Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 179 of 210
Found at i:59666904 original size:19 final size:18
Alignment explanation
Indices: 59666862--59666904 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
59666852 TCATGCTTTC
*
59666862 TATTCACATTTTCATATT
1 TATTCACATTTTCAAATT
*
59666880 TAATTCACATTTTGAAATT
1 T-ATTCACATTTTCAAATT
59666899 ATATTC
1 -TATTC
59666905 CACAATCACG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.90
20 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.51
Consensus pattern (18 bp):
TATTCACATTTTCAAATT
Found at i:59667677 original size:25 final size:23
Alignment explanation
Indices: 59667595--59667698 Score: 113
Period size: 22 Copynumber: 4.4 Consensus size: 23
59667585 TGCACTATTA
*
59667595 AACAGAGAGCACTAAAGTGCTAT
1 AACAGAGAGCACTAATGTGCTAT
*
59667618 -ACAGAGAGCACGAATGTGCTA-
1 AACAGAGAGCACTAATGTGCTAT
59667639 AACAGAGAGCACTAATGTGCTAAT
1 AACAGAGAGCACTAATGTGCT-AT
* **
59667663 AATCGGAGAGCACTAACATGCTAGT
1 AA-CAGAGAGCACTAATGTGCTA-T
59667688 AATCAGAGAGC
1 AA-CAGAGAGC
59667699 GTGCTAGTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
22 38 0.55
23 1 0.01
24 3 0.04
25 27 0.39
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.17
Consensus pattern (23 bp):
AACAGAGAGCACTAATGTGCTAT
Found at i:59667712 original size:18 final size:19
Alignment explanation
Indices: 59667681--59667716 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
59667671 AGCACTAACA
59667681 TGCTAGTAATCAGAGAGCG
1 TGCTAGTAATCAGAGAGCG
59667700 TGCTAGT-ATCAGAGAGC
1 TGCTAGTAATCAGAGAGC
59667717 AACTGACGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.22
Consensus pattern (19 bp):
TGCTAGTAATCAGAGAGCG
Found at i:59667739 original size:26 final size:24
Alignment explanation
Indices: 59667597--59667747 Score: 90
Period size: 22 Copynumber: 6.5 Consensus size: 24
59667587 CACTATTAAA
* *
59667597 CAGAGAGCACTAAAGTGCT-ATA-
1 CAGAGAGCACTGACGTGCTAATAT
*
59667619 CAGAGAGCAC-GAATGTGCTAA-A-
1 CAGAGAGCACTG-ACGTGCTAATAT
* *
59667641 CAGAGAGCACTAATGTGCTAATAAT
1 CAGAGAGCACTGACGTGCTAAT-AT
* * * *
59667666 CGGAGAGCACTAACATGCTAGTAAT
1 CAGAGAGCACTGACGTGCTAAT-AT
*
59667691 C--AGAG-A--G-CGTGCTAGTAT
1 CAGAGAGCACTGACGTGCTAATAT
59667709 CAGAGAGCAACTGACGTGCTAATAAT
1 CAGAGAGC-ACTGACGTGCTAAT-AT
59667735 CAGAGAGCACTGA
1 CAGAGAGCACTGA
59667748 NNNNNNNNNN
Statistics
Matches: 105, Mismatches: 10, Indels: 25
0.75 0.07 0.18
Matches are distributed among these distances:
18 3 0.03
19 8 0.08
20 4 0.04
22 38 0.36
23 5 0.05
24 2 0.02
25 35 0.33
26 10 0.10
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (24 bp):
CAGAGAGCACTGACGTGCTAATAT
Found at i:59667816 original size:25 final size:25
Alignment explanation
Indices: 59667781--59667836 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
59667771 NNNNNNNNNN
* * **
59667781 CAGAGAGCACTGACGTGCTGGTAAT
1 CAGAGAACACTGACATGCTAATAAT
59667806 CAGAGAACACTGACATGCTAATAAT
1 CAGAGAACACTGACATGCTAATAAT
59667831 CAGAGA
1 CAGAGA
59667837 GCACGCTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.18
Consensus pattern (25 bp):
CAGAGAACACTGACATGCTAATAAT
Found at i:59670283 original size:8 final size:8
Alignment explanation
Indices: 59670270--59670296 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
59670260 TATATATACT
59670270 AAATAATA
1 AAATAATA
59670278 AAATAATA
1 AAATAATA
59670286 AAATAATA
1 AAATAATA
59670294 AAA
1 AAA
59670297 ATATCATTTA
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAATAATA
Found at i:59670809 original size:23 final size:23
Alignment explanation
Indices: 59670778--59670828 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
59670768 GCCTACTTTC
* *
59670778 TTACTGTAGTAATTTTCAGGATA
1 TTACAGTAGAAATTTTCAGGATA
*
59670801 TTACAGTAGAAATTTTCGGGATA
1 TTACAGTAGAAATTTTCAGGATA
59670824 TTACA
1 TTACA
59670829 ACAACAAGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (23 bp):
TTACAGTAGAAATTTTCAGGATA
Found at i:59674844 original size:26 final size:24
Alignment explanation
Indices: 59674795--59674845 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 24
59674785 CTTATTTTCA
*
59674795 TATCTATATACTTTATATCTTATT
1 TATCTATATACTTTATATCATATT
59674819 TATCTATATATCTTTATATACATATT
1 TATCTATATA-CTTTATAT-CATATT
59674845 T
1 T
59674846 TTAATTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 10 0.42
25 8 0.33
26 6 0.25
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.57
Consensus pattern (24 bp):
TATCTATATACTTTATATCATATT
Found at i:59679489 original size:16 final size:15
Alignment explanation
Indices: 59679468--59679531 Score: 69
Period size: 16 Copynumber: 4.3 Consensus size: 15
59679458 AATGTTTCAT
59679468 AAAAAAGGAAAGAAGG
1 AAAAAAGGAAAGAA-G
*
59679484 AAAAAAGGAAAAGAAA
1 AAAAAAGG-AAAGAAG
*
59679500 AAAAAAAGAAAGAAG
1 AAAAAAGGAAAGAAG
*
59679515 -AAAAAGAAAAGAA-
1 AAAAAAGGAAAGAAG
59679528 AAAA
1 AAAA
59679532 GAAGAAGGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
14 14 0.34
15 6 0.15
16 15 0.37
17 6 0.15
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAAAAGGAAAGAAG
Found at i:59679505 original size:18 final size:18
Alignment explanation
Indices: 59679484--59679534 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
59679474 GGAAAGAAGG
*
59679484 AAAAAAGGAA-AAGAAAA
1 AAAAAAGAAAGAAGAAAA
59679501 AAAAAAGAAAGAAGAAAA
1 AAAAAAGAAAGAAGAAAA
* *
59679519 AGAAAAGAAAAAAGAA
1 AAAAAAGAAAGAAGAA
59679535 GAAGGAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 9 0.30
18 21 0.70
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAGAAGAAAA
Found at i:59679509 original size:28 final size:27
Alignment explanation
Indices: 59679476--59679542 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 27
59679466 ATAAAAAAGG
*
59679476 AAAGAAGGAAAAAAGGAAAAGAAAAAAA
1 AAAGAAGGAAAAAAAGAAAAG-AAAAAA
*
59679504 AAAGAAAGAAGAAAAAGAAAAGAAAAAA
1 AAAGAAGGAA-AAAAAGAAAAGAAAAAA
*
59679532 GAAGAAGGAAA
1 AAAGAAGGAAA
59679543 GGCCAAGGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.03
28 23 0.68
29 10 0.29
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (27 bp):
AAAGAAGGAAAAAAAGAAAAGAAAAAA
Found at i:59679510 original size:24 final size:25
Alignment explanation
Indices: 59679483--59679542 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 25
59679473 AGGAAAGAAG
*
59679483 GAAAAAAGGAAAAGAAAA-AAAAAA
1 GAAAGAAGGAAAAGAAAAGAAAAAA
*
59679507 GAAAGAAGAAAAAGAAAAGAAAAAA
1 GAAAGAAGGAAAAGAAAAGAAAAAA
59679532 G-AAGAAGGAAA
1 GAAAGAAGGAAA
59679543 GGCCAAGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 25 0.78
25 7 0.22
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (25 bp):
GAAAGAAGGAAAAGAAAAGAAAAAA
Found at i:59679518 original size:29 final size:28
Alignment explanation
Indices: 59679476--59679531 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
59679466 ATAAAAAAGG
* *
59679476 AAAGAAGGAAAAAAGGAAAAGAAAAAAA
1 AAAGAAAGAAAAAAAGAAAAGAAAAAAA
59679504 AAAGAAAGAAGAAAAAGAAAAGAAAAAA
1 AAAGAAAGAA-AAAAAGAAAAGAAAAAA
59679532 GAAGAAGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (28 bp):
AAAGAAAGAAAAAAAGAAAAGAAAAAAA
Found at i:59680493 original size:44 final size:44
Alignment explanation
Indices: 59680403--59680495 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
59680393 GACAGATTAG
* *
59680403 TGAAGTCACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGT
1 TGAAGTCACAAACCTTATCCCTCTGAAGTTGCAGTAGAGCAAGT
* *
59680447 TGAAGTCACTAACCTTATCCCTTTGAAGTTGCAGTAG-GACAAGT
1 TGAAGTCACAAACCTTATCCCTCTGAAGTTGCAGTAGAG-CAAGT
59680491 TGAAG
1 TGAAG
59680496 ATATGAGTCT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 1 0.02
44 43 0.98
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TGAAGTCACAAACCTTATCCCTCTGAAGTTGCAGTAGAGCAAGT
Found at i:59680810 original size:44 final size:45
Alignment explanation
Indices: 59680747--59681001 Score: 151
Period size: 44 Copynumber: 5.6 Consensus size: 45
59680737 ATCAAAGCTC
* * * ** * *
59680747 ATCTCCTTGAAGTTGCAGTGGGGCAGGTTGAA-ATTACGAGTCTT
1 ATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAACGAATCTT
59680791 ATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAACGAATCTT
1 ATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAACGAATCTT
* * *
59680836 ATTTCCCTGAAGTTACAGTGGAACAGA-TTAAGGCTATAAATTAC-ATATCTT
1 ATCTCCCTGAAGTTACAGTGGAGCAGACTGAA-G--AT--A--ACGA-ATCTT
* * * * * * *
59680887 ATCTCTCTGAAGTTGCAATGGAGAAGATTGAAGA-AACCAATCCT
1 ATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAACGAATCTT
* * * * * * *
59680931 ATCTCCCTGAAATTGCAGTGGAGCGGA-TTAAAATGATGAATCTT
1 ATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAACGAATCTT
* * * *
59680975 ATCTCTCTAAAGTTGCAGTAGAGCAGA
1 ATCTCCCTGAAGTTACAGTGGAGCAGA
59681002 TTGCATCAGA
Statistics
Matches: 165, Mismatches: 34, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
43 4 0.02
44 86 0.52
45 37 0.22
46 1 0.01
47 2 0.01
49 2 0.01
50 1 0.01
51 29 0.18
52 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (45 bp):
ATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAACGAATCTT
Found at i:59680919 original size:96 final size:95
Alignment explanation
Indices: 59680787--59680961 Score: 233
Period size: 95 Copynumber: 1.8 Consensus size: 95
59680777 AAATTACGAG
* * * * * *
59680787 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTGAAGTTAC
1 TCTTATCTCCCTGAAGTTACAATGGAGAAGACTGAAGA-AACCAATCCTATCTCCCTGAAATTAC
59680852 AGTGGAACAGATTAAGGCTATAAATTACATA
65 AGTGGAACAGATTAAGGCTATAAATTACATA
* * * *
59680883 TCTTATCTCTCTGAAGTTGCAATGGAGAAGATTGAAGAAACCAATCCTATCTCCCTGAAATTGCA
1 TCTTATCTCCCTGAAGTTACAATGGAGAAGACTGAAGAAACCAATCCTATCTCCCTGAAATTACA
* *
59680948 GTGGAGCGGATTAA
66 GTGGAACAGATTAA
59680962 AATGATGAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
95 34 0.51
96 33 0.49
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (95 bp):
TCTTATCTCCCTGAAGTTACAATGGAGAAGACTGAAGAAACCAATCCTATCTCCCTGAAATTACA
GTGGAACAGATTAAGGCTATAAATTACATA
Found at i:59682645 original size:18 final size:21
Alignment explanation
Indices: 59682624--59682667 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
59682614 TTTATTAGAA
59682624 ATTAAT-TATT-T-TAATATC
1 ATTAATATATTATGTAATATC
59682642 ATTAATACTATTATGTAATATC
1 ATTAATA-TATTATGTAATATC
59682664 ATTA
1 ATTA
59682668 CTATGGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.27
20 4 0.18
21 1 0.05
22 11 0.50
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (21 bp):
ATTAATATATTATGTAATATC
Found at i:59682898 original size:64 final size:63
Alignment explanation
Indices: 59682830--59683025 Score: 208
Period size: 64 Copynumber: 3.1 Consensus size: 63
59682820 ATTTTCATAT
*
59682830 ATATATATATGCTTTATATCTTATATTATATATATATCTTTATATACGTGTTTTTTAAATTTTC
1 ATATATATATACTTTATATCTTATATTATATATATATCTTTATATACGT-TTTTTTAAATTTTC
* *
59682894 ATATATATATACTTTATATC-T-TA-T-TATATATATCTTTATATATGTATTTTCAATTTATATA
1 ATATATATATACTTTATATCTTATATTATATATATATCTTTATATACG--TTTT---TTTAAAT-
*
59682955 TAT-
60 TTTC
* * * *
59682958 ATATATATATACTTTATATCTTAT-TTATCTATATATCTTTACATACATATTTTT-AATTTTC
1 ATATATATATACTTTATATCTTATATTATATATATATCTTTATATACGTTTTTTTAAATTTTC
59683019 ATATATA
1 ATATATA
59683026 CATGCTTGCA
Statistics
Matches: 110, Mismatches: 11, Indels: 25
0.75 0.08 0.17
Matches are distributed among these distances:
60 21 0.19
61 13 0.12
62 6 0.05
63 1 0.01
64 45 0.41
65 6 0.05
66 2 0.02
67 16 0.15
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.56
Consensus pattern (63 bp):
ATATATATATACTTTATATCTTATATTATATATATATCTTTATATACGTTTTTTTAAATTTTC
Found at i:59683064 original size:128 final size:128
Alignment explanation
Indices: 59682826--59683065 Score: 315
Period size: 128 Copynumber: 1.9 Consensus size: 128
59682816 TTTAATTTTC
* * * *
59682826 ATATATATATATATGCTTTATATCTTATATTATATATATATCTTTATATACGTGTTTTTTAAATT
1 ATATATATATATATACTTTATATCTTATATTATATATATATCTTTACATACATGATTTTTAAATT
* * **
59682891 TTCATATATATATACTTTATATCTTATTATATATATCTTTATATATGTATTTTCAATTTATAT
66 TTCATATATACATACTTCATATCTTATTATATATATAATTATATATGTATTTTCAATTTATAT
*
59682954 ATATATATATATATACTTTATATCTTAT-TTATCTATATATCTTTACATACAT-ATTTTT-AATT
1 ATATATATATATATACTTTATATCTTATATTATATATATATCTTTACATACATGATTTTTAAATT
* *
59683016 TTCATATATACATGCTTGCATATTCCTTATTATATCTTATAATTTATATA
66 TTCATATATACATACTT-CATA-T-CTTATTATAT-ATATAA-TTATATA
59683066 CATATACATA
Statistics
Matches: 96, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
125 19 0.20
126 8 0.08
127 22 0.23
128 37 0.39
129 3 0.03
130 7 0.07
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.55
Consensus pattern (128 bp):
ATATATATATATATACTTTATATCTTATATTATATATATATCTTTACATACATGATTTTTAAATT
TTCATATATACATACTTCATATCTTATTATATATATAATTATATATGTATTTTCAATTTATAT
Found at i:59683072 original size:6 final size:6
Alignment explanation
Indices: 59683061--59683090 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
59683051 CTTATAATTT
59683061 ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC
59683091 CCTTTTGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:59689306 original size:94 final size:94
Alignment explanation
Indices: 59689139--59689360 Score: 284
Period size: 94 Copynumber: 2.4 Consensus size: 94
59689129 ATGAGACAGT
* * *
59689139 ACGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCCTATACCCATAAAA
1 ACGAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCTACAAATCCTACACCCATAAAA
* *
59689204 TTGCAGTGGGTCGGATTGAAACTACAACG
66 TTGCAGTGGGTCAGATTGAAACTACAACA
* * * *
59689233 GCGAACCTTATCTCCCTGAAGTTGCAATGGAGCAGTTTGAAGCTACAAATCCTACACCTC-TGAA
1 ACGAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCTACAAATCCTACACC-CATAAA
* * *
59689297 GTTGCAGTGGGTCAGATTGAAGCTACAATA
65 ATTGCAGTGGGTCAGATTGAAACTACAACA
* * * *
59689327 ACAAATCTTATCTCCTTGAAGTTACAATAGAGCA
1 ACGAATCTTATCTCCCTGAAGTTGCAATGGAGCA
59689361 ATATGAAACC
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
94 108 0.99
95 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (94 bp):
ACGAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCTACAAATCCTACACCCATAAAA
TTGCAGTGGGTCAGATTGAAACTACAACA
Found at i:59698936 original size:14 final size:14
Alignment explanation
Indices: 59698904--59698946 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
59698894 GTTATACAAT
*
59698904 GAGAGAGAGAAAGA
1 GAGAAAGAGAAAGA
* *
59698918 TAGAAAGAGAGAGA
1 GAGAAAGAGAAAGA
*
59698932 GAGAAAGAGACAGA
1 GAGAAAGAGAAAGA
59698946 G
1 G
59698947 TCCCATAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.56, C:0.02, G:0.40, T:0.02
Consensus pattern (14 bp):
GAGAAAGAGAAAGA
Found at i:59710604 original size:18 final size:17
Alignment explanation
Indices: 59710571--59710609 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
59710561 TTTTACAAAT
59710571 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
59710589 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
59710606 TGTG
1 TGTG
59710610 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:59710862 original size:23 final size:24
Alignment explanation
Indices: 59710835--59710956 Score: 112
Period size: 23 Copynumber: 5.3 Consensus size: 24
59710825 AGTGTTATTG
*
59710835 ATCAGTGGTAGCTTCGGCAACAAT
1 ATCAGTGGTAGCTTCGGCTACAAT
* * *
59710859 -TCAGTGGTAGCTACGACT-CCAT
1 ATCAGTGGTAGCTTCGGCTACAAT
**
59710881 ATCAGTGGTAGCTTCAACTAC-AT
1 ATCAGTGGTAGCTTCGGCTACAAT
* *
59710904 TTCAGTGGTAGCTAT-GGCTAC-GT
1 ATCAGTGGTAGCT-TCGGCTACAAT
59710927 ATCAGTGGTAGCTTCGGCTAC-AT
1 ATCAGTGGTAGCTTCGGCTACAAT
*
59710950 ATTAGTG
1 ATCAGTG
59710957 TGGCACTTAT
Statistics
Matches: 81, Mismatches: 13, Indels: 9
0.79 0.13 0.09
Matches are distributed among these distances:
22 4 0.05
23 75 0.93
24 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (24 bp):
ATCAGTGGTAGCTTCGGCTACAAT
Found at i:59710948 original size:46 final size:46
Alignment explanation
Indices: 59710835--59710949 Score: 158
Period size: 46 Copynumber: 2.5 Consensus size: 46
59710825 AGTGTTATTG
* * *
59710835 ATCAGTGGTAGCTTCGGCAACAATTCAGTGGTAGCTACGACTCCAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGACTACAT
** * * *
59710881 ATCAGTGGTAGCTTCAACTACATTTCAGTGGTAGCTATGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGACTACAT
59710927 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
59710950 ATTAGTGTGG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGACTACAT
Found at i:59715277 original size:89 final size:88
Alignment explanation
Indices: 59715150--59715438 Score: 341
Period size: 89 Copynumber: 3.2 Consensus size: 88
59715140 GCCAAGGACA
* * * * * * *
59715150 CAAGGTTGGTGAT-TTCGATCTGTTTCACTGTCAGTACAGGAAGGTAAAATTTGCTATATTCAGT
1 CAAGGCTGGT-ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGTAAGATCTGCTTTCTTCAGT
59715214 CTGCTCCGCTGGCAACCCAGGGAGG
65 CTGCTCCGCT-GCAACCCAGGGAGG
*
59715239 CAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAA--TACGAGATCTACTTTCTTCAG
1 CAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGTA--AGATCTGCTTTCTTCAG
* *
59715302 TCTACTCCACTGCAATCCCAGGGAGG
64 TCTGCTCCGCTGCAA-CCCAGGGAGG
* * * * * *
59715328 CAAGGCTTGTGTCTTCGATTTGCTTCGCTGTCAGTATAGGAAGGTCAGATCTGCTTTCTTCAGTT
1 CAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGTAAGATCTGCTTTCTTCAGTC
59715393 TGCTCCGCTGCAAACCCAGGGAGG
66 TGCTCCGCTGC-AACCCAGGGAGG
* *
59715417 CAAGGCTGGTGTCTTTGATCTG
1 CAAGGCTGGTATCTTCGATCTG
59715439 ACAGGAAGGC
Statistics
Matches: 171, Mismatches: 22, Indels: 14
0.83 0.11 0.07
Matches are distributed among these distances:
87 2 0.01
88 6 0.04
89 160 0.94
90 2 0.01
91 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (88 bp):
CAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGTAAGATCTGCTTTCTTCAGTC
TGCTCCGCTGCAACCCAGGGAGG
Found at i:59715973 original size:175 final size:177
Alignment explanation
Indices: 59715792--59716499 Score: 1048
Period size: 175 Copynumber: 4.0 Consensus size: 177
59715782 TGCTGCAAAC
* *
59715792 CAGGGAGGCAAGGCTGGGGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAA-T
1 CAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
* * * *
59715856 TTTTCAACCTACTCCACTGCTACTCAGGGAGACAAGGCTGGGGACTTCAATCTGCTCCACTACTG
66 TTTTCAACCTACTCCACTACTGCTCAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTG
* *
59715921 CTTAGGGAGATAAGATTTGTAA-TTTTCAATCTACTCCACTGCTGCT
131 CTTAGGGAGATAAGATCTGTAATTTTTCAACCTACTCCACTGCTGCT
* * * *
59715967 CAGGGAGATAAGGCTGGGGTCTTCGATCTGCTCTAGTACTGCTTAGAGAGATAAGATCTGTAATT
1 CAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA--
* * * *
59716032 TTTTTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGGGTCTTCGATCTACTCCACTA
64 -TTTTTTCAACCTACTCCACTACTGCTCAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTA
* * *
59716097 CTACTTAGGGAGATAAGATCTGTAATTTTTTAACCTACTCCATTGCTGCT
128 CTGCTTAGGGAGATAAGATCTGTAATTTTTCAACCTACTCCACTGCTGCT
* * *
59716147 CAAGGAGACAAGGCTGGGGACTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-T
1 CAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
* *
59716211 TTTT-AACCTACTCCACTACTGCTCAGGGAGATAAGGTTGGGGTCTTCGATCTGCTCCACTACTG
66 TTTTCAACCTACTCCACTACTGCTCAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTG
*
59716275 CTTAGGGAGATAAGATCTATAATTTTTTTTCAACCTACTCCACTGCTGCT
131 CTTAGGGAGATAAGATCTGTAA---TTTTTCAACCTACTCCACTGCTGCT
59716325 CAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
1 CAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-T
* *
59716390 TTTTTCTACCTACTCCACTACTGCTCAGGGAGACAAGGCTCGGGTCTTCGATCTGCTCCACTACT
65 TTTTTCAACCTACTCCACTACTGCTCAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACT
* * *
59716455 TCTTAGGGAGATAAGATCTGTAATTTTT-TACCTATTCCACTGCTG
130 GCTTAGGGAGATAAGATCTGTAATTTTTCAACCTACTCCACTGCTG
59716500 TCCAGTGAGA
Statistics
Matches: 479, Mismatches: 43, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
175 133 0.28
176 5 0.01
177 15 0.03
178 88 0.18
179 80 0.17
180 82 0.17
181 76 0.16
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (177 bp):
CAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
TTTTCAACCTACTCCACTACTGCTCAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTG
CTTAGGGAGATAAGATCTGTAATTTTTCAACCTACTCCACTGCTGCT
Found at i:59715996 original size:87 final size:88
Alignment explanation
Indices: 59715792--59716499 Score: 1044
Period size: 87 Copynumber: 8.0 Consensus size: 88
59715782 TGCTGCAAAC
* *
59715792 CAGGGAGGCAAGGCTGGGGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
1 CAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
*
59715857 TTTCAACCTACTCCACTGCTACT
66 TTTCAACCTACTCCACTGCTGCT
* * *
59715880 CAGGGAGACAAGGCTGGGGACTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAA-T
1 CAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
*
59715944 TTTCAATCTACTCCACTGCTGCT
66 TTTCAACCTACTCCACTGCTGCT
* * * *
59715967 CAGGGAGATAAGGCTGGGGTCTTCGATCTGCTCTAGTACTGCTTAGAGAGATAAGATCTGTAATT
1 CAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA--
59716032 TTTTTTTCAACCTACTCCACTGCTGCT
64 --TTTTTCAACCTACTCCACTGCTGCT
* * * *
59716059 CAGGGAGATAAGGCTAGGGTCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTGTAATT
1 CAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
* *
59716124 TTTTAACCTACTCCATTGCTGCT
66 TTTCAACCTACTCCACTGCTGCT
* * *
59716147 CAAGGAGACAAGGCTGGGGACTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
1 CAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
*
59716212 TTT-AACCTACTCCACTACTGCT
66 TTTCAACCTACTCCACTGCTGCT
* * *
59716234 CAGGGAGATAAGGTTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATT
1 CAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA--
59716299 TTTTTTCAACCTACTCCACTGCTGCT
64 -TTTTTCAACCTACTCCACTGCTGCT
59716325 CAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
1 CAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA--
* *
59716390 TTTTTCTACCTACTCCACTACTGCT
64 TTTTTCAACCTACTCCACTGCTGCT
* *
59716415 CAGGGAGACAAGGCTCGGGTCTTCGATCTGCTCCACTACTTCTTAGGGAGATAAGATCTGTAATT
1 CAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
* *
59716480 TTT-TACCTATTCCACTGCTG
66 TTTCAACCTACTCCACTGCTG
59716500 TCCAGTGAGA
Statistics
Matches: 563, Mismatches: 48, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
87 167 0.30
88 147 0.26
90 91 0.16
91 78 0.14
92 80 0.14
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (88 bp):
CAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
TTTCAACCTACTCCACTGCTGCT
Found at i:59716119 original size:267 final size:266
Alignment explanation
Indices: 59715792--59716499 Score: 1155
Period size: 267 Copynumber: 2.7 Consensus size: 266
59715782 TGCTGCAAAC
*
59715792 CAGGGAGGCAAGGCTGGGGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
1 CAGGGAGACAAGGCTGGGGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
*
59715857 TTTCAACCTACTCCACTGCTACTCAGGGAGACAAGGCTGGGGACTTCAATCTGCTCCACTACTGC
66 TTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGACTTCAATCTGCTCCACTACTGC
* * *
59715922 TTAGGGAGATAAGATTTGTAATTTTCAATCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGGGT
131 TTAGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGGGT
* * *
59715987 CTTCGATCTGCTCTAGTACTGCTTAGAGAGATAAGATCTGTAATTTTTTTTTCAACCTACTCCAC
196 CTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTATAA-TTTTTTTTCAACCTACTCCAC
59716052 TGCTGCT
260 TGCTGCT
* * *
59716059 CAGGGAGATAAGGCTAGGGTCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTGTAATT
1 CAGGGAGACAAGGCTGGGGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
* * *
59716124 TTTTAACCTACTCCATTGCTGCTCAAGGAGACAAGGCTGGGGACTTCAATCTGCTCCACTACTGC
66 TTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGACTTCAATCTGCTCCACTACTGC
* *
59716189 TTAGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTACTGCTCAGGGAGATAAGGTTGGGGT
131 TTAGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGGGT
*
59716254 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTTTTTCAACCTACTCCACT
196 CTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTATAATTTTTTTTCAACCTACTCCACT
59716319 GCTGCT
261 GCTGCT
*
59716325 CAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
1 CAGGGAGACAAGGCTGGGGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAA--
* * * * *
59716390 TTTTTCTACCTACTCCACTACTGCTCAGGGAGACAAGGCTCGGGTCTTCGATCTGCTCCACTACT
64 TTTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGACTTCAATCTGCTCCACTACT
* * *
59716455 TCTTAGGGAGATAAGATCTGTAATTTTTTACCTATTCCACTGCTG
129 GCTTAGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTGCTG
59716500 TCCAGTGAGA
Statistics
Matches: 406, Mismatches: 33, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
266 87 0.21
267 221 0.54
268 98 0.24
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (266 bp):
CAGGGAGACAAGGCTGGGGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
TTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGACTTCAATCTGCTCCACTACTGC
TTAGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGGGT
CTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTATAATTTTTTTTCAACCTACTCCACT
GCTGCT
Found at i:59718758 original size:6 final size:6
Alignment explanation
Indices: 59718727--59718860 Score: 71
Period size: 6 Copynumber: 21.8 Consensus size: 6
59718717 ATTTTTTCTC
* * * *
59718727 TTTTTC TTTTTC TTTTT- TTTCT- TTTTTA TTTTTA TCATTCTCA TATTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T--TT-TTA T-TT-TTA
* ** *
59718778 TTTTTA TTTTTA TTTTGA TTGAT- TTTTTA TTTTTTA TTTTTC TTTTTGA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTTTT-A
* *
59718827 TTTTGA TTTTT- TTGTT- TTTTTA TTTATTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTT
59718861 TATTGAATCT
Statistics
Matches: 102, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
5 19 0.19
6 54 0.53
7 18 0.18
8 8 0.08
9 3 0.03
ACGTcount: A:0.13, C:0.05, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:59718782 original size:36 final size:37
Alignment explanation
Indices: 59718742--59718864 Score: 103
Period size: 36 Copynumber: 3.4 Consensus size: 37
59718732 CTTTTTCTTT
*
59718742 TTTTTCTTTTTTATTTTTA-TCATTCTCATA-TTTTTA
1 TTTTTCTTTTTTATTTTGATTCATT-TCATATTTTTTA
* * **
59718778 TTTTT-ATTTTTATTTTGATTGATTTTTTATTTTTTA
1 TTTTTCTTTTTTATTTTGATTCATTTCATATTTTTTA
* * **
59718814 TTTTTCTTTTTGATTTTGATT-TTTTTGT-TTTTTTA
1 TTTTTCTTTTTTATTTTGATTCATTTCATATTTTTTA
*
59718849 TTTATTATTTTTTATT
1 TTT-TTCTTTTTTATT
59718865 GAATCTGAAC
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
35 24 0.33
36 35 0.49
37 13 0.18
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (37 bp):
TTTTTCTTTTTTATTTTGATTCATTTCATATTTTTTA
Found at i:59718788 original size:7 final size:7
Alignment explanation
Indices: 59718717--59718864 Score: 74
Period size: 7 Copynumber: 20.4 Consensus size: 7
59718707 TTGGCCTCTC
59718717 ATTTTTT
1 ATTTTTT
*
59718724 CTCTTTTT
1 AT-TTTTT
*
59718732 CTTTTTCT
1 ATTTTT-T
*
59718740 TTTTTTT
1 ATTTTTT
*
59718747 CTTTTTT
1 ATTTTTT
59718754 A-TTTTT
1 ATTTTTT
* *
59718760 ATCATTCTC
1 AT--TTTTT
59718769 ATATTTTT
1 AT-TTTTT
59718777 A-TTTTT
1 ATTTTTT
59718783 A-TTTTT
1 ATTTTTT
59718789 ATTTTGATT
1 ATTTT--TT
59718798 GATTTTTT
1 -ATTTTTT
59718806 ATTTTTT
1 ATTTTTT
59718813 A-TTTTT
1 ATTTTTT
* *
59718819 CTTTTTG
1 ATTTTTT
59718826 ATTTTGATT
1 ATTTT--TT
59718835 -TTTTTGT
1 ATTTTT-T
59718842 -TTTTTT
1 ATTTTTT
*
59718848 ATTTATT
1 ATTTTTT
59718855 ATTTTTT
1 ATTTTTT
59718862 ATT
1 ATT
59718865 GAATCTGAAC
Statistics
Matches: 113, Mismatches: 14, Indels: 28
0.73 0.09 0.18
Matches are distributed among these distances:
6 25 0.22
7 51 0.45
8 24 0.21
9 8 0.07
10 5 0.04
ACGTcount: A:0.13, C:0.06, G:0.03, T:0.78
Consensus pattern (7 bp):
ATTTTTT
Found at i:59718817 original size:42 final size:42
Alignment explanation
Indices: 59718770--59718860 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
59718760 ATCATTCTCA
* *
59718770 TATTTTTATTTTT-ATTTTTATTTTGATTGATTTTTTATTTTT
1 TATTTTTATTTTTGATTTTGATTTT-ATTGATTTTTTATTTAT
* * *
59718812 TATTTTTCTTTTTGATTTTGATTTTTTTGTTTTTTTATTTAT
1 TATTTTTATTTTTGATTTTGATTTTATTGATTTTTTATTTAT
59718854 TATTTTT
1 TATTTTT
59718861 TATTGAATCT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 33 0.77
43 10 0.23
ACGTcount: A:0.14, C:0.01, G:0.05, T:0.79
Consensus pattern (42 bp):
TATTTTTATTTTTGATTTTGATTTTATTGATTTTTTATTTAT
Found at i:59726470 original size:36 final size:36
Alignment explanation
Indices: 59726423--59726539 Score: 126
Period size: 36 Copynumber: 3.1 Consensus size: 36
59726413 CGTTGGTCGA
59726423 TAAAACCGACAAATATTATATATATGTGCCCAACAC
1 TAAAACCGACAAATATTATATATATGTGCCCAACAC
* *
59726459 TAAAATCGACAAATATTATATATATGTGCCTAACAGTGGTC
1 TAAAACCGACAAATATTATATATATGTGCCCAACA-----C
* * *
59726500 AATAAAACCGATAAATATTATACATGTGTGCCCAACAC
1 --TAAAACCGACAAATATTATATATATGTGCCCAACAC
59726538 TA
1 TA
59726540 GTCGGTGAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
36 35 0.52
38 1 0.01
41 1 0.01
43 30 0.45
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (36 bp):
TAAAACCGACAAATATTATATATATGTGCCCAACAC
Found at i:59726559 original size:43 final size:43
Alignment explanation
Indices: 59726512--59726612 Score: 157
Period size: 43 Copynumber: 2.3 Consensus size: 43
59726502 TAAAACCGAT
* **
59726512 AAATATTATACATGTGTGCCCAACACTAGTCGGTGAAAATGAC
1 AAATATTATACATGTGTACCCAACACTAGTCGGTGAAAACAAC
* *
59726555 AAATATTATACATGTGTACCCAACACTGGTCGGTGAAACCAAC
1 AAATATTATACATGTGTACCCAACACTAGTCGGTGAAAACAAC
59726598 AAATATTATACATGT
1 AAATATTATACATGT
59726613 CATGTACCAC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (43 bp):
AAATATTATACATGTGTACCCAACACTAGTCGGTGAAAACAAC
Found at i:59728241 original size:16 final size:16
Alignment explanation
Indices: 59728220--59728250 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59728210 AATTTAAATT
*
59728220 AATTAATTAATTTTCC
1 AATTAAATAATTTTCC
59728236 AATTAAATAATTTTC
1 AATTAAATAATTTTC
59728251 TCAACCCAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:59728538 original size:21 final size:21
Alignment explanation
Indices: 59728513--59728556 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
59728503 GTTTTCTAGG
59728513 AGTCATTCGCTCACATGCTCA
1 AGTCATTCGCTCACATGCTCA
59728534 AGTCATTCGCTCACATGCTCA
1 AGTCATTCGCTCACATGCTCA
59728555 AG
1 AG
59728557 ACAAAGTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (21 bp):
AGTCATTCGCTCACATGCTCA
Found at i:59730066 original size:31 final size:29
Alignment explanation
Indices: 59729996--59730069 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
59729986 GGCTCAAGTT
* *
59729996 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* **
59730025 ACGTTTTAGTCACTTATGTTATCATGTTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
59730056 ACATTTTAGTCACT
1 ACATTTTAGTCACT
59730070 GAGCCGTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 19 0.51
30 2 0.05
31 16 0.43
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:59730513 original size:25 final size:25
Alignment explanation
Indices: 59730480--59730529 Score: 93
Period size: 24 Copynumber: 2.0 Consensus size: 25
59730470 AAATTGTTGA
59730480 AAATGAAAAAATAT-GTGACCAATT
1 AAATGAAAAAATATAGTGACCAATT
59730504 AAATGAAAAAATATAGTGACCAATT
1 AAATGAAAAAATATAGTGACCAATT
59730529 A
1 A
59730530 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.56, C:0.08, G:0.12, T:0.24
Consensus pattern (25 bp):
AAATGAAAAAATATAGTGACCAATT
Found at i:59730887 original size:10 final size:10
Alignment explanation
Indices: 59730865--59730902 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
59730855 GTGAAGTTGA
59730865 TAAATTATAAT
1 TAAATT-TAAT
59730876 TAAATTTAAT
1 TAAATTTAAT
*
59730886 TAAATTTAAA
1 TAAATTTAAT
59730896 TAAATTT
1 TAAATTT
59730903 GTAAATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 20 0.77
11 6 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TAAATTTAAT
Found at i:59731518 original size:184 final size:184
Alignment explanation
Indices: 59731209--59731578 Score: 740
Period size: 184 Copynumber: 2.0 Consensus size: 184
59731199 TTACTATACC
59731209 TTATATGACACTTGTCAACCCCTAATCTTTCTTGTAGAGTCTAAAAACTCTACTAGTAATGTACT
1 TTATATGACACTTGTCAACCCCTAATCTTTCTTGTAGAGTCTAAAAACTCTACTAGTAATGTACT
59731274 AAACAAGTTCCCTTTATTGATTTAATTTTTTATTTAGTGAAAAAATACTTGAAATATTAAAAATG
66 AAACAAGTTCCCTTTATTGATTTAATTTTTTATTTAGTGAAAAAATACTTGAAATATTAAAAATG
59731339 TTCATGAAAAGAAAAAAATAGTTTATTTCTTCATAAAATAACTGTTATTATTAT
131 TTCATGAAAAGAAAAAAATAGTTTATTTCTTCATAAAATAACTGTTATTATTAT
59731393 TTATATGACACTTGTCAACCCCTAATCTTTCTTGTAGAGTCTAAAAACTCTACTAGTAATGTACT
1 TTATATGACACTTGTCAACCCCTAATCTTTCTTGTAGAGTCTAAAAACTCTACTAGTAATGTACT
59731458 AAACAAGTTCCCTTTATTGATTTAATTTTTTATTTAGTGAAAAAATACTTGAAATATTAAAAATG
66 AAACAAGTTCCCTTTATTGATTTAATTTTTTATTTAGTGAAAAAATACTTGAAATATTAAAAATG
59731523 TTCATGAAAAGAAAAAAATAGTTTATTTCTTCATAAAATAACTGTTATTATTAT
131 TTCATGAAAAGAAAAAAATAGTTTATTTCTTCATAAAATAACTGTTATTATTAT
59731577 TT
1 TT
59731579 TTAATTTTGA
Statistics
Matches: 186, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
184 186 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (184 bp):
TTATATGACACTTGTCAACCCCTAATCTTTCTTGTAGAGTCTAAAAACTCTACTAGTAATGTACT
AAACAAGTTCCCTTTATTGATTTAATTTTTTATTTAGTGAAAAAATACTTGAAATATTAAAAATG
TTCATGAAAAGAAAAAAATAGTTTATTTCTTCATAAAATAACTGTTATTATTAT
Found at i:59733676 original size:2 final size:2
Alignment explanation
Indices: 59733671--59733698 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
59733661 AGAGGGTCTA
59733671 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
59733699 TAGACCCTCT
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:59734115 original size:2 final size:2
Alignment explanation
Indices: 59734110--59734138 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
59734100 GAGAGGGTAT
59734110 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 T
59734139 TTGATTTCTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59734571 original size:45 final size:44
Alignment explanation
Indices: 59734505--59734594 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
59734495 GAATAGAGGC
* *
59734505 GTAATGGATTAGAGGCATAATAGCAAATCGAT-TGTTTGGTTGAAT
1 GTAATGAAATAGAGGCATAATAG-AAATC-ATGTGTTTGGTTGAAT
* * *
59734550 GTAATGAAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAAT
1 GTAATGAAATAGAGGCATAATAGAAATCATGTGTTTGGTTGAAT
59734594 G
1 G
59734595 GAATAGAGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 1 0.03
44 18 0.46
45 20 0.51
ACGTcount: A:0.32, C:0.06, G:0.28, T:0.34
Consensus pattern (44 bp):
GTAATGAAATAGAGGCATAATAGAAATCATGTGTTTGGTTGAAT
Found at i:59734770 original size:16 final size:16
Alignment explanation
Indices: 59734733--59734774 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
59734723 TTAATCATAT
*
59734733 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
59734749 TT-AAATATATTATAA
1 TTAAAATATATTATAA
59734764 TTAAAATATAT
1 TTAAAATATAT
59734775 NNNNNNNNNN
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:59739072 original size:9 final size:9
Alignment explanation
Indices: 59739058--59739088 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
59739048 GTTAAACGAA
59739058 TCGAGTTAT
1 TCGAGTTAT
*
59739067 TCGAGTTAA
1 TCGAGTTAT
59739076 TCGAGTTAT
1 TCGAGTTAT
59739085 TCGA
1 TCGA
59739089 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:59740159 original size:2 final size:2
Alignment explanation
Indices: 59740152--59740178 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
59740142 AATATTTTCC
59740152 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 A
59740179 CACACACGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59745864 original size:18 final size:18
Alignment explanation
Indices: 59745841--59745900 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
59745831 ATCTCAATAG
59745841 AAAAAATCACATCTCAAC
1 AAAAAATCACATCTCAAC
* *
59745859 AAAAAATCAGATATCAAC
1 AAAAAATCACATCTCAAC
* *
59745877 AGAAAATCATATCTCAAC
1 AAAAAATCACATCTCAAC
59745895 AAAAAA
1 AAAAAA
59745901 ATCATAACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAAAATCACATCTCAAC
Found at i:59745916 original size:38 final size:36
Alignment explanation
Indices: 59745843--59745920 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
59745833 CTCAATAGAA
* * **
59745843 AAAATCACATCTCAACAAAAAATCAGATATCAACAG
1 AAAATCACATCTCAACAAAAAATCAAACAAAAACAG
*
59745879 AAAATCATATCTCAACAAAAAAATCATAACAAAAACAG
1 AAAATCACATCTCAAC-AAAAAATCA-AACAAAAACAG
59745917 AAAA
1 AAAA
59745921 AAATAAAGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 15 0.43
37 9 0.26
38 11 0.31
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (36 bp):
AAAATCACATCTCAACAAAAAATCAAACAAAAACAG
Found at i:59747571 original size:41 final size:41
Alignment explanation
Indices: 59747514--59747630 Score: 189
Period size: 41 Copynumber: 2.9 Consensus size: 41
59747504 NNNNNNNNNN
**
59747514 CCTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAA
1 CCTGATTCAGATCACCGGCACTTAGCCTGCTAGACTTATAA
*
59747555 CCTGATTCAGATCACCGGCACTTAGCCTGCTAGACTTATAG
1 CCTGATTCAGATCACCGGCACTTAGCCTGCTAGACTTATAA
* *
59747596 CCTGTTTCAGATCACTGGCACTTAGCCTGCTAGAC
1 CCTGATTCAGATCACCGGCACTTAGCCTGCTAGAC
59747631 GTAAAGTCTG
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (41 bp):
CCTGATTCAGATCACCGGCACTTAGCCTGCTAGACTTATAA
Found at i:59749247 original size:13 final size:13
Alignment explanation
Indices: 59749229--59749253 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59749219 GAATCAAATG
59749229 CACACAAAATAAA
1 CACACAAAATAAA
59749242 CACACAAAATAA
1 CACACAAAATAA
59749254 TATTAAAATT
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:59754409 original size:15 final size:15
Alignment explanation
Indices: 59754385--59754416 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
59754375 TATGCATGCA
*
59754385 AAATATAAAAGACAT
1 AAATACAAAAGACAT
59754400 AAATACAAAAGACAT
1 AAATACAAAAGACAT
59754415 AA
1 AA
59754417 TAGTGAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:59754761 original size:14 final size:15
Alignment explanation
Indices: 59754742--59754775 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
59754732 GTTAATTGTG
59754742 ATTAAGG-TTAAGTA
1 ATTAAGGTTTAAGTA
*
59754756 ATTAAGGTTTAATTA
1 ATTAAGGTTTAAGTA
59754771 ATTAA
1 ATTAA
59754776 TTTTTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (15 bp):
ATTAAGGTTTAAGTA
Found at i:59757094 original size:34 final size:32
Alignment explanation
Indices: 59756999--59757107 Score: 110
Period size: 34 Copynumber: 3.2 Consensus size: 32
59756989 GTTTTTGATA
59756999 AGTTTAGGGTTTTTTTAAAAAATAATTAAATTAG
1 AGTTTAGGG--TTTTTAAAAAATAATTAAATTAG
* * * *
59757033 ATTTTTGGGGTTTAAAATAAATTAATTAAATTAG
1 AGTTTAGGGTTTTTAAA-AAA-TAATTAAATTAG
* *
59757067 GGTTTAGGGTTTTTAAGAAAATCAATTAAATTAT
1 AGTTTAGGGTTTTTAA-AAAAT-AATTAAATTAG
59757101 AGTTTAG
1 AGTTTAG
59757108 TTTTTTTTTA
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
32 6 0.10
33 4 0.07
34 49 0.82
35 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.17, T:0.43
Consensus pattern (32 bp):
AGTTTAGGGTTTTTAAAAAATAATTAAATTAG
Found at i:59757398 original size:127 final size:125
Alignment explanation
Indices: 59757175--59757442 Score: 346
Period size: 127 Copynumber: 2.1 Consensus size: 125
59757165 AAACTTTTGT
* * *
59757175 TTTTTTTATAGTAGTT-TCTGAAAAAATAATTTTGAGAAGACAGTTTTGAAAAGTTATTATAAAA
1 TTTTTCTATAGTAGTTCTCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAGATATTATAAAA
** * *
59757239 TGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 CACTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGAAGCTC
*
59757299 TTTTTCTATAGTAGTTCT-TGAAAAAATAAATTTTGAGAAGACGGTTCTGAACAA-ATAGTGTCA
1 TTTTTCTATAGTAGTTCTCTGAAAAAAT-AATTTTGAGAAGACAGTTCTGAA-AAGATA-T-T-A
* * *
59757362 -AAAACACTTCAAGTAAGATGCACTGTCAGCAAAATTATTGGAAAAAGCTCCCACGTGGAAGCTC
61 TAAAACACTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGAAGCTC
* *
59757426 TTTTTCTACAATAGTTC
1 TTTTTCTATAGTAGTTC
59757443 CTGTTTAGCC
Statistics
Matches: 125, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
124 24 0.19
125 24 0.19
126 3 0.02
127 73 0.58
128 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (125 bp):
TTTTTCTATAGTAGTTCTCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAGATATTATAAAA
CACTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGAAGCTC
Found at i:59761003 original size:18 final size:18
Alignment explanation
Indices: 59760980--59761014 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
59760970 AAAATGAAAT
*
59760980 ATATAAGGGTTAGGATAC
1 ATATAAGGGCTAGGATAC
59760998 ATATAAGGGCTAGGATA
1 ATATAAGGGCTAGGATA
59761015 TGCACCTGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.06, G:0.29, T:0.26
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAC
Found at i:59762849 original size:15 final size:15
Alignment explanation
Indices: 59762825--59762856 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
59762815 TATGCATGCA
*
59762825 AAATATAAAAGACAT
1 AAATACAAAAGACAT
59762840 AAATACAAAAGACAT
1 AAATACAAAAGACAT
59762855 AA
1 AA
59762857 TAGTGAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:59763201 original size:14 final size:15
Alignment explanation
Indices: 59763182--59763215 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
59763172 GTTAATTGTG
59763182 ATTAAGG-TTAAGTA
1 ATTAAGGTTTAAGTA
*
59763196 ATTAAGGTTTAATTA
1 ATTAAGGTTTAAGTA
59763211 ATTAA
1 ATTAA
59763216 TTTTTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (15 bp):
ATTAAGGTTTAAGTA
Found at i:59765534 original size:34 final size:32
Alignment explanation
Indices: 59765439--59765547 Score: 110
Period size: 34 Copynumber: 3.2 Consensus size: 32
59765429 GTTTTTGATA
59765439 AGTTTAGGGTTTTTTTAAAAAATAATTAAATTAG
1 AGTTTAGGG--TTTTTAAAAAATAATTAAATTAG
* * * *
59765473 ATTTTTGGGGTTTAAAATAAATTAATTAAATTAG
1 AGTTTAGGGTTTTTAAA-AAA-TAATTAAATTAG
* *
59765507 GGTTTAGGGTTTTTAAGAAAATCAATTAAATTAT
1 AGTTTAGGGTTTTTAA-AAAAT-AATTAAATTAG
59765541 AGTTTAG
1 AGTTTAG
59765548 TTTTTTTTTA
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
32 6 0.10
33 4 0.07
34 49 0.82
35 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.17, T:0.43
Consensus pattern (32 bp):
AGTTTAGGGTTTTTAAAAAATAATTAAATTAG
Found at i:59765838 original size:127 final size:125
Alignment explanation
Indices: 59765615--59765882 Score: 346
Period size: 127 Copynumber: 2.1 Consensus size: 125
59765605 AAACTTTTGT
* * *
59765615 TTTTTTTATAGTAGTT-TCTGAAAAAATAATTTTGAGAAGACAGTTTTGAAAAGTTATTATAAAA
1 TTTTTCTATAGTAGTTCTCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAGATATTATAAAA
** * *
59765679 TGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 CACTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGAAGCTC
*
59765739 TTTTTCTATAGTAGTTCT-TGAAAAAATAAATTTTGAGAAGACGGTTCTGAACAA-ATAGTGTCA
1 TTTTTCTATAGTAGTTCTCTGAAAAAAT-AATTTTGAGAAGACAGTTCTGAA-AAGATA-T-T-A
* * *
59765802 -AAAACACTTCAAGTAAGATGCACTGTCAGCAAAATTATTGGAAAAAGCTCCCACGTGGAAGCTC
61 TAAAACACTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGAAGCTC
* *
59765866 TTTTTCTACAATAGTTC
1 TTTTTCTATAGTAGTTC
59765883 CTGTTTAGCC
Statistics
Matches: 125, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
124 24 0.19
125 24 0.19
126 3 0.02
127 73 0.58
128 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (125 bp):
TTTTTCTATAGTAGTTCTCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAGATATTATAAAA
CACTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGAAGCTC
Found at i:59769380 original size:18 final size:18
Alignment explanation
Indices: 59769357--59769391 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
59769347 AAAATGAAAT
*
59769357 ATATAAGGGTTAGGATAC
1 ATATAAGGGCTAGGATAC
59769375 ATATAAGGGCTAGGATA
1 ATATAAGGGCTAGGATA
59769392 TGCACCTGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.06, G:0.29, T:0.26
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAC
Found at i:59778878 original size:16 final size:19
Alignment explanation
Indices: 59778865--59778901 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
59778855 TTTTTAAAAA
59778865 TTAATTAATTTAAATTATAT
1 TTAATTAATTTAAA-TATAT
59778885 TTAATTAATTT-AATATA
1 TTAATTAATTTAAATATA
59778902 ATGATATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 2 0.12
20 11 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTAATTAATTTAAATATAT
Found at i:59778890 original size:10 final size:9
Alignment explanation
Indices: 59778865--59778903 Score: 51
Period size: 10 Copynumber: 4.0 Consensus size: 9
59778855 TTTTTAAAAA
59778865 TTAATTAAT
1 TTAATTAAT
59778874 TTAAATTATAT
1 TT-AATTA-AT
59778885 TTAATTAAT
1 TTAATTAAT
59778894 TTAATATAAT
1 TTAAT-TAAT
59778904 GATATATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.33
10 14 0.52
11 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TTAATTAAT
Found at i:59778891 original size:24 final size:24
Alignment explanation
Indices: 59778863--59778961 Score: 76
Period size: 24 Copynumber: 4.1 Consensus size: 24
59778853 TTTTTTTAAA
59778863 AATTAATTAATTTAAATTATATTT
1 AATTAATTAATTTAAATTATATTT
* * *
59778887 AATTAATTTAATAT-AATGATATATG
1 AATTAA-TTAATTTAAATTATAT-TT
* * * *
59778912 AAAT-ATAAATTTTAAATAATTTTT
1 AATTAATTAA-TTTAAATTATATTT
* *
59778936 AAGTAATTAATTTAAATTATTTTT
1 AATTAATTAATTTAAATTATATTT
59778960 AA
1 AA
59778962 AACTAATGAT
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
23 3 0.05
24 35 0.60
25 20 0.34
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (24 bp):
AATTAATTAATTTAAATTATATTT
Found at i:59780368 original size:107 final size:109
Alignment explanation
Indices: 59780177--59780387 Score: 320
Period size: 109 Copynumber: 2.0 Consensus size: 109
59780167 GTTAAACGAT
*
59780177 AAATCGAAACCCAGCACCTTAGGGCACGTCCCTCGAATTTCCAAACACAAAACATTGCCTTATTT
1 AAATCGAAACCCAGCACCTTAGGGCACGTCCCTCGAATTTCCAAACACAAAACATTACCTTATTT
* *
59780242 TGAAATTTTTAAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
66 TAAAATTTTTAAAAAGGATATTAAACCATTTGGTTGAACGAGAA
* * ** *
59780286 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTACC-TA-T
1 AAATCGAAACCCAGCACCTTAGGGCACG-TCCCTCGAATTTCCAAACACAAAACATTACCTTATT
59780349 TTAAAATTTTT-AAAAGGATATTAAACCATTTGGTTGAAC
65 TTAAAATTTTTAAAAAGGATATTAAACCATTTGGTTGAAC
59780388 ATATAAAAAT
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
107 27 0.29
108 11 0.12
109 28 0.30
110 27 0.29
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.28
Consensus pattern (109 bp):
AAATCGAAACCCAGCACCTTAGGGCACGTCCCTCGAATTTCCAAACACAAAACATTACCTTATTT
TAAAATTTTTAAAAAGGATATTAAACCATTTGGTTGAACGAGAA
Found at i:59783341 original size:124 final size:125
Alignment explanation
Indices: 59782568--59783328 Score: 1348
Period size: 125 Copynumber: 6.1 Consensus size: 125
59782558 GATTCGTCAT
* *
59782568 TGTGGCTTTAATCTTTTTAACTGCAATGTTGGAGAAACAAGATTCACCAATTTGGTTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
*
59782633 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAAATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
* *
59782693 TGTGGCTTTAATATTTTTAACTGTAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
* * *
59782758 TTTCACTGCACCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAAATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
* *
59782818 TGTGGCTTTAATATTTTTAACTGTAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
59782883 TTCCACTGCATCGCTTGGGGCGTAAGATTCGC-GTTGTAGCTTTTAATCAAGATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGC-TTTAATCAAGATTCACCGA
59782943 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
*
59783008 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATTAAGATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
59783068 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
* *
59783133 TTCCATTGCATCGCTT-GGGCGTAAGATTTGCTGTTGTAGCTTTAATCAAGATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
59783192 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
* *
59783257 TTCCATTGCATCGCTT-GGGCGTAAGATTTGCTGTTGTAGCTTTAATCAAGATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
*
59783316 GGTGGCTTTAATC
1 TGTGGCTTTAATC
59783329 GTTTGAATTG
Statistics
Matches: 618, Mismatches: 16, Indels: 5
0.97 0.03 0.01
Matches are distributed among these distances:
124 185 0.30
125 425 0.69
126 8 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (125 bp):
TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
Found at i:59784504 original size:21 final size:21
Alignment explanation
Indices: 59784478--59784524 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
59784468 GGTATAGCAG
59784478 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
59784499 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
59784520 GATCA
1 GATCA
59784525 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:59785330 original size:21 final size:21
Alignment explanation
Indices: 59785304--59785350 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
59785294 GGTATAGCAG
59785304 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
59785325 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
59785346 GATCA
1 GATCA
59785351 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:59785470 original size:16 final size:16
Alignment explanation
Indices: 59785435--59785480 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
59785425 TTAGCCTCTC
59785435 CATTTTT-A-CTTTTT
1 CATTTTTCATCTTTTT
59785449 CATTTTTCAT-TTTTT
1 CATTTTTCATCTTTTT
59785464 CATTTTTTCATCTTTTT
1 CA-TTTTTCATCTTTTT
59785481 TTTTTGGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.25
15 8 0.29
16 8 0.29
17 5 0.18
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (16 bp):
CATTTTTCATCTTTTT
Found at i:59785481 original size:10 final size:8
Alignment explanation
Indices: 59785444--59785480 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
59785434 CCATTTTTAC
59785444 TTTTTCA-
1 TTTTTCAT
59785451 TTTTTCAT
1 TTTTTCAT
59785459 TTTTTCAT
1 TTTTTCAT
59785467 TTTTTCAT
1 TTTTTCAT
59785475 CTTTTT
1 -TTTTT
59785481 TTTTTGGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.25
8 16 0.57
9 5 0.18
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTCAT
Found at i:59786298 original size:5 final size:6
Alignment explanation
Indices: 59786283--59786317 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
59786273 TAACCTCTCC
* *
59786283 TTTTTA TTTTTA TTTTTC TTTTTA TTTTTC TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
59786318 TCTTCTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:59786304 original size:12 final size:12
Alignment explanation
Indices: 59786283--59786317 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
59786273 TAACCTCTCC
*
59786283 TTTTTATTTTTA
1 TTTTTCTTTTTA
59786295 TTTTTCTTTTTA
1 TTTTTCTTTTTA
59786307 TTTTTCTTTTT
1 TTTTTCTTTTT
59786318 TCTTCTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTCTTTTTA
Found at i:59786305 original size:18 final size:18
Alignment explanation
Indices: 59786282--59786317 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
59786272 TTAACCTCTC
59786282 CTTTTTATTTTTATTTTT
1 CTTTTTATTTTTATTTTT
*
59786300 CTTTTTATTTTTCTTTTT
1 CTTTTTATTTTTATTTTT
59786318 TCTTCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (18 bp):
CTTTTTATTTTTATTTTT
Found at i:59786325 original size:10 final size:10
Alignment explanation
Indices: 59786295--59786338 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
59786285 TTTATTTTTA
59786295 TTTTTCTT-T
1 TTTTTCTTCT
59786304 TTATTT-TTCT
1 TT-TTTCTTCT
59786314 TTTTTCTTCT
1 TTTTTCTTCT
*
59786324 TTTTTCTCCT
1 TTTTTCTTCT
59786334 TTTTT
1 TTTTT
59786339 TTGACTTCGG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
9 7 0.23
10 24 0.77
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTCTTCT
Found at i:59786328 original size:12 final size:11
Alignment explanation
Indices: 59786283--59786377 Score: 50
Period size: 12 Copynumber: 8.5 Consensus size: 11
59786273 TAACCTCTCC
*
59786283 TTTTTATTTTT
1 TTTTTCTTTTT
59786294 ATTTTTCTTTTT
1 -TTTTTCTTTTT
59786306 ATTTTTC-TTTT
1 -TTTTTCTTTTT
*
59786317 TTCTTC-TTTT
1 TTTTTCTTTTT
* *
59786327 TTCTCCTTTTT
1 TTTTTCTTTTT
** **
59786338 TTTGACTTCGGT
1 TTTTTCTT-TTT
*
59786350 TTTTTATTTTT
1 TTTTTCTTTTT
*
59786361 GTTTTTGTTTTT
1 -TTTTTCTTTTT
59786373 TTTTT
1 TTTTT
59786378 GAGTCTGAAC
Statistics
Matches: 66, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
10 14 0.21
11 19 0.29
12 33 0.50
ACGTcount: A:0.05, C:0.09, G:0.05, T:0.80
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:59786336 original size:19 final size:19
Alignment explanation
Indices: 59786282--59786337 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
59786272 TTAACCTCTC
**
59786282 CTTTTTATTT-TTATTTTT
1 CTTTTTATTTCTCCTTTTT
* *
59786300 CTTTTTATTTTTCTTTTTT
1 CTTTTTATTTCTCCTTTTT
59786319 CTTCTTT-TTTCTCCTTTTT
1 CTT-TTTATTTCTCCTTTTT
59786338 TTTGACTTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 10 0.31
19 19 0.59
20 3 0.09
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.80
Consensus pattern (19 bp):
CTTTTTATTTCTCCTTTTT
Found at i:59788684 original size:273 final size:275
Alignment explanation
Indices: 59788172--59788720 Score: 895
Period size: 273 Copynumber: 2.0 Consensus size: 275
59788162 TGTATGTGAG
* *
59788172 AAACCTTCTTTGGTACCAGATTTCTTTCATAGAGCCCTTTTGGGACGCAACTAAGACAGAAAACT
1 AAACCTTCTTTGATACCAGATTTCTTTCATAGAGCCCTTTTAGGACGCAACTAAGACAGAAAACT
* *
59788237 TTTGGATCTTCCTCTTTAATCCGGACAAAATCCAACAACATCTTGAAGGGATGGAAACTCAACTT
66 TTTAGATCTTCCTCTTTAATCAGGACAAAATCCAACAACATCTTGAAGGGATGGAAACTCAACTT
* *
59788302 CAAATGGGCAAAGCTATTGCAGACTCAACGAGAGAGGCATTGCCCCGGTAAAGAATTGCATCATT
131 CAAATGGGCAAAGCTATTGCAGACTCAACGAGAGAGGCATTGCCCCGGCAAAGAATTACATCATT
* * * *
59788367 CGTACTGTAAATTTCTGACATCGTGCTGTTGTACAGGCTTTATTATAAGAATTGAGGCATACCCT
196 CGCACTGCAAATTTCTGACATCATGCTGTTGTACAGACTTTATTATAAGAATTGAGGCATACCCT
59788432 GGTATGATCATACAA
261 GGTATGATCATACAA
*
59788447 AAACCTTCTTTGATACCAGATTTCTTTCATAGAGCCCTTTTAGGACGCAACTACGACAGAAAAC-
1 AAACCTTCTTTGATACCAGATTTCTTTCATAGAGCCCTTTTAGGACGCAACTAAGACAGAAAACT
* * * **
59788511 TTTAGATCTTCCTCTTTAATCAGGATAAAATCCAGCAACATCTTGAAGGGATGGGAACTTGACTT
66 TTTAGATCTTCCTCTTTAATCAGGACAAAATCCAACAACATCTTGAAGGGATGGAAACTCAACTT
* *
59788576 CAAATGGGCAAAGCTA-TGCTGACTCAACGAGAGAGGCATTGCCCCGGCAAAGAATTACATCGTT
131 CAAATGGGCAAAGCTATTGCAGACTCAACGAGAGAGGCATTGCCCCGGCAAAGAATTACATCATT
* * *
59788640 CGCACTGCAAATTTCTGACATCATGCTGTTGTGCAGATTTTATTATAAGAATTGAGGCATATCCT
196 CGCACTGCAAATTTCTGACATCATGCTGTTGTACAGACTTTATTATAAGAATTGAGGCATACCCT
59788705 GGTATGATCATACAA
261 GGTATGATCATACAA
59788720 A
1 A
59788721 GACATCTTTG
Statistics
Matches: 253, Mismatches: 21, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
273 118 0.47
274 74 0.29
275 61 0.24
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (275 bp):
AAACCTTCTTTGATACCAGATTTCTTTCATAGAGCCCTTTTAGGACGCAACTAAGACAGAAAACT
TTTAGATCTTCCTCTTTAATCAGGACAAAATCCAACAACATCTTGAAGGGATGGAAACTCAACTT
CAAATGGGCAAAGCTATTGCAGACTCAACGAGAGAGGCATTGCCCCGGCAAAGAATTACATCATT
CGCACTGCAAATTTCTGACATCATGCTGTTGTACAGACTTTATTATAAGAATTGAGGCATACCCT
GGTATGATCATACAA
Found at i:59794474 original size:31 final size:28
Alignment explanation
Indices: 59794439--59794515 Score: 68
Period size: 31 Copynumber: 2.6 Consensus size: 28
59794429 TTTTGCTATT
59794439 ATATTGCTACTATTTTATTGTTATTGTTTGA
1 ATATTGCTACTATTTTATT-TTATTG-TT-A
*
59794470 ATATTG-TA-TAACTCTTGATTTTATTGTTA
1 ATATTGCTACT-A-T-TTTATTTTATTGTTA
*
59794499 ATTTTGCTACTATTTTA
1 ATATTGCTACTATTTTA
59794516 GAGACATTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
28 3 0.08
29 8 0.21
30 8 0.21
31 14 0.37
32 5 0.13
ACGTcount: A:0.25, C:0.08, G:0.10, T:0.57
Consensus pattern (28 bp):
ATATTGCTACTATTTTATTTTATTGTTA
Found at i:59795173 original size:45 final size:46
Alignment explanation
Indices: 59795124--59795214 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 46
59795114 ATATTGTATA
59795124 ACTCTTGATTTTATTGTTAATTTTGCTACTATTTT-GAGACATTTG
1 ACTCTTGATTTTATTGTTAATTTTGCTACTATTTTAGAGACATTTG
59795169 ACTCTTGATTTTATTGTTAATTTTGCTACTATTTTAGAGACATTTG
1 ACTCTTGATTTTATTGTTAATTTTGCTACTATTTTAGAGACATTTG
59795215 CTTACTAAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 35 0.78
46 10 0.22
ACGTcount: A:0.23, C:0.11, G:0.13, T:0.53
Consensus pattern (46 bp):
ACTCTTGATTTTATTGTTAATTTTGCTACTATTTTAGAGACATTTG
Found at i:59798465 original size:3 final size:3
Alignment explanation
Indices: 59798452--59798482 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
59798442 TTTATGAATA
59798452 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
59798483 TATTCATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:59809025 original size:31 final size:31
Alignment explanation
Indices: 59808990--59809053 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
59808980 ATACTCACCT
* * * *
59808990 AATTATGCCTTTGGTTTTATTTTAGTCACTC
1 AATTATACCTTTAGTTCTATTTTAGTAACTC
*
59809021 AATTATACCTTTAGTTCTATTTTGGTAACTC
1 AATTATACCTTTAGTTCTATTTTAGTAACTC
59809052 AA
1 AA
59809054 CTATTATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (31 bp):
AATTATACCTTTAGTTCTATTTTAGTAACTC
Found at i:59815244 original size:16 final size:15
Alignment explanation
Indices: 59815223--59815288 Score: 50
Period size: 16 Copynumber: 4.5 Consensus size: 15
59815213 CATCTCATAA
59815223 TCATTTCTCATATTT
1 TCATTTCTCATATTT
*
59815238 GTCATTTC-AATATTT
1 -TCATTTCTCATATTT
*
59815253 TC-TCATCTCATA--T
1 TCAT-TTCTCATATTT
*
59815266 TCATTTCTCATCTTT
1 TCATTTCTCATATTT
59815281 GTCATTTC
1 -TCATTTC
59815289 AATATCAATC
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
13 10 0.26
14 5 0.13
15 10 0.26
16 14 0.36
ACGTcount: A:0.20, C:0.23, G:0.03, T:0.55
Consensus pattern (15 bp):
TCATTTCTCATATTT
Found at i:59815258 original size:43 final size:43
Alignment explanation
Indices: 59815208--59815293 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
59815198 TCATATCTTA
59815208 TTTCTCATCTCATAATCATTTCTCATATTTGTCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGTCATTTCAATAT
* *
59815251 TTTCTCATCTCATATTCATTTCTCATCTTTGTCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGTCATTTCAATAT
59815294 CAATCACATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.23, C:0.22, G:0.02, T:0.52
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATATTTGTCATTTCAATAT
Found at i:59816482 original size:12 final size:12
Alignment explanation
Indices: 59816460--59816494 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
59816450 ATTATGTTTT
59816460 TCATT-TTATTA
1 TCATTATTATTA
*
59816471 TCTTTATTATTA
1 TCATTATTATTA
59816483 TCATTATTATTA
1 TCATTATTATTA
59816495 AAGTTACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (12 bp):
TCATTATTATTA
Found at i:59817106 original size:2 final size:2
Alignment explanation
Indices: 59817099--59817130 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
59817089 AGTTATTTAC
59817099 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
59817131 TAGTTTAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59820454 original size:25 final size:26
Alignment explanation
Indices: 59820343--59820452 Score: 88
Period size: 24 Copynumber: 4.5 Consensus size: 26
59820333 CGCAGCTCTT
* *
59820343 ATGAGCATCCCGATTA-ATGGCTCTC
1 ATGAGCTTCCCGATTACATGGCTCAC
** * *
59820368 CGGAGCTTCCAGA-TA-TTGGCTCAC
1 ATGAGCTTCCCGATTACATGGCTCAC
* * **
59820392 TTGAACTTCCCGATTAC--GGCTCTT
1 ATGAGCTTCCCGATTACATGGCTCAC
59820416 ATGAGCTTCCCG-TTACATGGCTCAC
1 ATGAGCTTCCCGATTACATGGCTCAC
59820441 ATGAGCTTCCCG
1 ATGAGCTTCCCG
59820453 TTTTATGGCT
Statistics
Matches: 65, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
23 4 0.06
24 33 0.51
25 28 0.43
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.29
Consensus pattern (26 bp):
ATGAGCTTCCCGATTACATGGCTCAC
Found at i:59820460 original size:25 final size:25
Alignment explanation
Indices: 59820384--59820480 Score: 81
Period size: 25 Copynumber: 3.9 Consensus size: 25
59820374 TTCCAGATAT
* * *
59820384 TGGCTCACTTGAACTTCCCG-ATTA
1 TGGCTCACATGAGCTTCCCGTTTTA
* ** **
59820408 CGGCTCTTATGAGCTTCCCGTTACA
1 TGGCTCACATGAGCTTCCCGTTTTA
59820433 TGGCTCACATGAGCTTCCCGTTTTA
1 TGGCTCACATGAGCTTCCCGTTTTA
* *
59820458 TGGCTCGA-AAGAGCTTCTCGTTT
1 TGGCTC-ACATGAGCTTCCCGTTT
59820481 ACATGTTTGC
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
24 15 0.27
25 40 0.71
26 1 0.02
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.34
Consensus pattern (25 bp):
TGGCTCACATGAGCTTCCCGTTTTA
Found at i:59824622 original size:18 final size:18
Alignment explanation
Indices: 59824601--59824635 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
59824591 ACAATTCAAA
*
59824601 AAATAAAAATAGATAAAT
1 AAATAAAAATACATAAAT
59824619 AAATAAAAATACATAAA
1 AAATAAAAATACATAAA
59824636 CAAACTCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (18 bp):
AAATAAAAATACATAAAT
Found at i:59824769 original size:18 final size:18
Alignment explanation
Indices: 59824748--59824782 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
59824738 ACAATTCAAA
*
59824748 AAATAAAAATAGATAAAT
1 AAATAAAAATACATAAAT
59824766 AAATAAAAATACATAAA
1 AAATAAAAATACATAAA
59824783 CAAACTCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (18 bp):
AAATAAAAATACATAAAT
Found at i:59824788 original size:147 final size:148
Alignment explanation
Indices: 59824521--59824817 Score: 587
Period size: 147 Copynumber: 2.0 Consensus size: 148
59824511 TGTGTATTTG
59824521 ATGTTGATATGGTATTGTATGTCTTATAAATCACGTCAACAAATAATCTAAAAATTATAAAATAC
1 ATGTTGATATGGTATTGTATGTCTTATAAATCACGTCAACAAATAATCTAAAAATTATAAAATAC
59824586 TCAAAACAATTCAAAAAATAAAAATAGATAAATAAATAAAAATACATAAACAAACTCTAACCTTC
66 TCAAAACAATTCAAAAAATAAAAATAGATAAATAAATAAAAATACATAAACAAACTCTAACCTTC
59824651 ATGTAGTAA-GAATAATA
131 ATGTAGTAAGGAATAATA
59824668 ATGTTGATATGGTATTGTATGTCTTATAAATCACGTCAACAAATAATCTAAAAATTATAAAATAC
1 ATGTTGATATGGTATTGTATGTCTTATAAATCACGTCAACAAATAATCTAAAAATTATAAAATAC
59824733 TCAAAACAATTCAAAAAATAAAAATAGATAAATAAATAAAAATACATAAACAAACTCTAACCTTC
66 TCAAAACAATTCAAAAAATAAAAATAGATAAATAAATAAAAATACATAAACAAACTCTAACCTTC
59824798 ATGTAGTAAGGAATAATA
131 ATGTAGTAAGGAATAATA
59824816 AT
1 AT
59824818 AATAATAATA
Statistics
Matches: 149, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
147 139 0.93
148 10 0.07
ACGTcount: A:0.52, C:0.11, G:0.08, T:0.29
Consensus pattern (148 bp):
ATGTTGATATGGTATTGTATGTCTTATAAATCACGTCAACAAATAATCTAAAAATTATAAAATAC
TCAAAACAATTCAAAAAATAAAAATAGATAAATAAATAAAAATACATAAACAAACTCTAACCTTC
ATGTAGTAAGGAATAATA
Found at i:59824817 original size:3 final size:3
Alignment explanation
Indices: 59824809--59824858 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
59824799 TGTAGTAAGG
59824809 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
59824857 AA
1 AA
59824859 ACAAATTCTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:59825382 original size:21 final size:20
Alignment explanation
Indices: 59825345--59825383 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
59825335 ATATAAAATA
* *
59825345 AACTAATTTAAATTATATTC
1 AACTAAATTAAAATATATTC
59825365 AACTAAATTAATAATATAT
1 AACTAAATTAA-AATATAT
59825384 GAAATATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
AACTAAATTAAAATATATTC
Found at i:59825759 original size:19 final size:19
Alignment explanation
Indices: 59825723--59825760 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
59825713 AATAACCCGA
*
59825723 AGCCCAACAAGCCTAAGAC
1 AGCCCAACAAGCCCAAGAC
59825742 AGCCCAAC-AGACCCAAGAC
1 AGCCCAACAAG-CCCAAGAC
59825761 CAAATGTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.42, C:0.39, G:0.16, T:0.03
Consensus pattern (19 bp):
AGCCCAACAAGCCCAAGAC
Found at i:59826942 original size:393 final size:393
Alignment explanation
Indices: 59826213--59827003 Score: 1575
Period size: 393 Copynumber: 2.0 Consensus size: 393
59826203 CTCTCCTCCG
59826213 TTGC-CCGATTTGGGTCTAAAGGCGTTGACGGTCTCCCTTTCGTTTCGCTTCTCGTGGGTTGAGA
1 TTGCGCCGATTTGGGTCTAAAGGCGTTGACGGTCTCCCTTTCGTTTCGCTTCTCGTGGGTTGAGA
59826277 GAGCTTGGCTCTCAAGGACACCGCAAAAGGGGTTAAAACCCAGTCTTGCACCACTGCCCGTCGAC
66 GAGCTTGGCTCTCAAGGACACCGCAAAAGGGGTTAAAACCCAGTCTTGCACCACTGCCCGTCGAC
59826342 CTTGGTGGCGGCGTGGTCCTCCGATCGGAGAAGGTGAGGGGAAAGGAGAGAAAAGGGAGGCTTAG
131 CTTGGTGGCGGCGTGGTCCTCCGATCGGAGAAGGTGAGGGGAAAGGAGAGAAAAGGGAGGCTTAG
59826407 GGTTTTTAGTTTCAGTTTTTTTGGGTAAAAGGGGCTGAAAATGGAAGAAAAAGAAACTTTTTGGG
196 GGTTTTTAGTTTCAGTTTTTTTGGGTAAAAGGGGCTGAAAATGGAAGAAAAAGAAACTTTTTGGG
59826472 TTTAAATAATAAAGGGAAAACGACGCCATTTTGGGGGTTGGGTTCAGAGGCCAAACGGCGTCGTT
261 TTTAAATAATAAAGGGAAAACGACGCCATTTTGGGGGTTGGGTTCAGAGGCCAAACGGCGTCGTT
59826537 TTGGACCTCTGACCTGCGACCCTACCCAGCAGTCCACAGGATCCGCGTGTTTGCGGTGAATGGGC
326 TTGGACCTCTGACCTGCGACCCTACCCAGCAGTCCACAGGATCCGCGTGTTTGCGGTGAATGGGC
59826602 TTT
391 TTT
59826605 TTGCGCCGATTTGGGTCTAAAGGCGTTGACGGTCTCCCTTTCGTTTCGCTTCTCGTGGGTTGAGA
1 TTGCGCCGATTTGGGTCTAAAGGCGTTGACGGTCTCCCTTTCGTTTCGCTTCTCGTGGGTTGAGA
59826670 GAGCTTGGCTCTCAAGGACACCGCAAAAGGGGTTAAAACCCAGTCTTGCACCACTGCCCGTCGAC
66 GAGCTTGGCTCTCAAGGACACCGCAAAAGGGGTTAAAACCCAGTCTTGCACCACTGCCCGTCGAC
59826735 CTTGGTGGCGGCGTGGTCCTCCGATCGGAGAAGGTGAGGGGAAAGGAGAGAAAAGGGAGGCTTAG
131 CTTGGTGGCGGCGTGGTCCTCCGATCGGAGAAGGTGAGGGGAAAGGAGAGAAAAGGGAGGCTTAG
59826800 GGTTTTTAGTTTCAGTTTTTTTGGGTAAAAGGGGCTGAAAATGGAAGAAAAAGAAACTTTTTGGG
196 GGTTTTTAGTTTCAGTTTTTTTGGGTAAAAGGGGCTGAAAATGGAAGAAAAAGAAACTTTTTGGG
59826865 TTTAAATAATAAAGGGAAAACGACGCCATTTTGGGGGTTGGGTTCAGAGGCCAAACGGCGTCGTT
261 TTTAAATAATAAAGGGAAAACGACGCCATTTTGGGGGTTGGGTTCAGAGGCCAAACGGCGTCGTT
59826930 TTGGACCTCTGACCTGCGACCCTACCCAGCAGTCCACAGGATCCGCGTGTTTGCGGTGAATGGGC
326 TTGGACCTCTGACCTGCGACCCTACCCAGCAGTCCACAGGATCCGCGTGTTTGCGGTGAATGGGC
59826995 TTT
391 TTT
59826998 TTGCGC
1 TTGCGC
59827004 GTTTGGTCCC
Statistics
Matches: 398, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
392 4 0.01
393 394 0.99
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (393 bp):
TTGCGCCGATTTGGGTCTAAAGGCGTTGACGGTCTCCCTTTCGTTTCGCTTCTCGTGGGTTGAGA
GAGCTTGGCTCTCAAGGACACCGCAAAAGGGGTTAAAACCCAGTCTTGCACCACTGCCCGTCGAC
CTTGGTGGCGGCGTGGTCCTCCGATCGGAGAAGGTGAGGGGAAAGGAGAGAAAAGGGAGGCTTAG
GGTTTTTAGTTTCAGTTTTTTTGGGTAAAAGGGGCTGAAAATGGAAGAAAAAGAAACTTTTTGGG
TTTAAATAATAAAGGGAAAACGACGCCATTTTGGGGGTTGGGTTCAGAGGCCAAACGGCGTCGTT
TTGGACCTCTGACCTGCGACCCTACCCAGCAGTCCACAGGATCCGCGTGTTTGCGGTGAATGGGC
TTT
Found at i:59827761 original size:12 final size:12
Alignment explanation
Indices: 59827744--59827783 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
59827734 TTTCATACCT
59827744 TATATATTTTTA
1 TATATATTTTTA
59827756 TATATATTTTT-
1 TATATATTTTTA
59827767 T-TA-ATTTTTCA
1 TATATATTTTT-A
59827778 TATATA
1 TATATA
59827784 CATACTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.25
10 2 0.08
11 2 0.08
12 13 0.54
13 1 0.04
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
TATATATTTTTA
Found at i:59827830 original size:6 final size:6
Alignment explanation
Indices: 59827819--59827846 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
59827809 CTTACACTTT
59827819 ATATAC ATATAC ATATAC ATATAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATAT
59827847 CTTTTACCTT
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:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAC
Found at i:59829881 original size:18 final size:19
Alignment explanation
Indices: 59829855--59829890 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
59829845 TTATACTTTT
*
59829855 AATTAAATTTAATTTTAAA
1 AATTAAATTAAATTTTAAA
59829874 AATT-AATTAAATTTTAA
1 AATTAAATTAAATTTTAA
59829891 TGTATCATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTAAATTAAATTTTAAA
Found at i:59834704 original size:22 final size:22
Alignment explanation
Indices: 59834655--59834698 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
59834645 TACATAAAAA
59834655 AAAAAGGGAATATTTATTCTTT
1 AAAAAGGGAATATTTATTCTTT
59834677 AAAAAGGGAATATTTATTCTTT
1 AAAAAGGGAATATTTATTCTTT
59834699 TTAAAGAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (22 bp):
AAAAAGGGAATATTTATTCTTT
Found at i:59838243 original size:24 final size:22
Alignment explanation
Indices: 59838216--59838264 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
59838206 GATAGTATTT
*
59838216 TATTAATTTAATATTAATATGAAA
1 TATTAAATTAA-ATTAA-ATGAAA
*
59838240 TATTAAATTAAATTAAATTAAA
1 TATTAAATTAAATTAAATGAAA
59838262 TAT
1 TAT
59838265 GAGATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
23 5 0.22
24 10 0.43
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
TATTAAATTAAATTAAATGAAA
Found at i:59838243 original size:29 final size:29
Alignment explanation
Indices: 59838154--59838276 Score: 117
Period size: 29 Copynumber: 4.2 Consensus size: 29
59838144 ATAATATTTT
*
59838154 TTTAATGAATTTAATATTAATATGAAATA
1 TTTAATTAATTTAATATTAATATGAAATA
* * *
59838183 TTGAATTTAATTTAAT-TT-ATCTAGATAGTA
1 TTTAA-TTAATTTAATATTAATAT-GA-AATA
*
59838213 TTTTATTAATTTAATATTAATATGAAATA
1 TTTAATTAATTTAATATTAATATGAAATA
* * *
59838242 TTAAATTAAATTAA-ATTAAATATGAGATA
1 TTTAATTAATTTAATATT-AATATGAAATA
59838271 TTTAAT
1 TTTAAT
59838277 CTAAACTCTC
Statistics
Matches: 75, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
28 6 0.08
29 47 0.63
30 19 0.25
31 3 0.04
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.47
Consensus pattern (29 bp):
TTTAATTAATTTAATATTAATATGAAATA
Found at i:59845830 original size:23 final size:23
Alignment explanation
Indices: 59845804--59845849 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
59845794 ACACTTTTAC
59845804 CCTTTTAATAGTTATATATACAA
1 CCTTTTAATAGTTATATATACAA
59845827 CCTTTTAATAGTTATATATACAA
1 CCTTTTAATAGTTATATATACAA
59845850 GGGTAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.43
Consensus pattern (23 bp):
CCTTTTAATAGTTATATATACAA
Found at i:59846526 original size:19 final size:19
Alignment explanation
Indices: 59846502--59846548 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
59846492 ACACATAAGC
* *
59846502 ATTTAATTGTTTTTAAAAA
1 ATTTAATTGATATTAAAAA
*
59846521 ATTTAAATGATATTAAAAA
1 ATTTAATTGATATTAAAAA
59846540 ATTATAATT
1 ATT-TAATT
59846549 AAAAAAAACG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (19 bp):
ATTTAATTGATATTAAAAA
Found at i:59852727 original size:18 final size:19
Alignment explanation
Indices: 59852702--59852740 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
59852692 ACATTTAATT
59852702 ATTTTTTTTAAAATTTCTA
1 ATTTTTTTTAAAATTTCTA
59852721 ATTTTTTTTAAAATTTCTA
1 ATTTTTTTTAAAATTTCTA
59852740 A
1 A
59852741 AAGAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTTTTTAAAATTTCTA
Found at i:59863032 original size:31 final size:31
Alignment explanation
Indices: 59862952--59863043 Score: 100
Period size: 31 Copynumber: 3.1 Consensus size: 31
59862942 ATTTTCAAGA
*
59862952 TTTGGGGTCCAATTAAAATTTTC-AAAC-TT
1 TTTGGGGTCTAATTAAAATTTTCAAAACATT
* * * ** *
59862981 TTTGTGATTTAACGAGAATTTTCAAAACATT
1 TTTGGGGTCTAATTAAAATTTTCAAAACATT
59863012 TTTGGGGTCTAATTAAAATTTTCAAAA-ATT
1 TTTGGGGTCTAATTAAAATTTTCAAAACATT
59863042 TT
1 TT
59863044 AATTTTGGGG
Statistics
Matches: 48, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
29 16 0.33
30 9 0.19
31 23 0.48
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (31 bp):
TTTGGGGTCTAATTAAAATTTTCAAAACATT
Found at i:59867703 original size:18 final size:18
Alignment explanation
Indices: 59867680--59867715 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
59867670 TACAACAGTT
*
59867680 TCATCAACAGCATCATCA
1 TCATCAACAACATCATCA
59867698 TCATCAACAACATCATCA
1 TCATCAACAACATCATCA
59867716 AAACCAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.33, G:0.03, T:0.22
Consensus pattern (18 bp):
TCATCAACAACATCATCA
Found at i:59873233 original size:2 final size:2
Alignment explanation
Indices: 59873226--59873253 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
59873216 ACAACCATGC
59873226 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
59873254 CCTTTCCCAT
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:59876282 original size:14 final size:14
Alignment explanation
Indices: 59876263--59876320 Score: 71
Period size: 14 Copynumber: 4.1 Consensus size: 14
59876253 TTTTTTTACC
*
59876263 TAAATCTTGAACCT
1 TAAATCTTAAACCT
*
59876277 TAAATCTCAAACCT
1 TAAATCTTAAACCT
*
59876291 TAAATTTTAAACCT
1 TAAATCTTAAACCT
*
59876305 TATATCTTGAAACCT
1 TAAATCTT-AAACCT
59876320 T
1 T
59876321 GGATCCTCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 30 0.81
15 7 0.19
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (14 bp):
TAAATCTTAAACCT
Found at i:59880763 original size:129 final size:130
Alignment explanation
Indices: 59880609--59880879 Score: 508
Period size: 129 Copynumber: 2.1 Consensus size: 130
59880599 GTATATATAT
59880609 TTTAATTAGTTATGATCCAACCAGATAGCTAAATTATAATTCCATAATTATTACGAGTTTCTATC
1 TTTAA-TA-TTATGATCCAACCAGATAGCTAAATTATAATTCCATAATTATTACGAGTTTCTATC
*
59880674 GTTATATCCATCTAAAAAAACCCCTTAAACCAGATATTGCATTTTTTAATTATAATAACATTTT-
64 GTTATATCCATCTAAAAAAACCCCTTAAACCAGATATTGCATTTTTTAATTATAATAAAATTTTA
59880738 AA
129 AA
59880740 TTTAATATTATGATCCAACCAGATAGCTAAATTATAATTCCATAATTATTACGAGTTTCTATCGT
1 TTTAATATTATGATCCAACCAGATAGCTAAATTATAATTCCATAATTATTACGAGTTTCTATCGT
59880805 TATATCCATCTAAAAAAACCCCTTAAACCAGATATTGCATTTTTTAATTATAATAAAATTTTAAA
66 TATATCCATCTAAAAAAACCCCTTAAACCAGATATTGCATTTTTTAATTATAATAAAATTTTAAA
59880870 TTTAATATTA
1 TTTAATATTA
59880880 AATAAAAATT
Statistics
Matches: 138, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
129 119 0.86
130 14 0.10
131 5 0.04
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (130 bp):
TTTAATATTATGATCCAACCAGATAGCTAAATTATAATTCCATAATTATTACGAGTTTCTATCGT
TATATCCATCTAAAAAAACCCCTTAAACCAGATATTGCATTTTTTAATTATAATAAAATTTTAAA
Found at i:59902587 original size:80 final size:80
Alignment explanation
Indices: 59902489--59902642 Score: 299
Period size: 80 Copynumber: 1.9 Consensus size: 80
59902479 AGAAGGCTGT
*
59902489 TGTGTGTGTATATATAATAAAGTTAAAAGGAGAAGAAGGCCATTTGTGGGTGCATTTAGATTGAG
1 TGTGTGTATATATATAATAAAGTTAAAAGGAGAAGAAGGCCATTTGTGGGTGCATTTAGATTGAG
59902554 TCAGTTGTTTGTGTG
66 TCAGTTGTTTGTGTG
59902569 TGTGTGTATATATATAATAAAGTTAAAAGGAGAAGAAGGCCATTTGTGGGTGCATTTAGATTGAG
1 TGTGTGTATATATATAATAAAGTTAAAAGGAGAAGAAGGCCATTTGTGGGTGCATTTAGATTGAG
59902634 TCAGTTGTT
66 TCAGTTGTT
59902643 GGTACGTTTA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.36
Consensus pattern (80 bp):
TGTGTGTATATATATAATAAAGTTAAAAGGAGAAGAAGGCCATTTGTGGGTGCATTTAGATTGAG
TCAGTTGTTTGTGTG
Found at i:59908090 original size:110 final size:110
Alignment explanation
Indices: 59907886--59908090 Score: 236
Period size: 110 Copynumber: 1.9 Consensus size: 110
59907876 TAATATTCAA
* *
59907886 ATATAAAACTAAATACCCAAATATAAAATAACTCAATGCAATTAATTAAATTAATCTAAATATAA
1 ATATAAAACTAAATACCCAAATATAAAAGAACCCAATGCAATTAATTAAATTAATCTAAATATAA
* * *** *
59907951 ATTTTCGATAAATTTATTTAGATAAATATATATTTAAATGTTTTAC
66 AATTTCGAT-AATCTAGAAAAATAAATATATATTTAAATGTTTTAC
* * * *
59907997 ATATAAAA-TTAATACCCAAATATAAAAGATCCCAACT-CAATTAATTAAATTAATTTAAGTATA
1 ATATAAAACTAAATACCCAAATATAAAAGAACCCAA-TGCAATTAATTAAATTAATCTAAATATA
*
59908060 AAATTTCGAT-ATCTACCGAAAAATATATATA
65 AAATTTCGATAATCTA--GAAAAATAAATATA
59908091 AATTCGATAA
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
108 4 0.05
110 65 0.83
111 9 0.12
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.35
Consensus pattern (110 bp):
ATATAAAACTAAATACCCAAATATAAAAGAACCCAATGCAATTAATTAAATTAATCTAAATATAA
AATTTCGATAATCTAGAAAAATAAATATATATTTAAATGTTTTAC
Found at i:59912917 original size:17 final size:18
Alignment explanation
Indices: 59912895--59912937 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
59912885 AAAAATTTAG
59912895 ATTTAATAT-TTTCTATA
1 ATTTAATATCTTTCTATA
* *
59912912 ATTTAATTTCTTTTTATA
1 ATTTAATATCTTTCTATA
*
59912930 TTTTAATA
1 ATTTAATA
59912938 AATTTTTTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTAATATCTTTCTATA
Found at i:59921104 original size:31 final size:31
Alignment explanation
Indices: 59921069--59921128 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
59921059 ATTAATAGAT
*
59921069 TTTTTTAGATT-AGTCATCCCCAAACTATTTC
1 TTTTTTA-ATTAAATCATCCCCAAACTATTTC
* *
59921100 TTTTTTATTTAAATCGTCCCCAAACTATT
1 TTTTTTAATTAAATCATCCCCAAACTATT
59921129 AAATGAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.27, C:0.22, G:0.05, T:0.47
Consensus pattern (31 bp):
TTTTTTAATTAAATCATCCCCAAACTATTTC
Found at i:59927278 original size:48 final size:48
Alignment explanation
Indices: 59927223--59927320 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
59927213 AAAAGAAAAA
* *
59927223 GAAAATACAATTAAAGGTTTGGAAGATGACAATGGAGTATGGATAAAT
1 GAAAATACAATTAAAGGCTTGGAAGATGACAATGAAGTATGGATAAAT
59927271 GAAAATACAATTAAAGGCTTGGAAGATGACAATGAAGTATGGATAAAT
1 GAAAATACAATTAAAGGCTTGGAAGATGACAATGAAGTATGGATAAAT
59927319 GA
1 GA
59927321 TGATGAATGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.47, C:0.05, G:0.24, T:0.23
Consensus pattern (48 bp):
GAAAATACAATTAAAGGCTTGGAAGATGACAATGAAGTATGGATAAAT
Found at i:59931417 original size:23 final size:23
Alignment explanation
Indices: 59931343--59931420 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
59931333 TGATAAGATT
* *
59931343 CTGTCCAAATTGGTGCTTAATTG
1 CTGTCCAAATTAGTGCTTAAATG
** * * *
59931366 CTGTCCATTTTTGAGCATATTAATG
1 CTGTCCAAATTAGTGC-T-TAAATG
59931391 CTGTCCAAATTAGTGCTTAAATG
1 CTGTCCAAATTAGTGCTTAAATG
59931414 CTGTCCA
1 CTGTCCA
59931421 TATTTTTTTG
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
23 24 0.57
24 2 0.05
25 16 0.38
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.38
Consensus pattern (23 bp):
CTGTCCAAATTAGTGCTTAAATG
Found at i:59931460 original size:100 final size:99
Alignment explanation
Indices: 59931344--59931525 Score: 285
Period size: 100 Copynumber: 1.8 Consensus size: 99
59931334 GATAAGATTC
* *
59931344 TGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTGAGCATATTAATGC-TGTCCAAATTAGTGCT
1 TGTCCAAATTGATGCTTAATTGCTGTCCATTTTTGAGCACATTAAT-CTTGTCCAAATTAGTGCT
59931408 TAAATGCTGTCCATATTTTTTTGAGCATATTAATGT
65 TAAATGCTGTCCAT-TTTTTTTGAGCATATTAATGT
* * * *
59931444 TGTCCAAATTGATGCTTAATTGTTGTCCATTTTTTAGTACATTAATCTTGTCCAAATTGGTGCTT
1 TGTCCAAATTGATGCTTAATTGCTGTCCATTTTTGAGCACATTAATCTTGTCCAAATTAGTGCTT
59931509 AAATGCTGTCCATTTTT
66 AAATGCTGTCCATTTTT
59931526 GTACAAATCA
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
99 5 0.07
100 70 0.93
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (99 bp):
TGTCCAAATTGATGCTTAATTGCTGTCCATTTTTGAGCACATTAATCTTGTCCAAATTAGTGCTT
AAATGCTGTCCATTTTTTTTGAGCATATTAATGT
Found at i:59931543 original size:48 final size:49
Alignment explanation
Indices: 59931344--59931548 Score: 245
Period size: 48 Copynumber: 4.2 Consensus size: 49
59931334 GATAAGATTC
* *
59931344 TGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTG-AGCATATTAATGC
1 TGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGTAGCATATTAATGT
* *
59931392 TGTCCAAATTAGTGCTTAAATGCTGTCCATATTTTTTTGAGCATATTAATGT
1 TGTCCAAATTGGTGCTTAAATGCTGTCC--ATTTTTGT-AGCATATTAATGT
* * * * * *
59931444 TGTCCAAATTGATGCTTAATTGTTGTCCATTTTT-TAGTACATTAATCT
1 TGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGTAGCATATTAATGT
* *
59931492 TGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGTA-CAAATCAATGT
1 TGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGTAGCATATTAATGT
*
59931540 TGTCTAAAT
1 TGTCCAAAT
59931549 GTTGTTACTG
Statistics
Matches: 133, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
48 82 0.62
49 3 0.02
50 12 0.09
52 36 0.27
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (49 bp):
TGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGTAGCATATTAATGT
Found at i:59932269 original size:13 final size:13
Alignment explanation
Indices: 59932251--59932275 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59932241 TTTAAATTAG
59932251 TTATGTGTTTTAA
1 TTATGTGTTTTAA
59932264 TTATGTGTTTTA
1 TTATGTGTTTTA
59932276 TTGATATGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (13 bp):
TTATGTGTTTTAA
Found at i:59935108 original size:3 final size:3
Alignment explanation
Indices: 59934820--59935092 Score: 546
Period size: 3 Copynumber: 91.0 Consensus size: 3
59934810 TTTGTGACTT
59934820 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
59934868 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
59934916 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
59934964 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
59935012 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
59935060 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
59935093 CCCTAATGTT
Statistics
Matches: 270, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 270 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:59937546 original size:8 final size:8
Alignment explanation
Indices: 59937533--59937572 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
59937523 CCCCGATTGC
59937533 ATGTTTGT
1 ATGTTTGT
59937541 ATGTTTGT
1 ATGTTTGT
*
59937549 ATGGTT-T
1 ATGTTTGT
59937556 -TGTTTGT
1 ATGTTTGT
59937563 ATGTTTGT
1 ATGTTTGT
59937571 AT
1 AT
59937573 TGCTCATTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 4 0.14
7 2 0.07
8 22 0.79
ACGTcount: A:0.12, C:0.00, G:0.25, T:0.62
Consensus pattern (8 bp):
ATGTTTGT
Found at i:59938542 original size:12 final size:12
Alignment explanation
Indices: 59938519--59938574 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
59938509 GCAAAACTAC
59938519 ATATACCTTTAAT
1 ATATA-CTTTAAT
*
59938532 ATATACTTTAAA
1 ATATACTTTAAT
*
59938544 ATGTA-TTTAA-
1 ATATACTTTAAT
59938554 ATAT-CATTTAAT
1 ATATAC-TTTAAT
59938566 ATATACTTT
1 ATATACTTT
59938575 TTTGGGTGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
10 3 0.08
11 10 0.28
12 17 0.47
13 6 0.17
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (12 bp):
ATATACTTTAAT
Done.