Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 173 of 211
Found at i:51268625 original size:31 final size:29
Alignment explanation
Indices: 51268587--51268668 Score: 93
Period size: 25 Copynumber: 2.9 Consensus size: 29
51268577 AAAATATTTG
51268587 AAATATTTTAATATAATTTAATATAAACTAA
1 AAATATTTTAATATAATTTAATATAAA-T-A
* *
51268618 AAATATTTTGACATAA-TT--TA-AAATA
1 AAATATTTTAATATAATTTAATATAAATA
51268643 AAATATTTTAATAT-ATTTAATATAAA
1 AAATATTTTAATATAATTTAATATAAA
51268669 AATAATTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
24 1 0.02
25 15 0.35
26 1 0.02
27 5 0.12
28 5 0.12
30 2 0.05
31 14 0.33
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (29 bp):
AAATATTTTAATATAATTTAATATAAATA
Found at i:51268667 original size:24 final size:25
Alignment explanation
Indices: 51268617--51268669 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
51268607 ATATAAACTA
51268617 AAAATATTTTGACATAATTTAAAAT
1 AAAATATTTTGACATAATTTAAAAT
*
51268642 AAAATATTTT-A-ATATATTTAATAT
1 AAAATATTTTGACATA-ATTTAAAAT
51268666 AAAA
1 AAAA
51268670 ATAATTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 3 0.12
24 13 0.50
25 10 0.38
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
AAAATATTTTGACATAATTTAAAAT
Found at i:51268685 original size:25 final size:25
Alignment explanation
Indices: 51268631--51268762 Score: 63
Period size: 25 Copynumber: 5.1 Consensus size: 25
51268621 TATTTTGACA
* * *
51268631 TAATTTAAAAT-AAAAT-ATTTTAA
1 TAATTTAATATAAAAATAATTATAT
51268654 TATATTTAATATAAAAATAATTATAT
1 TA-ATTTAATATAAAAATAATTATAT
** * * *
51268680 TAATTTTTTTATTAAATTATATATTTTTT
1 TAA-TTTAATA-TAAA-AATA-ATTATAT
* * * *
51268709 TTATTAAATTATAAAAATATTTGA-AA
1 TAATTTAA-TATAAAAATAATT-ATAT
*
51268735 TATTTTAATATAAAAATAATTATAT
1 TAATTTAATATAAAAATAATTATAT
51268760 TAA
1 TAA
51268763 AAATGTCATT
Statistics
Matches: 76, Mismatches: 23, Indels: 18
0.65 0.20 0.15
Matches are distributed among these distances:
23 2 0.03
24 9 0.12
25 21 0.28
26 19 0.25
27 7 0.09
28 9 0.12
29 9 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (25 bp):
TAATTTAATATAAAAATAATTATAT
Found at i:51268685 original size:146 final size:147
Alignment explanation
Indices: 51268280--51268747 Score: 789
Period size: 149 Copynumber: 3.2 Consensus size: 147
51268270 ATATAAAAAC
* * * *
51268280 AAAATATTTTAAATATTTTAATATAATTTAGTACAAAACTAAAAAATATTTTAATATAATTTAAA
1 AAAATATTTGAAATATTTTAATATAATTTAATA-TAAACTAAAAAATATTTTAACATAATTTAAA
** * *
51268345 ATAAAATATTTTAATATATTTAATATAAAAATAATTATATTAAAATGTTATTAAATTATTTATTT
65 ATAAAATATTTTAATATATTTAATATAAAAATAATTATATTAATTTTTTATTAAATTATATATTT
51268410 TTATTTTTATTAAATTATA
130 TTA-TTTTATTAAATTATA
*
51268429 AAAATATTTGAAACATTTTAATATAATTTAATATAAAACTAAAAAATATTTTAACATAATTTAAA
1 AAAATATTTGAAATATTTTAATATAATTTAATAT-AAACTAAAAAATATTTTAACATAATTTAAA
51268494 ATAAAATATTTTAATATATTTAATATAAAAATAATTATATTAATTTTTTATTAAATTATATATTT
65 ATAAAATATTTTAATATATTTAATATAAAAATAATTATATTAATTTTTTATTAAATTATATATTT
51268559 TTATTTTATTAAATTATA
130 TTATTTTATTAAATTATA
*
51268577 AAAATATTTGAAATATTTTAATATAATTTAATATAAACT-AAAAATATTTTGACATAATTTAAAA
1 AAAATATTTGAAATATTTTAATATAATTTAATATAAACTAAAAAATATTTTAACATAATTTAAAA
51268641 TAAAATATTTTAATATATTTAATATAAAAATAATTATATTAATTTTTTTATTAAATTATATA-TT
66 TAAAATATTTTAATATATTTAATATAAAAATAATTATATTAA-TTTTTTATTAAATTATATATTT
51268705 TT-TTTTATTAAATTATA
130 TTATTTTATTAAATTATA
51268722 AAAATATTTGAAATATTTTAATATAA
1 AAAATATTTGAAATATTTTAATATAA
51268748 AAATAATTAT
Statistics
Matches: 306, Mismatches: 11, Indels: 8
0.94 0.03 0.02
Matches are distributed among these distances:
145 41 0.13
146 70 0.23
147 24 0.08
148 48 0.16
149 123 0.40
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (147 bp):
AAAATATTTGAAATATTTTAATATAATTTAATATAAACTAAAAAATATTTTAACATAATTTAAAA
TAAAATATTTTAATATATTTAATATAAAAATAATTATATTAATTTTTTATTAAATTATATATTTT
TATTTTATTAAATTATA
Found at i:51268709 original size:21 final size:22
Alignment explanation
Indices: 51268672--51268721 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
51268662 ATATAAAAAT
51268672 AATTATATTAATTTTTTTATTA
1 AATTATATTAATTTTTTTATTA
*
51268694 AATTATA-TATTTTTTTTATTA
1 AATTATATTAATTTTTTTATTA
51268715 AATTATA
1 AATTATA
51268722 AAAATATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
AATTATATTAATTTTTTTATTA
Found at i:51268774 original size:80 final size:81
Alignment explanation
Indices: 51268642--51268791 Score: 214
Period size: 80 Copynumber: 1.9 Consensus size: 81
51268632 AATTTAAAAT
* *** * *
51268642 AAAATATTTTAATATATTTAATATAAAAATAATTATATTAATTTTTTTATTAAATTATATATTT-
1 AAAATATTTAAATATATTTAATATAAAAATAATTATATTAAAAATGTCATTAAATTATATATTTA
51268706 TTTTTATTAAATTATA
66 TTTTTATTAAATTATA
*
51268722 AAAATATTTGAAATAT-TTTAATATAAAAATAATTATATTAAAAATGTCATTAAATTATATTTTT
1 AAAATATTT-AAATATATTTAATATAAAAATAATTATATTAAAAATGTCATTAAATTATATATTT
51268786 ATTTTT
65 ATTTTT
51268792 TATATTTAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
80 51 0.84
81 10 0.16
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (81 bp):
AAAATATTTAAATATATTTAATATAAAAATAATTATATTAAAAATGTCATTAAATTATATATTTA
TTTTTATTAAATTATA
Found at i:51269017 original size:16 final size:17
Alignment explanation
Indices: 51268998--51269029 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
51268988 GATTTATTCT
51268998 ATTACAGCTCT-TTTTC
1 ATTACAGCTCTATTTTC
51269014 ATTACAGCTCTATTTT
1 ATTACAGCTCTATTTT
51269030 TTTACAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (17 bp):
ATTACAGCTCTATTTTC
Found at i:51271884 original size:3 final size:3
Alignment explanation
Indices: 51271876--51271977 Score: 195
Period size: 3 Copynumber: 34.0 Consensus size: 3
51271866 TGATTCTCCT
51271876 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
51271924 TTC TTC TTC TTC TTC TTC TTC TTC TTC ATC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
51271972 TTC TTC
1 TTC TTC
51271978 AACCTAAGTT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 97 1.00
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:51273559 original size:33 final size:33
Alignment explanation
Indices: 51273455--51273679 Score: 116
Period size: 33 Copynumber: 6.8 Consensus size: 33
51273445 GTTTCTTATT
* *
51273455 ATGCCATAGTCCAACTATGGTCTTA-CAT-ATGCA
1 ATGCCATAGCCCAGCTATGGTCTTATCATCA-G-A
* * * * * ** *
51273488 TTGCCATGGACCTGCCATGGTCTTATGTTCATA
1 ATGCCATAGCCCAGCTATGGTCTTATCATCAGA
* * *
51273521 GTGCCATAACCCAGTTATGGTCTTATCATCAGA
1 ATGCCATAGCCCAGCTATGGTCTTATCATCAGA
* * * *
51273554 ATGCCATAGCCCAACTATGGTCCTA-CATATAAA
1 ATGCCATAGCCCAGCTATGGTCTTATCAT-CAGA
* * * * * * *
51273587 CACTGTCATGGTCCAACCATGGTCTTA-CGTCCATA
1 -A-TGCCATAGCCCAGCTATGGTCTTATCAT-CAGA
* * * *
51273622 GTGCCATAACCCAGTTATGGTCTTATCATTAGA
1 ATGCCATAGCCCAGCTATGGTCTTATCATCAGA
51273655 ATGCCATAGCCCAGCTATGGTCTTA
1 ATGCCATAGCCCAGCTATGGTCTTA
51273680 CATATATACT
Statistics
Matches: 137, Mismatches: 49, Indels: 12
0.69 0.25 0.06
Matches are distributed among these distances:
32 3 0.02
33 106 0.77
34 4 0.03
35 24 0.18
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (33 bp):
ATGCCATAGCCCAGCTATGGTCTTATCATCAGA
Found at i:51273629 original size:101 final size:100
Alignment explanation
Indices: 51273455--51273715 Score: 362
Period size: 101 Copynumber: 2.6 Consensus size: 100
51273445 GTTTCTTATT
* * * ** * *
51273455 ATGCCATAGTCCAACTATGGTCTTACATAT-GCATTGCCATGGACCTGCCATGGTCTTATGTTCA
1 ATGCCATAGCCCAACTATGGTCTTACATATAACATTGCCATGGTCCAACCATGGTCTTACGTCCA
51273519 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGA
66 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGA
* * *
51273554 ATGCCATAGCCCAACTATGGTCCTACATATAAACACTGTCATGGTCCAACCATGGTCTTACGTCC
1 ATGCCATAGCCCAACTATGGTCTTACATAT-AACATTGCCATGGTCCAACCATGGTCTTACGTCC
*
51273619 ATAGTGCCATAACCCAGTTATGGTCTTATCATTAGA
65 ATAGTGCCATAACCCAGTTATGGTCTTATCATCAGA
* * * *
51273655 ATGCCATAGCCCAGCTATGGTCTTACATATATACTTTGCCATGGTCCAACTATGTTCTTAC
1 ATGCCATAGCCCAACTATGGTCTTACATATA-ACATTGCCATGGTCCAACCATGGTCTTAC
51273716 ATTTGAATAA
Statistics
Matches: 141, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
99 28 0.20
100 1 0.01
101 112 0.79
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (100 bp):
ATGCCATAGCCCAACTATGGTCTTACATATAACATTGCCATGGTCCAACCATGGTCTTACGTCCA
TAGTGCCATAACCCAGTTATGGTCTTATCATCAGA
Found at i:51276754 original size:26 final size:25
Alignment explanation
Indices: 51276700--51276754 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
51276690 TATATATACT
**
51276700 TTATGAAATTTTTATATTTGATATT
1 TTATGAAATTTTTATATTTGATAAA
*
51276725 TTATGAATATTTTTATAATTT-TTAAA
1 TTATGAA-ATTTTTAT-ATTTGATAAA
51276751 TTAT
1 TTAT
51276755 TTGTTGACGC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 7 0.28
26 14 0.56
27 4 0.16
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (25 bp):
TTATGAAATTTTTATATTTGATAAA
Found at i:51277961 original size:21 final size:22
Alignment explanation
Indices: 51277937--51277989 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
51277927 TTAATAATCA
*
51277937 AATTTAAGT-CAAAAATAAATT
1 AATTAAAGTACAAAAATAAATT
51277958 AATTAAAGTGACAAAAATAAATAAT
1 AATTAAAGT-ACAAAAATAAAT--T
51277983 AATTAAA
1 AATTAAA
51277990 TAGACAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 8 0.30
23 11 0.41
25 8 0.30
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (22 bp):
AATTAAAGTACAAAAATAAATT
Found at i:51277976 original size:23 final size:24
Alignment explanation
Indices: 51277946--51277998 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
51277936 AAATTTAAGT
51277946 CAAAAATAAAT-TAATTAAAGT-GA
1 CAAAAATAAATATAATTAAA-TAGA
51277969 CAAAAATAAATAATAATTAAATAGA
1 CAAAAATAAAT-ATAATTAAATAGA
51277994 CAAAA
1 CAAAA
51277999 TTTATCATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.41
24 1 0.04
25 15 0.56
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.23
Consensus pattern (24 bp):
CAAAAATAAATATAATTAAATAGA
Found at i:51278551 original size:24 final size:24
Alignment explanation
Indices: 51278522--51278569 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
51278512 AATTCATGGG
51278522 ACAGTCCCCTCCAATTTAATCCTA
1 ACAGTCCCCTCCAATTTAATCCTA
51278546 ACAGTCCCCTCCAATTTAATCCTA
1 ACAGTCCCCTCCAATTTAATCCTA
51278570 TCAGATTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.38, G:0.04, T:0.29
Consensus pattern (24 bp):
ACAGTCCCCTCCAATTTAATCCTA
Found at i:51282091 original size:14 final size:14
Alignment explanation
Indices: 51282074--51282105 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
51282064 TCCTATACTC
51282074 TCAATCCTCAATTT
1 TCAATCCTCAATTT
*
51282088 TCAATTCTCAATTT
1 TCAATCCTCAATTT
51282102 TCAA
1 TCAA
51282106 CTTTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (14 bp):
TCAATCCTCAATTT
Found at i:51282160 original size:25 final size:24
Alignment explanation
Indices: 51282122--51282169 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
51282112 TTAATTTTCT
*
51282122 CAAATTGTATACTTTATTTTACATTC
1 CAAATTGTACAC-TTA-TTTACATTC
51282148 CAAA-TGTACACTTATTTACATT
1 CAAATTGTACACTTATTTACATT
51282170 ATATGAAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 3 0.14
25 6 0.29
26 4 0.19
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (24 bp):
CAAATTGTACACTTATTTACATTC
Found at i:51290390 original size:83 final size:82
Alignment explanation
Indices: 51290221--51290399 Score: 213
Period size: 83 Copynumber: 2.1 Consensus size: 82
51290211 ATTGAGATGC
***
51290221 AAGCCTTAAGGATTAATTACTTGTTTAAAGTCTAAACAAATTAGAGCCCAAATTCTTTTGTATAA
1 AAGCCTTAAGGATTAATTACTTGTTTAAAGTCTAAACAAATTAGAGCCCAAATTCAAATGTAT-A
* * *
51290286 TGTACGCATTGGTCCATG
65 TGTAAGCATTCGTCCAAG
51290304 AAGCCTTAAGGATTAATTACTTGTTTAAAGTCTAAACAAATTAGAGCCC-AATT-AAATGTAT-T
1 AAGCCTTAAGGATTAATTACTTGTTTAAAGTCTAAACAAATTAGAGCCCAAATTCAAATGTATAT
51290366 GGTCCAAG-ATTTCGTCACAAG
66 -GT--AAGCA-TTCGTC-CAAG
51290387 AAGCCTTCAAGGA
1 AAGCCTT-AAGGA
51290400 AGTGGTTTTA
Statistics
Matches: 84, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
79 1 0.01
80 2 0.02
81 6 0.07
82 11 0.13
83 59 0.70
84 5 0.06
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (82 bp):
AAGCCTTAAGGATTAATTACTTGTTTAAAGTCTAAACAAATTAGAGCCCAAATTCAAATGTATAT
GTAAGCATTCGTCCAAG
Found at i:51293377 original size:6 final size:6
Alignment explanation
Indices: 51293366--51293397 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
51293356 CATGTTATTC
51293366 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CT
51293398 GAAATCCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:51293730 original size:29 final size:30
Alignment explanation
Indices: 51293697--51293772 Score: 79
Period size: 28 Copynumber: 2.6 Consensus size: 30
51293687 ATAGGTTTTC
51293697 ATTAAAATAATATAAAAATA-AAACTAATTT
1 ATTAAAATAATATAAAAATATAAA-TAATTT
* * *
51293727 -TT-AAATAATAT-AGATTATAAATTATTT
1 ATTAAAATAATATAAAAATATAAATAATTT
*
51293754 ATCAAAATAATATAAAAAT
1 ATTAAAATAATATAAAAAT
51293773 TACACTAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
27 9 0.25
28 13 0.36
29 11 0.31
30 3 0.08
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (30 bp):
ATTAAAATAATATAAAAATATAAATAATTT
Found at i:51293868 original size:16 final size:17
Alignment explanation
Indices: 51293836--51293875 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
51293826 AATCATTATC
51293836 AAATAATTACTAAAATAA
1 AAATAATTAC-AAAATAA
51293854 AAATAATTA-AAAATAA
1 AAATAATTACAAAATAA
*
51293870 TAATAA
1 AAATAA
51293876 ATGGTAGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.57
18 9 0.43
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
AAATAATTACAAAATAA
Found at i:51294958 original size:16 final size:16
Alignment explanation
Indices: 51294937--51294967 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51294927 GAAGAGATAA
*
51294937 AAATAAATAACGAAAC
1 AAATAAATAAAGAAAC
51294953 AAATAAATAAAGAAA
1 AAATAAATAAAGAAA
51294968 AATAAACAAA
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:0.74, C:0.06, G:0.06, T:0.13
Consensus pattern (16 bp):
AAATAAATAAAGAAAC
Found at i:51301149 original size:26 final size:27
Alignment explanation
Indices: 51301059--51301304 Score: 284
Period size: 27 Copynumber: 9.2 Consensus size: 27
51301049 AATGGGCCTC
*
51301059 TAAAATTACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
51301086 TAAAATGACCGAAATACCTTCGAAGAG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
51301113 TAAAATTATCGAAATACCCTCG-AGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
51301139 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * * *
51301166 TAAAATTATCAAAATACCCTCGAATGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
51301193 TAAAATGACCGAAATACCCTCAAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
51301220 TAAAATGACCAAAATACCCT-GAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
51301246 TAAAATGACCAAAATACCC-CAAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
51301272 TAAAATGACCAAAATACCC-CCATAGGG
1 TAAAATGACCGAAATACCCTCGA-AGGG
51301299 TAAAAT
1 TAAAAT
51301305 AACTGTTATA
Statistics
Matches: 195, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
26 74 0.38
27 121 0.62
ACGTcount: A:0.46, C:0.20, G:0.16, T:0.18
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGG
Found at i:51301162 original size:53 final size:54
Alignment explanation
Indices: 51301059--51301304 Score: 288
Period size: 53 Copynumber: 4.6 Consensus size: 54
51301049 AATGGGCCTC
* *
51301059 TAAAATTACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCTTCGAAGAG
1 TAAAATTACCAAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGAG
* * * *
51301113 TAAAATTATCGAAATACCCTCG-AGGGTAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATTACCAAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGAG
* * *
51301166 TAAAATTATCAAAATACCCTCGAATGGTAAAATGACCGAAATACCCTC-AAAAGG
1 TAAAATTACCAAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGA-G
* * * *
51301220 TAAAATGACCAAAATACCCT-GAAAGGTAAAATGACCAAAATACCC-C-AAAAGG
1 TAAAATTACCAAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGA-G
* *
51301272 TAAAATGACCAAAATACCC-CCATAGGGTAAAAT
1 TAAAATTACCAAAATACCCTCGA-AGGGTAAAAT
51301305 AACTGTTATA
Statistics
Matches: 173, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
52 27 0.16
53 83 0.48
54 63 0.36
ACGTcount: A:0.46, C:0.20, G:0.16, T:0.18
Consensus pattern (54 bp):
TAAAATTACCAAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGAG
Found at i:51301666 original size:30 final size:30
Alignment explanation
Indices: 51301629--51301717 Score: 142
Period size: 30 Copynumber: 3.0 Consensus size: 30
51301619 TACATTTGTA
51301629 CTGTTACTGTATTGGGCTAAGGCCCACACT
1 CTGTTACTGTATTGGGCTAAGGCCCACACT
* *
51301659 TTGTTACTGTATTGGGCTAAGGCTCACACT
1 CTGTTACTGTATTGGGCTAAGGCCCACACT
* *
51301689 CTGTTACTGTATTGGGCTATGGCCTACAC
1 CTGTTACTGTATTGGGCTAAGGCCCACAC
51301718 ACTACTACTA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.34
Consensus pattern (30 bp):
CTGTTACTGTATTGGGCTAAGGCCCACACT
Found at i:51302366 original size:25 final size:25
Alignment explanation
Indices: 51302330--51302427 Score: 85
Period size: 25 Copynumber: 3.9 Consensus size: 25
51302320 TACGAGCCAT
* * *
51302330 AATCAGTAAGCTCCTCCGAGCTGA-
1 AATCGGTAAGCTCATACGAGCTGAG
51302354 AATACGGTAAGCTCATACGAGCTGAG
1 AAT-CGGTAAGCTCATACGAGCTGAG
* * *
51302380 AATCGTTAAGCTC-TCACGAGTTTCA-
1 AATCGGTAAGCTCAT-ACGAG-CTGAG
*
51302405 AATCGATAAGCTCATACGAGCTG
1 AATCGGTAAGCTCATACGAGCTG
51302428 TGGTGAGTTC
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
24 5 0.08
25 49 0.82
26 6 0.10
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (25 bp):
AATCGGTAAGCTCATACGAGCTGAG
Found at i:51309012 original size:17 final size:17
Alignment explanation
Indices: 51308990--51309024 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
51308980 ATTACAAAAT
*
51308990 CAAATCTTATCAGATTA
1 CAAATCTTATAAGATTA
*
51309007 CAAATCTTCTAAGATTA
1 CAAATCTTATAAGATTA
51309024 C
1 C
51309025 TTTTCATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (17 bp):
CAAATCTTATAAGATTA
Found at i:51309759 original size:9 final size:8
Alignment explanation
Indices: 51309731--51309755 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
51309721 TATATTTCAT
51309731 ATATTAAA
1 ATATTAAA
51309739 ATATTAAA
1 ATATTAAA
51309747 ATATTAAA
1 ATATTAAA
51309755 A
1 A
51309756 ATATATGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATATTAAA
Found at i:51311611 original size:46 final size:45
Alignment explanation
Indices: 51311508--51311833 Score: 377
Period size: 46 Copynumber: 7.6 Consensus size: 45
51311498 TACGTATGAT
* *
51311508 CACTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTAT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
51311551 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
* *
51311597 CACTTATCACTTTTTCACTTGATCAGATAAGTATAGCTGAGACTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
* *
51311643 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
**
51311689 CACTTATCACTTTGCCACTTGATCAGATAA--GTA--TA-G----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
51311725 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--TA---T--
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
*
51311761 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
* *
51311807 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
51311834 AGTACTCAAA
Statistics
Matches: 254, Mismatches: 15, Indels: 25
0.86 0.05 0.09
Matches are distributed among these distances:
36 63 0.25
38 3 0.01
40 2 0.01
41 2 0.01
42 1 0.00
43 10 0.04
44 8 0.03
45 21 0.08
46 144 0.57
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (45 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
Found at i:51311730 original size:36 final size:36
Alignment explanation
Indices: 51311689--51311797 Score: 182
Period size: 36 Copynumber: 3.0 Consensus size: 36
51311679 CTAAAGCTAC
**
51311689 CACTTATCACTTTGCCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
51311725 CACTTATCACTTTTTCACTTGATCAGATAAGTATAT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
51311761 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
51311797 C
1 C
51311798 TAAAGCTACC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 68 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:51323000 original size:27 final size:26
Alignment explanation
Indices: 51322951--51323001 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
51322941 TTATATTGAT
*
51322951 TAAAAAAATTAAAAAAGTATATAATA
1 TAAAAAAATTAAAAAAATATATAATA
51322977 TAAAAATAATTCAAAAAAAT-TATAA
1 TAAAAA-AATT-AAAAAAATATATAA
51323002 ATTTCTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 6 0.27
27 9 0.41
28 7 0.32
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (26 bp):
TAAAAAAATTAAAAAAATATATAATA
Found at i:51323159 original size:17 final size:17
Alignment explanation
Indices: 51323129--51323163 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
51323119 TATTCTAGAC
*
51323129 ATTTTGTCATAAATTTT
1 ATTTTGTCAAAAATTTT
*
51323146 ATTTTTTCAAAAATTTT
1 ATTTTGTCAAAAATTTT
51323163 A
1 A
51323164 AATTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (17 bp):
ATTTTGTCAAAAATTTT
Found at i:51323312 original size:49 final size:49
Alignment explanation
Indices: 51323252--51323364 Score: 124
Period size: 49 Copynumber: 2.3 Consensus size: 49
51323242 TTAAGTTTTC
* * *
51323252 TTTTTGCAATTTTTGTAAATTTA-A-ATACCTTTTTTA-AAATTTTTATATT
1 TTTTTG-AATTTTT-TAAATTTATATATACATATTTTAGAAATTTATATA-T
* *
51323301 TATTTTGAATTTTTAAAATTTATATTTACATATTTTAGAAATTTATATAT
1 T-TTTTGAATTTTTTAAATTTATATATACATATTTTAGAAATTTATATAT
51323351 TTTTTGAATTTTTT
1 TTTTTGAATTTTTT
51323365 TAAAAAAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
48 7 0.13
49 21 0.39
50 16 0.30
51 10 0.19
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (49 bp):
TTTTTGAATTTTTTAAATTTATATATACATATTTTAGAAATTTATATAT
Found at i:51325453 original size:18 final size:19
Alignment explanation
Indices: 51325421--51325460 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
51325411 CTTGTTTTCA
*
51325421 TTTTATTGTTTTTATATCT
1 TTTTATTGTTATTATATCT
*
51325440 TTTTATT-TTATTATCTCT
1 TTTTATTGTTATTATATCT
51325458 TTT
1 TTT
51325461 GTTTTCGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.15, C:0.07, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTTATTGTTATTATATCT
Found at i:51330107 original size:7 final size:7
Alignment explanation
Indices: 51330095--51330129 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
51330085 GGAGGCAATA
51330095 AAAAAAC
1 AAAAAAC
51330102 AAAAAA-
1 AAAAAAC
51330108 ACAAAAAC
1 A-AAAAAC
51330116 AAAAAAC
1 AAAAAAC
51330123 AAAAAAC
1 AAAAAAC
51330130 CTCTACTGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 1 0.04
7 24 0.92
8 1 0.04
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:51330115 original size:14 final size:13
Alignment explanation
Indices: 51330096--51330127 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
51330086 GAGGCAATAA
51330096 AAAAACAAAAAAAC
1 AAAAAC-AAAAAAC
51330110 AAAAACAAAAAAC
1 AAAAACAAAAAAC
51330123 AAAAA
1 AAAAA
51330128 ACCTCTACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAAC
Found at i:51330585 original size:13 final size:12
Alignment explanation
Indices: 51330556--51330591 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 12
51330546 ATACTTCATT
51330556 TGAAAA-AAAAA
1 TGAAAAGAAAAA
51330567 TGAAAAGAAAAA
1 TGAAAAGAAAAA
51330579 TGAAAAAGAAAAA
1 TG-AAAAGAAAAA
51330592 GGAGAGGCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 6 0.26
12 7 0.30
13 10 0.43
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (12 bp):
TGAAAAGAAAAA
Found at i:51330991 original size:38 final size:38
Alignment explanation
Indices: 51330949--51331025 Score: 138
Period size: 38 Copynumber: 2.0 Consensus size: 38
51330939 GTTATCTTGA
51330949 TTGATTCATTCATTTCGAGCTTTGTTCTCAACAA-AACT
1 TTGATTCATTCATTTCGAGCTTTGTTCTCAA-AATAACT
51330987 TTGATTCATTCATTTCGAGCTTTGTTCTCAAAATAACT
1 TTGATTCATTCATTTCGAGCTTTGTTCTCAAAATAACT
51331025 T
1 T
51331026 CATCTTGTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 2 0.05
38 36 0.95
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.44
Consensus pattern (38 bp):
TTGATTCATTCATTTCGAGCTTTGTTCTCAAAATAACT
Found at i:51331986 original size:50 final size:50
Alignment explanation
Indices: 51331932--51332096 Score: 116
Period size: 50 Copynumber: 3.3 Consensus size: 50
51331922 ATAATTTAAA
* * * *
51331932 AGATTGAAGCCGCAATGGTAAATCTTACTTCCATGGCGATGCAGTAGAGC
1 AGATTAAAGCCACAACGGCAAATCTTACTTCCATGGCGATGCAGTAGAGC
* * * * * ** * ** **
51331982 AGATTAAAGCTACAACAGCGAATCTTGCTTCCCT-GATATTGCAATTTAAA
1 AGATTAAAGCCACAACGGCAAATCTTACTTCCATGGCGA-TGCAGTAGAGC
* * * * *
51332032 AGATTGAAGCCGCAACGGCAAATCTTACATCCACGGCGATGCAGTGGAGC
1 AGATTAAAGCCACAACGGCAAATCTTACTTCCATGGCGATGCAGTAGAGC
*
51332082 AGATTAAAGCTACAA
1 AGATTAAAGCCACAA
51332097 TGGTGAATCT
Statistics
Matches: 78, Mismatches: 35, Indels: 4
0.67 0.30 0.03
Matches are distributed among these distances:
49 2 0.03
50 74 0.95
51 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (50 bp):
AGATTAAAGCCACAACGGCAAATCTTACTTCCATGGCGATGCAGTAGAGC
Found at i:51332032 original size:100 final size:99
Alignment explanation
Indices: 51331871--51332214 Score: 411
Period size: 100 Copynumber: 3.4 Consensus size: 99
51331861 TCCCTGGCAG
* * * * *
51331871 TGCAGTGGAGTAGATTAAAGCTACAACGGCAAATCTTGCTTCCCCAACATTATAATTTAAAAGAT
1 TGCAGTGGAGCAGATTAAAGCTACAACAGCGAATCTTGCTT-CCCGACATTGTAATTTAAAAGAT
*
51331936 TGAAGCCGCAATGGTAAATCTTACTTCCATGGCGA
65 TGAAGCCGCAACGGTAAATCTTACTTCCATGGCGA
* * *
51331971 TGCAGTAGAGCAGATTAAAGCTACAACAGCGAATCTTGCTTCCCTGATATTGCAATTTAAAAGAT
1 TGCAGTGGAGCAGATTAAAGCTACAACAGCGAATCTTGCTTCCC-GACATTGTAATTTAAAAGAT
* * *
51332036 TGAAGCCGCAACGGCAAATCTTACATCCACGGCGA
65 TGAAGCCGCAACGGTAAATCTTACTTCCATGGCGA
** *
51332071 TGCAGTGGAGCAGATTAAAGCTACAATGGTGAATCTTGCTTCTCCGACATTGTAATTTAAAAGAT
1 TGCAGTGGAGCAGATTAAAGCTACAACAGCGAATCTTGCTTC-CCGACATTGTAATTTAAAAGAT
* ** * * * *
51332136 TGAGGTTGCAACGGTAGATCTTACTTTTC-TGGTGG
65 TGAAGCCGCAACGGTAAATCTTAC-TTCCATGGCGA
* * * *
51332171 TGTAATGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCC
1 TGCAGTGGAGCAGATTAAAGCTACAACAGCGAATCTTGCTTCCC
51332215 CGGTATCGCA
Statistics
Matches: 206, Mismatches: 35, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
99 5 0.02
100 197 0.96
101 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (99 bp):
TGCAGTGGAGCAGATTAAAGCTACAACAGCGAATCTTGCTTCCCGACATTGTAATTTAAAAGATT
GAAGCCGCAACGGTAAATCTTACTTCCATGGCGA
Found at i:51332328 original size:45 final size:45
Alignment explanation
Indices: 51332258--51332903 Score: 815
Period size: 45 Copynumber: 14.4 Consensus size: 45
51332248 ATTGCAGATA
*
51332258 TTGTCTTCCTGTATTGGCAGCGAAGTAGA-TCAAAGATAGCAAGTC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAAGTC
* * *
51332303 TTATCTTCCTGTATTAGCAGTGAAGTAGACTGAAGATAGCAAGTC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAGTC
*
51332348 TTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAAC-AGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAG-TC
* *
51332393 TTGTCTTCCTGTATTGGCAGCGAAGTAGA-TCAAAGATAGCAAGTT
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAAGTC
* * * * *
51332438 TTGTCTTCCTATATTGGAAGCAAAGTAGACTGAAGATAACAAATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAGTC
* * * *
51332483 TTGTCTTTCTGTATTGGCAACGAAGTAGA-TCGAAGATTGTAAGTC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAAGTC
* *
51332528 TTATCTTCCTGTATTAGCAGCGAAGTAGACTGAAGATAGCAAGTC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAGTC
* *
51332573 TTGTCTTCCTGTATTGGTAGCGAAGTAGACTGAAGATAAC-AGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAG-TC
* * * * *
51332618 TTGTGTTCATATATTGGCAGCGAAGTAGATTAAAGATAGCAAGTC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAGTC
* *
51332663 TTGTCTTCCTGTATTGGCAACGAAGTAGACTGAAGATAAC-AGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAG-TC
**
51332708 TTGTCTTCCTGTATTTACAGCGAAGTAGACTGAAGATAGCAAGTC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAGTC
* *
51332753 TTGTCTTCCTGTATTAGCAGCGAAGTAGACTGAAGATAACATA-TC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCA-AGTC
*
51332798 TTGTCTTCCTGTATTGGCAGCAAAGTAGA-TCGAAGATAGCAAGTC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAAGTC
* * * *
51332843 TTGTCTTCCTATATTAGCAGTGAAGTAGACTGAAGATAAC-AGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAG-TC
*
51332888 TTGCCTTCCTGTATTG
1 TTGTCTTCCTGTATTG
51332904 ATGGCGAAGT
Statistics
Matches: 516, Mismatches: 69, Indels: 32
0.84 0.11 0.05
Matches are distributed among these distances:
44 12 0.02
45 493 0.96
46 11 0.02
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (45 bp):
TTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAGTC
Found at i:51333055 original size:50 final size:50
Alignment explanation
Indices: 51332992--51333098 Score: 153
Period size: 50 Copynumber: 2.1 Consensus size: 50
51332982 GGTGTAGTGG
* * **
51332992 AACAGATTAAAGCTACAACGGCGAATCTTGTTTCCCCAACATTGCAATTTA
1 AACATATTGAAGCTACAACGGCGAATCTTACTTCCCCAACATTGCAA-TTA
*
51333043 AA-ATATTGAAGCTACGACGGCGAATCTTACTTCCCCAACATTGCAATTA
1 AACATATTGAAGCTACAACGGCGAATCTTACTTCCCCAACATTGCAATTA
51333092 AACATAT
1 AACATAT
51333099 AAAAGCCAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
49 5 0.10
50 43 0.86
51 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (50 bp):
AACATATTGAAGCTACAACGGCGAATCTTACTTCCCCAACATTGCAATTA
Found at i:51333478 original size:41 final size:42
Alignment explanation
Indices: 51333121--51333737 Score: 272
Period size: 44 Copynumber: 14.4 Consensus size: 42
51333111 TATCTACTTG
* * * * *
51333121 AAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTA
1 AAGTTTCAGTGGAGCAGATCAAAATC-CAG-TCTTATCTCCCTA
* * ** *
51333165 AAGTTACAGTAGAGCAGATC-GCATCCAGTCTTATCTCTCTA
1 AAGTTTCAGTGGAGCAGATCAAAATCCAGTCTTATCTCCCTA
* * *
51333206 AGCAG--T-AGTGGAGCAGA-CAAAAGAAACCAATCCTATCTCCCTA
1 A--AGTTTCAGTGGAGCAGATC--AA-AATCCAGTCTTATCTCCCTA
* * * * *
51333249 AAGTTGCAGTGGAACGGATCAAAACTACAGATCTTATCTCTCTA
1 AAGTTTCAGTGGAGCAGATCAAAA-TCCAG-TCTTATCTCCCTA
* * * * * * * *
51333293 AAGTTGCAGTAGAGCAAAT-TACATCTAGTCTTATCTCCTTG
1 AAGTTTCAGTGGAGCAGATCAAAATCCAGTCTTATCTCCCTA
* * * * *
51333334 AAGTTTCAGTGAAGCAGA-CAAAAGAAACCAATCCTATCTCCCTG
1 AAGTTTCAGTGGAGCAGATC--AA-AATCCAGTCTTATCTCCCTA
* ** * * *
51333378 AAGTTGCAGTGGAGTGGATCAAAACCACAGATCTTATCTCTCTG
1 AAGTTTCAGTGGAGCAGATCAAAATC-CAG-TCTTATCTCCCTA
* * *
51333422 AAGTTGCAGTAGAGCAGATC-ACATCCAGTCTTATCTCCCTA
1 AAGTTTCAGTGGAGCAGATCAAAATCCAGTCTTATCTCCCTA
* * * * *
51333463 AATTTTCAGTGGAGCAGA-CAAAAGAAACCAATCCTATCTCCCTG
1 AAGTTTCAGTGGAGCAGATC--AA-AATCCAGTCTTATCTCCCTA
** * * *
51333507 AAGTTGT-AGTGGAGTGGATCAAAACCACAGATCTTATCTCTCTG
1 AAGTT-TCAGTGGAGCAGATCAAAATC-CAG-TCTTATCTCCCTA
* * * *
51333551 AAGTTGCAATAGAGCAGATC-ACATCCAGTCTTATCTCCCTA
1 AAGTTTCAGTGGAGCAGATCAAAATCCAGTCTTATCTCCCTA
* * *
51333592 AAGTTTCAGTGGAGCAGA-CAAAAGAAACCAAT-TCTATCTCCCTG
1 AAGTTTCAGTGGAGCAGATC--AA-AATCCAGTCT-TATCTCCCTA
* * * * *
51333636 AAGTTGCAGTGGAGCGGATCAAAACCACATGTCTTATCTCTCTG
1 AAGTTTCAGTGGAGCAGATCAAAATC-CA-GTCTTATCTCCCTA
* * ** * * *
51333680 AAGTTGCAGTAGAGCAGATC-GCATCAAGCCTTATCTCCCTG
1 AAGTTTCAGTGGAGCAGATCAAAATCCAGTCTTATCTCCCTA
*
51333721 AAGTTGCAGTGGAGCAG
1 AAGTTTCAGTGGAGCAG
51333738 GTTGAAGATA
Statistics
Matches: 431, Mismatches: 105, Indels: 77
0.70 0.17 0.13
Matches are distributed among these distances:
39 1 0.00
40 12 0.03
41 120 0.28
42 24 0.06
43 50 0.12
44 218 0.51
45 6 0.01
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (42 bp):
AAGTTTCAGTGGAGCAGATCAAAATCCAGTCTTATCTCCCTA
Found at i:51333508 original size:85 final size:86
Alignment explanation
Indices: 51333155--51333737 Score: 270
Period size: 85 Copynumber: 6.8 Consensus size: 86
51333145 CCACAGATCT
* * * ** * ** *
51333155 TATCTCTCTAAAGTTACAGTAGAGCAGATC-GCATCCAGTCTTATCTCTCT-AAGCAGTAGTGGA
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAATCCAGTCTTATCTCCCTAAAGTTGCAGTGGA
51333218 GCAGACAAAAGAAACCAATCC
66 GCAGACAAAAGAAACCAATCC
* * * * * *
51333239 TATCTCCCTAAAGTTGCAGTGGAACGGATCAAAACTACAGATCTTATCTCTCTAAAGTTGCAGT-
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAA-TCCAG-TCTTATCTCCCTAAAGTTGCAGTG
** * * * *
51333303 -AG-AG-CAAATTACATCTAGTCT
64 GAGCAGACAAAAGA-AACCAATCC
* * * * * *
51333324 TATCTCCTTGAAGTTTCAGT-GAAGCAGA-CAAAAGAAACCAATCCTATCTCCCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTAG-AGCAGATC--AA-AATCCAGTCTTATCTCCCTAAAGTTGCAG
** ** *
51333387 TGGAGTGGATCAAAA-CCA-CAGATCT
62 TGGAGCAGA-CAAAAGAAACCA-ATCC
* * * *
51333412 TATCTCTCTGAAGTTGCAGTAGAGCAGATC-ACATCCAGTCTTATCTCCCTAAATTTTCAGTGGA
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAATCCAGTCTTATCTCCCTAAAGTTGCAGTGGA
51333476 GCAGACAAAAGAAACCAATCC
66 GCAGACAAAAGAAACCAATCC
* * ** * * * * *
51333497 TATCTCCCTGAAGTTGTAGTGGAGTGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAATA
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAATC-CAG-TCTTATCTCCCTAAAGTTGCAGTG
* * * *
51333562 GAGCAGATC---A-CATCCAGTCT
64 GAGCAGA-CAAAAGAAACCAATCC
* * * * * *
51333582 TATCTCCCTAAAGTTTCAGTGGAGCAGA-CAAAAGAAACCAAT-TCTATCTCCCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATC--AA-AATCCAGTCT-TATCTCCCTAAAGTTGCAG
* ** * *
51333645 TGGAGCGGATCAAAA-CCA-CATGTCT
62 TGGAGCAGA-CAAAAGAAACCA-ATCC
* ** * * *
51333670 TATCTCTCTGAAGTTGCAGTAGAGCAGATC-GCATCAAGCCTTATCTCCCTGAAGTTGCAGTGGA
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAATCCAGTCTTATCTCCCTAAAGTTGCAGTGGA
51333734 GCAG
66 GCAG
51333738 GTTGAAGATA
Statistics
Matches: 375, Mismatches: 91, Indels: 65
0.71 0.17 0.12
Matches are distributed among these distances:
84 39 0.10
85 192 0.51
86 22 0.06
87 25 0.07
88 89 0.24
89 4 0.01
90 4 0.01
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (86 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAATCCAGTCTTATCTCCCTAAAGTTGCAGTGGA
GCAGACAAAAGAAACCAATCC
Found at i:51333752 original size:129 final size:129
Alignment explanation
Indices: 51333104--51333737 Score: 952
Period size: 129 Copynumber: 4.9 Consensus size: 129
51333094 CATATAAAAG
* * * * *
51333104 CCAAGCCTATCTACTTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGT
1 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGT
* * *
51333169 TACAGTAGAGCAGATCGCATCCAGTCTTATCTCTCTAAGCAG--T-AGTGGAGCAGACAAAAGAA
66 TGCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTAA--AGTTTCAGTGGAGCAGACAAAAGAA
51333231 A
129 A
* * * *
51333232 CCAATCCTATCTCCCTAAAGTTGCAGTGGAACGGATCAAAACTACAGATCTTATCTCTCTAAAGT
1 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGT
* * * * * *
51333297 TGCAGTAGAGCAAATTACATCTAGTCTTATCTCCTTGAAGTTTCAGTGAAGCAGACAAAAGAAA
66 TGCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTAAAGTTTCAGTGGAGCAGACAAAAGAAA
*
51333361 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATCAAAACCACAGATCTTATCTCTCTGAAGT
1 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGT
*
51333426 TGCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTAAATTTTCAGTGGAGCAGACAAAAGAAA
66 TGCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTAAAGTTTCAGTGGAGCAGACAAAAGAAA
* *
51333490 CCAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATCAAAACCACAGATCTTATCTCTCTGAAGT
1 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGT
*
51333555 TGCAATAGAGCAGATCACATCCAGTCTTATCTCCCTAAAGTTTCAGTGGAGCAGACAAAAGAAA
66 TGCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTAAAGTTTCAGTGGAGCAGACAAAAGAAA
*
51333619 CCAATTCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACATG-TCTTATCTCTCTGAAG
1 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACA-GATCTTATCTCTCTGAAG
* * * * *
51333683 TTGCAGTAGAGCAGATCGCATCAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAG
65 TTGCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTAAAGTTTCAGTGGAGCAG
51333738 GTTGAAGATA
Statistics
Matches: 462, Mismatches: 40, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
126 2 0.00
128 89 0.19
129 370 0.80
130 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (129 bp):
CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGT
TGCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTAAAGTTTCAGTGGAGCAGACAAAAGAAA
Found at i:51334461 original size:16 final size:18
Alignment explanation
Indices: 51334414--51334461 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
51334404 GTTCTTGTTT
51334414 TCATTTTATTGTTTTTATC
1 TCATTTTATT-TTTTTATC
*
51334433 TCTTTTTATTTTTTTATC
1 TCATTTTATTTTTTTATC
51334451 T-ATTTTATTTT
1 TCATTTTATTTT
51334462 CGTTTTTGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 9 0.33
18 9 0.33
19 9 0.33
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (18 bp):
TCATTTTATTTTTTTATC
Found at i:51336773 original size:17 final size:18
Alignment explanation
Indices: 51336751--51336787 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
51336741 ATGTCTATAA
*
51336751 AAGATATTAT-TTATTAT
1 AAGATATCATCTTATTAT
51336768 AAGATATCATCTTATTAT
1 AAGATATCATCTTATTAT
51336786 AA
1 AA
51336788 AATAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
AAGATATCATCTTATTAT
Found at i:51347841 original size:229 final size:229
Alignment explanation
Indices: 51347332--51347954 Score: 770
Period size: 229 Copynumber: 2.7 Consensus size: 229
51347322 TATTGAGAAA
* *
51347332 CGCCGCAAATAAGTTAAGCAAAACGACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGTCGCT
1 CGCCGCTAATAAGTTAAGCAAAACGACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCT
* * * * * * * * * * *
51347397 TTCTATAAAACACCACTAAATGTTAGGTAATAGCAGCGCACGTAAACAAACACTGCAAAAAATTT
66 TTTTGTAAAACGCCGCTAAAGGTTAGGTGATAGCGGCGCATGTAAACAAACGCCGC--AAAAGTT
* * *
51347462 GATC-AAAATGGCAGCATTTTATTTCTTCGTTTTACTTAATTTAATGGCATTTTTTCTAAAAACG
129 GATCAAAAACGGCAGCGTTTTATTTCTTCGCTTTACTTAATTTAATGGCA-TTTTTCTAAAAACG
* * * *
51347526 TCGCAACTTTCGGGCTTTACTAGCGCTTTTCTAAAAG
193 CCGCAACTTTCGAGCTTTACGAGCGCTTTTCCAAAAG
* * * * *
51347563 CGTCGCTAGTAAGTTAAGAAAAACGACATTGTTTTCTGTTGATGTATAGGGACATTAGCGGCGCT
1 CGCCGCTAATAAGTTAAGCAAAACGACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCT
* * *
51347628 TTTTGTAAAATGCCGCTAAAGGTTAGGTGATAGCGGCGCATGTAAACAGATGCCGCATAAAGTTG
66 TTTTGTAAAACGCCGCTAAAGGTTAGGTGATAGCGGCGCATGTAAACAAACGCCGCA-AAAGTTG
* *
51347693 ATCAAAAACGGCAGCGTTTTATTTCTTCGCTTTACTTGATTTAGTGGCGA-TTTT-TAAAAACGC
130 ATCAAAAACGGCAGCGTTTTATTTCTTCGCTTTACTTAATTTAATGGC-ATTTTTCTAAAAACGC
*
51347756 CGCAACTTTCGATCTTTACCGA-CGCTTTTCCAAAAG
194 CGCAACTTTCGAGCTTTA-CGAGCGCTTTTCCAAAAG
* * * *
51347792 TGCCGTTAATAAGTTAAGCAAAACGATGTTGTTTTCTGTTGAGGTATAGGTACATTAGCGGCGCT
1 CGCCGCTAATAAGTTAAGCAAAACGACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCT
* * *
51347857 TTTTGTAAAACGTCGCTAAAGGTTAGGTGTTAGCGGCGCATATAAACAAACGCCGCAAATATGTT
66 TTTTGTAAAACGCCGCTAAAGGTTAGGTGATAGCGGCGCATGTAAACAAACGCCGCAAA-A-GTT
* * *
51347922 GA-CAAAAACGGTAGTGTTTTATTTCTTTGCTTT
129 GATCAAAAACGGCAGCGTTTTATTTCTTCGCTTT
51347955 GCTAATAAGT
Statistics
Matches: 337, Mismatches: 49, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
228 2 0.01
229 174 0.52
230 20 0.06
231 140 0.42
232 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (229 bp):
CGCCGCTAATAAGTTAAGCAAAACGACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCT
TTTTGTAAAACGCCGCTAAAGGTTAGGTGATAGCGGCGCATGTAAACAAACGCCGCAAAAGTTGA
TCAAAAACGGCAGCGTTTTATTTCTTCGCTTTACTTAATTTAATGGCATTTTTCTAAAAACGCCG
CAACTTTCGAGCTTTACGAGCGCTTTTCCAAAAG
Found at i:51348357 original size:21 final size:22
Alignment explanation
Indices: 51348341--51348389 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
51348331 TAGTTTATGT
51348341 TTTATGAGTCAA-GGTTTAAGG
1 TTTATGAGTCAAGGGTTTAAGG
*
51348362 TTTATGAGTTAAGGGTTTAAGG
1 TTTATGAGTCAAGGGTTTAAGG
*
51348384 ATTATG
1 TTTATG
51348390 GTTTGTGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.29, C:0.02, G:0.29, T:0.41
Consensus pattern (22 bp):
TTTATGAGTCAAGGGTTTAAGG
Found at i:51348426 original size:21 final size:20
Alignment explanation
Indices: 51348400--51348438 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
51348390 GTTTGTGCAT
*
51348400 GGTTTATGGTTCAAGGGTTGG
1 GGTTTAAGGTT-AAGGGTTGG
51348421 GGTTTAAGGTTAAGGGTT
1 GGTTTAAGGTTAAGGGTT
51348439 TAGGATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.18, C:0.03, G:0.41, T:0.38
Consensus pattern (20 bp):
GGTTTAAGGTTAAGGGTTGG
Found at i:51354448 original size:21 final size:21
Alignment explanation
Indices: 51354424--51354513 Score: 71
Period size: 21 Copynumber: 4.3 Consensus size: 21
51354414 CCTGCATAAT
51354424 AACTTACATAACTTATATATA
1 AACTTACATAACTTATATATA
* * *
51354445 AACTTAAATAAAATTTTTATATA
1 AACTTACAT--AACTTATATATA
* *
51354468 AAC-TA-ATTACATA-ATGCAT-
1 AACTTACATAACTTATAT--ATA
51354487 AACTTACATAACTTATATATA
1 AACTTACATAACTTATATATA
51354508 AACTTA
1 AACTTA
51354514 TATATAAACT
Statistics
Matches: 52, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
18 2 0.04
19 5 0.10
20 6 0.12
21 22 0.42
22 4 0.08
23 13 0.25
ACGTcount: A:0.49, C:0.12, G:0.01, T:0.38
Consensus pattern (21 bp):
AACTTACATAACTTATATATA
Found at i:51354498 original size:9 final size:9
Alignment explanation
Indices: 51354484--51355021 Score: 220
Period size: 9 Copynumber: 62.0 Consensus size: 9
51354474 TTACATAATG
51354484 CATAACTTA
1 CATAACTTA
51354493 CATAACTTATA
1 CATAAC-T-TA
*
51354504 TATAAACTTATA
1 CAT-AAC-T-TA
* *
51354516 TATAAACTTG
1 CATA-ACTTA
51354526 CATAACTTA
1 CATAACTTA
51354535 CATAATAACTTA
1 C---ATAACTTA
51354547 CATAA--TA
1 CATAACTTA
* *
51354554 CATAGCCTA
1 CATAACTTA
* *
51354563 CATAGCCTA
1 CATAACTTA
51354572 CATAACTTA
1 CATAACTTA
*
51354581 CATGA--TA
1 CATAACTTA
*
51354588 CACAACTTATTA
1 CATAAC---TTA
51354600 CATAACTTA
1 CATAACTTA
*
51354609 AATAACTTA
1 CATAACTTA
51354618 CATAA--TA
1 CATAACTTA
*
51354625 CATAACTTT
1 CATAACTTA
51354634 CATAACTTA
1 CATAACTTA
51354643 CAGT-A--TA
1 CA-TAACTTA
*
51354650 CACAACTTA
1 CATAACTTA
*
51354659 CATAAATTA
1 CATAACTTA
*
51354668 -AT-ATTATA
1 CATAACT-TA
*
51354676 CACAACTTA
1 CATAACTTA
51354685 CATAA--TA
1 CATAACTTA
*
51354692 CATTACTTA
1 CATAACTTA
51354701 CATAACTTA
1 CATAACTTA
*
51354710 CATTA--TA
1 CATAACTTA
*
51354717 CACAACTTA
1 CATAACTTA
*
51354726 CATAAATTA
1 CATAACTTA
*
51354735 -AT-ATTATA
1 CATAACT-TA
*
51354743 CACAACTTA
1 CATAACTTA
51354752 CATAA--TA
1 CATAACTTA
*
51354759 CATTACTTA
1 CATAACTTA
51354768 CATAACTTA
1 CATAACTTA
*
51354777 CATTA--TA
1 CATAACTTA
*
51354784 CACAACTTA
1 CATAACTTA
51354793 CATAACTTA
1 CATAACTTA
** *
51354802 TTTAATATTATA
1 CAT-A-ACT-TA
51354814 CATAACTTA
1 CATAACTTA
51354823 CATAA--TA
1 CATAACTTA
51354830 CATAACTTA
1 CATAACTTA
*
51354839 TATAACTTA
1 CATAACTTA
51354848 CATAA--TA
1 CATAACTTA
51354855 CATAACTTA
1 CATAACTTA
51354864 CATAAC-T-
1 CATAACTTA
* *
51354871 CACAAGTTA
1 CATAACTTA
51354880 CATAACTTA
1 CATAACTTA
* *
51354889 AATACATTATA
1 CATA-ACT-TA
**
51354900 CCCAACTTA
1 CATAACTTA
51354909 CAT-A--T-
1 CATAACTTA
51354914 -ATAACTTA
1 CATAACTTA
*
51354922 CATAGCTTA
1 CATAACTTA
*
51354931 CAT-TC-TA
1 CATAACTTA
*
51354938 CACAACTTA
1 CATAACTTA
*
51354947 CATAACATA
1 CATAACTTA
51354956 CATAA--TA
1 CATAACTTA
*
51354963 CATAGCTTA
1 CATAACTTA
*
51354972 CACAA--TA
1 CATAACTTA
*
51354979 CACAACTTA
1 CATAACTTA
*
51354988 CATAGCTTA
1 CATAACTTA
51354997 CATAA--TA
1 CATAACTTA
*
51355004 CATGACTTA
1 CATAACTTA
*
51355013 CATAGCTTA
1 CATAACTTA
51355022 ATTATACTTA
Statistics
Matches: 397, Mismatches: 74, Indels: 116
0.68 0.13 0.20
Matches are distributed among these distances:
4 2 0.01
5 1 0.00
6 1 0.00
7 91 0.23
8 13 0.03
9 228 0.57
10 17 0.04
11 12 0.03
12 32 0.08
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:51354513 original size:12 final size:12
Alignment explanation
Indices: 51354496--51354524 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
51354486 TAACTTACAT
51354496 AACTTATATATA
1 AACTTATATATA
51354508 AACTTATATATA
1 AACTTATATATA
51354520 AACTT
1 AACTT
51354525 GCATAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (12 bp):
AACTTATATATA
Found at i:51354542 original size:12 final size:12
Alignment explanation
Indices: 51354527--51354553 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
51354517 ATAAACTTGC
51354527 ATAACTTACATA
1 ATAACTTACATA
51354539 ATAACTTACATA
1 ATAACTTACATA
51354551 ATA
1 ATA
51354554 CATAGCCTAC
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:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:51354582 original size:18 final size:16
Alignment explanation
Indices: 51354539--51354991 Score: 128
Period size: 16 Copynumber: 27.8 Consensus size: 16
51354529 AACTTACATA
51354539 ATAACTTACATAATAC
1 ATAACTTACATAATAC
* * *
51354555 ATAGCCTACATAGCCTAC
1 ATAACTTACATA--ATAC
*
51354573 ATAACTTACATGATAC
1 ATAACTTACATAATAC
* *
51354589 ACAACTTATTACATAACTTAA
1 ATAAC---TTACATAA--TAC
51354610 ATAACTTACATAATAC
1 ATAACTTACATAATAC
*
51354626 ATAACTTTCATAACTTAC
1 ATAACTTACATAA--TAC
*
51354644 AGTATAC--ACA-ACTTAC
1 A-TA-ACTTACATA-ATAC
*
51354660 ATAAATTA-ATATTATAC
1 ATAACTTACATA--ATAC
*
51354677 ACAACTTACATAATAC
1 ATAACTTACATAATAC
*
51354693 ATTACTTACATAACTTAC
1 ATAACTTACATAA--TAC
* *
51354711 ATTA--TACACAACTTAC
1 ATAACTTACATAA--TAC
*
51354727 ATAAATTA-ATATTATAC
1 ATAACTTACATA--ATAC
*
51354744 ACAACTTACATAATAC
1 ATAACTTACATAATAC
*
51354760 ATTACTTACATAACTTAC
1 ATAACTTACATAA--TAC
* *
51354778 ATTA--TACACAACTTAC
1 ATAACTTACATAA--TAC
*
51354794 ATAACTTATTTAATATTATAC
1 ATAACTTA---CATA--ATAC
51354815 ATAACTTACATAATAC
1 ATAACTTACATAATAC
51354831 ATAAC-T---T-AT--
1 ATAACTTACATAATAC
51354840 ATAACTTACATAATAC
1 ATAACTTACATAATAC
51354856 ATAACTTACATAACT-C
1 ATAACTTACATAA-TAC
* *
51354872 ACAAGTTACAT-A-AC
1 ATAACTTACATAATAC
* * *
51354886 TTAA-ATACATTATAC
1 ATAACTTACATAATAC
**
51354901 CCAACTTACAT-AT--
1 ATAACTTACATAATAC
*
51354914 ATAACTTACATAGCTTAC
1 ATAACTTACATA--ATAC
* *
51354932 AT-TC-TACACAACTTAC
1 ATAACTTACATAA--TAC
*
51354948 ATAACATACATAATAC
1 ATAACTTACATAATAC
* *
51354964 ATAGCTTACACAATAC
1 ATAACTTACATAATAC
*
51354980 ACAACTTACATA
1 ATAACTTACATA
51354992 GCTTACATAA
Statistics
Matches: 327, Mismatches: 56, Indels: 108
0.67 0.11 0.22
Matches are distributed among these distances:
9 5 0.02
10 1 0.00
11 2 0.01
12 1 0.00
13 15 0.05
14 7 0.02
15 11 0.03
16 168 0.51
17 24 0.07
18 61 0.19
19 10 0.03
20 2 0.01
21 19 0.06
23 1 0.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (16 bp):
ATAACTTACATAATAC
Found at i:51354602 original size:37 final size:37
Alignment explanation
Indices: 51354561--51354632 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
51354551 ATACATAGCC
* * *
51354561 TACATAGCCTACATAACTTACATGATACACAACTTAT
1 TACATAACCTAAATAACTTACATAATACACAACTTAT
* *
51354598 TACATAACTTAAATAACTTACATAATACATAACTT
1 TACATAACCTAAATAACTTACATAATACACAACTT
51354633 TCATAACTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.32
Consensus pattern (37 bp):
TACATAACCTAAATAACTTACATAATACACAACTTAT
Found at i:51354632 original size:25 final size:25
Alignment explanation
Indices: 51354539--51354973 Score: 177
Period size: 25 Copynumber: 17.0 Consensus size: 25
51354529 AACTTACATA
* *
51354539 ATAACTTACATAATACATAGCCTAC
1 ATAACTTACATAATACATAACTTAC
* * *
51354564 ATAGCCTACATAACTTACATGA--TAC
1 ATAACTTACATAA--TACATAACTTAC
* *
51354589 ACAACTT--AT--TACATAACTTAA
1 ATAACTTACATAATACATAACTTAC
*
51354610 ATAACTTACATAATACATAACTTTC
1 ATAACTTACATAATACATAACTTAC
*
51354635 ATAACTTACAGT-ATACACAACTTAC
1 ATAACTTACA-TAATACATAACTTAC
* *
51354660 ATAAATTA-ATATTATACACAACTTAC
1 ATAACTTACATA--ATACATAACTTAC
* * *
51354686 ATAATACATTACTTACATAACTTACATTATAC
1 AT-A-AC-TTACATA-AT-ACATA-ACT-TAC
* ** *
51354718 ACAACTTACATAAATTAAT-ATTATAC
1 ATAACTTACAT-AATACATAACT-TAC
* *
51354744 ACAACTTACATAATACATTACTTAC
1 ATAACTTACATAATACATAACTTAC
* *
51354769 ATAACTTACATTATACACAACTTAC
1 ATAACTTACATAATACATAACTTAC
*
51354794 ATAACTTATTTAATATTATACATAACTTAC
1 ATAACTTA---CATA--ATACATAACTTAC
*
51354824 ATAA--TACATAACTTATATAACTTAC
1 ATAACTTACATAA--TACATAACTTAC
51354849 ATAA--TACATAACTTACATAAC-T-C
1 ATAACTTACATAA--TACATAACTTAC
* * * *
51354872 ACAAGTTACATAACTTAAATACATTATAC
1 ATAACTTACATAA--TACATA-ACT-TAC
**
51354901 CCAACTTACAT-AT--ATAACTTAC
1 ATAACTTACATAATACATAACTTAC
* ** *
51354923 ATAGCTTACATTCTACACAACTTAC
1 ATAACTTACATAATACATAACTTAC
* *
51354948 ATAACATACATAATACATAGCTTAC
1 ATAACTTACATAATACATAACTTAC
51354973 A
1 A
51354974 CAATACACAA
Statistics
Matches: 317, Mismatches: 56, Indels: 74
0.71 0.13 0.17
Matches are distributed among these distances:
19 6 0.02
21 8 0.03
22 11 0.03
23 13 0.04
24 5 0.02
25 169 0.53
26 38 0.12
27 6 0.02
28 8 0.03
29 22 0.07
30 24 0.08
31 3 0.01
32 4 0.01
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (25 bp):
ATAACTTACATAATACATAACTTAC
Found at i:51354706 original size:67 final size:67
Alignment explanation
Indices: 51354561--51354868 Score: 410
Period size: 67 Copynumber: 4.6 Consensus size: 67
51354551 ATACATAGCC
* * * * * * *
51354561 TACATAGCCTACATAACTTACATGATACACAACTTA-TTACA-TAA-CTTA-A-ATAACTTACAT
1 TACATAACTTACATAACTTACATTATACACAACTTACATAAATTAATATTATACACAACTTACAT
51354621 AA
66 AA
* *
51354623 TACATAACTTTCATAACTTACAGTATACACAACTTACATAAATTAATATTATACACAACTTACAT
1 TACATAACTTACATAACTTACATTATACACAACTTACATAAATTAATATTATACACAACTTACAT
51354688 AA
66 AA
*
51354690 TACATTACTTACATAACTTACATTATACACAACTTACATAAATTAATATTATACACAACTTACAT
1 TACATAACTTACATAACTTACATTATACACAACTTACATAAATTAATATTATACACAACTTACAT
51354755 AA
66 AA
* *
51354757 TACATTACTTACATAACTTACATTATACACAACTTACATAACTTATTTAATATTATACATAACTT
1 TACATAACTTACATAACTTACATTATACACAACTTACATAA---A-TTAATATTATACACAACTT
51354822 ACATAA
62 ACATAA
* * *
51354828 TACATAACTTATATAACTTACATAATACATAACTTACATAA
1 TACATAACTTACATAACTTACATTATACACAACTTACATAA
51354869 CTCACAAGTT
Statistics
Matches: 220, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
62 31 0.14
63 3 0.01
64 3 0.01
65 3 0.01
66 1 0.00
67 117 0.53
70 1 0.00
71 61 0.28
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (67 bp):
TACATAACTTACATAACTTACATTATACACAACTTACATAAATTAATATTATACACAACTTACAT
AA
Found at i:51354989 original size:25 final size:25
Alignment explanation
Indices: 51354961--51355021 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
51354951 ACATACATAA
51354961 TACATAGCTTACACAATACACAACT
1 TACATAGCTTACACAATACACAACT
* **
51354986 TACATAGCTTACATAATACATGACT
1 TACATAGCTTACACAATACACAACT
51355011 TACATAGCTTA
1 TACATAGCTTA
51355022 ATTATACTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.30
Consensus pattern (25 bp):
TACATAGCTTACACAATACACAACT
Found at i:51356430 original size:43 final size:43
Alignment explanation
Indices: 51356382--51356762 Score: 507
Period size: 43 Copynumber: 8.9 Consensus size: 43
51356372 CTTCCAAAAT
* * *
51356382 TAGCGGCGTTTGTGGAAAAAGCGCCACTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTA
* * * *
51356425 TAGCGGCGTTTGTGAAAAAAACGCCGCTCAAGGTCATGGTCTG
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTA
51356468 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTA
* * * *
51356511 TAGCGGCGTTTTTGGGAAAAGCGCTGCTACAGGTCATGGTCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTA
* * *
51356554 TAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGTCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTA
** *
51356597 TAGCGATGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTA
* *
51356640 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGTTCATGGTCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTA
* * *
51356683 TAGCTGCATTTGTGGAAAAAGCGCTGCTAAAGGTCATGGTCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTA
* *
51356726 TAGCGGCATTTTTCTGG---AAGCGCCGCTAAAGGTCATG
1 TAGCGGC--GTTTGTGGAAAAAGCGCCGCTAAAGGTCATG
51356763 AACTTTAGCG
Statistics
Matches: 300, Mismatches: 36, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
42 19 0.06
43 275 0.92
45 6 0.02
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTA
Found at i:51360571 original size:27 final size:27
Alignment explanation
Indices: 51360499--51360571 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
51360489 TAATCTAATT
* * *
51360499 AGAGTACGCCACAAAGGCAATCCATGC
1 AGAGTACACCACAAAGGCTATCCATAC
* **
51360526 AAAGTACACCACAAAGGCTATTTATAC
1 AGAGTACACCACAAAGGCTATCCATAC
51360553 AGAGTACACCACAAAGGCT
1 AGAGTACACCACAAAGGCT
51360572 GACAAGATGC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.41, C:0.26, G:0.18, T:0.15
Consensus pattern (27 bp):
AGAGTACACCACAAAGGCTATCCATAC
Found at i:51365034 original size:16 final size:16
Alignment explanation
Indices: 51365003--51365032 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51364993 AGGAACACTT
51365003 GATTTTTATTAATTTA
1 GATTTTTATTAATTTA
51365019 GATTTTT-TTAATTT
1 GATTTTTATTAATTT
51365033 TATTTTATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (16 bp):
GATTTTTATTAATTTA
Found at i:51366724 original size:19 final size:19
Alignment explanation
Indices: 51366700--51366739 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
51366690 AATGACTAAA
51366700 TTGCATAAAATAAATTGTC
1 TTGCATAAAATAAATTGTC
51366719 TTGCATAAAATAAATTGTC
1 TTGCATAAAATAAATTGTC
51366738 TT
1 TT
51366740 ACTATCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (19 bp):
TTGCATAAAATAAATTGTC
Found at i:51367163 original size:21 final size:21
Alignment explanation
Indices: 51367137--51367218 Score: 69
Period size: 21 Copynumber: 3.9 Consensus size: 21
51367127 CAAGTGGATT
*
51367137 AGCTCTTTTGAGCTTCTGTTC
1 AGCTCTTTCGAGCTTCTGTTC
* *
51367158 AGCTCTTACGAGCTT-TAATTC
1 AGCTCTTTCGAGCTTCT-GTTC
* * *
51367179 AGCT-TTTACAAGCTTTTGTTA
1 AGCTCTTT-CGAGCTTCTGTTC
*
51367200 AGCTCTTTTGAGCTTCTGT
1 AGCTCTTTCGAGCTTCTGT
51367219 GGTGTGTTTG
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
20 3 0.06
21 40 0.85
22 4 0.09
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (21 bp):
AGCTCTTTCGAGCTTCTGTTC
Found at i:51368544 original size:31 final size:31
Alignment explanation
Indices: 51368509--51368585 Score: 138
Period size: 31 Copynumber: 2.5 Consensus size: 31
51368499 AAATGTAAGT
51368509 ATGAATAATTGGTTGTGATTGAGGTGCCTAA
1 ATGAATAATTGGTTGTGATTGAGGTGCCTAA
51368540 ATGAATAATTGGTTGTGATTGAGGTGCCTAA
1 ATGAATAATTGGTTGTGATTGAGGTGCCTAA
51368571 ATGACAT-ATTGGTTG
1 ATGA-ATAATTGGTTG
51368586 AATGGACCTA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
31 43 0.96
32 2 0.04
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.36
Consensus pattern (31 bp):
ATGAATAATTGGTTGTGATTGAGGTGCCTAA
Found at i:51372515 original size:7 final size:7
Alignment explanation
Indices: 51372505--51372540 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
51372495 CCTTTTTAGA
51372505 TTTTTA-
1 TTTTTAT
51372511 TTTTTATT
1 TTTTTA-T
51372519 TTTTTAT
1 TTTTTAT
51372526 TTTTTAT
1 TTTTTAT
51372533 TTTTTAT
1 TTTTTAT
51372540 T
1 T
51372541 CTTATTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.21
7 16 0.57
8 6 0.21
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTAT
Found at i:51372540 original size:14 final size:15
Alignment explanation
Indices: 51372505--51372537 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
51372495 CCTTTTTAGA
51372505 TTTTTA-TTTTTATT
1 TTTTTATTTTTTATT
51372519 TTTTTATTTTTTATT
1 TTTTTATTTTTTATT
51372534 TTTT
1 TTTT
51372538 ATTCTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTATTTTTTATT
Found at i:51372563 original size:28 final size:28
Alignment explanation
Indices: 51372505--51372568 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
51372495 CCTTTTTAGA
* * * *
51372505 TTTTTATTTTTATTTTTTTATTTTTTAT
1 TTTTTATTCTTATTTATTTATATTCTAT
* *
51372533 TTTTTATTCTTATTTATTTCTATTCTCT
1 TTTTTATTCTTATTTATTTATATTCTAT
51372561 TTTCTTAT
1 TTT-TTAT
51372569 CATTCGTCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
28 25 0.86
29 4 0.14
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (28 bp):
TTTTTATTCTTATTTATTTATATTCTAT
Found at i:51372626 original size:24 final size:24
Alignment explanation
Indices: 51372599--51372647 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
51372589 TTGTTACCAG
51372599 TCTTACTT-TTATTATTT-TGATTAT
1 TCTT-CTTATTATT-TTTATGATTAT
*
51372623 TCTTCTTATTCTTTTTATGATTAT
1 TCTTCTTATTATTTTTATGATTAT
51372647 T
1 T
51372648 TTTTATCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.18, C:0.10, G:0.04, T:0.67
Consensus pattern (24 bp):
TCTTCTTATTATTTTTATGATTAT
Found at i:51372779 original size:11 final size:11
Alignment explanation
Indices: 51372750--51372786 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
51372740 CAAGTCTTGT
51372750 TTCTTTTAGTA
1 TTCTTTTAGTA
*
51372761 TTATTTTTAGTA
1 TT-CTTTTAGTA
51372773 TTCTTTTAGTA
1 TTCTTTTAGTA
51372784 TTC
1 TTC
51372787 ATATCATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (11 bp):
TTCTTTTAGTA
Found at i:51376745 original size:18 final size:19
Alignment explanation
Indices: 51376722--51376759 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
51376712 TCTAGGTGGA
51376722 TTCTTTC-TTGGGTATTAT
1 TTCTTTCATTGGGTATTAT
*
51376740 TTCTTTCATTGGTTATTAT
1 TTCTTTCATTGGGTATTAT
51376759 T
1 T
51376760 CGATTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.13, C:0.11, G:0.13, T:0.63
Consensus pattern (19 bp):
TTCTTTCATTGGGTATTAT
Found at i:51401683 original size:18 final size:18
Alignment explanation
Indices: 51401660--51401699 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
51401650 TGTCTCCTTT
51401660 TTTTCTTCCTCTTTTCTG
1 TTTTCTTCCTCTTTTCTG
* *
51401678 TTTTCTTTCTTTTTTCTG
1 TTTTCTTCCTCTTTTCTG
51401696 TTTT
1 TTTT
51401700 TGTTGTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.05, T:0.75
Consensus pattern (18 bp):
TTTTCTTCCTCTTTTCTG
Found at i:51411420 original size:12 final size:13
Alignment explanation
Indices: 51411403--51411431 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
51411393 AGAGTTAGGG
51411403 TTTAAA-TATTTA
1 TTTAAAGTATTTA
51411415 TTTAAAGTATTTA
1 TTTAAAGTATTTA
51411428 TTTA
1 TTTA
51411432 GGTCATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (13 bp):
TTTAAAGTATTTA
Found at i:51412590 original size:15 final size:15
Alignment explanation
Indices: 51412570--51412607 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
51412560 CAATGAAAAG
51412570 GATGAAAAGGTTATC
1 GATGAAAAGGTTATC
51412585 GATGAAAAGGTTATC
1 GATGAAAAGGTTATC
51412600 GATTGAAA
1 GA-TGAAA
51412608 TATTTTATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.42, C:0.05, G:0.26, T:0.26
Consensus pattern (15 bp):
GATGAAAAGGTTATC
Found at i:51416645 original size:22 final size:22
Alignment explanation
Indices: 51416620--51416664 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
51416610 TCCACATAGT
* *
51416620 TATGAAAGCCTTTTACGGGTAG
1 TATGAAAGCCCTTTAAGGGTAG
*
51416642 TATGCAAGCCCTTTAAGGGTAG
1 TATGAAAGCCCTTTAAGGGTAG
51416664 T
1 T
51416665 GTGAGACTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (22 bp):
TATGAAAGCCCTTTAAGGGTAG
Found at i:51418481 original size:15 final size:15
Alignment explanation
Indices: 51418461--51418493 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
51418451 ATTTCCTCAC
*
51418461 ATTTTCATTTCTAAA
1 ATTTTCATATCTAAA
51418476 ATTTTCATATCTAAA
1 ATTTTCATATCTAAA
51418491 ATT
1 ATT
51418494 ACTTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTTCATATCTAAA
Found at i:51421600 original size:45 final size:45
Alignment explanation
Indices: 51421510--51421682 Score: 260
Period size: 45 Copynumber: 3.9 Consensus size: 45
51421500 TTCATTTGAT
*
51421510 TCGTGATGCCATAGCATCTTTCAG-CTAT-GTCTTACTCGATAGAA
1 TCGTGATGCCATAACATCTTTCAGTC-ATGGTCTTACTCGATAGAA
* *
51421554 TCATAATGCCATAACATCTTTCAGTCATGGTCTTACTCGATAGAA
1 TCGTGATGCCATAACATCTTTCAGTCATGGTCTTACTCGATAGAA
* *
51421599 TCGTGATGTCATAACATCTTTCAGTCATGGTCTTACTTGATAGAA
1 TCGTGATGCCATAACATCTTTCAGTCATGGTCTTACTCGATAGAA
* *
51421644 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTGCTCG
1 TCGTGATGCCATAACATCTTTCAGTCATGGTCTTACTCG
51421683 TTTCTAGTAT
Statistics
Matches: 116, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
44 23 0.20
45 93 0.80
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (45 bp):
TCGTGATGCCATAACATCTTTCAGTCATGGTCTTACTCGATAGAA
Found at i:51427894 original size:20 final size:20
Alignment explanation
Indices: 51427869--51427911 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
51427859 CACATTCAGT
* *
51427869 ATTTTCGGTTTGATTTATTA
1 ATTTTCAGTTTAATTTATTA
51427889 ATTTTCAGTTTAATTTATTA
1 ATTTTCAGTTTAATTTATTA
51427909 ATT
1 ATT
51427912 ATCTTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.05, G:0.09, T:0.60
Consensus pattern (20 bp):
ATTTTCAGTTTAATTTATTA
Found at i:51434491 original size:21 final size:20
Alignment explanation
Indices: 51434452--51434492 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
51434442 TAAAGAGAAC
* *
51434452 AAAATAAATAAATATATAAT
1 AAAATAAATAAAAACATAAT
51434472 AAAATAAAATAAAAACATAAT
1 AAAAT-AAATAAAAACATAAT
51434493 TATGTTTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAATAAATAAAAACATAAT
Found at i:51439885 original size:18 final size:18
Alignment explanation
Indices: 51439859--51439901 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
51439849 GACTGGGAAA
* *
51439859 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
51439877 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
51439895 AGGATAC
1 AGGATAC
51439902 GCACTTGACA
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:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:51440498 original size:7 final size:7
Alignment explanation
Indices: 51440488--51440512 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
51440478 TTATATACAT
51440488 AATACTA
1 AATACTA
51440495 AATACTA
1 AATACTA
51440502 AATACTA
1 AATACTA
51440509 AATA
1 AATA
51440513 TGAAATGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:51442629 original size:11 final size:10
Alignment explanation
Indices: 51442610--51442658 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
51442600 AATATTAATG
51442610 TATTTTTATA
1 TATTTTTATA
51442620 TATATTTTATA
1 TAT-TTTTATA
51442631 TATTTTTA-A
1 TATTTTTATA
51442640 -A-TTTTATA
1 TATTTTTATA
*
51442648 TATTATTATA
1 TATTTTTATA
51442658 T
1 T
51442659 GTTATGAACA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
7 5 0.15
8 2 0.06
9 2 0.06
10 15 0.44
11 10 0.29
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TATTTTTATA
Found at i:51442632 original size:9 final size:9
Alignment explanation
Indices: 51442618--51442658 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
51442608 TGTATTTTTA
51442618 TATATATTT
1 TATATATTT
51442627 TATATATTT
1 TATATATTT
*
51442636 T-TAAATTT
1 TATATATTT
51442644 TATATATTAT
1 TATATATT-T
51442654 TATAT
1 TATAT
51442659 GTTATGAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 7 0.25
9 15 0.54
10 6 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATATATTT
Found at i:51442663 original size:17 final size:17
Alignment explanation
Indices: 51442615--51442663 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
51442605 TAATGTATTT
51442615 TTATATATATTTTATATA
1 TTAT-TATATTTTATATA
* *
51442633 TTTTTAAATTTTATATA
1 TTATTATATTTTATATA
*
51442650 TTATTATATGTTAT
1 TTATTATATTTTAT
51442664 GAACAATTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 23 0.88
18 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TTATTATATTTTATATA
Found at i:51443131 original size:22 final size:21
Alignment explanation
Indices: 51443106--51443149 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
51443096 TTTTTATAAT
51443106 AAGTAATTGTAAATTTTAAGAA
1 AAGT-ATTGTAAATTTTAAGAA
* *
51443128 AAGTCTTTTAAATTTTAAGAA
1 AAGTATTGTAAATTTTAAGAA
51443149 A
1 A
51443150 GGTCCTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (21 bp):
AAGTATTGTAAATTTTAAGAA
Found at i:51443141 original size:21 final size:21
Alignment explanation
Indices: 51443115--51443159 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
51443105 TAAGTAATTG
*
51443115 TAAATTTTAAGAAAAGTCTTT
1 TAAATTTTAAGAAAAGTCCTT
*
51443136 TAAATTTTAAGAAAGGTCCTT
1 TAAATTTTAAGAAAAGTCCTT
51443157 TAA
1 TAA
51443160 GTAGATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (21 bp):
TAAATTTTAAGAAAAGTCCTT
Found at i:51454259 original size:7 final size:7
Alignment explanation
Indices: 51454247--51454285 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
51454237 TGGCAAGGAT
51454247 GGGGGAA
1 GGGGGAA
51454254 GGGGGAA
1 GGGGGAA
51454261 GGGGGAA
1 GGGGGAA
51454268 GGGGGAA
1 GGGGGAA
51454275 GGGGGAA
1 GGGGGAA
51454282 GGGG
1 GGGG
51454286 AAGAGGCTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.26, C:0.00, G:0.74, T:0.00
Consensus pattern (7 bp):
GGGGGAA
Found at i:51456477 original size:26 final size:24
Alignment explanation
Indices: 51456424--51456477 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
51456414 AGTATCAAGT
*
51456424 TATTTTAATTATGATTTTTTAAAA
1 TATTTTAATTATGATTTTGTAAAA
*
51456448 -ATTTTAATTATTATGTTTGTAAACA
1 TATTTTAATTATGAT-TTTGTAAA-A
51456473 TATTT
1 TATTT
51456478 ATTAACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 13 0.52
24 7 0.28
25 1 0.04
26 4 0.16
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (24 bp):
TATTTTAATTATGATTTTGTAAAA
Found at i:51469010 original size:20 final size:20
Alignment explanation
Indices: 51468966--51469016 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
51468956 GCTATGTGGC
*
51468966 TAGGCTATGTGGAATACCCT
1 TAGGCTGTGTGGAATACCCT
51468986 TAGGCTGTGTGGAATA-CCT
1 TAGGCTGTGTGGAATACCCT
*
51469005 TCAGGCCGTGTG
1 T-AGGCTGTGTG
51469017 ACATTCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (20 bp):
TAGGCTGTGTGGAATACCCT
Found at i:51470247 original size:21 final size:19
Alignment explanation
Indices: 51470223--51470265 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
51470213 GAAATTAAAA
51470223 TAAAACAAAAGAAAAAGGAAT
1 TAAAACAAAA-AAAAA-GAAT
* *
51470244 TAAAATAAAACAAAAGAAT
1 TAAAACAAAAAAAAAGAAT
51470263 TAA
1 TAA
51470266 TAAATGAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 4 0.20
21 9 0.45
ACGTcount: A:0.72, C:0.05, G:0.09, T:0.14
Consensus pattern (19 bp):
TAAAACAAAAAAAAAGAAT
Found at i:51471833 original size:23 final size:24
Alignment explanation
Indices: 51471785--51471831 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
51471775 TGAGTATGTT
*
51471785 TGATTGTATTTTGAATAGGTTAAA
1 TGATTGTATTTTGAATAGCTTAAA
*
51471809 TGATTGGT-TTTTGAATTGCTTAA
1 TGATT-GTATTTTGAATAGCTTAA
51471832 TGCCCAAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.28, C:0.02, G:0.21, T:0.49
Consensus pattern (24 bp):
TGATTGTATTTTGAATAGCTTAAA
Found at i:51472388 original size:29 final size:29
Alignment explanation
Indices: 51472343--51472401 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
51472333 TTTGAAAAGG
* *
51472343 TAAAAGTCCCTAGGTTTGCCGTCTACTAT
1 TAAAAGTCCCTAAGTTTGCCGTCCACTAT
*
51472372 TAAAAGTCCCTAAGTTTGTCGTCCACTAT
1 TAAAAGTCCCTAAGTTTGCCGTCCACTAT
51472401 T
1 T
51472402 TTCTTCTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (29 bp):
TAAAAGTCCCTAAGTTTGCCGTCCACTAT
Found at i:51492748 original size:63 final size:63
Alignment explanation
Indices: 51492667--51492788 Score: 217
Period size: 63 Copynumber: 1.9 Consensus size: 63
51492657 TGTTAGGCTA
*
51492667 TGTAACTCACTGACTCTCATACAAAGGAACCTTCAGATGACACATGGCTGTGTCACCAGACTG
1 TGTAACTCACTGACTCTCATACAAAGGAACCCTCAGATGACACATGGCTGTGTCACCAGACTG
* *
51492730 TGTAACTCACTGACTCTCATACAAAGGAACCCTCAGATGACACATGGTTGTGTCGCCAG
1 TGTAACTCACTGACTCTCATACAAAGGAACCCTCAGATGACACATGGCTGTGTCACCAG
51492789 GCCATGTGTC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (63 bp):
TGTAACTCACTGACTCTCATACAAAGGAACCCTCAGATGACACATGGCTGTGTCACCAGACTG
Found at i:51495830 original size:16 final size:16
Alignment explanation
Indices: 51495809--51495840 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
51495799 GTTTTATTGC
*
51495809 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
51495825 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
51495841 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:51496126 original size:51 final size:52
Alignment explanation
Indices: 51496062--51496205 Score: 159
Period size: 51 Copynumber: 2.8 Consensus size: 52
51496052 GATACCGGTT
* *
51496062 CACAGAGTAGCCTGCACATAGTACTACACATGTGACCATCA-CTATCTGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCAGCTATCCGATA
* * * * *
51496113 CACGTAGTAGCCTGCATATAGTACTACACACGTGATCGA--AGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATCAGCTATCCGATA
* * *
51496164 CGCATAATAGCCTGCACATAGTACTACACATGCGACCTATCA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACC-ATCA
51496206 TTCTGGTAGC
Statistics
Matches: 74, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
50 2 0.03
51 69 0.93
52 2 0.03
53 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (52 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCAGCTATCCGATA
Found at i:51496495 original size:17 final size:16
Alignment explanation
Indices: 51496463--51496493 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51496453 CAATCTAGTC
51496463 GAAAAATCACATTTTG
1 GAAAAATCACATTTTG
*
51496479 GAAAAATTACATTTT
1 GAAAAATCACATTTT
51496494 TGCCCCTAAA
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:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (16 bp):
GAAAAATCACATTTTG
Found at i:51500069 original size:15 final size:16
Alignment explanation
Indices: 51500041--51500070 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51500031 GTTGGACTAA
51500041 ATTGAATGTGAGTTAT
1 ATTGAATGTGAGTTAT
51500057 ATTGAAT-TGAGTTA
1 ATTGAATGTGAGTTA
51500071 ATTCATTCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.43
Consensus pattern (16 bp):
ATTGAATGTGAGTTAT
Found at i:51500835 original size:16 final size:16
Alignment explanation
Indices: 51500796--51500836 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
51500786 TCTTTTTATG
*
51500796 ATTAAAACTAATTGTC
1 ATTAAAATTAATTGTC
*
51500812 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTC
51500828 ATTAAAATT
1 ATTAAAATT
51500837 CTATCAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (16 bp):
ATTAAAATTAATTGTC
Found at i:51502346 original size:25 final size:26
Alignment explanation
Indices: 51502314--51502377 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 26
51502304 TTTAAACTAA
*
51502314 CCAG-AATACAGATTGAACATACAAT
1 CCAGAAATACAGATTAAACATACAAT
*
51502339 CCA-AAATACAAATTAAACATACAAT
1 CCAGAAATACAGATTAAACATACAAT
51502364 CCAGAAA-ACAGATT
1 CCAGAAATACAGATT
51502378 CCAAAATTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 31 0.91
26 3 0.09
ACGTcount: A:0.53, C:0.20, G:0.08, T:0.19
Consensus pattern (26 bp):
CCAGAAATACAGATTAAACATACAAT
Found at i:51504190 original size:9 final size:9
Alignment explanation
Indices: 51504176--51504207 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
51504166 AGCCATCGAT
51504176 TCTATATTG
1 TCTATATTG
51504185 TCTATATTG
1 TCTATATTG
51504194 TCTATATTG
1 TCTATATTG
51504203 TCTAT
1 TCTAT
51504208 TTACCGCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.22, C:0.12, G:0.09, T:0.56
Consensus pattern (9 bp):
TCTATATTG
Found at i:51504466 original size:45 final size:45
Alignment explanation
Indices: 51504397--51504510 Score: 122
Period size: 45 Copynumber: 2.5 Consensus size: 45
51504387 AAACTTAGTG
* * * * *
51504397 AGACCAAAGCTAAAAGTTGTTATGGCATAAGGA-CAACAATGAGTA
1 AGACCATAGCTAAAAGATGCTATGGCATAAGGACCAA-AATCAATA
* * *
51504442 AGACCATAGCAAAAAGATGCTATGGCATCATGACCAAAATCAATA
1 AGACCATAGCTAAAAGATGCTATGGCATAAGGACCAAAATCAATA
* *
51504487 AGACCATGGCTAAAAGACGCTATG
1 AGACCATAGCTAAAAGATGCTATG
51504511 ACATCATGGT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 54 0.95
46 3 0.05
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (45 bp):
AGACCATAGCTAAAAGATGCTATGGCATAAGGACCAAAATCAATA
Found at i:51504773 original size:56 final size:57
Alignment explanation
Indices: 51504672--51504797 Score: 191
Period size: 56 Copynumber: 2.2 Consensus size: 57
51504662 GTTATATTTT
* * * *
51504672 GTAAGACCATAACTGAAAGATGCTGTGACAACAAGAGATGATTTGACAGTAAAACGA
1 GTAAGACCATAGCTAAAAGATGCTATGACAACAAGAGATGATTTGACAATAAAACGA
* *
51504729 GTAAGACCATAGCTAAAAGATG-TATGGCAACAAGAGATGATTTGATAATAAAACGA
1 GTAAGACCATAGCTAAAAGATGCTATGACAACAAGAGATGATTTGACAATAAAACGA
51504785 GTAAGACCATAGC
1 GTAAGACCATAGC
51504798 ATCTTTCAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
56 43 0.68
57 20 0.32
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.20
Consensus pattern (57 bp):
GTAAGACCATAGCTAAAAGATGCTATGACAACAAGAGATGATTTGACAATAAAACGA
Found at i:51514596 original size:16 final size:16
Alignment explanation
Indices: 51514571--51514601 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51514561 TGATATATGT
*
51514571 TTGTTTGAATGATAAG
1 TTGTTGGAATGATAAG
51514587 TTGTTGGAATGATAA
1 TTGTTGGAATGATAA
51514602 AATTTATTTA
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:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (16 bp):
TTGTTGGAATGATAAG
Found at i:51525596 original size:40 final size:40
Alignment explanation
Indices: 51525541--51525745 Score: 252
Period size: 40 Copynumber: 5.1 Consensus size: 40
51525531 AATTATTATA
* * * *
51525541 TGAATGCACATATGTGCCCCTGATTGTACTTCGATACCCT
1 TGAATGCACATACGTGCCCCTGATTGTACTTTGGTACCCC
* ** **
51525581 TGAATGCACATATGTGCCATTGATTGTACTTTGGCCCCCCC
1 TGAATGCACATACGTGCCCCTGATTGTACTTTGG-TACCCC
51525622 TGAATGCACATACGTGCCCCTGATTGTACTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTGATTGTACTTTGGTACCCC
* *
51525662 TGAATGCACATGCGTGCCCCTGATTATACTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTGATTGTACTTTGGTACCCC
* **
51525702 TAAATGCACATACGTG-CCCT-ATTTGTACTTTGGTAGTCC
1 TGAATGCACATACGTGCCCCTGA-TTGTACTTTGGTACCCC
51525741 TGAAT
1 TGAAT
51525746 TAAATAATAC
Statistics
Matches: 143, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
38 1 0.01
39 22 0.15
40 86 0.60
41 34 0.24
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.32
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGATTGTACTTTGGTACCCC
Found at i:51525643 original size:20 final size:20
Alignment explanation
Indices: 51525618--51525684 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
51525608 ACTTTGGCCC
51525618 CCCCTGAATGCACATACGTG
1 CCCCTGAATGCACATACGTG
* * * ** *
51525638 CCCCTGATTGTACTTTGGTA
1 CCCCTGAATGCACATACGTG
*
51525658 CCCCTGAATGCACATGCGTG
1 CCCCTGAATGCACATACGTG
51525678 CCCCTGA
1 CCCCTGA
51525685 TTATACTTTG
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.19, C:0.34, G:0.21, T:0.25
Consensus pattern (20 bp):
CCCCTGAATGCACATACGTG
Found at i:51525679 original size:81 final size:80
Alignment explanation
Indices: 51525541--51525745 Score: 252
Period size: 81 Copynumber: 2.6 Consensus size: 80
51525531 AATTATTATA
* * * * * *
51525541 TGAATGCACATATGTGCCCCTGATTGTACTTCGATACCCTTGAATGCACATATGTGCCATTGATT
1 TGAATGCACATACGTGCCCCTGATTGTACTTTGGTACCCCTGAATGCACATACGTGCCACTGATT
* *
51525606 GTACTTTGGCCCCCCC
66 ATACTTTGG-CACCCC
* *
51525622 TGAATGCACATACGTGCCCCTGATTGTACTTTGGTACCCCTGAATGCACATGCGTGCCCCTGATT
1 TGAATGCACATACGTGCCCCTGATTGTACTTTGGTACCCCTGAATGCACATACGTGCCACTGATT
*
51525687 ATACTTTGGTACCCC
66 ATACTTTGGCACCCC
* **
51525702 TAAATGCACATACGTG-CCCT-ATTTGTACTTTGGTAGTCCTGAAT
1 TGAATGCACATACGTGCCCCTGA-TTGTACTTTGGTACCCCTGAAT
51525746 TAAATAATAC
Statistics
Matches: 109, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
78 1 0.01
79 24 0.22
80 19 0.17
81 65 0.60
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.32
Consensus pattern (80 bp):
TGAATGCACATACGTGCCCCTGATTGTACTTTGGTACCCCTGAATGCACATACGTGCCACTGATT
ATACTTTGGCACCCC
Found at i:51525701 original size:20 final size:20
Alignment explanation
Indices: 51525638--51525702 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
51525628 CACATACGTG
51525638 CCCCTGATTGTACTTTGGTA
1 CCCCTGATTGTACTTTGGTA
* * * *
51525658 CCCCTGAATGCAC-ATGCGTG
1 CCCCTGATTGTACTTTG-GTA
*
51525678 CCCCTGATTATACTTTGGTA
1 CCCCTGATTGTACTTTGGTA
51525698 CCCCT
1 CCCCT
51525703 AAATGCACAT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.17, C:0.32, G:0.18, T:0.32
Consensus pattern (20 bp):
CCCCTGATTGTACTTTGGTA
Found at i:51530675 original size:20 final size:20
Alignment explanation
Indices: 51530650--51530693 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
51530640 TAATTAGAGC
*
51530650 TAAATATTAAA-TTCATAAAA
1 TAAATATTAAACTAC-TAAAA
51530670 TAAATATTAAACTACTAAAA
1 TAAATATTAAACTACTAAAA
51530690 TAAA
1 TAAA
51530694 GTTGACAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAATATTAAACTACTAAAA
Found at i:51532222 original size:20 final size:20
Alignment explanation
Indices: 51532197--51532257 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
51532187 ACTTGTACGG
51532197 GATTGCACTTCGATGCCTCT
1 GATTGCACTTCGATGCCTCT
* *
51532217 GATTGCACATTTG-TGCCTTT
1 GATTGCAC-TTCGATGCCTCT
* * *
51532237 GTTTTCATTTCGATGCCTCT
1 GATTGCACTTCGATGCCTCT
51532257 G
1 G
51532258 TTAAGCATCT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.13, C:0.25, G:0.20, T:0.43
Consensus pattern (20 bp):
GATTGCACTTCGATGCCTCT
Found at i:51535125 original size:11 final size:11
Alignment explanation
Indices: 51535105--51535139 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
51535095 AGTTATCCCA
51535105 GGTA-TCTAAC
1 GGTATTCTAAC
51535115 GGTATTCTAAC
1 GGTATTCTAAC
51535126 GGTATTCTAAC
1 GGTATTCTAAC
51535137 GGT
1 GGT
51535140 TCAACGAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (11 bp):
GGTATTCTAAC
Found at i:51548647 original size:23 final size:23
Alignment explanation
Indices: 51548623--51548673 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
51548613 GTAAATTAAT
*
51548623 TTTTTGTTA-AAAAAATTATCTA
1 TTTTTATTATAAAAAATTATCTA
*
51548645 TTTTTATTATAAAAAATTATC-C
1 TTTTTATTATAAAAAATTATCTA
51548667 TTTTTAT
1 TTTTTAT
51548674 GTTAGCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (23 bp):
TTTTTATTATAAAAAATTATCTA
Found at i:51549398 original size:124 final size:124
Alignment explanation
Indices: 51549178--51549493 Score: 492
Period size: 124 Copynumber: 2.5 Consensus size: 124
51549168 GATAAAATCA
**
51549178 AAGCAGGATGCTTTATAAGAAGAATTTCTGAAGCCGCGCTCA-CGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCTTTATAAGAAGAATTTCTGAAATCGCGC-CATCGTGGACGCGCTTTTGCTACAG
51549242 TAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAA-ACTTC
65 TAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACA-TTC
* * * *
51549302 AAGCAGGATGCTTTATTAGAAGAATTTCTAAAATCGCACCATCGTGGATGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTCTGAAATCGCGCCATCGTGGACGCGCTTTTGCTACAGT
*
51549367 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGTAAATAGTATAAAAAACGATTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAC-ATTC
* * * *
51549427 AAGTAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACACGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTCTGAAATCGCGCCATCGTGGACGCGCTTTTGCTACAGT
51549492 AG
66 AG
51549494 CATGTTTGGG
Statistics
Matches: 175, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
123 2 0.01
124 109 0.62
125 63 0.36
126 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (124 bp):
AAGCAGGATGCTTTATAAGAAGAATTTCTGAAATCGCGCCATCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACATTC
Found at i:51552604 original size:53 final size:53
Alignment explanation
Indices: 51552540--51552753 Score: 180
Period size: 53 Copynumber: 4.1 Consensus size: 53
51552530 ATTTTTAGTA
* * *
51552540 AAATTATTAATTTTTAATTGTATTAATTTTTAGTAAATTTATCAAATTATATC
1 AAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATTATATC
51552593 AAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATTAT-T-
1 AAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATTATATC
* *** ** *
51552644 -AATTGTT-A--G-TACCAGTCAAAACATT-TT-GTAAAATCTA--AAATTTTGTTAGTC
1 AAATTATTAATTGTTAATTGT-ATTA-ATTGTTAGTAAAAT-TATCAAA--TT-ATA-TC
*
51552695 AAATTATTAATTGTTAATTGTATTAATTGTTAGTAAATTTATCAAATTATATC
1 AAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATTATATC
*
51552748 ATATTA
1 AAATTA
51552754 GGGTTAGGGT
Statistics
Matches: 124, Mismatches: 19, Indels: 36
0.69 0.11 0.20
Matches are distributed among these distances:
45 3 0.02
46 11 0.09
47 9 0.07
48 4 0.03
49 1 0.01
50 7 0.06
52 7 0.06
53 55 0.44
54 5 0.04
55 9 0.07
56 10 0.08
57 3 0.02
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (53 bp):
AAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATTATATC
Found at i:51552853 original size:21 final size:21
Alignment explanation
Indices: 51552829--51553194 Score: 471
Period size: 21 Copynumber: 17.5 Consensus size: 21
51552819 TAAGGGTTAT
*
51552829 GGTTAGGGTTTTAAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
51552850 GGTTTAGGGTTTTTAAGTTAAG
1 GG-TTAGGGTTTTTAAGTTAAG
*
51552872 GGTTAGGGTATTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
51552893 GGTTTATGGTTTTTAAGTTAAG
1 GG-TTAGGGTTTTTAAGTTAAG
51552915 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
51552936 GGTTAGGGTATTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
51552957 GGTTTAGGGTTTTTAAGTTAAG
1 GG-TTAGGGTTTTTAAGTTAAG
*
51552979 GGTTCGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
51553000 GGTTTAGGGTTTTTAAGTTAAT
1 GG-TTAGGGTTTTTAAGTTAAG
* *
51553022 GATTAGAGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
51553043 GGTTTAGGGTTTTTAAGTTAAG
1 GG-TTAGGGTTTTTAAGTTAAG
*
51553065 GGTTTAGGGTTTTTAAGTTAAT
1 GG-TTAGGGTTTTTAAGTTAAG
51553087 GGTTAGGGTTTTTAAG----G
1 GGTTAGGGTTTTTAAGTTAAG
* *
51553104 GTTTAAGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
* *
51553125 AGTTTAAGG-TTTTAAGTTAAG
1 -GGTTAGGGTTTTTAAGTTAAG
*
51553146 GGTTAGGATTTTTAA--T--G
1 GGTTAGGGTTTTTAAGTTAAG
*
51553163 GTTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
51553184 GGTTAGGGTTT
1 GGTTAGGGTTT
51553195 AGGGTTAGGG
Statistics
Matches: 305, Mismatches: 25, Indels: 30
0.85 0.07 0.08
Matches are distributed among these distances:
17 28 0.09
19 2 0.01
20 5 0.02
21 144 0.47
22 126 0.41
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.45
Consensus pattern (21 bp):
GGTTAGGGTTTTTAAGTTAAG
Found at i:51552873 original size:15 final size:15
Alignment explanation
Indices: 51552801--51552854 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 15
51552791 AGGCTTGGAT
51552801 AGTTAAGGGTTTTTA
1 AGTTAAGGGTTTTTA
* *
51552816 AGGTAAGGG-TTAT-
1 AGTTAAGGGTTTTTA
* *
51552829 GGTT-AGGGTTTTAA
1 AGTTAAGGGTTTTTA
51552843 AGTTAAGGGTTT
1 AGTTAAGGGTTT
51552855 AGGGTTTTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
12 4 0.14
13 4 0.14
14 6 0.21
15 15 0.52
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.41
Consensus pattern (15 bp):
AGTTAAGGGTTTTTA
Found at i:51552889 original size:43 final size:42
Alignment explanation
Indices: 51552829--51553194 Score: 471
Period size: 43 Copynumber: 8.8 Consensus size: 42
51552819 TAAGGGTTAT
*
51552829 GGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAG
* *
51552872 GGTTAGGGTATTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAG
*
51552915 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTATTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG
*
51552957 GGTTTAGGGTTTTTAAGTTAAGGGTTCGGGTTTTTAAGTTAAG
1 GG-TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG
* * *
51553000 GGTTTAGGGTTTTTAAGTTAATGATTAGAGTTTTTAAGTTAAG
1 GG-TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG
*
51553043 GGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAT
1 GG-TTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAG
* *
51553087 GGTTAGGGTTTTTAAG----GGTTTAAGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG
* * *
51553125 AGTTTAAGG-TTTTAAGTTAAGGGTTAGGATTTTTAA--T--G
1 -GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG
*
51553163 GTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTT
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTT
51553195 AGGGTTAGGG
Statistics
Matches: 289, Mismatches: 26, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
37 7 0.02
38 47 0.16
39 8 0.03
40 1 0.00
42 32 0.11
43 175 0.61
44 19 0.07
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.45
Consensus pattern (42 bp):
GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG
Found at i:51553165 original size:16 final size:17
Alignment explanation
Indices: 51553141--51553178 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
51553131 AGGTTTTAAG
51553141 TTAAGGG-TTAGGATTT
1 TTAAGGGTTTAGGATTT
* *
51553157 TTAATGGTTTAGGGTTT
1 TTAAGGGTTTAGGATTT
51553174 TTAAG
1 TTAAG
51553179 TTAAGGGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (17 bp):
TTAAGGGTTTAGGATTT
Found at i:51553187 original size:22 final size:22
Alignment explanation
Indices: 51552831--51553102 Score: 421
Period size: 22 Copynumber: 12.6 Consensus size: 22
51552821 AGGGTTATGG
*
51552831 TTAGGGTTTTAAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
51552853 TTAGGGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
51552874 TTAGGGTATTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
51552896 TTATGGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
51552917 TTAGGGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
51552938 TTAGGGTATTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
51552960 TTAGGGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
51552981 TTCGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* *
51553003 TTAGGGTTTTTAAGTTAA-TGA
1 TTAGGGTTTTTAAGTTAAGGGT
*
51553024 TTAGAGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
51553046 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
51553068 TTAGGGTTTTTAAGTTAATGG-
1 TTAGGGTTTTTAAGTTAAGGGT
51553089 TTAGGGTTTTTAAG
1 TTAGGGTTTTTAAG
51553103 GGTTTAAGGT
Statistics
Matches: 230, Mismatches: 16, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
21 112 0.49
22 118 0.51
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (22 bp):
TTAGGGTTTTTAAGTTAAGGGT
Found at i:51553200 original size:13 final size:13
Alignment explanation
Indices: 51553182--51553207 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51553172 TTTTAAGTTA
51553182 AGGGTTAGGGTTT
1 AGGGTTAGGGTTT
51553195 AGGGTTAGGGTTT
1 AGGGTTAGGGTTT
51553208 TTGTTAGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (13 bp):
AGGGTTAGGGTTT
Found at i:51553786 original size:18 final size:18
Alignment explanation
Indices: 51553760--51553802 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
51553750 GACTCGGAAA
* * *
51553760 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
51553778 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
51553796 AGGATAC
1 AGGATAC
51553803 GTACCTAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:51554460 original size:7 final size:7
Alignment explanation
Indices: 51554450--51554475 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
51554440 TTATATACAT
51554450 AATACTA
1 AATACTA
51554457 AATACTA
1 AATACTA
51554464 AATACTA
1 AATACTA
51554471 AATAC
1 AATAC
51554476 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Done.