAGAGGCA-GTTCATTTT
1 ATCGAGGTAGAGGCAGGTTCATTTC
* *
20101769 ATCAAGGTAGCGGCA
1 ATCGAGGTAGAGGCA
20101784 AAGGTCATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 32 0.97
25 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (25 bp):
ATCGAGGTAGAGGCAGGTTCATTTC
Found at i:20102288 original size:29 final size:30
Alignment explanation
Indices: 20102218--20102323 Score: 196
Period size: 30 Copynumber: 3.6 Consensus size: 30
20102208 TCTTCATATG
20102218 AAAACTTGATGTATGTGCCTGGCATAACAA
1 AAAACTTGATGTATGTGCCTGGCATAACAA
20102248 AAAACTTGATGTATGTGCCTGGCATAA-AA
1 AAAACTTGATGTATGTGCCTGGCATAACAA
20102277 AAAACTTGATGTATGTGCCTGGCATAACAA
1 AAAACTTGATGTATGTGCCTGGCATAACAA
*
20102307 AAAACTTGATGTCTGTG
1 AAAACTTGATGTATGTG
20102324 TCACAATTCT
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 29 0.39
30 45 0.61
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (30 bp):
AAAACTTGATGTATGTGCCTGGCATAACAA
Found at i:20105834 original size:3 final size:3
Alignment explanation
Indices: 20105826--20105867 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
20105816 ACATAGTAAA
* *
20105826 AAC AAC AAC AAA AAC AAC AAC AAC AAC AAA AAC AAC AA- AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A
20105868 CCCATGCCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.74, C:0.26, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:20105843 original size:9 final size:9
Alignment explanation
Indices: 20105829--20105865 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
20105819 TAGTAAAAAC
20105829 AACAACAAA
1 AACAACAAA
*
20105838 AACAACAAC
1 AACAACAAA
20105847 AACAACAAA
1 AACAACAAA
20105856 AACAACAAA
1 AACAACAAA
20105865 A
1 A
20105866 CACCCATGCC
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:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (9 bp):
AACAACAAA
Found at i:20107978 original size:34 final size:35
Alignment explanation
Indices: 20107915--20107981 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
20107905 CGAAATCTAA
* *
20107915 AACAATAGTAATAAATAATTAAATTAAACTAAAAT
1 AACAATAATAATAAATAATTAAATAAAACTAAAAT
* *
20107950 AACAATAATAA-AATTAATTAACTAAAACTAAA
1 AACAATAATAATAAATAATTAAATAAAACTAAA
20107982 CCTAAGTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 18 0.64
35 10 0.36
ACGTcount: A:0.64, C:0.07, G:0.01, T:0.27
Consensus pattern (35 bp):
AACAATAATAATAAATAATTAAATAAAACTAAAAT
Found at i:20110203 original size:50 final size:50
Alignment explanation
Indices: 20110079--20110327 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
20110069 GATAATAACA
* * ** * *
20110079 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
20110130 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
20110180 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
20110230 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
20110285 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
20110328 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:20110257 original size:100 final size:104
Alignment explanation
Indices: 20110078--20110327 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
20110068 TGATAATAAC
**
20110078 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
20110143 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
20110180 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
20110243 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
20110285 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
20110328 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:20110443 original size:13 final size:13
Alignment explanation
Indices: 20110422--20110453 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
20110412 GCTTGGATCA
*
20110422 TCATCAAATAAAT
1 TCATAAAATAAAT
20110435 TCATAAAATAAAT
1 TCATAAAATAAAT
20110448 TCATAA
1 TCATAA
20110454 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:20110700 original size:30 final size:30
Alignment explanation
Indices: 20110665--20110722 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
20110655 CCTCGACTCT
*
20110665 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
20110695 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
20110723 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:20117817 original size:49 final size:49
Alignment explanation
Indices: 20117656--20117901 Score: 278
Period size: 49 Copynumber: 4.8 Consensus size: 49
20117646 GATAATAACA
* ** *
20117656 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAT-GGA-CCTCTCGT-CTCGG
* * * *
20117707 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-TGGACCTCTCGTCTCGG
*
20117757 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGACCTCTCGTCTCGG
* * *
20117806 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGACCTCTC--G-TC-T-CGG
*
20117860 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGACCTCT
20117902 TTACCCAAAT
Statistics
Matches: 167, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
49 55 0.33
50 36 0.22
51 33 0.20
52 2 0.01
53 1 0.01
54 2 0.01
55 38 0.23
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGACCTCTCGTCTCGG
Found at i:20117889 original size:104 final size:100
Alignment explanation
Indices: 20117655--20117901 Score: 329
Period size: 99 Copynumber: 2.4 Consensus size: 100
20117645 TGATAATAAC
**
20117655 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACAT-GGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
20117720 TCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
64 TCCCAGACATGGTCTTACAGGGGACCTCTCATCTAGG
* *
20117757 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGACCTCTCGT-CTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGACCTCTCGTGAT-GGTGCCCATGCCATGT
20117820 CCCAGACATGGTCTTACA-GGGACCTCTCATGATCTTAAGG
65 CCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-AGG
* *
20117860 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGACCTCT
20117902 TTACCCAAAT
Statistics
Matches: 130, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
98 11 0.08
99 39 0.30
100 3 0.02
101 35 0.27
102 1 0.01
103 2 0.02
104 39 0.30
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (100 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGACCTCTCGTGATGGTGCCCATGCCATGTC
CCAGACATGGTCTTACAGGGGACCTCTCATCTAGG
Found at i:20118269 original size:29 final size:30
Alignment explanation
Indices: 20118235--20118291 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
20118225 CCTCGACTCT
*
20118235 AACTTTTTCAAAATTACAATTTT-CCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
20118264 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
20118292 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.32, C:0.25, G:0.02, T:0.42
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:20162427 original size:23 final size:23
Alignment explanation
Indices: 20162374--20162427 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
20162364 ACCATCTACT
* * *
20162374 GGCAAATCTAAGAACTGTGCTAA
1 GGCAAATCTAAAAACAGTACTAA
*
20162397 GTCAAATCTAAAAACAGTACTAA
1 GGCAAATCTAAAAACAGTACTAA
*
20162420 GGCTAATC
1 GGCAAATC
20162428 CATTCACAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.22
Consensus pattern (23 bp):
GGCAAATCTAAAAACAGTACTAA
Found at i:20165297 original size:28 final size:28
Alignment explanation
Indices: 20165253--20165306 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
20165243 GGTGTTTTTG
*
20165253 AACCAATAACTCAGATATCACTTGTTCA
1 AACCAATAACTCAGATACCACTTGTTCA
* *
20165281 AACCAATAGCTCGGATACCACTTGTT
1 AACCAATAACTCAGATACCACTTGTT
20165307 ATGGGGCTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (28 bp):
AACCAATAACTCAGATACCACTTGTTCA
Found at i:20167229 original size:5 final size:5
Alignment explanation
Indices: 20167219--20167253 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
20167209 TGTCATCTCC
20167219 AATCT AATCT AATCT AATCT AATCT AATCT AATCT
1 AATCT AATCT AATCT AATCT AATCT AATCT AATCT
20167254 TTACAAGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
AATCT
Found at i:20172298 original size:256 final size:256
Alignment explanation
Indices: 20171843--20172614 Score: 1517
Period size: 256 Copynumber: 3.0 Consensus size: 256
20171833 GTCAGCCAAC
20171843 ATATGAACAATCCAACTGAATATCATTTAGAGGTAGTAAATAGAATCTTGAGGTATTTAAAAATG
1 ATATGAACAATCCAACTGAATATCATTTAGAGGTAGTAAATAGAATCTTGAGGTATTTAAAAATG
20171908 ACTCCGGGACTTGGTCTACTATTCAGGAAGTGTGCAAACCGAGAAGTGGAAATTTACACCGATAC
66 ACTCCGGGACTTGGTCTACTATTCAGGAAGTGTGCAAACCGAGAAGTGGAAATTTACACCGATAC
20171973 TAGTTGGGCAAGAGAGCAAACTGATCGAAGATCAATCACTGGTTATTGGTCCTATGTTTGGGGTA
131 TAGTTGGGCAAGAGAGCAAACTGATCGAAGATCAATCACTGGTTATTGGTCCTATGTTTGGGGTA
20172038 ATCTTATTACTTGGAGGAGCAAAAAGCAAGCTGTAGTCTCACGGAGTAGTGCAGAATCAAA
196 ATCTTATTACTTGGAGGAGCAAAAAGCAAGCTGTAGTCTCACGGAGTAGTGCAGAATCAAA
* *
20172099 ATATGAACAATCCAACTGAATATCATTTAGAGGTAGTAAATAAAATCTTAAGGTATTTAAAAATG
1 ATATGAACAATCCAACTGAATATCATTTAGAGGTAGTAAATAGAATCTTGAGGTATTTAAAAATG
20172164 ACTCCGGGACTTGGTCTACTATTCAGGAAGTGTGCAAACCGAGAAGTGGAAATTTACACCGATAC
66 ACTCCGGGACTTGGTCTACTATTCAGGAAGTGTGCAAACCGAGAAGTGGAAATTTACACCGATAC
20172229 TAGTTGGGCAAGAGAGCAAACTGATCGAAGATCAATCACTGGTTATTGGTCCTATGTTTGGGGTA
131 TAGTTGGGCAAGAGAGCAAACTGATCGAAGATCAATCACTGGTTATTGGTCCTATGTTTGGGGTA
20172294 ATCTTATTACTTGGAGGAGCAAAAAGCAAGCTGTAGTCTCACGGAGTAGTGCAGAATCAAA
196 ATCTTATTACTTGGAGGAGCAAAAAGCAAGCTGTAGTCTCACGGAGTAGTGCAGAATCAAA
20172355 ATATGAACAATCCAACTGAATATCATTTAGAGGTAGTAAATAGAATCTTGAGGTATTTAAAAATG
1 ATATGAACAATCCAACTGAATATCATTTAGAGGTAGTAAATAGAATCTTGAGGTATTTAAAAATG
*
20172420 ACTCCGGGACTTGGTCTACTCTTCAGGAAGTGTGCAAACCGAGAAGTGGAAATTTACACCGATAC
66 ACTCCGGGACTTGGTCTACTATTCAGGAAGTGTGCAAACCGAGAAGTGGAAATTTACACCGATAC
20172485 TAGTTGGGCAAGAGAGCAAACTGATCGAAGATCAATCACTGGTTATTGGTCCTATGTTTGGGGTA
131 TAGTTGGGCAAGAGAGCAAACTGATCGAAGATCAATCACTGGTTATTGGTCCTATGTTTGGGGTA
20172550 ATCTTATTACTTGGAGGAGCAAAAAGCAAGCTGTAGTCTCACGGAGTAGTGCAGAATCAAA
196 ATCTTATTACTTGGAGGAGCAAAAAGCAAGCTGTAGTCTCACGGAGTAGTGCAGAATCAAA
20172611 ATAT
1 ATAT
20172615 CGTGCTCTTA
Statistics
Matches: 511, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
256 511 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (256 bp):
ATATGAACAATCCAACTGAATATCATTTAGAGGTAGTAAATAGAATCTTGAGGTATTTAAAAATG
ACTCCGGGACTTGGTCTACTATTCAGGAAGTGTGCAAACCGAGAAGTGGAAATTTACACCGATAC
TAGTTGGGCAAGAGAGCAAACTGATCGAAGATCAATCACTGGTTATTGGTCCTATGTTTGGGGTA
ATCTTATTACTTGGAGGAGCAAAAAGCAAGCTGTAGTCTCACGGAGTAGTGCAGAATCAAA
Found at i:20178278 original size:23 final size:23
Alignment explanation
Indices: 20178244--20178290 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
20178234 ATATATAATC
20178244 ACTCAACCCTTCATTAATTTTTA
1 ACTCAACCCTTCATTAATTTTTA
*
20178267 ACTCAACTCTTCATTAATTTTTA
1 ACTCAACCCTTCATTAATTTTTA
20178290 A
1 A
20178291 TTGGCCATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.45
Consensus pattern (23 bp):
ACTCAACCCTTCATTAATTTTTA
Found at i:20178554 original size:18 final size:17
Alignment explanation
Indices: 20178528--20178561 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
20178518 TTGTAAAATT
*
20178528 TTTATAAATTTATATAAC
1 TTTAAAAATTT-TATAAC
20178546 TTTAAAAATTTTATAA
1 TTTAAAAATTTTATAA
20178562 TTTGGTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTAAAAATTTTATAAC
Found at i:20180791 original size:25 final size:25
Alignment explanation
Indices: 20180757--20180811 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
20180747 CACAAGTCCA
* *
20180757 CCTTCAACTGGGCTATATGTAAAGG
1 CCTTCAACTGGACTATATGAAAAGG
*
20180782 CCTTCAACTGGACTATATGAAAAGT
1 CCTTCAACTGGACTATATGAAAAGG
20180807 CCTTC
1 CCTTC
20180812 TCTTTTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (25 bp):
CCTTCAACTGGACTATATGAAAAGG
Found at i:20181450 original size:12 final size:12
Alignment explanation
Indices: 20181433--20181463 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20181423 TAATAATTTT
*
20181433 GTTAAAAGTTAA
1 GTTAAAAATTAA
20181445 GTTAAAAATTAA
1 GTTAAAAATTAA
20181457 GTTAAAA
1 GTTAAAA
20181464 TATATTAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (12 bp):
GTTAAAAATTAA
Found at i:20182530 original size:20 final size:20
Alignment explanation
Indices: 20182501--20182539 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
20182491 ATGGGATTGC
20182501 ACTTTAGTGCCTCTGTTTGA
1 ACTTTAGTGCCTCTGTTTGA
*
20182521 ACTTTGGTGCCTCTGTTTG
1 ACTTTAGTGCCTCTGTTTG
20182540 CACTACGATG
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:0.10, C:0.21, G:0.23, T:0.46
Consensus pattern (20 bp):
ACTTTAGTGCCTCTGTTTGA
Found at i:20182551 original size:20 final size:20
Alignment explanation
Indices: 20182508--20182594 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 20
20182498 TGCACTTTAG
* ** *
20182508 TGCCTCTGTTTGAACTTTGG
1 TGCCTCTGTTTGCACTACGA
20182528 TGCCTCTGTTTGCACTACGA
1 TGCCTCTGTTTGCACTACGA
* * *
20182548 TGCCTTTGATTGCACAATCG-
1 TGCCTCTGTTTGCACTA-CGA
* *
20182568 TGTCTTTGTTTGCACTACGA
1 TGCCTCTGTTTGCACTACGA
20182588 TGCCTCT
1 TGCCTCT
20182595 ATATAGCATT
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
19 2 0.04
20 49 0.92
21 2 0.04
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.40
Consensus pattern (20 bp):
TGCCTCTGTTTGCACTACGA
Found at i:20182552 original size:40 final size:40
Alignment explanation
Indices: 20182508--20182594 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 40
20182498 TGCACTTTAG
* ** *
20182508 TGCCTCTGTTTGAACTTTGGTGCCTCTGTTTGCACTACGA
1 TGCCTCTGATTGAACAATCGTGCCTCTGTTTGCACTACGA
* * * *
20182548 TGCCTTTGATTGCACAATCGTGTCTTTGTTTGCACTACGA
1 TGCCTCTGATTGAACAATCGTGCCTCTGTTTGCACTACGA
20182588 TGCCTCT
1 TGCCTCT
20182595 ATATAGCATT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.40
Consensus pattern (40 bp):
TGCCTCTGATTGAACAATCGTGCCTCTGTTTGCACTACGA
Found at i:20182781 original size:24 final size:24
Alignment explanation
Indices: 20182749--20182802 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
20182739 GACTTAAATA
* *
20182749 AATATACATGAATGTTTTCGATCG
1 AATATACATGAATGATTTCAATCG
*
20182773 AATATACATGAATGATTTCAATGG
1 AATATACATGAATGATTTCAATCG
20182797 AATATA
1 AATATA
20182803 TATATGAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (24 bp):
AATATACATGAATGATTTCAATCG
Found at i:20194361 original size:14 final size:14
Alignment explanation
Indices: 20194342--20194369 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20194332 TGATAAAAGC
20194342 TGATAATATGAAAT
1 TGATAATATGAAAT
20194356 TGATAATATGAAAT
1 TGATAATATGAAAT
20194370 GGATTATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (14 bp):
TGATAATATGAAAT
Found at i:20197840 original size:21 final size:23
Alignment explanation
Indices: 20197801--20197842 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
20197791 TACAGCTTCG
*
20197801 TGTTTGTGTTAAATGTGTCCTAA
1 TGTTTGTGTTAAATATGTCCTAA
20197824 TGTTTGT-TT-AATATGTCCT
1 TGTTTGTGTTAAATATGTCCT
20197843 GGGAGAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 2 0.11
23 7 0.39
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (23 bp):
TGTTTGTGTTAAATATGTCCTAA
Found at i:20203721 original size:12 final size:12
Alignment explanation
Indices: 20203704--20203736 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
20203694 AATATAATCC
20203704 ATAATTATTTTT-
1 ATAATT-TTTTTA
20203716 ATAATTTTTTTA
1 ATAATTTTTTTA
20203728 ATAATTTTT
1 ATAATTTTT
20203737 GGAAATCAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATAATTTTTTTA
Found at i:20221978 original size:9 final size:9
Alignment explanation
Indices: 20221946--20221995 Score: 50
Period size: 8 Copynumber: 5.7 Consensus size: 9
20221936 AATAATTAAC
20221946 AAAAAATTT
1 AAAAAATTT
*
20221955 -CAAAATTT
1 AAAAAATTT
*
20221963 ATGAAAATTT
1 A-AAAAATTT
20221973 AAAAAA-TT
1 AAAAAATTT
*
20221981 AAAAAAATT
1 AAAAAATTT
20221990 AAAAAA
1 AAAAAA
20221996 CTGATGCAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
8 15 0.43
9 12 0.34
10 8 0.23
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (9 bp):
AAAAAATTT
Found at i:20221987 original size:18 final size:18
Alignment explanation
Indices: 20221946--20221995 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
20221936 AATAATTAAC
* *
20221946 AAAAAATTTCAAAATTTA
1 AAAAAATTTAAAAAATTA
**
20221964 TGAAAATTTAAAAAATTA
1 AAAAAATTTAAAAAATTA
20221982 AAAAAA-TTAAAAAA
1 AAAAAATTTAAAAAA
20221996 CTGATGCAGC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAAAATTTAAAAAATTA
Found at i:20222597 original size:13 final size:13
Alignment explanation
Indices: 20222581--20222605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20222571 TCTCCCTTCC
20222581 TCTCTGTCCATCA
1 TCTCTGTCCATCA
20222594 TCTCTGTCCATC
1 TCTCTGTCCATC
20222606 GTCCCTTCTC
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:0.12, C:0.40, G:0.08, T:0.40
Consensus pattern (13 bp):
TCTCTGTCCATCA
Found at i:20224198 original size:22 final size:20
Alignment explanation
Indices: 20224155--20224193 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
20224145 CAATTTAAAA
20224155 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
20224175 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
20224194 ATGTAAAAAC
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:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:20224248 original size:32 final size:32
Alignment explanation
Indices: 20224212--20224297 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 32
20224202 ACAACTTTTT
*
20224212 CAGAAAATATTTTCAGGAAATT-TGCCAAACAA
1 CAGAAAATATTTTCAGCAAATTAT-CCAAACAA
* *
20224244 CAGAAAATATTTTACA-CAGATTCATCCAAACAT
1 CAGAAAATATTTT-CAGCAAATT-ATCCAAACAA
*
20224277 CAGAAAATATTTTCAGTAAAT
1 CAGAAAATATTTTCAGCAAAT
20224298 CATTTTCCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
32 19 0.42
33 25 0.56
34 1 0.02
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (32 bp):
CAGAAAATATTTTCAGCAAATTATCCAAACAA
Found at i:20224316 original size:20 final size:19
Alignment explanation
Indices: 20224291--20224330 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
20224281 AAATATTTTC
20224291 AGTAAATCATTTTCCAAGAA
1 AGTAAATCATTTTCC-AGAA
20224311 AGTAAATCATTTTCCAGAA
1 AGTAAATCATTTTCCAGAA
20224330 A
1 A
20224331 TCATTTTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (19 bp):
AGTAAATCATTTTCCAGAA
Found at i:20224636 original size:20 final size:20
Alignment explanation
Indices: 20224611--20224650 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
20224601 CGGAAAATAA
20224611 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
20224631 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
20224651 GAAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:20224640 original size:34 final size:32
Alignment explanation
Indices: 20224597--20224660 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 32
20224587 AGTAAAATAT
20224597 TTTTCGGAAAATAATTT-CTGGAAAATGATTTAC
1 TTTTCGGAAAATAATTTACT-GAAAAT-ATTTAC
*
20224630 TTTTCTGGAAAATGATTTACTGAAAATATTT
1 TTTTC-GGAAAATAATTTACTGAAAATATTT
20224661 TCTGGTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 9 0.32
34 17 0.61
35 2 0.07
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (32 bp):
TTTTCGGAAAATAATTTACTGAAAATATTTAC
Found at i:20224726 original size:32 final size:32
Alignment explanation
Indices: 20224641--20224728 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 32
20224631 TTTCTGGAAA
*
20224641 ATGATTTACTGAAAATATTTTCTGGTGTTTGG
1 ATGATTTCCTGAAAATATTTTCTGGTGTTTGG
* * *
20224673 ATGA-ATCTGTGTAAAATATTTTCTGTTGTTTGG
1 ATGATTTC-CTG-AAAATATTTTCTGGTGTTTGG
20224706 CA-GATTTCCTGAAAATATTTTCT
1 -ATGATTTCCTGAAAATATTTTCT
20224729 AGAAAAATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
31 1 0.02
32 18 0.39
33 24 0.52
34 3 0.07
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.47
Consensus pattern (32 bp):
ATGATTTCCTGAAAATATTTTCTGGTGTTTGG
Found at i:20224769 original size:22 final size:22
Alignment explanation
Indices: 20224743--20224788 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
20224733 AAATTATTTT
20224743 TACATATATTAATAAATTTATA
1 TACATATATTAATAAATTTATA
*
20224765 TACATATATTAATAAATTTTTA
1 TACATATATTAATAAATTTATA
20224787 TA
1 TA
20224789 TTTTAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (22 bp):
TACATATATTAATAAATTTATA
Found at i:20226087 original size:32 final size:32
Alignment explanation
Indices: 20226041--20226101 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
20226031 TGTCAATCAT
20226041 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
*
20226073 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
20226102 CAATATCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:20226108 original size:27 final size:30
Alignment explanation
Indices: 20226041--20226114 Score: 100
Period size: 32 Copynumber: 2.5 Consensus size: 30
20226031 TGTCAATCAT
*
20226041 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
20226073 TTCAATATCTAACAAGCTTAAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
20226101 -TCAATATCTAACAA
1 TTCAATATCTAACAA
20226115 ATTCAATACA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 14 0.34
28 2 0.05
29 2 0.05
32 23 0.56
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:20226125 original size:27 final size:27
Alignment explanation
Indices: 20226042--20226128 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 27
20226032 GTCAATCATT
* *
20226042 TCAATATCCAACAAGCTTAAAACATAATAAA
1 TCAATATCTAACAAGATTAAAAC---AT-AA
*
20226073 TTCAATATCTAACAAGCTTAAAACATAA
1 -TCAATATCTAACAAGATTAAAACATAA
*
20226101 TCAATATCTAACAA-ATTCAATACATAA
1 TCAATATCTAACAAGATT-AAAACATAA
20226128 T
1 T
20226129 AATTTCAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.04
27 23 0.45
28 2 0.04
29 2 0.04
32 22 0.43
ACGTcount: A:0.52, C:0.18, G:0.02, T:0.28
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAACATAA
Found at i:20230019 original size:51 final size:51
Alignment explanation
Indices: 20229938--20230105 Score: 273
Period size: 51 Copynumber: 3.3 Consensus size: 51
20229928 ACTTTTGATT
* *
20229938 AGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
20229989 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* * * *
20230040 AGTAACAAGTGATAAGTGATAGCTTTAGCTACACTTATTTGATCAGGGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
20230091 AGGGACAAGTGATAA
1 AGTGACAAGTGATAA
20230106 ATGTGATCCG
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 109 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:20232257 original size:59 final size:59
Alignment explanation
Indices: 20232187--20232304 Score: 209
Period size: 59 Copynumber: 2.0 Consensus size: 59
20232177 GAAGTGAAAG
20232187 TTATTAAAAAATGTGATCACATGCATAATTATTAGTCATTGGATGACATAATAATGTAA
1 TTATTAAAAAATGTGATCACATGCATAATTATTAGTCATTGGATGACATAATAATGTAA
* * *
20232246 TTATTATAAAATGTGATCACATGCATGATTATTAGTCATTGGATGGCATAATAATGTAA
1 TTATTAAAAAATGTGATCACATGCATAATTATTAGTCATTGGATGACATAATAATGTAA
20232305 CAATATTTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.36
Consensus pattern (59 bp):
TTATTAAAAAATGTGATCACATGCATAATTATTAGTCATTGGATGACATAATAATGTAA
Found at i:20234303 original size:17 final size:17
Alignment explanation
Indices: 20234281--20234317 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
20234271 ATAGTAGTAG
20234281 TAAACTATTCATAATAA
1 TAAACTATTCATAATAA
*
20234298 TAAACTTTTCATAATAA
1 TAAACTATTCATAATAA
20234315 TAA
1 TAA
20234318 TAATAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAACTATTCATAATAA
Found at i:20235065 original size:30 final size:30
Alignment explanation
Indices: 20235029--20235092 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
20235019 AATAAATATG
*
20235029 TATGTTGAAAACTTTAACTAGGAAGTTACA
1 TATGTTGAAAACTCTAACTAGGAAGTTACA
20235059 TATGTTGAAAACTCTAACTAGGAAGTTACA
1 TATGTTGAAAACTCTAACTAGGAAGTTACA
20235089 TATG
1 TATG
20235093 AAGCAACACC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (30 bp):
TATGTTGAAAACTCTAACTAGGAAGTTACA
Found at i:20236585 original size:33 final size:33
Alignment explanation
Indices: 20236543--20236608 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
20236533 AACGAATGAA
20236543 TAGAACGATCATGGAGAAAGTTTGATGTATGTT
1 TAGAACGATCATGGAGAAAGTTTGATGTATGTT
20236576 TAGAACGATCATGGAGAAAGTTTGATGTATGTT
1 TAGAACGATCATGGAGAAAGTTTGATGTATGTT
20236609 GTTAAATGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (33 bp):
TAGAACGATCATGGAGAAAGTTTGATGTATGTT
Found at i:20238874 original size:10 final size:10
Alignment explanation
Indices: 20238859--20238891 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
20238849 AAATACAGTG
20238859 ATAAAATAAA
1 ATAAAATAAA
20238869 ATAAAATAAA
1 ATAAAATAAA
20238879 ATAAAAGTAAA
1 ATAAAA-TAAA
20238890 AT
1 AT
20238892 CCATATAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 16 0.73
11 6 0.27
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (10 bp):
ATAAAATAAA
Found at i:20238879 original size:15 final size:16
Alignment explanation
Indices: 20238859--20238891 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
20238849 AAATACAGTG
20238859 ATAAAATAAAA-TAAA
1 ATAAAATAAAAGTAAA
20238874 ATAAAATAAAAGTAAA
1 ATAAAATAAAAGTAAA
20238890 AT
1 AT
20238892 CCATATAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
ATAAAATAAAAGTAAA
Found at i:20244345 original size:33 final size:33
Alignment explanation
Indices: 20244303--20244372 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
20244293 ATTTAATAAA
20244303 ATTATTCATGAATTACGTTAATACCATTTGTAC
1 ATTATTCATGAATTACGTTAATACCATTTGTAC
20244336 ATTATTCATGAATTACGTTAATACCATTTGTAC
1 ATTATTCATGAATTACGTTAATACCATTTGTAC
20244369 ATTA
1 ATTA
20244373 CCCTCAATGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (33 bp):
ATTATTCATGAATTACGTTAATACCATTTGTAC
Found at i:20247725 original size:20 final size:20
Alignment explanation
Indices: 20247702--20247785 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
20247692 TACGTCCAGT
*
20247702 CAGGGGCACCAAAGTGTGAA
1 CAGGGGCACCAAAGTGCGAA
*
20247722 CAGGGGCA-CAAACGTGCAAA
1 CAGGGGCACCAAA-GTGCGAA
* * * *
20247742 CATGGACACCGAAGTG-TATA
1 CAGGGGCACCAAAGTGCGA-A
* *
20247762 CAAGGGCATCAAAGTGCGAA
1 CAGGGGCACCAAAGTGCGAA
20247782 CAGG
1 CAGG
20247786 ATCACATAGG
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
19 5 0.10
20 39 0.81
21 4 0.08
ACGTcount: A:0.37, C:0.21, G:0.31, T:0.11
Consensus pattern (20 bp):
CAGGGGCACCAAAGTGCGAA
Found at i:20247757 original size:40 final size:40
Alignment explanation
Indices: 20247708--20247783 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
20247698 CAGTCAGGGG
*
20247708 CACCAAAGTGTGA-ACAGGGGCA-CAAACGTGCAAACATGGA
1 CACCAAAGTGT-ATACAAGGGCATCAAA-GTGCAAACATGGA
* *
20247748 CACCGAAGTGTATACAAGGGCATCAAAGTGCGAACA
1 CACCAAAGTGTATACAAGGGCATCAAAGTGCAAACA
20247784 GGATCACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
39 1 0.03
40 26 0.84
41 4 0.13
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.12
Consensus pattern (40 bp):
CACCAAAGTGTATACAAGGGCATCAAAGTGCAAACATGGA
Found at i:20247783 original size:60 final size:61
Alignment explanation
Indices: 20247705--20247852 Score: 174
Period size: 61 Copynumber: 2.4 Consensus size: 61
20247695 GTCCAGTCAG
* *
20247705 GGGCACCAAAGTGTGAACAGGGGCACAAACGTGCAAACAT-G-GACACCGAAGTGTATACAA
1 GGGCACCAAAGTGCGAACAGGGGCACAAACGTGCAAA-ATAGAGACAACGAAGTGTATACAA
* ** * * * * *
20247765 GGGCATCAAAGTGCGAACAGGATCACATAGGTGCAAATTAGAGACAATGAAGTGTATACAG
1 GGGCACCAAAGTGCGAACAGGGGCACAAACGTGCAAAATAGAGACAACGAAGTGTATACAA
*
20247826 GGGCACCAAAGTGCGAACAGAGGCACA
1 GGGCACCAAAGTGCGAACAGGGGCACA
20247853 GTTGTGCAAA
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
59 1 0.01
60 32 0.44
61 39 0.54
ACGTcount: A:0.39, C:0.20, G:0.29, T:0.13
Consensus pattern (61 bp):
GGGCACCAAAGTGCGAACAGGGGCACAAACGTGCAAAATAGAGACAACGAAGTGTATACAA
Found at i:20254834 original size:62 final size:59
Alignment explanation
Indices: 20254765--20254881 Score: 153
Period size: 59 Copynumber: 1.9 Consensus size: 59
20254755 AGTGATTATC
* * *
20254765 TTAATATTAAATTAAATTTAATGTTTATTTTGTAGATAAATATTCTATTAATTAAATAATAT
1 TTAATATTAAATTAAATATAATATTTA---TGTAGATAAATATTATATTAATTAAATAATAT
* * *
20254827 TTAATATTAAATTTAATATAATATTTATGTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTAAATATAATATTTATGTAGATAAATATTATATTAATTAAATA
20254882 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 25 0.51
62 24 0.49
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTAAATATAATATTTATGTAGATAAATATTATATTAATTAAATAATAT
Found at i:20254852 original size:12 final size:12
Alignment explanation
Indices: 20254816--20254853 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
20254806 ATTCTATTAA
20254816 TTAA-ATAATAT
1 TTAATATAATAT
20254827 TTAATATTAA-AT
1 TTAATA-TAATAT
20254839 TTAATATAATAT
1 TTAATATAATAT
20254851 TTA
1 TTA
20254854 TGTTGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 7 0.29
12 14 0.58
13 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTAATATAATAT
Found at i:20256772 original size:21 final size:22
Alignment explanation
Indices: 20256748--20256790 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
20256738 GTGTTATAAG
*
20256748 TTAAAATTAAATA-AATAAAAC
1 TTAAAATAAAATACAATAAAAC
20256769 TTAAAATAAAATACAATAAAAC
1 TTAAAATAAAATACAATAAAAC
20256791 ATAATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (22 bp):
TTAAAATAAAATACAATAAAAC
Found at i:20264061 original size:22 final size:21
Alignment explanation
Indices: 20264009--20264061 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
20263999 AGTGAAGATG
20264009 CCCTTCAGTGGTATCGCAATAT
1 CCCTTC-GTGGTATCGCAATAT
* * *
20264031 CCTCATCGTGGTATTGCGATAT
1 CC-CTTCGTGGTATCGCAATAT
20264053 CACCTTCGT
1 C-CCTTCGT
20264062 TAGGGGCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (21 bp):
CCCTTCGTGGTATCGCAATAT
Found at i:20269488 original size:8 final size:8
Alignment explanation
Indices: 20269475--20269501 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
20269465 TCTAGATGTT
20269475 TAATTTCA
1 TAATTTCA
20269483 TAATTTCA
1 TAATTTCA
20269491 TAATTTCA
1 TAATTTCA
20269499 TAA
1 TAA
20269502 ATGATTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (8 bp):
TAATTTCA
Found at i:20286899 original size:4 final size:4
Alignment explanation
Indices: 20286890--20286916 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
20286880 ATAATATTCA
20286890 CATT CATT CATT CATT CATT CATT CAT
1 CATT CATT CATT CATT CATT CATT CAT
20286917 AAGAATCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (4 bp):
CATT
Found at i:20290769 original size:21 final size:20
Alignment explanation
Indices: 20290713--20290760 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
20290703 CTGAGAAAGA
20290713 CAAAACAAAAGAAGAATTGC
1 CAAAACAAAAGAAGAATTGC
*
20290733 CAAAACAAAAGAAGAATTGT
1 CAAAACAAAAGAAGAATTGC
20290753 CAAAACAA
1 CAAAACAA
20290761 TTAGAAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.62, C:0.15, G:0.12, T:0.10
Consensus pattern (20 bp):
CAAAACAAAAGAAGAATTGC
Found at i:20292883 original size:9 final size:9
Alignment explanation
Indices: 20292869--20292923 Score: 60
Period size: 9 Copynumber: 6.3 Consensus size: 9
20292859 GTGCAAATTC
20292869 AAAAAGAAG
1 AAAAAGAAG
20292878 AAAAAGAAG
1 AAAAAGAAG
*
20292887 AAGAAGAAG
1 AAAAAGAAG
*
20292896 AACAA-AA-
1 AAAAAGAAG
*
20292903 AAAAAGAAC
1 AAAAAGAAG
*
20292912 AAAAAAAAG
1 AAAAAGAAG
20292921 AAA
1 AAA
20292924 CAAAAACCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
7 4 0.10
8 4 0.10
9 31 0.79
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:20292889 original size:12 final size:12
Alignment explanation
Indices: 20292872--20292922 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
20292862 CAAATTCAAA
20292872 AAGAAGAAAAAG
1 AAGAAGAAAAAG
*
20292884 AAGAAGAAGAAG
1 AAGAAGAAAAAG
*
20292896 AACAA-AAAAA-
1 AAGAAGAAAAAG
* *
20292906 AAGAACAAAAAA
1 AAGAAGAAAAAG
20292918 AAGAA
1 AAGAA
20292923 ACAAAAACCT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 4 0.12
11 9 0.27
12 20 0.61
ACGTcount: A:0.78, C:0.04, G:0.18, T:0.00
Consensus pattern (12 bp):
AAGAAGAAAAAG
Found at i:20292911 original size:13 final size:13
Alignment explanation
Indices: 20292893--20292929 Score: 58
Period size: 12 Copynumber: 2.8 Consensus size: 13
20292883 GAAGAAGAAG
20292893 AAGAACAAAAAAA
1 AAGAACAAAAAAA
20292906 AAGAAC-AAAAAA
1 AAGAACAAAAAAA
20292918 AAGAAACAAAAA
1 AAG-AACAAAAA
20292930 CCTTTACCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.41
13 9 0.41
14 4 0.18
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (13 bp):
AAGAACAAAAAAA
Found at i:20292921 original size:25 final size:26
Alignment explanation
Indices: 20292878--20292929 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
20292868 CAAAAAGAAG
* * *
20292878 AAAAAGAAGAAGAAGAAG-AACAAAA
1 AAAAAGAACAAAAAAAAGAAACAAAA
20292903 AAAAAGAACAAAAAAAAGAAACAAAA
1 AAAAAGAACAAAAAAAAGAAACAAAA
20292929 A
1 A
20292930 CCTTTACCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (26 bp):
AAAAAGAACAAAAAAAAGAAACAAAA
Found at i:20292928 original size:12 final size:12
Alignment explanation
Indices: 20292878--20292929 Score: 59
Period size: 13 Copynumber: 4.2 Consensus size: 12
20292868 CAAAAAGAAG
* *
20292878 AAAAAGAAGAAG
1 AAAAAGAACAAA
*
20292890 AAGAAGAACAAAA
1 AAAAAGAAC-AAA
20292903 AAAAAGAACAAA
1 AAAAAGAACAAA
20292915 AAAAAGAAACAAA
1 AAAAAG-AACAAA
20292928 AA
1 AA
20292930 CCTTTACCGG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
12 16 0.47
13 18 0.53
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (12 bp):
AAAAAGAACAAA
Found at i:20293549 original size:60 final size:60
Alignment explanation
Indices: 20293366--20293567 Score: 288
Period size: 58 Copynumber: 3.4 Consensus size: 60
20293356 GAGAAGGGAA
* * *
20293366 CAAGGTAAAAACCTA-CAAAGGGC-GCTTTGAAAAGAAAAAGAAAAAAAGAAAATTGAGAGGC
1 CAAGGTGAAAACC-AGCAAAGGGCTGCTTTG-AAA-AAAAATAAAAAAAGAAAATGGAGAGGC
*
20293427 CAAGGTGAAAACCCGCAAAGGGCT-CTTTGAAAAAAAAT-AAAAAAGAAAATGGAGAGGC
1 CAAGGTGAAAACCAGCAAAGGGCTGCTTTGAAAAAAAATAAAAAAAGAAAATGGAGAGGC
20293485 CAAGGTGAAAACCAGCAAA-GGCTGCTTTGAAAAAAAATAAAAAAAGAAAATGGAGAGGGC
1 CAAGGTGAAAACCAGCAAAGGGCTGCTTTGAAAAAAAATAAAAAAAGAAAATGGAGA-GGC
*
20293545 CAAGGTGAAAACCCGCAAAGGGC
1 CAAGGTGAAAACCAGCAAAGGGC
20293568 ACCTTGAGAC
Statistics
Matches: 129, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
57 4 0.03
58 51 0.40
59 22 0.17
60 24 0.19
61 28 0.22
ACGTcount: A:0.50, C:0.14, G:0.25, T:0.11
Consensus pattern (60 bp):
CAAGGTGAAAACCAGCAAAGGGCTGCTTTGAAAAAAAATAAAAAAAGAAAATGGAGAGGC
Found at i:20294614 original size:43 final size:43
Alignment explanation
Indices: 20294553--20294771 Score: 234
Period size: 43 Copynumber: 5.1 Consensus size: 43
20294543 ATTCCCCGAT
20294553 GGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAG
1 GGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAG
* * * * *
20294596 GGGTTGCTATGTGCTGATTCC-CCGTATCA-CTGAATATAAAAG
1 GGGTTGCTAAGTGCTGATTCCACCGTAT-ATTTGATTGTGAAAG
*
20294638 TGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAG
1 GGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAG
* * * *
20294681 GGGTTGCTATA-TGTTGATTCC-CCGTATCA-CTGAATAT-AAAG
1 GGGTTGCTA-AGTGCTGATTCCACCGTAT-ATTTGATTGTGAAAG
* * * *
20294722 GTGGTTGCTAAGTGCTGATTCCACCATGTGTTTCATTGTGAAAG
1 G-GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAG
20294766 GGGTTG
1 GGGTTG
20294772 TTGTGTGTTG
Statistics
Matches: 142, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
41 6 0.04
42 63 0.44
43 67 0.47
44 6 0.04
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (43 bp):
GGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAG
Found at i:20294643 original size:42 final size:43
Alignment explanation
Indices: 20294553--20294746 Score: 211
Period size: 42 Copynumber: 4.6 Consensus size: 43
20294543 ATTCCCCGAT
* * * *
20294553 GGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAG
1 GGGTTGCTAAGTGCTGATTCCACCGTATATCTGAATATAAAAG
*
20294596 GGGTTGCTATGTGCTGATTCC-CCGTATCA-CTGAATATAAAAG
1 GGGTTGCTAAGTGCTGATTCCACCGTAT-ATCTGAATATAAAAG
* * * * *
20294638 TGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAG
1 GGGTTGCTAAGTGCTGATTCCACCGTATATCTGAATATAAAAG
*
20294681 GGGTTGCTATA-TGTTGATTCC-CCGTATCA-CTGAATAT-AAAG
1 GGGTTGCTA-AGTGCTGATTCCACCGTAT-ATCTGAATATAAAAG
20294722 GTGGTTGCTAAGTGCTGATTCCACC
1 G-GGTTGCTAAGTGCTGATTCCACC
20294747 ATGTGTTTCA
Statistics
Matches: 126, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
41 6 0.05
42 63 0.50
43 56 0.44
44 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (43 bp):
GGGTTGCTAAGTGCTGATTCCACCGTATATCTGAATATAAAAG
Found at i:20294699 original size:85 final size:85
Alignment explanation
Indices: 20294554--20294789 Score: 391
Period size: 85 Copynumber: 2.8 Consensus size: 85
20294544 TTCCCCGATG
*
20294554 GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGTTGATTCCCC
20294619 GTATCACTGAATATAAAAGT
66 GTATCACTGAATATAAAAGT
*
20294639 GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATATGTTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGTTGATTCCCC
*
20294704 GTATCACTGAATATAAAGGT
66 GTATCACTGAATATAAAAGT
* * * * * *
20294724 GGTTGCTAAGTGCTGATTCCACCATGTGTTTCATTGTGAAAGGGGTTGTTGTGTGTTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGTTGATTCCCC
20294789 G
66 G
20294790 CCGACCAATT
Statistics
Matches: 141, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 141 1.00
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (85 bp):
GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGTTGATTCCCC
GTATCACTGAATATAAAAGT
Found at i:20317713 original size:99 final size:99
Alignment explanation
Indices: 20317595--20318079 Score: 569
Period size: 99 Copynumber: 4.9 Consensus size: 99
20317585 CGGGAAAGCA
* * * *
20317595 AGATTCGCCATCGTGGCTTCAATCTGTTCTGCTGCATCGCCTGAGAAGTAAGATTCGCCGTTGTG
1 AGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAGAAGTAAGATTCGCCGTTGTG
* *
20317660 GCCTCAATCTTTTAATTGCAATGTCGGGGAAGCG
66 GCCTCAATCTTTTAATTGCAATGTCAGGGAAGTG
* * * * * * *** * *
20317694 AGATTCACCTTTGTAGCTTCAATCTGTTGCACTGTAATGGTAGGA-AATTAAGATTTGCCGTTGT
1 AGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTG-CATCGCCTGAGAAGTAAGATTCGCCGTTGT
20317758 GGCCTCAATCTTTTGAATTGCAATGTCAGGGAAGTG
65 GGCCTCAATCTTTT-AATTGCAATGTCAGGGAAGTG
* * * *
20317794 AGATTCGCCGTTGTAGCTTCAATCTGTTTCGTTGCATCGCCTGA-AAGTAAGATTCACCATTGTG
1 AGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAGAAGTAAGATTCGCCGTTGTG
* * * * *
20317858 GCTTCGATCCTTTAAACTGCAATGTCAGGGAAGTA
66 GCCTCAAT-CTTTTAATTGCAATGTCAGGGAAGTG
* * * * * * *
20317893 AGATCCGCTGTTGTAGCTTCAATTTGTTCCACTGCAACGCCTGGGAAGTAAGGTTCGCCGTTGTG
1 AGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAGAAGTAAGATTCGCCGTTGTG
* *
20317958 GCTTCAATCTTTTGATTGCAATGTCAGGGAAGTG
66 GCCTCAATCTTTTAATTGCAATGTCAGGGAAGTG
* * *
20317992 AGATCCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCTTGAGAAAGTAAGATTCGCCGTTGT
1 AGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAG-AAGTAAGATTCGCCGTTGT
20318057 GGCCTCAATCTTTTAAATTGCAA
65 GGCCTCAATCTTTT-AATTGCAA
20318080 ACTATGGTTA
Statistics
Matches: 320, Mismatches: 60, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
99 201 0.63
100 112 0.35
101 7 0.02
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (99 bp):
AGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAGAAGTAAGATTCGCCGTTGTG
GCCTCAATCTTTTAATTGCAATGTCAGGGAAGTG
Found at i:20317766 original size:50 final size:50
Alignment explanation
Indices: 20317640--20318067 Score: 231
Period size: 50 Copynumber: 8.6 Consensus size: 50
20317630 ATCGCCTGAG
* * * * *
20317640 AAGTAAGATTCGCCGTTGTGGCCTCAATCT-TTTAATTGCAATGTCGGGG
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCTGTTGAACTGCAATGTCAGGA
** * * * * *
20317689 AAGCGAGATTCACCTTTGTAGCTTCAATCTGTTGCACTGTAATGGT-AGGA
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCTGTTGAACTGCAAT-GTCAGGA
* * * * * *
20317739 AATTAAGATTTGCCGTTGTGGCCTCAATCTTTTGAATTGCAATGTCAGGG
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCTGTTGAACTGCAATGTCAGGA
* * **** **
20317789 AAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTTCGTTGC-ATCG-CCTGA
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCTGTTGAACTGCAAT-GTCAGGA
* * * * * * *
20317838 AAGTAAGATTCACCATTGTGGCTTCGATCCT-TTAAACTGCAATGTCAGGG
1 AAGTAAGATTCGCCGTTGTAGCCTCAAT-CTGTTGAACTGCAATGTCAGGA
* * * * ** * * * *
20317888 AAGTAAGATCCGCTGTTGTAGCTTCAATTTGTTCCACTGCAACGCCTGGG
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCTGTTGAACTGCAATGTCAGGA
* * * * * *
20317938 AAGTAAGGTTCGCCGTTGTGGCTTCAATCTTTTG-ATTGCAATGTCAGGG
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCTGTTGAACTGCAATGTCAGGA
* * * *** ** *
20317987 AAGTGAGATCCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACCG-CTTGAGA
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCTGTTGAACTGCAATGTC-AG-GA
*
20318038 AAGTAAGATTCGCCGTTGTGGCCTCAATCT
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCT
20318068 TTTAAATTGC
Statistics
Matches: 280, Mismatches: 88, Indels: 20
0.72 0.23 0.05
Matches are distributed among these distances:
49 100 0.36
50 151 0.54
51 29 0.10
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (50 bp):
AAGTAAGATTCGCCGTTGTAGCCTCAATCTGTTGAACTGCAATGTCAGGA
Found at i:20318027 original size:149 final size:149
Alignment explanation
Indices: 20317587--20318065 Score: 385
Period size: 149 Copynumber: 3.2 Consensus size: 149
20317577 TGTAATATCG
* * * * * * ** * *
20317587 GGAAAGCAAGATTCGCCATCGTGGCTTCAATCTGTTCTGCTGCATCGCCTGAGAAGTAAGATTCG
1 GGAAAGTAAGATCCGCCGTTGTAGCTTCAATTTGTTCAACTGCAACGCCTGGGAAGTAAGATTCG
* * * * *
20317652 CCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCTTTGTAGCTTCAAT
66 CCGTTGTGGCTTCAATCTTTTGATTGCAATGTCAGGGAAGTGAGATTCACCATTGTAGCTTCAAT
* *
20317717 CTGTTGCACTGTAATGGTA
131 CTGTTACACTGCAATGGTA
* ** * * * * * * * *
20317736 GGAAATTAAGATTTGCCGTTGTGGCCTCAATCTT-TTGAATTGCAATGTCAGGGAAGTGAGATTC
1 GGAAAGTAAGATCCGCCGTTGTAGCTTCAAT-TTGTTCAACTGCAACGCCTGGGAAGTAAGATTC
* ** * * *
20317800 GCCGTTGTAGCTTCAATCTGTTTCG-TTGC-ATCG-CCTGAAAGTAAGATTCACCATTGTGGCTT
65 GCCGTTGTGGCTTCAATCT-TTT-GATTGCAAT-GTCAGGGAAGTGAGATTCACCATTGTAGCTT
* *
20317862 CGATCCT-TTAAACTGCAAT-GTCA
127 CAAT-CTGTTACACTGCAATGGT-A
* * * *
20317885 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATTTGTTCCACTGCAACGCCTGGGAAGTAAGGTTCG
1 GGAAAGTAAGATCCGCCGTTGTAGCTTCAATTTGTTCAACTGCAACGCCTGGGAAGTAAGATTCG
* * *
20317950 CCGTTGTGGCTTCAATCTTTTGATTGCAATGTCAGGGAAGTGAGATCCGCCGTTGTAGCTTCAAT
66 CCGTTGTGGCTTCAATCTTTTGATTGCAATGTCAGGGAAGTGAGATTCACCATTGTAGCTTCAAT
* * ** * *
20318015 CTGTTCCGCTGCACCGCTT
131 CTGTTACACTGCAATGGTA
* * *
20318034 GAGAAAGTAAGATTCGCCGTTGTGGCCTCAAT
1 G-GAAAGTAAGATCCGCCGTTGTAGCTTCAAT
20318066 CTTTTAAATT
Statistics
Matches: 249, Mismatches: 68, Indels: 25
0.73 0.20 0.07
Matches are distributed among these distances:
147 1 0.00
148 14 0.06
149 197 0.79
150 37 0.15
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (149 bp):
GGAAAGTAAGATCCGCCGTTGTAGCTTCAATTTGTTCAACTGCAACGCCTGGGAAGTAAGATTCG
CCGTTGTGGCTTCAATCTTTTGATTGCAATGTCAGGGAAGTGAGATTCACCATTGTAGCTTCAAT
CTGTTACACTGCAATGGTA
Found at i:20337380 original size:18 final size:20
Alignment explanation
Indices: 20337352--20337393 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
20337342 GTTTTCCTAA
*
20337352 AAAAATAAAATAA-AATAGT
1 AAAAATAAAATAATAATAGG
20337371 AAAAAT-AAATAATAATAGG
1 AAAAATAAAATAATAATAGG
20337390 AAAA
1 AAAA
20337394 TTAATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (20 bp):
AAAAATAAAATAATAATAGG
Found at i:20348745 original size:22 final size:22
Alignment explanation
Indices: 20348696--20348746 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
20348686 TTGCAATGGG
* *
20348696 TTCTTACACCATTCTTTTCCTC
1 TTCTTGCACCATTCTTTTCCTA
20348718 TTCTTGCACCA-TCATTTTCCTA
1 TTCTTGCACCATTC-TTTTCCTA
20348740 TTCTTGC
1 TTCTTGC
20348747 TTTCATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 24 0.92
ACGTcount: A:0.14, C:0.33, G:0.04, T:0.49
Consensus pattern (22 bp):
TTCTTGCACCATTCTTTTCCTA
Found at i:20350828 original size:51 final size:50
Alignment explanation
Indices: 20350705--20350892 Score: 207
Period size: 51 Copynumber: 3.7 Consensus size: 50
20350695 TATCATTCGA
* * * * *
20350705 TACACGTAGTAGCCTTCACATAGTACTACACATGTGATCAAACTTTCTGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACCTTCCGG
* *
20350755 TTCACGTAGTAGGCTGCACATAGTACTACACACGTGACCAAAGCCTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAA-CCTTCCGG
* * * * * * *
20350806 TGCACATAGTAGCCTGCACATAGTACTACACATGTAACCATTATCTAT-CGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-AACCT-TCCGG
*
20350857 TACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTG
20350893 TTTATAGGCA
Statistics
Matches: 115, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
50 37 0.32
51 76 0.66
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACCTTCCGG
Found at i:20356491 original size:102 final size:102
Alignment explanation
Indices: 20356315--20356749 Score: 762
Period size: 102 Copynumber: 4.3 Consensus size: 102
20356305 ATTGAATATA
* *
20356315 AAGGGGGTTGTTAAGTGTTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
20356380 GGTTGCTAAGTGTTTATTCCATCGTATTTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
*
20356417 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTCAGTGCTGATTCCCCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
20356482 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
*
20356519 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCTCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
20356584 GGTTGCTAAGTGCTGATTCCATCGTATTTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
*
20356621 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* *
20356686 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
*
20356723 AAAGGGGTTGCTAAGTGCTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
20356750 AAATCACTGG
Statistics
Matches: 318, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 318 1.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.32
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
Found at i:20363097 original size:5 final size:5
Alignment explanation
Indices: 20363071--20363108 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
20363061 TAAAAAATTA
20363071 TTTATT TTTAT TATTA- TTTAT TTTAT TTTAT TTTAT TT
1 TTTA-T TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TT
20363109 GCATGTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
4 3 0.10
5 20 0.67
6 7 0.23
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:20366641 original size:20 final size:20
Alignment explanation
Indices: 20366613--20366687 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 20
20366603 AGGGGTACCG
* *
20366613 AAGTACAAATAGGGGCACGT
1 AAGTGCAAACAGGGGCACGT
* *
20366633 ATGTGCAAACAGGGGTACCG-
1 AAGTGCAAACAGGGGCA-CGT
* * *
20366653 AAGTACAAAGAGGGGCATGT
1 AAGTGCAAACAGGGGCACGT
*
20366673 AGGTGCAAACAGGGG
1 AAGTGCAAACAGGGG
20366688 TACCAAGTAC
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
19 1 0.02
20 38 0.93
21 2 0.05
ACGTcount: A:0.36, C:0.15, G:0.36, T:0.13
Consensus pattern (20 bp):
AAGTGCAAACAGGGGCACGT
Found at i:20366708 original size:39 final size:40
Alignment explanation
Indices: 20366602--20366728 Score: 184
Period size: 40 Copynumber: 3.2 Consensus size: 40
20366592 TAAATGCGTT
* *
20366602 CAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAAA
1 CAGGGGTACCGAAGTACAAATAGGGGCATGTACGTGCAAA
* *
20366642 CAGGGGTACCGAAGTACAAAGAGGGGCATGTAGGTGCAAA
1 CAGGGGTACCGAAGTACAAATAGGGGCATGTACGTGCAAA
* * *
20366682 CAGGGGTACC-AAGTACAATTAAGGGCATGTACATGCAAA
1 CAGGGGTACCGAAGTACAAATAGGGGCATGTACGTGCAAA
20366721 CAGGGGTA
1 CAGGGGTA
20366729 TTGAGGTAGA
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 32 0.41
40 47 0.59
ACGTcount: A:0.35, C:0.17, G:0.33, T:0.15
Consensus pattern (40 bp):
CAGGGGTACCGAAGTACAAATAGGGGCATGTACGTGCAAA
Found at i:20366798 original size:40 final size:40
Alignment explanation
Indices: 20366754--20366839 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
20366744 GCACACGTAT
* * * *
20366754 GTACAAACAGGAGCACGTATGTACAAATAGGGATATCGAA
1 GTACAAACAGGAGCACATATGTACAAACAGGGATACCAAA
* * * *
20366794 GTACAATCAGGGGCACATATGTGCAAACAGGGGTACCAAA
1 GTACAAACAGGAGCACATATGTACAAACAGGGATACCAAA
20366834 GTACAA
1 GTACAA
20366840 CCAATGGCAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.16
Consensus pattern (40 bp):
GTACAAACAGGAGCACATATGTACAAACAGGGATACCAAA
Found at i:20371638 original size:54 final size:53
Alignment explanation
Indices: 20371552--20371830 Score: 260
Period size: 54 Copynumber: 5.2 Consensus size: 53
20371542 CGGTAAAATA
* *
20371552 ATCATTTTACCCTATAG-GGGTATTTTGTTCATTTTACCCTTCGGGGGTATTTCG
1 ATCATTTTACCCT-TCGAGGGTATTTAG-TCATTTTACCCTTCGGGGGTATTTCG
* *
20371606 ATAATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGGAGGTAATTT-G
1 ATCATTTTACCCTTCGAGGGTATTT-AGTCATTTTACCCTTCGGGGGT-ATTTCG
* * * * * *
20371660 GTTATTTTACCCTTAGATGGTAATTTAGTCATTTTA-CCTGTCGAGGGTAATTCG
1 ATCATTTTACCCTTCGAGGGT-ATTTAGTCATTTTACCCT-TCGGGGGTATTTCG
* * * * * * *
20371714 AGCATTTTAACCTCCGAGGGTATTTCGATAATTTTACCCTTTGAGGGTATTTC-
1 ATCATTTTACCCTTCGAGGGTATTTAG-TCATTTTACCCTTCGGGGGTATTTCG
* * * *
20371767 AGTCATTTTACCCTTCAAGGGTAATTTGGTCATTTTACCCTTTGGGGGTAATTCG
1 A-TCATTTTACCCTTCGAGGGT-ATTTAGTCATTTTACCCTTCGGGGGTATTTCG
20371822 ATCATTTTA
1 ATCATTTTA
20371831 AAAACATTTC
Statistics
Matches: 184, Mismatches: 30, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
53 14 0.08
54 152 0.83
55 18 0.10
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (53 bp):
ATCATTTTACCCTTCGAGGGTATTTAGTCATTTTACCCTTCGGGGGTATTTCG
Found at i:20371815 original size:27 final size:27
Alignment explanation
Indices: 20371553--20371830 Score: 221
Period size: 27 Copynumber: 10.3 Consensus size: 27
20371543 GGTAAAATAA
* * *
20371553 TCATTTTACCCTATAG-GGGTATTTTGT
1 TCATTTTACCCT-TCGAGGGTAATTTGG
* *
20371580 TCATTTTACCCTTCGGGGGT-ATTTCGA
1 TCATTTTACCCTTCGAGGGTAATTT-GG
* *
20371607 TAATTTTACCCTTCGAGGGT-ATTTCAG
1 TCATTTTACCCTTCGAGGGTAATTT-GG
20371634 TCATTTTACCCTTCG-GAGGTAATTTGG
1 TCATTTTACCCTTCGAG-GGTAATTTGG
* * * *
20371661 TTATTTTACCCTTAGATGGTAATTTAG
1 TCATTTTACCCTTCGAGGGTAATTTGG
*
20371688 TCATTTTA-CCTGTCGAGGGTAATTCGAG
1 TCATTTTACCCT-TCGAGGGTAATTTG-G
* * *
20371716 -CATTTTAACCTCCGAGGGT-ATTTCGA
1 TCATTTTACCCTTCGAGGGTAATTT-GG
* * *
20371742 TAATTTTACCCTTTGAGGGT-ATTTCAG
1 TCATTTTACCCTTCGAGGGTAATTT-GG
*
20371769 TCATTTTACCCTTCAAGGGTAATTTGG
1 TCATTTTACCCTTCGAGGGTAATTTGG
* * * *
20371796 TCATTTTACCCTTTGGGGGTAATTCGA
1 TCATTTTACCCTTCGAGGGTAATTTGG
20371823 TCATTTTA
1 TCATTTTA
20371831 AAAACATTTC
Statistics
Matches: 204, Mismatches: 36, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
26 12 0.06
27 180 0.88
28 12 0.06
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTAATTTGG
Done.