Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 35 of 438
Found at i:8539394 original size:8 final size:8
Alignment explanation
Indices: 8539381--8539405 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
8539371 TTTTAAATGA
8539381 TATTTTAT
1 TATTTTAT
8539389 TATTTTAT
1 TATTTTAT
8539397 TATTTTAT
1 TATTTTAT
8539405 T
1 T
8539406 TAATATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:8539415 original size:2 final size:2
Alignment explanation
Indices: 8539408--8539443 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8539398 ATTTTATTTA
8539408 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8539444 GTAAGGAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8541326 original size:46 final size:46
Alignment explanation
Indices: 8541274--8541597 Score: 445
Period size: 46 Copynumber: 7.0 Consensus size: 46
8541264 GTGTGCTCTC
* **
8541274 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATT
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
8541320 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
8541366 TGATATGAAAT-ATGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGA-GTAAGACCATGGTTGAAAGATACCATGGCAACA
*
8541412 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
8541458 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
8541504 TGATATGAAATGAATAAGACCATAGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
8541550 TGACA-GAAAATGAGTAAGACCATAGTTAAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
8541596 TG
1 TG
8541598 TCAAAGATAA
Statistics
Matches: 254, Mismatches: 21, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
45 2 0.01
46 251 0.99
47 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:8541899 original size:16 final size:17
Alignment explanation
Indices: 8541878--8541910 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8541868 ATAATGGAGC
8541878 ATGAAAT-ATTGATATA
1 ATGAAATAATTGATATA
8541894 ATGAAATAATTGATATA
1 ATGAAATAATTGATATA
8541911 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (17 bp):
ATGAAATAATTGATATA
Found at i:8542697 original size:54 final size:54
Alignment explanation
Indices: 8542631--8542743 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
8542621 CGTATGCTCA
* * * * *
8542631 CCCGTGTAACTCACTGACTTAATTCACATGTCTATGTGTCAACCTGTGTGCTAG
1 CCCGTGTAACTCACTGACTTAATTCACACGCCCATGTATCAACCCGTGTGCTAG
* * ** *
8542685 CCCGTGTGACTCATTGACTTGGTTCACACGCCCGTGTATCAACCCGTGTGCTAG
1 CCCGTGTAACTCACTGACTTAATTCACACGCCCATGTATCAACCCGTGTGCTAG
8542739 CCCGT
1 CCCGT
8542744 ATGAATCTTG
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.30
Consensus pattern (54 bp):
CCCGTGTAACTCACTGACTTAATTCACACGCCCATGTATCAACCCGTGTGCTAG
Found at i:8550242 original size:54 final size:54
Alignment explanation
Indices: 8550178--8550282 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
8550168 TATGCTCACC
* * * * *
8550178 CGTGTAACTCACTGACTTAGTTCACTCGCCCGTGTGTCAACTCGTGTGCTAGCT
1 CGTGTAACTCACTGACTTAGTTCACACACCCGTGTATCAACCCATGTGCTAGCT
* *
8550232 CGTGTGACTCACTGACTTGGTTCACACACCCGTGTATCAACCCATGTGCTA
1 CGTGTAACTCACTGACTTAGTTCACACACCCGTGTATCAACCCATGTGCTA
8550283 ACCCGTATGA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.30
Consensus pattern (54 bp):
CGTGTAACTCACTGACTTAGTTCACACACCCGTGTATCAACCCATGTGCTAGCT
Found at i:8550320 original size:21 final size:20
Alignment explanation
Indices: 8550296--8550366 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
8550286 CGTATGAATC
8550296 TTATAAAATTAAATGATATAT
1 TTATAAAATTAAA-GATATAT
*
8550317 TTATCAATATGTGAAAG-T-TAT
1 TTAT-AAAAT-T-AAAGATATAT
8550338 TTATAAAATTAAA-ATATAT
1 TTATAAAATTAAAGATATAT
8550357 GTTATAAAAT
1 -TTATAAAAT
8550367 ATTATAACTC
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
18 4 0.10
19 4 0.10
20 13 0.31
21 11 0.26
22 5 0.12
23 2 0.05
24 3 0.07
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.42
Consensus pattern (20 bp):
TTATAAAATTAAAGATATAT
Found at i:8553073 original size:8 final size:8
Alignment explanation
Indices: 8553044--8553072 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
8553034 TGAATCAGAA
8553044 TTAAAATT
1 TTAAAATT
8553052 TTAAAATT
1 TTAAAATT
8553060 TTAAAA-T
1 TTAAAATT
8553067 TTAAAA
1 TTAAAA
8553073 AAAATAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TTAAAATT
Found at i:8555378 original size:3 final size:3
Alignment explanation
Indices: 8555370--8555396 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8555360 TCAAAGCAAT
8555370 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
8555397 AGGAAATGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:8558426 original size:3 final size:3
Alignment explanation
Indices: 8558418--8558452 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
8558408 GTTACATATG
8558418 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8558453 ATTTTAAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8561145 original size:34 final size:34
Alignment explanation
Indices: 8561107--8561173 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
8561097 ATCATTTGAA
* *
8561107 CCTCAACTATATATGTCTAATTGGTCCTTCCGCT
1 CCTCAACTACATATGTCTAATTGGTCCCTCCGCT
*
8561141 CCTCAGCTACATATGTCTAATTGGTCCCTCCGC
1 CCTCAACTACATATGTCTAATTGGTCCCTCCGC
8561174 AAACTCGTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.19, C:0.33, G:0.13, T:0.34
Consensus pattern (34 bp):
CCTCAACTACATATGTCTAATTGGTCCCTCCGCT
Found at i:8577809 original size:45 final size:45
Alignment explanation
Indices: 8577704--8577912 Score: 201
Period size: 45 Copynumber: 4.7 Consensus size: 45
8577694 TCAAAGGATA
* * *
8577704 CCATAGCGTCTTTCAGCTATGGTCTTAGTC-CTATTTACCATGATG
1 CCATAGCATCTTTCAGCTATGGTCTTACTCACT-TTTATCATGATG
* * *
8577749 CCATAACAT-TATTCAGCCATGGTCTTACTCACTTTTGTCATGATG
1 CCATAGCATCT-TTCAGCTATGGTCTTACTCACTTTTATCATGATG
** *
8577794 CCATAGTGTCTTTCAGCTATGGTCTTACTCA-TTTTATCCTGATG
1 CCATAGCATCTTTCAGCTATGGTCTTACTCACTTTTATCATGATG
** ** *
8577838 TTATAGCATCTTTCAGCTATGGTCTTACT-TGTTTGAATCATGATG
1 CCATAGCATCTTTCAGCTATGGTCTTACTCACTTT-TATCATGATG
* * * *
8577883 TCATAACAGCTTTCAACTATGGTCTTACTC
1 CCATAGCATCTTTCAGCTATGGTCTTACTC
8577913 GTTTGAATCA
Statistics
Matches: 135, Mismatches: 23, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
44 40 0.30
45 92 0.68
46 3 0.02
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.40
Consensus pattern (45 bp):
CCATAGCATCTTTCAGCTATGGTCTTACTCACTTTTATCATGATG
Found at i:8577879 original size:89 final size:88
Alignment explanation
Indices: 8577704--8577912 Score: 212
Period size: 89 Copynumber: 2.3 Consensus size: 88
8577694 TCAAAGGATA
* * *
8577704 CCATAGCGTCTTTCAGCTATGGTCTTAGTCCTATTTACCATGATGCCATAACATTATTCAGCCAT
1 CCATAGAGTCTTTCAGCTATGGTCTTACTCATATTTACCATGATGCCATAACATTATTCAGCCAT
8577769 GGTCTTACTCACTTTTGTCATGATG
66 GGTCTTACT--CTTTTGTCATGATG
* ** * *
8577794 CCATAGTGTCTTTCAGCTATGGTCTTACTCAT-TTTATCC-TGATGTTATAGCATCT-TTCAGCT
1 CCATAGAGTCTTTCAGCTATGGTCTTACTCATATTTA-CCATGATGCCATAACAT-TATTCAGCC
8577856 ATGGTCTTACT-TGTTTGAATCATGATG
64 ATGGTCTTACTCT-TTTG--TCATGATG
* * *
8577883 TCATAACAG-CTTTCAACTATGGTCTTACTC
1 CCAT-AGAGTCTTTCAGCTATGGTCTTACTC
8577913 GTTTGAATCA
Statistics
Matches: 102, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
86 1 0.01
87 4 0.04
89 63 0.62
90 34 0.33
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.40
Consensus pattern (88 bp):
CCATAGAGTCTTTCAGCTATGGTCTTACTCATATTTACCATGATGCCATAACATTATTCAGCCAT
GGTCTTACTCTTTTGTCATGATG
Found at i:8579925 original size:3 final size:3
Alignment explanation
Indices: 8579917--8579968 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
8579907 ATTTTCACTG
8579917 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8579965 TAT T
1 TAT T
8579969 CCAGAAAACT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8580763 original size:20 final size:19
Alignment explanation
Indices: 8580735--8580773 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
8580725 TAGATGAAGC
8580735 AATATTTTTTTAAACTTTT
1 AATATTTTTTTAAACTTTT
*
8580754 AATATATTTTTTTAACTTTT
1 AATAT-TTTTTTAAACTTTT
8580774 TATTTTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
AATATTTTTTTAAACTTTT
Found at i:8589074 original size:21 final size:23
Alignment explanation
Indices: 8589050--8589097 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 23
8589040 ATAAAAAAAA
*
8589050 TAAACTTCTTTAAAT-TAT-TTT
1 TAAAATTCTTTAAATATATATTT
* *
8589071 TAAAATTTTTTGAATATATATTT
1 TAAAATTCTTTAAATATATATTT
8589094 TAAA
1 TAAA
8589098 TTTTAAAGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 12 0.55
22 3 0.14
23 7 0.32
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (23 bp):
TAAAATTCTTTAAATATATATTT
Found at i:8589642 original size:34 final size:34
Alignment explanation
Indices: 8589599--8589667 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
8589589 AATAAATGAG
*
8589599 ATAAAATAAAAAAGTTATTCAATTTATTCTTTAT
1 ATAAAATAAAAAAGTTATTAAATTTATTCTTTAT
8589633 ATAAAATAAAAAAGTTATTAAATTTATTCTTTAT
1 ATAAAATAAAAAAGTTATTAAATTTATTCTTTAT
8589667 A
1 A
8589668 AAGTAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (34 bp):
ATAAAATAAAAAAGTTATTAAATTTATTCTTTAT
Found at i:8595645 original size:32 final size:32
Alignment explanation
Indices: 8595602--8595750 Score: 104
Period size: 33 Copynumber: 4.5 Consensus size: 32
8595592 ATTGCCACGG
*
8595602 CCCAGCTATGGTCTTACATTTGTAATG-CATAA
1 CCCAGCTATGGTCTTACATTAG-AATGCCATAA
* *
8595634 CCCAG-TCATGGTCTTATCATTAGAGTGCCATAG
1 CCCAGCT-ATGGTCTTA-CATTAGAATGCCATAA
* **
8595667 CCCAGCTATGGTCTTACATATAAACACTGCCATGG
1 CCCAGCTATGGTCTTACAT-TAGA-A-TGCCATAA
* * * * * *
8595702 TCCAACCATGGTATTACATTCATAGTGCCATAA
1 CCCAGCTATGGTCTTACATT-AGAATGCCATAA
*
8595735 CCCAGTTATGGTCTTA
1 CCCAGCTATGGTCTTA
8595751 TTCATCAATT
Statistics
Matches: 90, Mismatches: 19, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
31 1 0.01
32 20 0.22
33 43 0.48
34 2 0.02
35 24 0.27
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (32 bp):
CCCAGCTATGGTCTTACATTAGAATGCCATAA
Found at i:8595946 original size:19 final size:20
Alignment explanation
Indices: 8595908--8595948 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
8595898 CATTCATTTC
*
8595908 AATTTTATATTTTAACAATA
1 AATTTTATATTTCAACAATA
*
8595928 AATTTTA-ATTTCAATAATA
1 AATTTTATATTTCAACAATA
8595947 AA
1 AA
8595949 AATATGAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTTTATATTTCAACAATA
Found at i:8599703 original size:46 final size:46
Alignment explanation
Indices: 8599653--8600014 Score: 325
Period size: 46 Copynumber: 7.8 Consensus size: 46
8599643 TGGTTGAGCA
8599653 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
8599699 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * **
8599744 CACCCGAACTCGTTGAGTTGAGTCCGAGTGCACTTATGGATGCGAGCG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
8599792 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
*
8599839 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
8599885 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
8599930 CACCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
8599978 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
8600015 GCGGGTTACA
Statistics
Matches: 254, Mismatches: 36, Indels: 52
0.74 0.11 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.04
44 3 0.01
45 9 0.04
46 121 0.48
47 87 0.34
48 7 0.03
49 2 0.01
50 8 0.03
51 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:8599813 original size:93 final size:93
Alignment explanation
Indices: 8599654--8600006 Score: 609
Period size: 93 Copynumber: 3.8 Consensus size: 93
8599644 GGTTGAGCAT
*
8599654 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAG
8599719 TCCGAGTTCGTGAGATGTAACTAGGCAC
66 TCCGAGTTCGTGAGATGTAACTAGGCAC
* *
8599747 CCGAACTCGTTGAGTTGAGTCCGAGTGCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTTGAG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAG
* *
8599812 TCCGAGTTCGAGAGATGTAACTAGGCAT
66 TCCGAGTTCGTGAGATGTAACTAGGCAC
* *
8599840 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAG
*
8599905 TCCGAGTTCGTGAAATGTAACTAGGCAC
66 TCCGAGTTCGTGAGATGTAACTAGGCAC
*
8599933 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAGTTGA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAGTTGA
8599997 GTCCGAGTTC
65 GTCCGAGTTC
8600007 ACTTATGGGC
Statistics
Matches: 244, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
92 2 0.01
93 242 0.99
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (93 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAG
TCCGAGTTCGTGAGATGTAACTAGGCAC
Found at i:8603349 original size:31 final size:31
Alignment explanation
Indices: 8603311--8603373 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
8603301 TAATGTTTTA
8603311 CTTGGTATATTTATTATGAAATTATGATTAT
1 CTTGGTATATTTATTATGAAATTATGATTAT
8603342 CTTGGTATATTTATTATGAAATTATGATTAT
1 CTTGGTATATTTATTATGAAATTATGATTAT
8603373 C
1 C
8603374 GTTATAATAC
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:0.32, C:0.05, G:0.13, T:0.51
Consensus pattern (31 bp):
CTTGGTATATTTATTATGAAATTATGATTAT
Found at i:8603471 original size:14 final size:15
Alignment explanation
Indices: 8603444--8603472 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8603434 AATTTTATGA
8603444 ATTTCATGATGTGTT
1 ATTTCATGATGTGTT
8603459 ATTTCAT-ATGTGTT
1 ATTTCATGATGTGTT
8603473 GATGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (15 bp):
ATTTCATGATGTGTT
Found at i:8603680 original size:31 final size:31
Alignment explanation
Indices: 8603642--8603759 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
8603632 ACAAATGACA
* *
8603642 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
8603673 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
8603704 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
8603735 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
8603760 AAGTGACAAG
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:8603854 original size:47 final size:46
Alignment explanation
Indices: 8603784--8603948 Score: 169
Period size: 47 Copynumber: 3.7 Consensus size: 46
8603774 AAGTGATTTC
* *
8603784 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
8603830 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
8603877 CGTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * * *
8603919 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
8603949 ATTATGTGAA
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
41 7 0.07
42 31 0.29
46 27 0.25
47 41 0.39
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:8603936 original size:42 final size:43
Alignment explanation
Indices: 8603878--8603992 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 43
8603868 TATGTGATTC
*
8603878 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
8603920 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* * **
8603962 GTATAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
8603993 GAAAACGAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 63 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:8610673 original size:16 final size:16
Alignment explanation
Indices: 8610652--8610695 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
8610642 GCGAGGAAAT
8610652 AAAATAAATTAATTAA
1 AAAATAAATTAATTAA
8610668 AAAATAAATTAATTAA
1 AAAATAAATTAATTAA
*
8610684 AAAATGAATTAA
1 AAAATAAATTAA
8610696 AGGTATTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
AAAATAAATTAATTAA
Found at i:8610968 original size:41 final size:40
Alignment explanation
Indices: 8610904--8611010 Score: 126
Period size: 41 Copynumber: 2.6 Consensus size: 40
8610894 GAATCAGTGT
* *
8610904 GGGCCTTAGCCAACTCAGATATAGAACCA-TATATATATTA
1 GGGCCTTAGCCCACTCAGATATAGAACCAGGA-ATATATTA
**
8610944 GGGCCTTAGCCCAGCTCAGATATAGAGTCAGGAATATATTA
1 GGGCCTTAGCCCA-CTCAGATATAGAACCAGGAATATATTA
* * *
8610985 GGGCCTCAGCCCAATCAGATACAGAA
1 GGGCCTTAGCCCACTCAGATATAGAA
8611011 TGCAGATCAG
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
40 22 0.39
41 34 0.60
42 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (40 bp):
GGGCCTTAGCCCACTCAGATATAGAACCAGGAATATATTA
Found at i:8614180 original size:2 final size:2
Alignment explanation
Indices: 8614173--8614201 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8614163 TAAAACAAAA
8614173 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8614202 AAACCACTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8614981 original size:22 final size:21
Alignment explanation
Indices: 8614939--8614996 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
8614929 AAATAGTAAT
* *
8614939 AACATAATAGT-G-AAATGAC
1 AACAAAATAGTGGAAAATAAC
8614958 AACAAAATAGTGGGAAAATAAC
1 AACAAAATAGT-GGAAAATAAC
*
8614980 AACCAAATAGTGGAAAA
1 AACAAAATAGTGGAAAA
8614997 CAGCAGCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 10 0.30
21 7 0.21
22 16 0.48
ACGTcount: A:0.57, C:0.10, G:0.17, T:0.16
Consensus pattern (21 bp):
AACAAAATAGTGGAAAATAAC
Found at i:8615008 original size:21 final size:22
Alignment explanation
Indices: 8614956--8615009 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
8614946 TAGTGAAATG
*
8614956 ACAACAAAATAGTGGGAAAATA
1 ACAACAAAATAGTGGGAAAACA
*
8614978 ACAACCAAATAGT-GGAAAACA
1 ACAACAAAATAGTGGGAAAACA
* *
8614999 GCAGCAAAATA
1 ACAACAAAATA
8615010 ACAATTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (22 bp):
ACAACAAAATAGTGGGAAAACA
Found at i:8615304 original size:17 final size:17
Alignment explanation
Indices: 8615282--8615319 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
8615272 AAGATATTTT
8615282 GAAAGAAACTTGTTGAA
1 GAAAGAAACTTGTTGAA
8615299 GAAAGAAACTTGTTGAA
1 GAAAGAAACTTGTTGAA
8615316 GAAA
1 GAAA
8615320 TGAGAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.50, C:0.05, G:0.24, T:0.21
Consensus pattern (17 bp):
GAAAGAAACTTGTTGAA
Found at i:8616504 original size:18 final size:17
Alignment explanation
Indices: 8616462--8616511 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
8616452 AAAATATAAA
8616462 TAGATGAATTAAATATG
1 TAGATGAATTAAATATG
**
8616479 TA-ATTGAATTATTTGATG
1 TAGA-TGAATTAAAT-ATG
8616497 TAGATGAA-TAAATAT
1 TAGATGAATTAAATAT
8616512 TGAGTGAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
16 3 0.12
17 13 0.50
18 9 0.35
19 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (17 bp):
TAGATGAATTAAATATG
Found at i:8616527 original size:31 final size:34
Alignment explanation
Indices: 8616462--8616527 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 34
8616452 AAAATATAAA
*
8616462 TAGATGAATTAAATATGTAATTGAATTATTTGATG
1 TAGATGAATTAAATATGTAAGTGAA-TATTTGATG
*
8616497 TAGATGAA-TAAATAT-TGAGTGAA-ATTTGATG
1 TAGATGAATTAAATATGTAAGTGAATATTTGATG
8616528 GTAGTTAGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 8 0.28
33 6 0.21
34 7 0.24
35 8 0.28
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (34 bp):
TAGATGAATTAAATATGTAAGTGAATATTTGATG
Found at i:8621743 original size:12 final size:13
Alignment explanation
Indices: 8621714--8621746 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8621704 TTTGGATATC
8621714 GAGAAAATCAATA
1 GAGAAAATCAATA
*
8621727 GAGAAAATGAA-A
1 GAGAAAATCAATA
8621739 GAGAAAAT
1 GAGAAAAT
8621747 TCAAATCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.64, C:0.03, G:0.21, T:0.12
Consensus pattern (13 bp):
GAGAAAATCAATA
Found at i:8623900 original size:11 final size:11
Alignment explanation
Indices: 8623884--8623917 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
8623874 ATATAAATTT
*
8623884 TAATATATTAA
1 TAATATATAAA
8623895 TAATATATAAA
1 TAATATATAAA
8623906 TAAATATATAAA
1 T-AATATATAAA
8623918 GAAAATATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATATATAAA
Found at i:8624624 original size:2 final size:2
Alignment explanation
Indices: 8624617--8624647 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8624607 GAAATTGTTT
8624617 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8624648 TTTTTAAGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8625386 original size:9 final size:9
Alignment explanation
Indices: 8625350--8625438 Score: 63
Period size: 9 Copynumber: 9.7 Consensus size: 9
8625340 TTTCTATATA
*
8625350 TTTTATGAT
1 TTTTATAAT
* *
8625359 TTATATAAA
1 TTTTATAAT
*
8625368 TTTTACAAT
1 TTTTATAAT
8625377 TTTTATAAT
1 TTTTATAAT
8625386 TTTTA-ATAT
1 TTTTATA-AT
* *
8625395 TTTAATATT
1 TTTTATAAT
*
8625404 TTTTATTAAAA
1 TTTTA-T-AAT
* *
8625415 TATAATAAT
1 TTTTATAAT
8625424 TTTTATAAT
1 TTTTATAAT
8625433 TTTTAT
1 TTTTAT
8625439 TTTTTCATCA
Statistics
Matches: 59, Mismatches: 17, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
8 1 0.02
9 51 0.86
10 3 0.05
11 4 0.07
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:8631752 original size:21 final size:23
Alignment explanation
Indices: 8631709--8631761 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
8631699 TTTTGAGCAA
*
8631709 TTTAATTTTTTCTTTTATGTTCT
1 TTTAATTTTTCCTTTTATGTTCT
*
8631732 TTTAA-TTTTCCTTTT-TTTTC-
1 TTTAATTTTTCCTTTTATGTTCT
8631752 TTT-ATTTTTC
1 TTTAATTTTTC
8631762 ATTCTCTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 8 0.30
21 4 0.15
22 9 0.33
23 5 0.19
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTAATTTTTCCTTTTATGTTCT
Found at i:8632746 original size:11 final size:11
Alignment explanation
Indices: 8632727--8632755 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
8632717 ATATAATTTC
8632727 TATAA-CTAGG
1 TATAACCTAGG
8632737 TATAACCTAGG
1 TATAACCTAGG
8632748 TATAACCT
1 TATAACCT
8632756 CTTCAACCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (11 bp):
TATAACCTAGG
Found at i:8633176 original size:17 final size:17
Alignment explanation
Indices: 8633138--8633180 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
8633128 AAATATTTTT
8633138 TAAAAAA-TAAAAATTA
1 TAAAAAATTAAAAATTA
*
8633154 TTAAAAATTACAAAATTA
1 TAAAAAATTA-AAAATTA
8633172 -AAAAAATTA
1 TAAAAAATTA
8633181 TCTTTTAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 6 0.26
17 10 0.43
18 7 0.30
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAAAAATTAAAAATTA
Found at i:8636921 original size:11 final size:12
Alignment explanation
Indices: 8636894--8636920 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8636884 CAAAACAGAC
8636894 TTTTAGCGGCGT
1 TTTTAGCGGCGT
8636906 TTTTAGCGGCGT
1 TTTTAGCGGCGT
8636918 TTT
1 TTT
8636921 AAAAGAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:8637290 original size:113 final size:113
Alignment explanation
Indices: 8636974--8637535 Score: 473
Period size: 114 Copynumber: 4.9 Consensus size: 113
8636964 GCGTTTTTTA
* * * **
8636974 AAAAAGCGCCGAAATAGGTCGACCTTTAGCGG-GGTTTTGGTAAAACGCCGCTAAAAGGTTAAGC
1 AAAAA-CGCCGCAATA-GTCAACCTTTAGCGGCGTTTTTGAAAAAACGCCGCTAAAAGGTTAAGC
* * * * * ***
8637038 AAAACAACGTCGTTTTACATGAGCTTCATTTGCAGTAGCGGCGTTTTTGG
64 AAAACAACGTCGTTTTAAATGAGCTTCAATGGCATTAGCGGCGCTTTACT
* * * * * *
8637088 GAAAACACCGCAATAGATCAAACC-TTCGCGGTGTTTTAGAAAAAACGCCGCTAAAACGTTAAGC
1 AAAAACGCCGCAATAG-TC-AACCTTTAGCGGCGTTTTTGAAAAAACGCCGCTAAAAGGTTAAGC
* * * * *
8637152 AAAACAATGTCGTTTTATATGAGCTTCAATGACATTAGCGACGCTTTCCT
64 AAAACAACGTCGTTTTAAATGAGCTTCAATGGCATTAGCGGCGCTTTACT
* * * *
8637202 AAAAACGCCACAATAGCTCAACCTATAGCGGCGTTTTTG-GAAAACGCCGCTAGAAGGTTAAGCA
1 AAAAACGCCGCAATAG-TCAACCTTTAGCGGCGTTTTTGAAAAAACGCCGCTAAAAGGTTAAGCA
* * * * *
8637266 GAACGACGTTGTTTTAAATTAGCTTCAATGGCATTAGCGGTGCTTTACT
65 AAACAACGTCGTTTTAAATGAGCTTCAATGGCATTAGCGGCGCTTTACT
* * * * *
8637315 AAAAATGCCGCAATATGTCAATCTTTAACGGCGTTTTTGTAAAAACGCCACTAAAAGGTTAAGCA
1 AAAAACGCCGCAATA-GTCAACCTTTAGCGGCGTTTTTGAAAAAACGCCGCTAAAAGGTTAAGCA
* * * * * *
8637380 GAACGATGTCGTTTTAAATTAGCTTTAATGGCATTAGCGGCACTTTACT
65 AAACAACGTCGTTTTAAATGAGCTTCAATGGCATTAGCGGCGCTTTACT
* * * * * * * * * **
8637429 AAAAATGCCGCAATATATCAATCTTTAACGACGTTTTTTGTAAAAATGTCGCGAAAACATTAAGC
1 AAAAACGCCGCAATA-GTCAACCTTTAGCGGCG-TTTTTGAAAAAACGCCGCTAAAAGGTTAAGC
* * * *** *
8637494 AGATCGACGTCGTTTTGTTTGAACTTCAATGGCATTAGCGGC
64 AAAACAACGTCGTTTTAAATGAGCTTCAATGGCATTAGCGGC
8637536 ATTTTTCAAG
Statistics
Matches: 370, Mismatches: 71, Indels: 13
0.81 0.16 0.03
Matches are distributed among these distances:
112 1 0.00
113 113 0.31
114 197 0.53
115 59 0.16
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (113 bp):
AAAAACGCCGCAATAGTCAACCTTTAGCGGCGTTTTTGAAAAAACGCCGCTAAAAGGTTAAGCAA
AACAACGTCGTTTTAAATGAGCTTCAATGGCATTAGCGGCGCTTTACT
Found at i:8637417 original size:227 final size:227
Alignment explanation
Indices: 8636986--8637443 Score: 515
Period size: 227 Copynumber: 2.0 Consensus size: 227
8636976 AAAGCGCCGA
* * *
8636986 AATAGGTCGACCTTTAGCGGGGTTTTGGTAAAACGCCGCTAAAAGGTTAAGCAAAACAACGTCGT
1 AATAGCTCAACCTATAGCGGGGTTTTGGTAAAACGCCGCTAAAAGGTTAAGCAAAACAACGTCGT
* * * * ** * **
8637051 TTTACATGAGCTTCATTTGCAGTAGCGGCGTTTTTGGGAAAACACCGCAATAGATCAAACCTTCG
66 TTTAAATGAGCTTCAATGGCAGTAGCGGCGCTTTACGAAAAACACCGCAATAGATCAAACCTTAA
* * *
8637116 CGGTGTTTTAGAAAAAACGCCGCTAAAACGTTAAGCAAAACAATGTCGTTTTATATGAGCTTCAA
131 CGGCGTTTTAGAAAAAACGCCACTAAAACGTTAAGCAAAACAATGTCGTTTTAAATGAGCTTCAA
* *
8637181 TGACATTAGCGACGCTTTCCTAAAAACGCCAC
196 TGACATTAGCGACACTTTACTAAAAACGCCAC
* * * * *
8637213 AATAGCTCAACCTATAGCGGCGTTTTTGG-AAAACGCCGCTAGAAGGTTAAGCAGAACGACGTTG
1 AATAGCTCAACCTATAGCGG-GGTTTTGGTAAAACGCCGCTAAAAGGTTAAGCAAAACAACGTCG
* * * * ** * *
8637277 TTTTAAATTAGCTTCAATGGCATTAGCGGTGCTTTACTAAAAATGCCGCAATATG-TCAATCTTT
65 TTTTAAATGAGCTTCAATGGCAGTAGCGGCGCTTTACGAAAAACACCGCAATA-GATCAAACCTT
* * * * * * *
8637341 AACGGCGTTTTTGTAAAAACGCCACTAAAAGGTTAAGCAGAACGATGTCGTTTTAAATTAGCTTT
129 AACGGCGTTTTAGAAAAAACGCCACTAAAACGTTAAGCAAAACAATGTCGTTTTAAATGAGCTTC
* * * *
8637406 AATGGCATTAGCGGCACTTTACTAAAAATGCCGC
194 AATGACATTAGCGACACTTTACTAAAAACGCCAC
8637440 AATA
1 AATA
8637444 TATCAATCTT
Statistics
Matches: 188, Mismatches: 41, Indels: 4
0.81 0.18 0.02
Matches are distributed among these distances:
227 180 0.96
228 8 0.04
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (227 bp):
AATAGCTCAACCTATAGCGGGGTTTTGGTAAAACGCCGCTAAAAGGTTAAGCAAAACAACGTCGT
TTTAAATGAGCTTCAATGGCAGTAGCGGCGCTTTACGAAAAACACCGCAATAGATCAAACCTTAA
CGGCGTTTTAGAAAAAACGCCACTAAAACGTTAAGCAAAACAATGTCGTTTTAAATGAGCTTCAA
TGACATTAGCGACACTTTACTAAAAACGCCAC
Found at i:8638122 original size:15 final size:14
Alignment explanation
Indices: 8638104--8638146 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
8638094 TTTAATATTT
8638104 TTATAGGTTTAGGGG
1 TTAT-GGTTTAGGGG
*
8638119 TTATGGGTTTAAGGG
1 TTAT-GGTTTAGGGG
*
8638134 TTATGATTTAGGG
1 TTATGGTTTAGGG
8638147 TTGATGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (14 bp):
TTATGGTTTAGGGG
Found at i:8638178 original size:14 final size:14
Alignment explanation
Indices: 8638111--8638178 Score: 57
Period size: 14 Copynumber: 4.8 Consensus size: 14
8638101 TTTTTATAGG
* *
8638111 TTTAGGGGTTATGGG
1 TTTAGGGTTTAT-GA
8638126 TTTAAGGG-TTATGA
1 TTT-AGGGTTTATGA
*
8638140 TTTAGGGTTGATGA
1 TTTAGGGTTTATGA
* *
8638154 TTTATGTTTTATGA
1 TTTAGGGTTTATGA
*
8638168 TTGAGGGTTTA
1 TTTAGGGTTTA
8638179 AGGTTTATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
13 4 0.09
14 28 0.65
15 7 0.16
16 4 0.09
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:8638192 original size:28 final size:28
Alignment explanation
Indices: 8638134--8638192 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
8638124 GGTTTAAGGG
* * **
8638134 TTATGATTTAGGGTTGATGATTTATGTT
1 TTATGATTGAGGGTTGAAGATTTATAAT
* *
8638162 TTATGATTGAGGGTTTAAGGTTTATAAT
1 TTATGATTGAGGGTTGAAGATTTATAAT
8638190 TTA
1 TTA
8638193 GAAGGCTAGG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (28 bp):
TTATGATTGAGGGTTGAAGATTTATAAT
Found at i:8638228 original size:7 final size:7
Alignment explanation
Indices: 8638218--8638244 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
8638208 AGGGTTGAAG
8638218 GGTTAGT
1 GGTTAGT
8638225 GGTTAGT
1 GGTTAGT
8638232 GGTTAGT
1 GGTTAGT
8638239 GGTTAG
1 GGTTAG
8638245 GATTAAGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.44, T:0.41
Consensus pattern (7 bp):
GGTTAGT
Found at i:8638559 original size:7 final size:7
Alignment explanation
Indices: 8638549--8638606 Score: 55
Period size: 7 Copynumber: 8.4 Consensus size: 7
8638539 TAGGGGTTAA
8638549 TTAGGGT
1 TTAGGGT
8638556 TTAGGGT
1 TTAGGGT
* *
8638563 GTAGTGT
1 TTAGGGT
*
8638570 TTGGGGT
1 TTAGGGT
*
8638577 TTAAGGT
1 TTAGGGT
8638584 TTA-GGT
1 TTAGGGT
*
8638590 TTATGGT
1 TTAGGGT
*
8638597 TTAGTGT
1 TTAGGGT
8638604 TTA
1 TTA
8638607 TAGTATAGGG
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
6 6 0.15
7 35 0.85
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (7 bp):
TTAGGGT
Found at i:8638890 original size:7 final size:7
Alignment explanation
Indices: 8638868--8638911 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
8638858 GATTTGGGTT
8638868 GGTTTGG
1 GGTTTGG
*
8638875 GATTTGG
1 GGTTTGG
8638882 GGTTTGG
1 GGTTTGG
*
8638889 GGTTTAG
1 GGTTTGG
*
8638896 AGTTTGG
1 GGTTTGG
*
8638903 AGTTTGG
1 GGTTTGG
8638910 GG
1 GG
8638912 ATTAGGGTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.09, C:0.00, G:0.50, T:0.41
Consensus pattern (7 bp):
GGTTTGG
Found at i:8638901 original size:21 final size:21
Alignment explanation
Indices: 8638877--8638916 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8638867 TGGTTTGGGA
* *
8638877 TTTGGGGTTTGGGGTTTAGAG
1 TTTGGAGTTTGGGGATTAGAG
8638898 TTTGGAGTTTGGGGATTAG
1 TTTGGAGTTTGGGGATTAG
8638917 GGTCTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.45, T:0.42
Consensus pattern (21 bp):
TTTGGAGTTTGGGGATTAGAG
Found at i:8639911 original size:35 final size:35
Alignment explanation
Indices: 8639865--8639932 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
8639855 CTATTGCTTG
8639865 TTATGTGAATTCTGTGCATCATGTACGTGACTCTA
1 TTATGTGAATTCTGTGCATCATGTACGTGACTCTA
*
8639900 TTATGTGAATTCTGTGTATCATGTACGTGACTC
1 TTATGTGAATTCTGTGCATCATGTACGTGACTC
8639933 AATCAATCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (35 bp):
TTATGTGAATTCTGTGCATCATGTACGTGACTCTA
Found at i:8643512 original size:53 final size:49
Alignment explanation
Indices: 8643423--8643527 Score: 129
Period size: 53 Copynumber: 2.1 Consensus size: 49
8643413 GAAGGGCCAC
** *
8643423 TTATAAATAATTTTATCAATATAATAATATTGATCATTGTTTAAATATA
1 TTATAAATAATTTTATCAATATAATAATATTGATCATTACTTAAATAAA
* *
8643472 TTATAACTAATTTTTATCAAAATAGTATTAATATTGATCATTACTTAAATAAA
1 TTATAAATAA-TTTTATC--AATA-TAATAATATTGATCATTACTTAAATAAA
8643525 TTA
1 TTA
8643528 CATAACTCAC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
49 9 0.19
50 7 0.15
52 4 0.09
53 27 0.57
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.46
Consensus pattern (49 bp):
TTATAAATAATTTTATCAATATAATAATATTGATCATTACTTAAATAAA
Found at i:8649113 original size:20 final size:21
Alignment explanation
Indices: 8649064--8649110 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
8649054 TCAACTTAGA
*
8649064 GCGGAGGCAGCAGCGCGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
8649085 GC-GAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
8649105 GCGGAG
1 GCGGAG
8649111 CAGAATAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.21, C:0.21, G:0.57, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:8652868 original size:5 final size:5
Alignment explanation
Indices: 8652858--8652896 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
8652848 TTTTATGTTT
8652858 TATTA TATTA TTATTA TATTA -ATATA TATTA TATTA TAT
1 TATTA TATTA -TATTA TATTA TAT-TA TATTA TATTA TAT
8652897 ACTTAAGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 2 0.06
5 22 0.71
6 7 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:8655458 original size:26 final size:25
Alignment explanation
Indices: 8655421--8655503 Score: 139
Period size: 26 Copynumber: 3.2 Consensus size: 25
8655411 TGATACAAAT
*
8655421 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
8655447 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATG-TTCA
8655473 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
8655498 TGATAA
1 TGATAA
8655504 GAATTTCATG
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
25 10 0.18
26 43 0.78
27 2 0.04
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATGTTCA
Found at i:8660325 original size:46 final size:45
Alignment explanation
Indices: 8660232--8660317 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
8660222 TACATCTCTC
* *
8660232 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
8660278 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
8660318 CCTAGTGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.24
46 28 0.76
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:8662680 original size:46 final size:44
Alignment explanation
Indices: 8662627--8662794 Score: 155
Period size: 46 Copynumber: 3.6 Consensus size: 44
8662617 TATTGTGAAC
*
8662627 TAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGT
1 TAGTGTAAGACATGTCTGAGACATGCATC-GCCACATTA-GAGAGT
8662673 TAGTGTAAGACCATGTCTGAGACATGGCATCG--ACATTGAGACGAGT
1 TAGTGTAAGA-CATGTCTGAGACAT-GCATCGCCACATT-AGA-GAGT
* * *
8662719 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC-C-TCGAGACGTAAGT
1 --TAGTGTAAGACATGTCTGAGACATGCATCGCCACAT-TAGA-G--AGT
*
8662767 CAGTGTAAGACATGTCTGAGACATGCAT
1 TAGTGTAAGACATGTCTGAGACATGCAT
8662795 TGGCTATGAG
Statistics
Matches: 106, Mismatches: 5, Indels: 22
0.80 0.04 0.17
Matches are distributed among these distances:
45 7 0.07
46 53 0.50
47 28 0.26
48 18 0.17
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (44 bp):
TAGTGTAAGACATGTCTGAGACATGCATCGCCACATTAGAGAGT
Found at i:8667268 original size:3 final size:3
Alignment explanation
Indices: 8667260--8667598 Score: 157
Period size: 3 Copynumber: 114.0 Consensus size: 3
8667250 CGGGAGAGTG
8667260 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
8667308 TTA TTA TTA TTA TTA TTA TTA TTA CTA TCA TT- CTA TATA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * * * ** * * * *
8667353 TTG TT- TTC TT- TT- TTA TTA TTA TTA GTA GTA ACA -TA ATA GTG TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
8667397 TTA TTA TT- TTA TTA TTA TT- TTCA CCTTT TTA TTA CTA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TT-A --TTA TTA TTA TTA TTA TTA TT-A
* * * * * *
8667444 CCTA TTA TTA TTA TTT TTA TTA ATA -TA GTG TTA TT- TTC TT- TTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * *
8667487 TT- TTA TTA TCA TTA TTA -AA ATA TCA TTT TTA TTT TTA TCA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * *
8667533 -TA TTA TCA TGC TTA TTA TTA TTCCA TTA TTA TTT TCTA CT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT--A TTA TTA TTA T-TA TTA TTA TTA
*
8667579 CTGTA TTA TTA CTA TTA TTA
1 -T-TA TTA TTA TTA TTA TTA
8667599 CTGTCCTATT
Statistics
Matches: 257, Mismatches: 55, Indels: 48
0.71 0.15 0.13
Matches are distributed among these distances:
2 24 0.09
3 218 0.85
4 7 0.03
5 6 0.02
6 2 0.01
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:8667539 original size:29 final size:31
Alignment explanation
Indices: 8667482--8667541 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
8667472 TGTTATTTTC
*
8667482 TTTTATTTTATTATCATTATTAAAATATCAT
1 TTTTATTTTATTATCATTAATAAAATATCAT
* *
8667513 TTTTA-TTT-TTATCATTAATATATTATCAT
1 TTTTATTTTATTATCATTAATAAAATATCAT
8667542 GCTTATTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 18 0.69
30 3 0.12
31 5 0.19
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (31 bp):
TTTTATTTTATTATCATTAATAAAATATCAT
Found at i:8667547 original size:29 final size:29
Alignment explanation
Indices: 8667489--8667553 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
8667479 TTCTTTTATT
* **
8667489 TTATTATCATTATTAAAATATCATTTTTA
1 TTATTATCATTAATAAAATATCATGCTTA
* * *
8667518 TTTTTATCATTAATATATTATCATGCTTA
1 TTATTATCATTAATAAAATATCATGCTTA
8667547 TTATTAT
1 TTATTAT
8667554 TCCATTATTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.57
Consensus pattern (29 bp):
TTATTATCATTAATAAAATATCATGCTTA
Found at i:8667608 original size:20 final size:19
Alignment explanation
Indices: 8667569--8667610 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
8667559 TATTATTTTC
*
8667569 TACTTTATTACTGTATTAT
1 TACTTTATTACTGTACTAT
*
8667588 TACTATTATTACTGTCCTAT
1 TACT-TTATTACTGTACTAT
8667608 TAC
1 TAC
8667611 CAAACTAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.26, C:0.17, G:0.05, T:0.52
Consensus pattern (19 bp):
TACTTTATTACTGTACTAT
Found at i:8667878 original size:2 final size:2
Alignment explanation
Indices: 8667871--8667898 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8667861 AGATTTTGTC
8667871 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8667899 TTAAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8670243 original size:2 final size:2
Alignment explanation
Indices: 8670236--8670273 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
8670226 ATTTTAATAA
* *
8670236 AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8670274 CCATAATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8670594 original size:2 final size:2
Alignment explanation
Indices: 8670587--8670629 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
8670577 CATACATAGT
8670587 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8670629 T
1 T
8670630 TGTGATAGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8673938 original size:6 final size:6
Alignment explanation
Indices: 8673927--8673954 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
8673917 ATTTTGTAGG
8673927 TATGTA TATGTA TATGTA TATGTA TATG
1 TATGTA TATGTA TATGTA TATGTA TATG
8673955 GTTAAATGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (6 bp):
TATGTA
Found at i:8675439 original size:59 final size:60
Alignment explanation
Indices: 8675356--8675477 Score: 149
Period size: 59 Copynumber: 2.0 Consensus size: 60
8675346 GCAAAAACAC
* * * * * *
8675356 AAGATTAGATATCAATTTAGGAAAAAGTGTC-AAGTTTATGTAATAAATTGGACCA-AAAA
1 AAGATTAAATACCAAATTAAGAAAAAGTGTCAAAG-TCAAGTAATAAATTGGACCATAAAA
* *
8675415 AAGATTAAATACCAAATTAAGAAAATGTGTCAAAGTCAAGTACTAAATTGGACCATAAAA
1 AAGATTAAATACCAAATTAAGAAAAAGTGTCAAAGTCAAGTAATAAATTGGACCATAAAA
8675475 AAG
1 AAG
8675478 TCAAGGTACC
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 43 0.81
60 10 0.19
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.25
Consensus pattern (60 bp):
AAGATTAAATACCAAATTAAGAAAAAGTGTCAAAGTCAAGTAATAAATTGGACCATAAAA
Found at i:8675918 original size:12 final size:12
Alignment explanation
Indices: 8675896--8675924 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8675886 CAAATGACTT
8675896 TAAAA-TAATAA
1 TAAAATTAATAA
8675907 TAAAATTAATAA
1 TAAAATTAATAA
8675919 TAAAAT
1 TAAAAT
8675925 AAGTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:8676484 original size:14 final size:14
Alignment explanation
Indices: 8676465--8676492 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8676455 TTTGGTAACG
8676465 TGTAAAAGCTTTTC
1 TGTAAAAGCTTTTC
8676479 TGTAAAAGCTTTTC
1 TGTAAAAGCTTTTC
8676493 AGGTTTTTCT
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:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
TGTAAAAGCTTTTC
Found at i:8676650 original size:6 final size:6
Alignment explanation
Indices: 8676639--8676663 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8676629 CACATTCTTC
8676639 TCCCCT TCCCCT TCCCCT TCCCCT T
1 TCCCCT TCCCCT TCCCCT TCCCCT T
8676664 GGGTTGCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
TCCCCT
Found at i:8678686 original size:23 final size:23
Alignment explanation
Indices: 8678642--8678686 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
8678632 ACCAATTCAA
*
8678642 CATATTTTAAAGATAAATTCATG
1 CATATTTTAAAGATAAAGTCATG
*
8678665 CATATTTATAAA-ATAACGTCAT
1 CATATTT-TAAAGATAAAGTCAT
8678687 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (23 bp):
CATATTTTAAAGATAAAGTCATG
Found at i:8682981 original size:16 final size:16
Alignment explanation
Indices: 8682957--8682999 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
8682947 TAAAAATAAT
* *
8682957 TTAAAATATAATTTTA
1 TTAATATATAAATTTA
8682973 TTAATATATATAAATTTA
1 TT-A-ATATATAAATTTA
8682991 TTAATATAT
1 TTAATATAT
8683000 GTAAAAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.35
17 2 0.09
18 13 0.57
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATATATAAATTTA
Found at i:8682985 original size:18 final size:18
Alignment explanation
Indices: 8682962--8683004 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
8682952 ATAATTTAAA
*
8682962 ATATAATTTTATTAATAT
1 ATATAAATTTATTAATAT
8682980 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
8682998 ATGTAAA
1 ATATAAA
8683005 AATAGTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:8684328 original size:36 final size:35
Alignment explanation
Indices: 8684267--8684343 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 35
8684257 AAGAAAATAT
*
8684267 ATTTTGTTTAACTAGAGTTGCAAGTAA-CTTCTTAA
1 ATTTTGTTTAACTAGACTTGCAAGTAATC-TCTTAA
* *
8684302 ATTTTGTTTTAACTTGACTTGTAAGTAATCTCTTAA
1 ATTTTG-TTTAACTAGACTTGCAAGTAATCTCTTAA
*
8684338 AATTTG
1 ATTTTG
8684344 AATTACACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 6 0.17
36 29 0.81
37 1 0.03
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (35 bp):
ATTTTGTTTAACTAGACTTGCAAGTAATCTCTTAA
Found at i:8684865 original size:20 final size:20
Alignment explanation
Indices: 8684830--8684898 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
8684820 TTAGACCCAT
*
8684830 ATATAATA-AT-TGATTATA
1 ATATAATATATATTATTATA
8684848 ATATAATATATATTATTAGT-
1 ATATAATATATATTATTA-TA
*
8684868 ATA-AATATAATATTATTTTA
1 ATATAATAT-ATATTATTATA
*
8684888 AAATCAATATA
1 ATAT-AATATA
8684899 CGGGTATAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
18 8 0.20
19 8 0.20
20 18 0.44
21 2 0.05
22 5 0.12
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (20 bp):
ATATAATATATATTATTATA
Found at i:8684875 original size:17 final size:18
Alignment explanation
Indices: 8684849--8684882 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8684839 TTGATTATAA
*
8684849 TATAATATATATTATTAG
1 TATAATATATAATATTAG
8684867 TATAA-ATATAATATTA
1 TATAATATATAATATTA
8684883 TTTTAAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TATAATATATAATATTAG
Found at i:8684896 original size:22 final size:24
Alignment explanation
Indices: 8684847--8684898 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
8684837 AATTGATTAT
**
8684847 AATATAATATATATTATTAGTATA
1 AATATAATATATATTATTAAAATA
*
8684871 AATATAATAT-TATT-TTAAAATC
1 AATATAATATATATTATTAAAATA
8684893 AATATA
1 AATATA
8684899 CGGGTATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 11 0.44
23 4 0.16
24 10 0.40
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
AATATAATATATATTATTAAAATA
Found at i:8685447 original size:25 final size:25
Alignment explanation
Indices: 8685419--8685467 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
8685409 ATTACGTGTT
8685419 TTAAATCAGA-TATAATTAATATTTA
1 TTAAATCA-ATTATAATTAATATTTA
*
8685444 TTAAATTAATTATAATTAATATTT
1 TTAAATCAATTATAATTAATATTT
8685468 TAAAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
TTAAATCAATTATAATTAATATTTA
Found at i:8686592 original size:3 final size:3
Alignment explanation
Indices: 8686584--8686623 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
8686574 TCCATGTTTT
* *
8686584 TTA TTA TTA TTC TTA TTA TTA TTA TTA TTA CTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
8686624 GTATACGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:8686688 original size:26 final size:27
Alignment explanation
Indices: 8686655--8686714 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
8686645 GTGAATGTTG
*
8686655 TATA-TATT-TATGTATAATATTATTTT
1 TATATTATTGTAT-TATAATATTATTAT
*
8686681 TA-ATTATTGTATTTTAATATTATTAT
1 TATATTATTGTATTATAATATTATTAT
8686707 TATATTAT
1 TATATTAT
8686715 ATATACTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 1 0.03
26 20 0.69
27 8 0.28
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (27 bp):
TATATTATTGTATTATAATATTATTAT
Found at i:8686724 original size:29 final size:26
Alignment explanation
Indices: 8686669--8686724 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 26
8686659 TATTTATGTA
* *
8686669 TAATATTATTTTTAATTATTGTATTT
1 TAATATTATTATTAATTATTATATTT
8686695 TAATATTATTATTATATTATATATACTTT
1 TAATATTATTATTA-ATTAT-TATA-TTT
8686724 T
1 T
8686725 TCGTATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.52
27 5 0.20
28 3 0.12
29 4 0.16
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (26 bp):
TAATATTATTATTAATTATTATATTT
Found at i:8686848 original size:23 final size:24
Alignment explanation
Indices: 8686804--8686849 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
8686794 TATACACATT
*
8686804 TCATATAGTATTATCTTTTTACTA
1 TCATATAGTATTATCTTCTTACTA
8686828 TCATAT-GTATTAT-TATCTTACT
1 TCATATAGTATTATCT-TCTTACT
8686850 TATTTTCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 1 0.05
23 13 0.65
24 6 0.30
ACGTcount: A:0.28, C:0.13, G:0.04, T:0.54
Consensus pattern (24 bp):
TCATATAGTATTATCTTCTTACTA
Found at i:8686863 original size:21 final size:21
Alignment explanation
Indices: 8686835--8686887 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
8686825 CTATCATATG
8686835 TATTATTATCTTACTTATTTTCAC
1 TATTATTA--TTA-TTATTTTCAC
8686859 TATTATTATTATTATTTTCA-
1 TATTATTATTATTATTTTCAC
8686879 TCATTATTA
1 T-ATTATTA
8686888 CACGTATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.04
21 16 0.57
22 3 0.11
24 8 0.29
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATTATTATTATTTTCAC
Found at i:8699594 original size:71 final size:71
Alignment explanation
Indices: 8699473--8699606 Score: 198
Period size: 71 Copynumber: 1.9 Consensus size: 71
8699463 GTTTTCCAAG
* *
8699473 AAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTAT
8699538 GTTTCA
66 GTTTCA
* * * *
8699544 AAAATCAACTCATATTGCGAGA-AGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTT
8699607 CTGCTTTTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
70 1 0.02
71 55 0.98
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:8699646 original size:160 final size:157
Alignment explanation
Indices: 8699382--8699757 Score: 662
Period size: 160 Copynumber: 2.4 Consensus size: 157
8699372 TTGTTTTTTC
8699382 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
*
8699447 CTGCTTTTTAGTTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCTCAA
8699512 GACACATTGAGGTAATTTCAATTTATGTTT
131 G--ACATTGAGGTAATTTCAATTTATG-TT
8699542 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
*
8699607 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCTCAA
* *
8699672 GACGTTGAGGTAATTTTAATTTATGTT
131 GACATTGAGGTAATTTCAATTTATGTT
* * *
8699699 CCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTT
8699758 TAGTTTATGT
Statistics
Matches: 209, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
157 58 0.28
158 22 0.11
160 129 0.62
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.32
Consensus pattern (157 bp):
CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCTCAA
GACATTGAGGTAATTTCAATTTATGTT
Found at i:8700045 original size:203 final size:201
Alignment explanation
Indices: 8699786--8700154 Score: 541
Period size: 203 Copynumber: 1.8 Consensus size: 201
8699776 TTGATTCATC
*
8699786 TTGCGAAAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTTCAAAAATCAACTCATATTGCGAG-AG
1 TTGCGAAAGGTGAGTTAAGCCTTTCAATTTCTGTTTTTTCAAAAATCAACTCATATTGCGAGAAG
* *
8699850 ATGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATTTTCAATTTCTGCTTCTTAATTCCTGTTTT-
66 -TGAGTTGAGCCTAAGG--CAC--GCTGAGCTATTTTCAATTTCTGCTTCTTAATTCATGTTTTC
**
8699913 TTA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATTTTTTTCAAATAA
126 CAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATTTTTTTCAAATAA
8699977 ATCAACCCATA
191 ATCAACCCATA
* *
8699988 TTGCGAGAGGTGAGTTGAGCCTTTCAACTTT-TGTTTTTTTCAAAAATCAACTCATATTGCGAGA
1 TTGCGAAAGGTGAGTTAAGCCTTTCAA-TTTCTG-TTTTTTCAAAAATCAACTCATATTGCGAGA
* *
8700052 AGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAATTCATGTTTTCCA
64 AGTGAGTTGAGCCT-AAGGCACGCTGAGCTATTTTCAATTTCTGCTTCTTAATTCATGTTTTCCA
*
8700117 AGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
128 AGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
8700155 CAGGTCACAC
Statistics
Matches: 150, Mismatches: 10, Indels: 13
0.87 0.06 0.08
Matches are distributed among these distances:
201 37 0.25
202 27 0.18
203 82 0.55
204 2 0.01
205 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (201 bp):
TTGCGAAAGGTGAGTTAAGCCTTTCAATTTCTGTTTTTTCAAAAATCAACTCATATTGCGAGAAG
TGAGTTGAGCCTAAGGCACGCTGAGCTATTTTCAATTTCTGCTTCTTAATTCATGTTTTCCAAGA
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATTTTTTTCAAATAAATCAA
CCCATA
Found at i:8700051 original size:56 final size:56
Alignment explanation
Indices: 8699909--8700065 Score: 246
Period size: 58 Copynumber: 2.8 Consensus size: 56
8699899 TTAATTCCTG
8699909 TTTTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATAT
1 TTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATAT
* *
8699964 TTTTTTCAAATAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTTTCAACTTT-TGT
1 TTTTTTC-AA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAA-TTTATAT
*
8700022 TTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 TTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
8700066 CAAGGCACGC
Statistics
Matches: 94, Mismatches: 4, Indels: 7
0.90 0.04 0.07
Matches are distributed among these distances:
55 6 0.06
56 33 0.35
57 4 0.04
58 48 0.51
59 3 0.03
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (56 bp):
TTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATAT
Found at i:8700220 original size:73 final size:72
Alignment explanation
Indices: 8700119--8700321 Score: 248
Period size: 73 Copynumber: 2.8 Consensus size: 72
8700109 GTTTTCCAAG
* *
8700119 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTAATT-
1 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGT--CACGCTGAGGTA-TTTTAATTC
8700183 T-ATGTTTCA
63 TGATGTTTCA
* ** **
8700192 AAATTTGACTCATATTGTGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCCTG
1 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTAATT-CTG
*
8700257 TTGTTTCA
65 ATGTTTCA
* * * *
8700265 AAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGTATTTT
1 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTT
8700322 CAGTTTCTAC
Statistics
Matches: 110, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
70 8 0.07
71 12 0.11
72 1 0.01
73 89 0.81
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (72 bp):
AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTAATTCTGA
TGTTTCA
Found at i:8700564 original size:138 final size:138
Alignment explanation
Indices: 8700255--8700655 Score: 648
Period size: 138 Copynumber: 2.9 Consensus size: 138
8700245 TTTTAATTCC
*
8700255 TGTTGTTTC-AAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGTAT
1 TGTT-TTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGTAT
8700319 TTTCAGTTTCTACTTTCCAATTCCTGTTTTTT--AAAAATCAACTCATATTGCGAGAGGTGAGTT
65 TTTCAGTTTCTACTTTCCAATTCCTGTTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
8700382 GTACCTTTT
130 GTACCTTTT
8700391 TGTTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGTATT
1 TGTTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGTATT
8700456 TTCAGTTTCTACTTTCCAATTCCTGTTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
66 TTCAGTTTCTACTTTCCAATTCCTGTTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
8700521 TACCTTTT
131 TACCTTTT
* * * *
8700529 TGTTTTTCAAAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTACT
1 TGTTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGTATT
* * * ** * * *
8700594 TTCAATTTCTGCTTTTCAATTCCTACTGTTCAAAAAAATCAGCTCATATTGCGAGA-GTGAGT
66 TTCAGTTTCTACTTTCCAATTCCTGTTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGT
8700656 CAAGCTTTAG
Statistics
Matches: 249, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
135 4 0.02
136 90 0.36
137 6 0.02
138 149 0.60
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (138 bp):
TGTTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGTATT
TTCAGTTTCTACTTTCCAATTCCTGTTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
TACCTTTT
Found at i:8702350 original size:26 final size:27
Alignment explanation
Indices: 8702315--8702376 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
8702305 TATGTGAATG
*
8702315 TATATATATT-TATGTATAATATTATTTT
1 TATAT-TATTGTAT-TATAATATTATTAT
*
8702343 TA-ATTATTGTATTTTAATATTATTAT
1 TATATTATTGTATTATAATATTATTAT
8702369 TATATTAT
1 TATATTAT
8702377 ATATACTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 18 0.60
27 10 0.33
28 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (27 bp):
TATATTATTGTATTATAATATTATTAT
Found at i:8702374 original size:37 final size:37
Alignment explanation
Indices: 8702324--8702424 Score: 105
Period size: 37 Copynumber: 2.7 Consensus size: 37
8702314 GTATATATAT
*
8702324 TTATGTATAATATTATTTTTAATTATTGTATTTTAATA
1 TTAT-TATAATATTATTTATAATTATTGTATTTTAATA
* * * * *
8702362 TTATTATTATATTATATATACTTTTTGTATTTTATTA
1 TTATTATAATATTATTTATAATTATTGTATTTTAATA
* *
8702399 TTATTATCAGTATTA-TTATCATTATT
1 TTATTAT-AATATTATTTATAATTATT
8702425 AATATTAGCC
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
37 41 0.82
38 9 0.18
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (37 bp):
TTATTATAATATTATTTATAATTATTGTATTTTAATA
Found at i:8702511 original size:23 final size:24
Alignment explanation
Indices: 8702467--8702512 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
8702457 TATACACATT
*
8702467 TCATATAGTATTATCTTTTTACTA
1 TCATATAGTATTATCTTCTTACTA
8702491 TCATAT-GTATTAT-TATCTTACT
1 TCATATAGTATTATCT-TCTTACT
8702513 TATTTTCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 1 0.05
23 13 0.65
24 6 0.30
ACGTcount: A:0.28, C:0.13, G:0.04, T:0.54
Consensus pattern (24 bp):
TCATATAGTATTATCTTCTTACTA
Found at i:8702526 original size:21 final size:21
Alignment explanation
Indices: 8702498--8702550 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
8702488 CTATCATATG
8702498 TATTATTATCTTACTTATTTTCAC
1 TATTATTA--TTA-TTATTTTCAC
8702522 TATTATTATTATTATTTTCA-
1 TATTATTATTATTATTTTCAC
8702542 TCATTATTA
1 T-ATTATTA
8702551 CACGTATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.04
21 16 0.57
22 3 0.11
24 8 0.29
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATTATTATTATTTTCAC
Found at i:8709014 original size:34 final size:34
Alignment explanation
Indices: 8708970--8709042 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
8708960 GTAATTAACA
* *
8708970 AATCCCCATTTTGATGGCGGAGAGAAAAAA-AACT
1 AATCCACATTTT-ATGGCCGAGAGAAAAAACAACT
* *
8709004 AATCCACATTTTCTGGCCGAGGGAAAAAACAACT
1 AATCCACATTTTATGGCCGAGAGAAAAAACAACT
*
8709038 GATCC
1 AATCC
8709043 TCATCTTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
33 14 0.42
34 19 0.58
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (34 bp):
AATCCACATTTTATGGCCGAGAGAAAAAACAACT
Found at i:8714941 original size:17 final size:17
Alignment explanation
Indices: 8714919--8714954 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
8714909 AGGTAATCTC
8714919 AAAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAAG
* *
8714936 AAAAAAGAAAAAAGAAG
1 AAAAAAAAAAAAAAAAG
8714953 AA
1 AA
8714955 GGATTTTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAG
Found at i:8714949 original size:7 final size:7
Alignment explanation
Indices: 8714919--8714951 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
8714909 AGGTAATCTC
8714919 AAAA-AA
1 AAAAGAA
8714925 AAAA-AA
1 AAAAGAA
8714931 AAAAGAA
1 AAAAGAA
8714938 AAAAGAA
1 AAAAGAA
8714945 AAAAGAA
1 AAAAGAA
8714952 GAAGGATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 10 0.38
7 16 0.62
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:8718598 original size:18 final size:19
Alignment explanation
Indices: 8718577--8718619 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
8718567 TAGAATTTTT
*
8718577 ATTTTTATAAA-TATTTGG
1 ATTTTTAAAAATTATTTGG
*
8718595 ATTTTTAAAAATTATTTTG
1 ATTTTTAAAAATTATTTGG
8718614 ATTTTT
1 ATTTTT
8718620 TTTTGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (19 bp):
ATTTTTAAAAATTATTTGG
Found at i:8721353 original size:17 final size:19
Alignment explanation
Indices: 8721331--8721368 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
8721321 CTCTAAAATA
8721331 ATAACAAAA-TTA-ACAAT
1 ATAACAAAAGTTATACAAT
8721348 ATAACAAAAGTTATACAAT
1 ATAACAAAAGTTATACAAT
8721367 AT
1 AT
8721369 CTAAACAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.61, C:0.11, G:0.03, T:0.26
Consensus pattern (19 bp):
ATAACAAAAGTTATACAAT
Found at i:8721712 original size:22 final size:23
Alignment explanation
Indices: 8721673--8721716 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
8721663 TTTGATAATA
8721673 TGTTTTTATATAACAAATTAAAC
1 TGTTTTTATATAACAAATTAAAC
8721696 TGTTTTTGA-ATAA-AAATTAAA
1 TGTTTTT-ATATAACAAATTAAA
8721717 GTTGAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 11 0.55
24 1 0.05
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (23 bp):
TGTTTTTATATAACAAATTAAAC
Found at i:8723024 original size:33 final size:33
Alignment explanation
Indices: 8722978--8723043 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
8722968 AAAATAAAGA
*
8722978 TAGATATGTGTAAGCAAATTGTTTATTTTGACT
1 TAGATATGAGTAAGCAAATTGTTTATTTTGACT
*
8723011 TAGATATGAGTAAGTAAATTGTTTATTTTGACT
1 TAGATATGAGTAAGCAAATTGTTTATTTTGACT
8723044 AAGTATAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (33 bp):
TAGATATGAGTAAGCAAATTGTTTATTTTGACT
Found at i:8723232 original size:16 final size:16
Alignment explanation
Indices: 8723211--8723249 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
8723201 GGTAATTTGG
8723211 TTAGTTAAGTTGAGAC
1 TTAGTTAAGTTGAGAC
8723227 TTAGTTAAGTTGAGAC
1 TTAGTTAAGTTGAGAC
8723243 TTAGTTA
1 TTAGTTA
8723250 GAAAAGAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (16 bp):
TTAGTTAAGTTGAGAC
Found at i:8726310 original size:27 final size:26
Alignment explanation
Indices: 8726273--8726383 Score: 123
Period size: 27 Copynumber: 4.1 Consensus size: 26
8726263 AGCATGGCTG
* *
8726273 CCAAAACAGATAATGTGACAGAGTCA
1 CCAAAACAGATAATGTGGCAGAGCCA
8726299 CCAAATACAGATAATCGTGGCAGAGCCA
1 CCAAA-ACAGATAAT-GTGGCAGAGCCA
*
8726327 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAAAACAGATA-ATGTGGCAGAGCCA
* * * *
8726354 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAAAACAGATA-ATGTGGCAGAGCCA
8726381 CCA
1 CCA
8726384 GAACGCTTCC
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 5 0.07
27 55 0.72
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAAAACAGATAATGTGGCAGAGCCA
Found at i:8726336 original size:54 final size:54
Alignment explanation
Indices: 8726277--8726387 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
8726267 TGGCTGCCAA
*
8726277 AACAGATA-ATGTGACAGAGTCACCAAATACAGATAATCGTGGCAGAGCCACCAG
1 AACAGATATATGTGACAGAGCCACCAAAT-CAGATAATCGTGGCAGAGCCACCAG
* * * * *
8726331 AACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCACCAG
1 AACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCACCAG
8726385 AAC
1 AAC
8726388 GCTTCCTCCA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
AACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCACCAG
Found at i:8728101 original size:26 final size:26
Alignment explanation
Indices: 8727999--8728100 Score: 177
Period size: 26 Copynumber: 3.9 Consensus size: 26
8727989 CATGAAATTC
8727999 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
8728025 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
8728051 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
8728077 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
8728101 TTTATCAATT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:8730112 original size:25 final size:27
Alignment explanation
Indices: 8730075--8730127 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
8730065 TCAAACATGC
8730075 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
8730101 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
8730127 A
1 A
8730128 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:8731641 original size:26 final size:26
Alignment explanation
Indices: 8731610--8731717 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
8731600 TGAAATTCCC
*
8731610 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
8731636 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
8731662 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
8731688 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
8731714 ATCA
1 ATCA
8731718 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:8737441 original size:26 final size:26
Alignment explanation
Indices: 8737395--8737447 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
8737385 TCAAACATAC
8737395 ATTTAGGTAAATTTAACCCTAGGGGT
1 ATTTAGGTAAATTTAACCCTAGGGGT
* *
8737421 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTAAATTTAAC-CCTAGGGGT
8737447 A
1 A
8737448 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTAAATTTAACCCTAGGGGT
Found at i:8738963 original size:26 final size:26
Alignment explanation
Indices: 8738932--8739089 Score: 253
Period size: 26 Copynumber: 6.1 Consensus size: 26
8738922 TGAAATTCCC
*
8738932 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
8738958 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
8738984 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
8739010 ATCATGGAACATTTTCCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
8739036 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
8739062 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
8739088 AT
1 AT
8739090 GAATTTGTAC
Statistics
Matches: 119, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 119 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.35
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:8739009 original size:52 final size:52
Alignment explanation
Indices: 8738932--8739089 Score: 280
Period size: 52 Copynumber: 3.0 Consensus size: 52
8738922 TGAAATTCCC
* *
8738932 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
*
8738984 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTTCCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
*
8739036 ATCATGGAATATTTACCTAATCTATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
8739088 AT
1 AT
8739090 GAATTTGTAC
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 101 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.35
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
Found at i:8745184 original size:93 final size:93
Alignment explanation
Indices: 8745056--8745227 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
8745046 GCCCATAAGT
* * *
8745056 GAACTCGGATTCAACTCAATGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
8745121 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
8745149 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATTCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
8745213 ACGAGTTCGGATGCC
65 ACGAGCTCGGATGCC
8745228 CAAATATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:8745223 original size:46 final size:45
Alignment explanation
Indices: 8745049--8745222 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
8745039 GTAACCCGCC
* * * *
8745049 CATAAGTGAACTCGGATTCAACTCAATGAGCTCAGGCGTTCGCATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCATT
*
8745095 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A-TT
*** *
8745140 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATT
1 -CATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATT
*
8745188 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
8745223 ATGCCCAAAT
Statistics
Matches: 108, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 63 0.58
47 31 0.29
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (45 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATT
Found at i:8745242 original size:46 final size:45
Alignment explanation
Indices: 8745099--8745242 Score: 125
Period size: 46 Copynumber: 3.1 Consensus size: 45
8745089 CGCATCCATA
* * *
8745099 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ATATC-CT
* * * *
8745148 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-AT-TCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAATATCCT
8745191 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AATATCCT
8745238 AGTGA
1 AGTGA
8745243 CATGTCACTT
Statistics
Matches: 76, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
43 1 0.01
44 6 0.08
45 1 0.01
46 35 0.46
47 30 0.39
49 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATATCCT
Found at i:8748777 original size:46 final size:46
Alignment explanation
Indices: 8748710--8748884 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
8748700 TGTAACCCGC
8748710 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
* * * *
8748756 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TTCGCAT
* * *
8748806 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTTGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
* * *
8748849 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
8748885 ATGCCCAAAT
Statistics
Matches: 104, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 58 0.56
47 25 0.24
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:8748825 original size:93 final size:93
Alignment explanation
Indices: 8748717--8748889 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
8748707 CGCCCATAAG
* *
8748717 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
8748782 ACAAGTTCGGATGCCTAGTTACATCTCA
66 ACAAGTTCGGATGCCTAGTTACATCTCA
*
8748810 CGAACTCGGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
8748875 ACGAGTTCGGATGCC
66 ACAAGTTCGGATGCC
8748890 CAAATATCTG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:8750575 original size:18 final size:18
Alignment explanation
Indices: 8750552--8750590 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
8750542 TGTTCTTTAG
8750552 TATTCACGCATCAATTGT
1 TATTCACGCATCAATTGT
8750570 TATTCACGCATCAATTGT
1 TATTCACGCATCAATTGT
8750588 TAT
1 TAT
8750591 AATTACAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (18 bp):
TATTCACGCATCAATTGT
Found at i:8752640 original size:46 final size:46
Alignment explanation
Indices: 8752571--8752662 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
8752561 TAAGGTCATT
8752571 TCCTAGCTCTATTTCTCACCCAAACTTAATCATTTTCCTACATAAA
1 TCCTAGCTCTATTTCTCACCCAAACTTAATCATTTTCCTACATAAA
* *
8752617 TCCTAGCTCTATTTCTCATCCAAACTTAATCATTTTCCTGCATAAA
1 TCCTAGCTCTATTTCTCACCCAAACTTAATCATTTTCCTACATAAA
8752663 AACTTACATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.38
Consensus pattern (46 bp):
TCCTAGCTCTATTTCTCACCCAAACTTAATCATTTTCCTACATAAA
Found at i:8753333 original size:33 final size:33
Alignment explanation
Indices: 8753286--8753400 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 33
8753276 GGACCTTTCA
* * * * *
8753286 TTTTCTAGTTGTACACCCGAGGTGCATATTCCC
1 TTTTCAAGTTGTACACACGAAGTGCACATACCC
* *
8753319 TTTTCAAGTGGTACACACGAAGTGTACATACCC
1 TTTTCAAGTTGTACACACGAAGTGCACATACCC
* * * *
8753352 TTTTCAATTTGTACACACAAAGTGTACATAACC
1 TTTTCAAGTTGTACACACGAAGTGCACATACCC
8753385 TTTTCAAG-TGTACACA
1 TTTTCAAGTTGTACACA
8753401 TATAGTGTAC
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
32 8 0.11
33 62 0.89
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (33 bp):
TTTTCAAGTTGTACACACGAAGTGCACATACCC
Found at i:8753422 original size:65 final size:66
Alignment explanation
Indices: 8753317--8753456 Score: 167
Period size: 65 Copynumber: 2.1 Consensus size: 66
8753307 GTGCATATTC
* * *
8753317 CCTTTTCAAGTGGTACACACGAAGTGTACATACCCTTTTCAATTTGTACACACAAAGTGTACATA
1 CCTTTTCAAGTGGTACACACGAAGTGTACATACCCTTTTCAAGTGGTACACACAAAGTATACATA
8753382 A
66 A
* * ** *
8753383 CCTTTTCAAGT-GTACACA-TATAGTGTACTTTTCCTTTTCAAGTGGTATACACAAAGTATACAT
1 CCTTTTCAAGTGGTACACACGA-AGTGTACATACCCTTTTCAAGTGGTACACACAAAGTATACAT
**
8753446 TT
65 AA
8753448 CCTTTTCAA
1 CCTTTTCAA
8753457 TACCACCTGT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
64 1 0.02
65 51 0.81
66 11 0.17
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (66 bp):
CCTTTTCAAGTGGTACACACGAAGTGTACATACCCTTTTCAAGTGGTACACACAAAGTATACATA
A
Found at i:8753454 original size:33 final size:33
Alignment explanation
Indices: 8753317--8753456 Score: 165
Period size: 33 Copynumber: 4.3 Consensus size: 33
8753307 GTGCATATTC
* *
8753317 CCTTTTCAAGTGGTACACACGAAGTGTACATAC
1 CCTTTTCAAGTGGTACACACAAAGTGTACATAT
* * *
8753350 CCTTTTCAATTTGTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGGTACACACAAAGTGTACATAT
* * * *
8753383 CCTTTTCAAGT-GTACACATATAGTGTACTTTT
1 CCTTTTCAAGTGGTACACACAAAGTGTACATAT
* * *
8753415 CCTTTTCAAGTGGTATACACAAAGTATACATTT
1 CCTTTTCAAGTGGTACACACAAAGTGTACATAT
8753448 CCTTTTCAA
1 CCTTTTCAA
8753457 TACCACCTGT
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
32 27 0.30
33 64 0.70
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACACAAAGTGTACATAT
Found at i:8754227 original size:123 final size:124
Alignment explanation
Indices: 8753928--8754246 Score: 401
Period size: 126 Copynumber: 2.5 Consensus size: 124
8753918 GTCCAACGAA
* **
8753928 AAATCGAAACCCAGCACGGTAGGGCACGATTCCTCGAATTCCCAAACATTGAACATTACCTTGTT
1 AAATCGAAACCCAGCACGGTAGGGCACGATTCC-CGAATTTCCAAACATCAAACATTACCTTGTT
* * * * *
8753993 TTAGAATTTAAAGAATACGAATGAAATTCTAAAAGAATGTTTGATGATTTTGGATAAGCGG
65 TTAGAATTTAAAGAATAC-AATGAAATTCTAAAAGAAGGTTCGATGATTTTGAACAAACGG
* * * * * *
8754054 AAATCGAAATCCAGCACGATAGGGCACGGTTCCCCGAATTTTCAAGCATCAAACATTGCCTTGTT
1 AAATCGAAACCCAGCACGGTAGGGCACGATT-CCCGAATTTCCAAACATCAAACATTACCTTGTT
* * *
8754119 TTAGAATTTTAAA-AA-A-AGTGAAATTCTAAAGGAAGGTTCGATTATTTTGAACAAACGGG
65 TTAGAA-TTTAAAGAATACAATGAAATTCTAAAAGAAGGTTCGATGATTTTGAACAAAC-GG
*
8754178 AAATCGAAACCCAGCACGGTAAGGCACGATTCCCGAATTTCCAAACATCAAACATTACCTTCGTT
1 AAATCGAAACCCAGCACGGTAGGGCACGATTCCCGAATTTCCAAACATCAAACATTACCTT-GTT
8754243 TTAG
65 TTAG
8754247 GGAATTTTTA
Statistics
Matches: 165, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
123 59 0.36
124 36 0.22
125 1 0.01
126 61 0.37
127 8 0.05
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (124 bp):
AAATCGAAACCCAGCACGGTAGGGCACGATTCCCGAATTTCCAAACATCAAACATTACCTTGTTT
TAGAATTTAAAGAATACAATGAAATTCTAAAAGAAGGTTCGATGATTTTGAACAAACGG
Done.