Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, whole genome shotgun sequence
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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 21 of 64
Found at i:2973798 original size:20 final size:20
Alignment explanation
Indices: 2973786--2973840 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
2973776 TATTAATTAT
*
2973786 CATGCAATAATATAAAATGC
1 CATGCAATAATATAAAATAC
2973806 CATGCAATAATATAAAATAC
1 CATGCAATAATATAAAATAC
2973826 CATGC-ATATATATAA
1 CATGCAATA-ATATAA
2973841 TCCATGAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.27
Consensus pattern (20 bp):
CATGCAATAATATAAAATAC
Found at i:2973969 original size:24 final size:24
Alignment explanation
Indices: 2973935--2973996 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
2973925 GATATCATTA
*
2973935 AAATATAATATTA-ATCATGCAAT
1 AAATATAATATCATATCATGCAAT
*
2973958 AACATATAATATCATATTATGCAAT
1 AA-ATATAATATCATATCATGCAAT
*
2973983 AAATATAAAATCAT
1 AAATATAATATCAT
2973997 GCAATAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.06
24 21 0.62
25 11 0.32
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.34
Consensus pattern (24 bp):
AAATATAATATCATATCATGCAAT
Found at i:2974169 original size:21 final size:22
Alignment explanation
Indices: 2974136--2974176 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2974126 TATACAATTA
2974136 AATATATAATCATACAAATAAT
1 AATATATAATCATACAAATAAT
*
2974158 AATATA-AATCATGCAAATA
1 AATATATAATCATACAAATA
2974177 GACATACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (22 bp):
AATATATAATCATACAAATAAT
Found at i:2974185 original size:53 final size:53
Alignment explanation
Indices: 2974127--2974255 Score: 186
Period size: 53 Copynumber: 2.4 Consensus size: 53
2974117 AATGTAAAAT
* * * *
2974127 ATACAATTAAATATATAATCATACAAATAATAATATAAATCATGCAAATAGAC
1 ATACAATTAAATATATAATAATACAAACAATAATAAAAATCATGCAAATAAAC
* *
2974180 ATACAATTACATACATAATAATACAAACAATAATAAAAATCATGCAAATAAAC
1 ATACAATTAAATATATAATAATACAAACAATAATAAAAATCATGCAAATAAAC
* *
2974233 ATGCAATTAAATGTATAATAATA
1 ATACAATTAAATATATAATAATA
2974256 ATAATCATGC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 66 1.00
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.27
Consensus pattern (53 bp):
ATACAATTAAATATATAATAATACAAACAATAATAAAAATCATGCAAATAAAC
Found at i:2974303 original size:20 final size:20
Alignment explanation
Indices: 2974278--2974400 Score: 103
Period size: 20 Copynumber: 6.3 Consensus size: 20
2974268 TGACACCAAT
* *
2974278 AAATAAATTGATAATTATGC
1 AAATAAATTAATAATCATGC
*
2974298 AAATAAATTAATAATCATGT
1 AAATAAATTAATAATCATGC
*
2974318 AGATAAATTAATAATCATGC
1 AAATAAATTAATAATCATGC
* * *
2974338 AAA-CATTTAAT-ATCTTGC
1 AAATAAATTAATAATCATGC
*
2974356 AAATATATTAATAA--AT-C
1 AAATAAATTAATAATCATGC
* * *
2974373 ACACAAATATACTAATCATGC
1 AAATAAAT-TAATAATCATGC
2974394 AAATAAA
1 AAATAAA
2974401 ACATTAAGCA
Statistics
Matches: 78, Mismatches: 19, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
17 6 0.08
18 15 0.19
19 11 0.14
20 40 0.51
21 6 0.08
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.32
Consensus pattern (20 bp):
AAATAAATTAATAATCATGC
Found at i:2974358 original size:18 final size:19
Alignment explanation
Indices: 2974324--2974368 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
2974314 ATGTAGATAA
2974324 ATTAATAATCATGCAAACAT
1 ATTAAT-ATCATGCAAACAT
* *
2974344 -TTAATATCTTGCAAATAT
1 ATTAATATCATGCAAACAT
2974362 ATTAATA
1 ATTAATA
2974369 AATCACACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (19 bp):
ATTAATATCATGCAAACAT
Found at i:2974427 original size:16 final size:16
Alignment explanation
Indices: 2974387--2974430 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
2974377 AAATATACTA
2974387 ATCATGCAAATAAAAC
1 ATCATGCAAATAAAAC
* * **
2974403 ATTAAGCAAATAAATT
1 ATCATGCAAATAAAAC
2974419 ATCATGCAAATA
1 ATCATGCAAATA
2974431 TAATATTAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.25
Consensus pattern (16 bp):
ATCATGCAAATAAAAC
Found at i:2974473 original size:20 final size:19
Alignment explanation
Indices: 2974412--2974466 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
2974402 CATTAAGCAA
2974412 ATAA-ATTATCATGCAAAT
1 ATAATATTATCATGCAAAT
*
2974430 ATAATATTAAACATGCAAAT
1 ATAATATT-ATCATGCAAAT
2974450 ATAATATTAGTCATGCA
1 ATAATATTA-TCATGCA
2974467 TAAATAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.12
19 4 0.12
20 24 0.75
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (19 bp):
ATAATATTATCATGCAAAT
Found at i:2975114 original size:17 final size:18
Alignment explanation
Indices: 2975079--2975114 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2975069 TTTTTTGACT
* *
2975079 AAAAAAATTAAACTAAAA
1 AAAAAAATAAAAATAAAA
2975097 AAAAAAATAAAAATAAAA
1 AAAAAAATAAAAATAAAA
2975115 TTTAGGCTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAAAAATAAAAATAAAA
Found at i:2975602 original size:44 final size:42
Alignment explanation
Indices: 2975371--2975628 Score: 259
Period size: 43 Copynumber: 6.0 Consensus size: 42
2975361 AACTTTCAAC
* * * * * *
2975371 AAAAAGAAAATACTCCCCTACGATTGAGGCCTTGGAACTTTTG
1 AAAAATAAAATGCTCCCC-ACAACTGAGGCTTTGAAACTTTTG
* * *
2975414 AAAAATAAAATGCTCCCCCCTACTGGGGCTTTGAAAC-TTTG
1 AAAAATAAAATGCTCCCCACAACTGAGGCTTTGAAACTTTTG
* * * *
2975455 AAAAATAAAATGTTCCCCCATAATTGAGG-TTTTAGAACTTTTG
1 AAAAATAAAATGCT-CCCCACAACTGAGGCTTTGA-AACTTTTG
* * * * *
2975498 AAAAATAAAATGCTCCCTTACAATTGAGACTTTGGAACCTTTG
1 AAAAATAAAATGCTCCC-CACAACTGAGGCTTTGAAACTTTTG
* *
2975541 AAAAATAAAATGTTCTCCCACAACCGAGGCTTTGAAACTTTTG
1 AAAAATAAAATGCTC-CCCACAACTGAGGCTTTGAAACTTTTG
2975584 AAATAATAAAATGCTCTCCCACAACTGAGGCTTTGAAACTTTTG
1 AAA-AATAAAATGCTC-CCCACAACTGAGGCTTTGAAACTTTTG
2975628 A
1 A
2975629 CGATCAACTC
Statistics
Matches: 177, Mismatches: 31, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
41 21 0.12
42 28 0.16
43 84 0.47
44 44 0.25
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (42 bp):
AAAAATAAAATGCTCCCCACAACTGAGGCTTTGAAACTTTTG
Found at i:2976583 original size:18 final size:18
Alignment explanation
Indices: 2976562--2976611 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
2976552 CATCAAAGTT
*
2976562 CCAAAATTTGTAAAGGCC
1 CCAAAATTCGTAAAGGCC
* * *
2976580 CCAAGATTCGCAAAGGTC
1 CCAAAATTCGTAAAGGCC
*
2976598 TCAAAATTCGTAAA
1 CCAAAATTCGTAAA
2976612 ATTCCCAAAC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (18 bp):
CCAAAATTCGTAAAGGCC
Found at i:2976793 original size:36 final size:36
Alignment explanation
Indices: 2976681--2976805 Score: 121
Period size: 36 Copynumber: 3.5 Consensus size: 36
2976671 TTTACATCCA
** * *
2976681 AAGATTCACATTTGAAAATCTTAGAAGTTCACTTTT
1 AAGATTCACATTCAAAAATCTTAGAAGTTCACATCT
* * * *
2976717 AAGATTCATATTAAAAAATCTTAGAAGCTAACATGC-
1 AAGATTCACATTCAAAAATCTTAGAAGTTCACAT-CT
*
2976753 AAGATTCACATTCAAAAATCTTAG-AGATTCGCATCT
1 AAGATTCACATTCAAAAATCTTAGAAG-TTCACATCT
*
2976789 AAGA-TCACATTCGAAAA
1 AAGATTCACATTCAAAAA
2976806 GTCCAAAGAT
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
35 15 0.21
36 58 0.79
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.30
Consensus pattern (36 bp):
AAGATTCACATTCAAAAATCTTAGAAGTTCACATCT
Found at i:2977001 original size:25 final size:26
Alignment explanation
Indices: 2976954--2977003 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
2976944 AACATAGTTA
* *
2976954 AGCTTAAATTCTCAATTGGTGCCATG
1 AGCTTAAAATCTCAATTAGTGCCATG
*
2976980 AGCTTAAAAT-TCAATTATTGCCAT
1 AGCTTAAAATCTCAATTAGTGCCAT
2977004 CTAATCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (26 bp):
AGCTTAAAATCTCAATTAGTGCCATG
Found at i:2978337 original size:14 final size:14
Alignment explanation
Indices: 2978320--2978402 Score: 64
Period size: 14 Copynumber: 5.8 Consensus size: 14
2978310 TCTCAATAAC
2978320 ATTTTTCTTTTCAT
1 ATTTTTCTTTTCAT
2978334 ATTTTTCGTTTTCAT
1 ATTTTTC-TTTTCAT
*
2978349 ATTTCAT-TTTTCAT
1 ATTT-TTCTTTTCAT
*
2978363 ATTTCATTTTTTTC-T
1 ATTT--TTCTTTTCAT
*
2978378 CTCTTTT-TTTTCAT
1 AT-TTTTCTTTTCAT
*
2978392 TTTTTTCTTTT
1 ATTTTTCTTTT
2978403 TTATGCAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
13 9 0.16
14 26 0.46
15 14 0.25
16 8 0.14
ACGTcount: A:0.12, C:0.14, G:0.01, T:0.72
Consensus pattern (14 bp):
ATTTTTCTTTTCAT
Found at i:2981602 original size:18 final size:18
Alignment explanation
Indices: 2981531--2981603 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
2981521 CCACGCAAAT
* *
2981531 ATATAATCATGAAATCAA
1 ATATAATCATGCAATTAA
** *
2981549 ATATAATCACACAAATATA
1 ATATAATCATGCAATTA-A
* * *
2981568 TTAGTAATTATGTAATTAA
1 ATA-TAATCATGCAATTAA
2981587 ATATAATCATGCAATTA
1 ATATAATCATGCAATTA
2981604 TGCACACATG
Statistics
Matches: 39, Mismatches: 14, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
18 24 0.62
19 6 0.15
20 9 0.23
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (18 bp):
ATATAATCATGCAATTAA
Found at i:2981659 original size:24 final size:24
Alignment explanation
Indices: 2981630--2981691 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
2981620 GATATCATTC
*
2981630 AAATATAATATTA-ATCATGCAAT
1 AAATATAATATCATATCATGCAAT
2981653 AACATATAATATCATATCATGCAAT
1 AA-ATATAATATCATATCATGCAAT
*
2981678 AAATATAAAATCAT
1 AAATATAATATCAT
2981692 GCAATAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
23 2 0.06
24 21 0.60
25 12 0.34
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.32
Consensus pattern (24 bp):
AAATATAATATCATATCATGCAAT
Found at i:2981851 original size:21 final size:22
Alignment explanation
Indices: 2981818--2981859 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
2981808 TATGCAATTA
2981818 AATATATAATCATACAAATAAT
1 AATATATAATCATACAAATAAT
*
2981840 AATATA-AATCATGCAAATAA
1 AATATATAATCATACAAATAA
2981860 ACATACAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.29
Consensus pattern (22 bp):
AATATATAATCATACAAATAAT
Found at i:2981869 original size:53 final size:53
Alignment explanation
Indices: 2981812--2981937 Score: 216
Period size: 53 Copynumber: 2.4 Consensus size: 53
2981802 GTAAAATATG
* *
2981812 CAATTAAATATATAATCATACAAATAATAATATAAATCATGCAAATAAACATA
1 CAATTAAATATATAATAATACAAATAATAATAAAAATCATGCAAATAAACATA
* *
2981865 CAATTAAATATATAATAATACAAATAATAATAAAAATTATGCAAATAAACATG
1 CAATTAAATATATAATAATACAAATAATAATAAAAATCATGCAAATAAACATA
2981918 CAATTAAATATATAATAATA
1 CAATTAAATATATAATAATA
2981938 ATCATGCGAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 69 1.00
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.29
Consensus pattern (53 bp):
CAATTAAATATATAATAATACAAATAATAATAAAAATCATGCAAATAAACATA
Found at i:2981938 original size:26 final size:26
Alignment explanation
Indices: 2981855--2981944 Score: 71
Period size: 26 Copynumber: 3.4 Consensus size: 26
2981845 AAATCATGCA
*
2981855 AATAAACATACAATTAAATATATAAT
1 AATAAACATGCAATTAAATATATAAT
* *
2981881 AATACAA-AT--AATAATAAAAATTATGCA-
1 AATA-AACATGCAAT--TAAATA-TAT-AAT
2981908 AATAAACATGCAATTAAATATATAAT
1 AATAAACATGCAATTAAATATATAAT
*
2981934 AATAATCATGC
1 AATAAACATGC
2981945 GATAACACAA
Statistics
Matches: 50, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
24 3 0.06
25 1 0.02
26 26 0.52
27 16 0.32
28 1 0.02
29 3 0.06
ACGTcount: A:0.59, C:0.09, G:0.03, T:0.29
Consensus pattern (26 bp):
AATAAACATGCAATTAAATATATAAT
Found at i:2981982 original size:20 final size:20
Alignment explanation
Indices: 2981957--2982099 Score: 134
Period size: 20 Copynumber: 7.2 Consensus size: 20
2981947 TAACACAAAT
* *
2981957 AAATAAATTGATAATTATGC
1 AAATAAATTAATAATCATGC
2981977 AAATAAATTAATAATCATGC
1 AAATAAATTAATAATCATGC
*
2981997 AGATAAATTAATAATCATGC
1 AAATAAATTAATAATCATGC
* * * *
2982017 AAACATATTAATATTCATGT
1 AAATAAATTAATAATCATGC
*
2982037 AAATATATTAATAAATCATAG-
1 AAATAAATTAAT-AATCAT-GC
*
2982058 AAAT--A-TACTAATCATGC
1 AAATAAATTAATAATCATGC
*
2982075 AAATATAA-TATTAATCATGC
1 AAATA-AATTAATAATCATGC
2982095 AAATA
1 AAATA
2982100 TAATATTAGT
Statistics
Matches: 105, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
16 1 0.01
17 10 0.10
18 3 0.03
19 1 0.01
20 80 0.76
21 9 0.09
22 1 0.01
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (20 bp):
AAATAAATTAATAATCATGC
Found at i:2982100 original size:20 final size:20
Alignment explanation
Indices: 2981967--2982118 Score: 118
Period size: 20 Copynumber: 7.7 Consensus size: 20
2981957 AAATAAATTG
*
2981967 ATAATTATGCAAATA-AATTA
1 ATAATCATGCAAATATAA-TA
*
2981987 ATAATCATGCAGATA-AATTA
1 ATAATCATGCAAATATAA-TA
* *
2982007 ATAATCATGCAAACATATTA
1 ATAATCATGCAAATATAATA
* * *
2982027 ATATTCATGTAAATATATTA
1 ATAATCATGCAAATATAATA
2982047 ATAAATCAT--AGAA-AT-ATA
1 AT-AATCATGCA-AATATAATA
*
2982065 CTAATCATGCAAATATAATA
1 ATAATCATGCAAATATAATA
*
2982085 TTAATCATGCAAATATAATA
1 ATAATCATGCAAATATAATA
* * *
2982105 TTAGTCAAGCAAAT
1 ATAATCATGCAAAT
2982119 TCATGCAAAA
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
17 6 0.05
18 5 0.05
19 6 0.05
20 88 0.79
21 6 0.05
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.33
Consensus pattern (20 bp):
ATAATCATGCAAATATAATA
Found at i:2986422 original size:28 final size:26
Alignment explanation
Indices: 2986391--2986453 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 26
2986381 ATTAATTAAA
*
2986391 ATTAATATATTTTTATTAAAAAATATAT
1 ATTAATATATATTTA-TAAAAAAT-TAT
2986419 ATTAATATATATTTATAAAAAATTAT
1 ATTAATATATATTTATAAAAAATTAT
2986445 -TTAA-ATATA
1 ATTAATATATA
2986454 CAAAATAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.15
25 4 0.12
26 3 0.09
27 8 0.24
28 14 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTAATATATATTTATAAAAAATTAT
Found at i:2995204 original size:17 final size:16
Alignment explanation
Indices: 2995177--2995222 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
2995167 GCAAGCTAGC
*
2995177 TTAATTTTTTTTCTCTTT
1 TTAA-TTTTTTT-TATTT
2995195 TTAATTTTTTTTATTT
1 TTAATTTTTTTTATTT
*
2995211 TTTATTTTTTTT
1 TTAATTTTTTTT
2995223 CAAACGCTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 15 0.58
17 7 0.27
18 4 0.15
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (16 bp):
TTAATTTTTTTTATTT
Found at i:2995221 original size:16 final size:18
Alignment explanation
Indices: 2995177--2995222 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
2995167 GCAAGCTAGC
*
2995177 TTAATTTTTTTTCTCTTT
1 TTAATTTTTTTTATCTTT
2995195 TTAATTTTTTTTAT-TTT
1 TTAATTTTTTTTATCTTT
2995212 TT-ATTTTTTTT
1 TTAATTTTTTTT
2995223 CAAACGCTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 9 0.33
17 5 0.19
18 13 0.48
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (18 bp):
TTAATTTTTTTTATCTTT
Found at i:3001342 original size:41 final size:39
Alignment explanation
Indices: 3001268--3001346 Score: 97
Period size: 41 Copynumber: 2.0 Consensus size: 39
3001258 ATTATTTTAT
* * *
3001268 TATCTCTATATTTTTAATATTTTAATATTTTATATATATA
1 TATCTATATATTTTTAACATTTTAATATCTTATA-ATATA
3001308 TATCTATATATATTTTAACATTTTAAT-TACTTATAATAT
1 TATCTATATAT-TTTTAACATTTTAATAT-CTTATAATAT
3001347 TTTTTCACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 15 0.44
41 19 0.56
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (39 bp):
TATCTATATATTTTTAACATTTTAATATCTTATAATATA
Found at i:3002651 original size:2 final size:2
Alignment explanation
Indices: 3002644--3002687 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
3002634 ATGAGATTGT
3002644 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3002686 TA
1 TA
3002688 GACCAAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3004143 original size:31 final size:31
Alignment explanation
Indices: 3004091--3004169 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
3004081 TTTTAGGGAT
* * *
3004091 TAAGAAGAGAACATAGGAGAATTGAAAAGAC
1 TAAGAAGAGAATAGAGAAGAATTGAAAAGAC
**
3004122 TAAGGAA-AGAATAGAGAAGAATTGAGGAGAC
1 TAA-GAAGAGAATAGAGAAGAATTGAAAAGAC
*
3004153 TAATAAGAGAATAGAGA
1 TAAGAAGAGAATAGAGA
3004170 GGGATTTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 2 0.05
31 35 0.88
32 3 0.08
ACGTcount: A:0.54, C:0.04, G:0.28, T:0.14
Consensus pattern (31 bp):
TAAGAAGAGAATAGAGAAGAATTGAAAAGAC
Found at i:3020247 original size:12 final size:12
Alignment explanation
Indices: 3020230--3020280 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
3020220 CATATGTGTG
3020230 TGTATATATATA
1 TGTATATATATA
* *
3020242 TATATATATGTA
1 TGTATATATATA
* *
3020254 TGTATGTATGTA
1 TGTATATATATA
*
3020266 TGTATTTATATA
1 TGTATATATATA
3020278 TGT
1 TGT
3020281 GTGGAAATAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (12 bp):
TGTATATATATA
Found at i:3021635 original size:20 final size:21
Alignment explanation
Indices: 3021597--3021637 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
3021587 CCTTACTTTC
3021597 TTTCCTTTTTAACTATTTATT
1 TTTCCTTTTTAACTATTTATT
3021618 TTTCCTTTTTAACT-TTTATT
1 TTTCCTTTTTAACTATTTATT
3021638 GATGTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTCCTTTTTAACTATTTATT
Found at i:3025960 original size:100 final size:101
Alignment explanation
Indices: 3025855--3026056 Score: 291
Period size: 101 Copynumber: 2.0 Consensus size: 101
3025845 GGTGCTTTTA
* * *
3025855 GCAAAAAACGCCTTCAATAATCCCCTGTTA-TTTTTTTTGGATTATTCAAAATATTTTTTA-TCA
1 GCAAAAAACGCCTTCAATAATCCCATGCTATTTTTTTTTGGATTATTCAAAATAATTTTTACT-A
* *
3025918 GAAACGTCTTGAATAATCACTTATAAAAAATTGAGTG
65 GAAACATCTTGAATAATCACTTACAAAAAATTGAGTG
* * * *
3025955 GCAAAAAACGCTTTCAATAATTCCATGCTATTTTTTTTTTGATTATTTAAAATAATTTTTACTAG
1 GCAAAAAACGCCTTCAATAATCCCATGCTATTTTTTTTTGGATTATTCAAAATAATTTTTACTAG
*
3026020 AAACATCTTGAATAATCCCTTACAAAAAATTGAGTG
66 AAACATCTTGAATAATCACTTACAAAAAATTGAGTG
3026056 G
1 G
3026057 GGTTATTTAA
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
100 26 0.29
101 63 0.70
102 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (101 bp):
GCAAAAAACGCCTTCAATAATCCCATGCTATTTTTTTTTGGATTATTCAAAATAATTTTTACTAG
AAACATCTTGAATAATCACTTACAAAAAATTGAGTG
Found at i:3029360 original size:33 final size:32
Alignment explanation
Indices: 3029316--3029413 Score: 98
Period size: 33 Copynumber: 3.1 Consensus size: 32
3029306 AGAAAAAAGG
* *
3029316 TAATCAAATTATATCCAAACAATAAAAAATAAA
1 TAATTAAATTATATTCAAA-AATAAAAAATAAA
**
3029349 TAATTAAATTATATTC--AAATAATGAATAAA
1 TAATTAAATTATATTCAAAAATAAAAAATAAA
3029379 -AA-TAAATTATATTCAAATAATAAAATAAT-AA
1 TAATTAAATTATATTCAAA-AATAAAA-AATAAA
3029410 TAAT
1 TAAT
3029414 ACAGTGGGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
28 12 0.23
29 2 0.04
30 12 0.23
31 8 0.15
32 5 0.09
33 14 0.26
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.32
Consensus pattern (32 bp):
TAATTAAATTATATTCAAAAATAAAAAATAAA
Found at i:3029368 original size:23 final size:24
Alignment explanation
Indices: 3029342--3029406 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 24
3029332 AAACAATAAA
*
3029342 AAATAAAT-AATTAAATTATATTC
1 AAATAAATAAAATAAATTATATTC
3029365 AAATAATGAATAAAAATAAATTATATTC
1 AAAT-A--AAT-AAAATAAATTATATTC
3029393 AAAT-AATAAAATAA
1 AAATAAATAAAATAA
3029407 TAATAATACA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
23 11 0.31
24 4 0.11
26 3 0.08
28 18 0.50
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (24 bp):
AAATAAATAAAATAAATTATATTC
Found at i:3029391 original size:28 final size:30
Alignment explanation
Indices: 3029343--3029399 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 30
3029333 AACAATAAAA
3029343 AATAAATAATTAAATTATATTCAAATAATG
1 AATAAATAATTAAATTATATTCAAATAATG
3029373 AATAAA-AA-TAAATTATATTCAAATAAT
1 AATAAATAATTAAATTATATTCAAATAAT
3029400 AAAATAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 19 0.70
29 2 0.07
30 6 0.22
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (30 bp):
AATAAATAATTAAATTATATTCAAATAATG
Found at i:3029398 original size:15 final size:15
Alignment explanation
Indices: 3029353--3029398 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
3029343 AATAAATAAT
3029353 TAAATTATATTCAAA
1 TAAATTATATTCAAA
* **
3029368 T-AATGA-ATAAAAA
1 TAAATTATATTCAAA
3029381 TAAATTATATTCAAA
1 TAAATTATATTCAAA
3029396 TAA
1 TAA
3029399 TAAAATAATA
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
13 6 0.26
14 8 0.35
15 9 0.39
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (15 bp):
TAAATTATATTCAAA
Found at i:3029851 original size:27 final size:27
Alignment explanation
Indices: 3029805--3029857 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
3029795 AAGAAGTTGA
** *
3029805 GCAAGAGACTGAGAGGGAGGTAAAGAT
1 GCAAGAGACTGAGAAAGAGGCAAAGAT
*
3029832 GCAAGAGATTGAGAAAGAGGCAAAGA
1 GCAAGAGACTGAGAAAGAGGCAAAGA
3029858 GCACAAAAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.45, C:0.08, G:0.38, T:0.09
Consensus pattern (27 bp):
GCAAGAGACTGAGAAAGAGGCAAAGAT
Found at i:3034508 original size:2 final size:2
Alignment explanation
Indices: 3034501--3034525 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3034491 GTCATTGTAA
3034501 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3034526 CATACATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3035378 original size:15 final size:16
Alignment explanation
Indices: 3035358--3035391 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
3035348 TTAAATTGAA
3035358 AATATAAAA-AATTAT
1 AATATAAAATAATTAT
3035373 AATATAAAATAATTAT
1 AATATAAAATAATTAT
3035389 AAT
1 AAT
3035392 TTTAAGGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:3042020 original size:15 final size:15
Alignment explanation
Indices: 3041996--3042026 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3041986 AATAAAATAA
*
3041996 TTTAATTAATTTAAT
1 TTTAAATAATTTAAT
3042011 TTTAAATAATTTAAT
1 TTTAAATAATTTAAT
3042026 T
1 T
3042027 CAAAATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTAAATAATTTAAT
Found at i:3048684 original size:34 final size:34
Alignment explanation
Indices: 3048641--3048706 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
3048631 TATAATTTAA
3048641 TATATTTAAATGAAACCCCACTAAAAAAAATTAG
1 TATATTTAAATGAAACCCCACTAAAAAAAATTAG
* *
3048675 TATATTTAAATTAAACCCCACTAAATAAAATT
1 TATATTTAAATGAAACCCCACTAAAAAAAATT
3048707 TTTGGTTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (34 bp):
TATATTTAAATGAAACCCCACTAAAAAAAATTAG
Found at i:3049122 original size:32 final size:31
Alignment explanation
Indices: 3049049--3049129 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 31
3049039 TAAAAAAAAA
* **
3049049 GGCTTTATCATATTATAAGTAATAAAGCAAAT
1 GGCTTTATC-CATTATAAAAAATAAAGCAAAT
*
3049081 GGATCTTATCCATTATAAAAAATAAAGCAAAT
1 GGCT-TTATCCATTATAAAAAATAAAGCAAAT
3049113 GAGCTTTATCCCATTAT
1 G-GCTTTAT-CCATTAT
3049130 GATAAAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 27 0.66
33 14 0.34
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (31 bp):
GGCTTTATCCATTATAAAAAATAAAGCAAAT
Found at i:3053645 original size:94 final size:95
Alignment explanation
Indices: 3053488--3053708 Score: 293
Period size: 94 Copynumber: 2.3 Consensus size: 95
3053478 ATTTGATTCG
* ** *
3053488 AGATTTAAATCCTCTAATAATTTGGTAGAATTTAAAATTTTATTTTTCACAAAAATTTATTAAGT
1 AGATTTAAATCCTCTAATAATTTGGTAGAATTGAAAATAATATTTTTCACAAAAATTCATTAAGT
* *
3053553 CCTCTAATAGTTTAGTAAGACTTAATTTAA
66 CCTCCAATAGTTTAGTAAAACTTAATTTAA
* *
3053583 AGATTTAAATCCTCTAATAATTTGG-AGGATTGAAAGATAAT-TTTTTCATAAAAATTCATTAAG
1 AGATTTAAATCCTCTAATAATTTGGTAGAATTGAAA-ATAATATTTTTCACAAAAATTCATTAAG
* * *
3053646 TTCTCCAATAGTTTGGTAAAACTTAATTTAG
65 TCCTCCAATAGTTTAGTAAAACTTAATTTAA
* * *
3053677 AGATTTAAATTCTCCAATAGTTTGGTAGAATT
1 AGATTTAAATCCTCTAATAATTTGGTAGAATT
3053709 AATTTGAAAA
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
94 76 0.70
95 33 0.30
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (95 bp):
AGATTTAAATCCTCTAATAATTTGGTAGAATTGAAAATAATATTTTTCACAAAAATTCATTAAGT
CCTCCAATAGTTTAGTAAAACTTAATTTAA
Found at i:3054700 original size:21 final size:21
Alignment explanation
Indices: 3054674--3054714 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3054664 TAAAACAAAG
3054674 TAAAGATA-ATTAAGAAATAAA
1 TAAAGATATA-TAAGAAATAAA
3054695 TAAAGATATATAAGAAATAA
1 TAAAGATATATAAGAAATAA
3054715 TTCATTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (21 bp):
TAAAGATATATAAGAAATAAA
Found at i:3057412 original size:30 final size:31
Alignment explanation
Indices: 3057347--3057415 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
3057337 AATTTTTTAG
* *
3057347 TATTATTTAATAAAATTTAGTCCTTATAATAT
1 TATT-TTTAATAAAATTTAATCCCTATAATAT
* *
3057379 TATTTTTAA-AAATTTTAATCCCTATAATTT
1 TATTTTTAATAAAATTTAATCCCTATAATAT
3057409 TATTTTT
1 TATTTTT
3057416 TAAATAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 24 0.73
31 5 0.15
32 4 0.12
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.55
Consensus pattern (31 bp):
TATTTTTAATAAAATTTAATCCCTATAATAT
Found at i:3057416 original size:31 final size:31
Alignment explanation
Indices: 3057347--3057428 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
3057337 AATTTTTTAG
* * *
3057347 TATTATTTAATAAAATTTAGTCCTTATAATAT
1 TATTTTTTAA-AAAATTTAATCCCTATAATAT
* *
3057379 TA-TTTTTAAAAATTTTAATCCCTATAATTT
1 TATTTTTTAAAAAATTTAATCCCTATAATAT
* *
3057409 TATTTTTTAAATAATATAAT
1 TATTTTTTAAAAAATTTAAT
3057429 TTTTATACAT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 19 0.46
31 20 0.49
32 2 0.05
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.52
Consensus pattern (31 bp):
TATTTTTTAAAAAATTTAATCCCTATAATAT
Found at i:3057528 original size:29 final size:29
Alignment explanation
Indices: 3057465--3057530 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
3057455 GAAATTCTTA
* * *
3057465 AAAAATATTATTATAAAGATTAAATTTTT
1 AAAAATAATATTAGAAAGATTAAATTTCT
** *
3057494 TTAAATAATATTAGAAAGATTAAGTTTCT
1 AAAAATAATATTAGAAAGATTAAATTTCT
3057523 AAAAATAA
1 AAAAATAA
3057531 AAAATACAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (29 bp):
AAAAATAATATTAGAAAGATTAAATTTCT
Found at i:3057829 original size:75 final size:77
Alignment explanation
Indices: 3057739--3057888 Score: 214
Period size: 78 Copynumber: 2.0 Consensus size: 77
3057729 AAGCAATGAG
* * * *
3057739 ATTTTAATTTTAAATTTATTAAATATTA-TTTT-TTAAAAATAATTATATGAATTAATTGAAATA
1 ATTTTAACTTCAAATTTATTAAATATCATTTTTATTAAAAATAATTATATGAACTAATTGAAATA
3057802 AATTTTGAAAAA
66 AATTTTGAAAAA
* * *
3057814 ATTTTAACTTCAAATTTATTAAATATCATTTTTAATTAAAAGTAATTGTATGAACTAATTGTAAT
1 ATTTTAACTTCAAATTTATTAAATATCATTTTT-ATTAAAAATAATTATATGAACTAATTGAAAT
3057879 AAATTTTGAA
65 AAATTTTGAA
3057889 TTATATAAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
75 25 0.38
76 4 0.06
78 36 0.55
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (77 bp):
ATTTTAACTTCAAATTTATTAAATATCATTTTTATTAAAAATAATTATATGAACTAATTGAAATA
AATTTTGAAAAA
Found at i:3058284 original size:21 final size:22
Alignment explanation
Indices: 3058260--3058480 Score: 129
Period size: 21 Copynumber: 10.7 Consensus size: 22
3058250 TAACTTATTA
3058260 TAATAATTAAATATT-ATTAAT
1 TAATAATTAAATATTAATTAAT
3058281 TAAT-ATTAAATATTAA-T-AT
1 TAATAATTAAATATTAATTAAT
** **
3058300 TTTTAATT-AATATTAATTTCT
1 TAATAATTAAATATTAATTAAT
3058321 TAA-AATTAAATATTAATTTAA-
1 TAATAATTAAATATTAA-TTAAT
3058342 TAA-AATTAAATATTAATTAA-
1 TAATAATTAAATATTAATTAAT
* **
3058362 TGAT-ATTTTATATTAATTTAA-
1 TAATAATTAAATATTAA-TTAAT
* * * *
3058383 -AAT-ATTATATATTCATAAAA
1 TAATAATTAAATATTAATTAAT
*
3058403 TAAT-ATTCAATATTAACTTAAT
1 TAATAATTAAATATTAA-TTAAT
*
3058425 T-AT-ATTAACTATTAAATTTAA-
1 TAATAATTAAATATT-AA-TTAAT
* *
3058446 TAAT-ATGAAATATTAATTAAA
1 TAATAATTAAATATTAATTAAT
3058467 TAAT-ATTAAATATT
1 TAATAATTAAATATT
3058481 TTAATAATAT
Statistics
Matches: 161, Mismatches: 25, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
19 15 0.09
20 51 0.32
21 73 0.45
22 22 0.14
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (22 bp):
TAATAATTAAATATTAATTAAT
Found at i:3058287 original size:13 final size:13
Alignment explanation
Indices: 3058263--3058314 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
3058253 CTTATTATAA
3058263 TAATTAAATATTAT
1 TAATT-AATATTAT
3058277 TAATTAATATTA-
1 TAATTAATATTAT
* *
3058289 AATATTAATATTTT
1 TA-ATTAATATTAT
3058303 TAATTAATATTA
1 TAATTAATATTA
3058315 ATTTCTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
12 1 0.03
13 25 0.78
14 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAATTAATATTAT
Found at i:3058395 original size:61 final size:62
Alignment explanation
Indices: 3058259--3058500 Score: 235
Period size: 61 Copynumber: 3.9 Consensus size: 62
3058249 ATAACTTATT
* * ** * * *
3058259 ATAATAATTAAATATT-ATTAATTAATATTAAATATTAA-TATTTTTAATTAATATTAATTTC
1 ATAAT-ATTAAATATTAATTAAATAATATTAAATATTAATTAATAATATTTTATATTAATTTA
* * * * *
3058320 TTAAAATTAAATATTAATTTAATAAAATTAAATATTAATTAATGATATTTTATATTAATTTA
1 ATAATATTAAATATTAATTAAATAATATTAAATATTAATTAATAATATTTTATATTAATTTA
* * * * * *
3058382 A-AATATTATATATTCATAAAATAATATTCAATATTAACTTAATTATA-TTAACTATTAAATTTA
1 ATAATATTAAATATTAATTAAATAATATTAAATATTAA-TTAATAATATTTTA-TATT-AATTTA
*
3058445 ATAATATGAAATATTAATTAAATAATATTAAATATT--TTAATAATATTTTATATTAA
1 ATAATATTAAATATTAATTAAATAATATTAAATATTAATTAATAATATTTTATATTAA
3058501 ATATTAATTT
Statistics
Matches: 146, Mismatches: 28, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
60 12 0.08
61 66 0.45
62 32 0.22
63 7 0.05
64 29 0.20
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (62 bp):
ATAATATTAAATATTAATTAAATAATATTAAATATTAATTAATAATATTTTATATTAATTTA
Found at i:3058486 original size:18 final size:18
Alignment explanation
Indices: 3058441--3058491 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 18
3058431 AACTATTAAA
*
3058441 TTTAATAATATGAAATAT
1 TTTAATAATATTAAATAT
3058459 TAATTAAATAATATTAAATAT
1 T--TT-AATAATATTAAATAT
3058480 TTTAATAATATT
1 TTTAATAATATT
3058492 TTATATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 10 0.34
19 2 0.07
20 2 0.07
21 15 0.52
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTTAATAATATTAAATAT
Found at i:3058543 original size:11 final size:11
Alignment explanation
Indices: 3058527--3058556 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
3058517 AAGCTTAACA
*
3058527 TTAATATTATT
1 TTAATAATATT
3058538 TTAATAATATT
1 TTAATAATATT
3058549 TTAATAAT
1 TTAATAAT
3058557 TAATATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TTAATAATATT
Found at i:3058558 original size:29 final size:29
Alignment explanation
Indices: 3058477--3058611 Score: 125
Period size: 29 Copynumber: 4.7 Consensus size: 29
3058467 TAATATTAAA
3058477 TATTTTAATAATATTTT-AT-ATTAAATAT
1 TATTTTAATAATATTTTAATAATT-AATAT
* ** *
3058505 TAATTTAATAATAAGCTTAA-CATTAATAT
1 TATTTTAATAAT-ATTTTAATAATTAATAT
3058534 TATTTTAATAATATTTTAATAATTAATAT
1 TATTTTAATAATATTTTAATAATTAATAT
* * * *
3058563 AATTTTAATCATATTTT-ACAATAAATAT
1 TATTTTAATAATATTTTAATAATTAATAT
* **
3058591 TAATTTAGCAATATTTTAATA
1 TATTTTAATAATATTTTAATA
3058612 TTTAGTCTTA
Statistics
Matches: 85, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
28 37 0.44
29 44 0.52
30 4 0.05
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (29 bp):
TATTTTAATAATATTTTAATAATTAATAT
Found at i:3058590 original size:57 final size:59
Alignment explanation
Indices: 3058477--3058611 Score: 147
Period size: 57 Copynumber: 2.4 Consensus size: 59
3058467 TAATATTAAA
*
3058477 TATTTTAATAATATTTT-AT-ATTAAATATTAATTTAATAATAAGCTTAACATTAATAT
1 TATTTTAATAATATTTTAATAATTAAATATTAATTTAATAATAAGCTTAACATAAATAT
* * *
3058534 TATTTTAATAATATTTTAATAATT-AATA-TAATTTTAATCAT-A-TTTTACAATAAATAT
1 TATTTTAATAATATTTTAATAATTAAATATTAA-TTTAATAATAAGCTTAAC-ATAAATAT
* **
3058591 TAATTTAGCAATATTTTAATA
1 TATTTTAATAATATTTTAATA
3058612 TTTAGTCTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
56 4 0.06
57 46 0.69
58 14 0.21
59 3 0.04
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (59 bp):
TATTTTAATAATATTTTAATAATTAAATATTAATTTAATAATAAGCTTAACATAAATAT
Found at i:3058685 original size:19 final size:19
Alignment explanation
Indices: 3058661--3058698 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
3058651 GAATATTACA
3058661 TATTATTGTAATAGTATTT
1 TATTATTGTAATAGTATTT
* *
3058680 TATTATTTTAATATTATTT
1 TATTATTGTAATAGTATTT
3058699 AAATAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TATTATTGTAATAGTATTT
Found at i:3058820 original size:24 final size:23
Alignment explanation
Indices: 3058775--3058828 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
3058765 AAAATTTTAA
* *
3058775 AATT-ATTTATTTATTTATTATT
1 AATTAATTTATTTAATTAATATT
*
3058797 AGTTAATTTAATTTAATTAATATT
1 AATTAATTT-ATTTAATTAATATT
3058821 AATTAATT
1 AATTAATT
3058829 ATGTAACTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 3 0.12
23 4 0.15
24 19 0.73
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
AATTAATTTATTTAATTAATATT
Found at i:3063119 original size:17 final size:18
Alignment explanation
Indices: 3063097--3063130 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3063087 AAGATAAAAT
*
3063097 TTTAAA-TAAATTATTAG
1 TTTAAATTAAATAATTAG
3063114 TTTAAATTAAATAATTA
1 TTTAAATTAAATAATTA
3063131 CTTTCTGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TTTAAATTAAATAATTAG
Found at i:3063623 original size:17 final size:17
Alignment explanation
Indices: 3063597--3063684 Score: 75
Period size: 17 Copynumber: 5.5 Consensus size: 17
3063587 TTGTATTAAA
3063597 ATATATATTTTATTATTT
1 ATATA-ATTTTATTATTT
*
3063615 ATTTAATTTTA-TATTT
1 ATATAATTTTATTATTT
3063631 ATAT-ATATTTATTATATT
1 ATATAAT-TTTATTAT-TT
*
3063649 A-ATAAATTTATTATTT
1 ATATAATTTTATTATTT
3063665 A-AT-ATTTTA--ATTT
1 ATATAATTTTATTATTT
3063678 A-ATAATT
1 ATATAATT
3063685 CACGTGATAT
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
13 7 0.11
14 3 0.05
15 7 0.11
16 17 0.28
17 19 0.31
18 8 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATATAATTTTATTATTT
Found at i:3063657 original size:34 final size:33
Alignment explanation
Indices: 3063597--3063682 Score: 92
Period size: 34 Copynumber: 2.7 Consensus size: 33
3063587 TTGTATTAAA
* *
3063597 ATATATATTTTATTATTTATTTAATTT-TATATTT
1 ATATATA-TTTATTATTTAATAAATTTAT-TATTT
3063631 ATATATATTTATTATATTAATAAATTTATTATTT
1 ATATATATTTATTAT-TTAATAAATTTATTATTT
3063665 A-ATAT-TTTA--ATTTAATAA
1 ATATATATTTATTATTTAATAA
3063683 TTCACGTGAT
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
29 7 0.15
30 2 0.04
32 4 0.08
33 12 0.25
34 22 0.46
35 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (33 bp):
ATATATATTTATTATTTAATAAATTTATTATTT
Found at i:3069927 original size:18 final size:18
Alignment explanation
Indices: 3069858--3069928 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
3069848 ATTTGAGGAT
3069858 GATACATTTGTGGT-GAGG
1 GATACATTTGTGGTGGA-G
* * ** *
3069876 GATACATTGGTAGTAAAT
1 GATACATTTGTGGTGGAG
*
3069894 GATACATTTGAGGTGGAG
1 GATACATTTGTGGTGGAG
3069912 GATACATTTGTGGTGGA
1 GATACATTTGTGGTGGA
3069929 TAATAACTAT
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
18 40 0.98
19 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.34, T:0.32
Consensus pattern (18 bp):
GATACATTTGTGGTGGAG
Found at i:3071577 original size:157 final size:158
Alignment explanation
Indices: 3071287--3071603 Score: 566
Period size: 157 Copynumber: 2.0 Consensus size: 158
3071277 AGAATGCATG
*
3071287 AAACTTCATCTATTATCAATAATATTTTCATATTCAGAAGAATAATGATAATTTTATTGAATTGC
1 AAACTTCATCTATTATCAATAATATTTTCATATTCAGAAGAATAATGATAATTTTACTGAATTGC
* *
3071352 TTGTTTAGCTCTATCCATCATTTCATAAATAAATGCCATTGTTGGTTTTTCATTACCATCAACAA
66 TTGTTTAGCTCTATCCATCATCTCATAAATAAATGCCATTGTTGGTTTTTCATCACCATCAACAA
3071417 GGTGTAACACTTTTACCAAAGGCTCATA
131 GGTGTAACACTTTTACCAAAGGCTCATA
*
3071445 AAACTTCATCTATTATCAATAATCTTTTCATATTCAGATA-AATAATGATAATTTTACTGAATTG
1 AAACTTCATCTATTATCAATAATATTTTCATATTCAGA-AGAATAATGATAATTTTACTGAATTG
*
3071509 CTT-TTTAGCTCTATCCATCATCTCATAAATAAATTCCATTGTTGGTTTTTCATCACCATCAACA
65 CTTGTTTAGCTCTATCCATCATCTCATAAATAAATGCCATTGTTGGTTTTTCATCACCATCAACA
3071573 AGGTGTAACACTTTTACCAAAGGCTCATA
130 AGGTGTAACACTTTTACCAAAGGCTCATA
3071602 AA
1 AA
3071604 CTTTGATTAT
Statistics
Matches: 153, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
157 89 0.58
158 63 0.41
159 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (158 bp):
AAACTTCATCTATTATCAATAATATTTTCATATTCAGAAGAATAATGATAATTTTACTGAATTGC
TTGTTTAGCTCTATCCATCATCTCATAAATAAATGCCATTGTTGGTTTTTCATCACCATCAACAA
GGTGTAACACTTTTACCAAAGGCTCATA
Found at i:3071767 original size:14 final size:14
Alignment explanation
Indices: 3071731--3071768 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
3071721 TCAACAATAA
3071731 ATTTTTAAAGTAAT
1 ATTTTTAAAGTAAT
*
3071745 ATATTTTAAATTAAT
1 AT-TTTTAAAGTAAT
3071760 ATTTTTAAA
1 ATTTTTAAA
3071769 AAATGATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
ATTTTTAAAGTAAT
Found at i:3072377 original size:12 final size:12
Alignment explanation
Indices: 3072355--3072386 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
3072345 TCAAAGTGGT
3072355 ACCCAATCCATTA
1 ACCC-ATCCATTA
3072368 ACCCATCCATTA
1 ACCCATCCATTA
3072380 ACCCATC
1 ACCCATC
3072387 ATGAATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.34, C:0.44, G:0.00, T:0.22
Consensus pattern (12 bp):
ACCCATCCATTA
Found at i:3074669 original size:47 final size:47
Alignment explanation
Indices: 3074554--3074670 Score: 123
Period size: 47 Copynumber: 2.5 Consensus size: 47
3074544 CCTAATGCAC
* * *
3074554 CCCACCCCACCCTTTCACCCTA-CCCCTAAGCACCCCACCCCATCGAAT
1 CCCA-CCCACCC-TCCACCCTACCCCCCAAGCACCCCACCCCACCGAAT
* * *
3074602 CCCACACCACCC-CTACCCTACCCCCCAAGCACCCCACCCTACCTAAT
1 CCCAC-CCACCCTCCACCCTACCCCCCAAGCACCCCACCCCACCGAAT
3074649 CCCACCCTACCCTCCA-CCTACC
1 CCCACCC-ACCCTCCACCCTACC
3074671 ATCCTATTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
46 8 0.14
47 38 0.66
48 12 0.21
ACGTcount: A:0.23, C:0.62, G:0.03, T:0.13
Consensus pattern (47 bp):
CCCACCCACCCTCCACCCTACCCCCCAAGCACCCCACCCCACCGAAT
Found at i:3074866 original size:29 final size:26
Alignment explanation
Indices: 3074813--3074866 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
3074803 ATTTTTTTTG
* *
3074813 CCTCTCTCTCTCTCTCTTTTACATAC
1 CCTCTCTCTCTCACTCTATTACATAC
3074839 CCTCATCTCTCTCACTCATATTATCATA
1 CCTC-TCTCTCTCACTC-TATTA-CATA
3074867 AACACAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.17
27 11 0.48
28 4 0.17
29 4 0.17
ACGTcount: A:0.19, C:0.39, G:0.00, T:0.43
Consensus pattern (26 bp):
CCTCTCTCTCTCACTCTATTACATAC
Found at i:3075114 original size:18 final size:19
Alignment explanation
Indices: 3075078--3075116 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
3075068 CAAGATTGAG
3075078 TTATCTTTTCTTTTGGCTT
1 TTATCTTTTCTTTTGGCTT
3075097 TTATCTTTAT-TTTT-GCTT
1 TTATCTTT-TCTTTTGGCTT
3075115 TT
1 TT
3075117 GCAGTCTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 12 0.63
20 1 0.05
ACGTcount: A:0.08, C:0.13, G:0.08, T:0.72
Consensus pattern (19 bp):
TTATCTTTTCTTTTGGCTT
Found at i:3076052 original size:2 final size:2
Alignment explanation
Indices: 3076045--3076090 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
3076035 AACTTAAAGA
3076045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3076087 AT AT
1 AT AT
3076091 TCTCTCTATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3076503 original size:16 final size:16
Alignment explanation
Indices: 3076478--3076513 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
3076468 TTATTATATA
*
3076478 AAGACTTCCTAGAGAT
1 AAGACCTCCTAGAGAT
3076494 AAGACCTCCTAGAGAT
1 AAGACCTCCTAGAGAT
3076510 AAGA
1 AAGA
3076514 GACATAGAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (16 bp):
AAGACCTCCTAGAGAT
Found at i:3078050 original size:3 final size:3
Alignment explanation
Indices: 3078044--3078166 Score: 77
Period size: 3 Copynumber: 43.3 Consensus size: 3
3078034 AGTCAGGTAG
* * * * *
3078044 TAT TAT TAT TCT TAT TAT TGT TAT CAT TA- CAC TA- TATT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * *
3078087 TAT TA- TAG TA- TAT TA- TAG TA- TAT TA- TAG TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3078129 TAT TAT TAT TAT TAT TAT TAT TATT TAT TCAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT T-AT TAT TAT T
3078167 TTTGTACTTT
Statistics
Matches: 99, Mismatches: 8, Indels: 26
0.74 0.06 0.20
Matches are distributed among these distances:
2 19 0.19
3 72 0.73
4 8 0.08
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:3078100 original size:10 final size:10
Alignment explanation
Indices: 3078076--3078122 Score: 78
Period size: 10 Copynumber: 4.8 Consensus size: 10
3078066 ATCATTACAC
*
3078076 TATATT-TAT
1 TATATTATAG
3078085 TATATTATAG
1 TATATTATAG
3078095 TATATTATAG
1 TATATTATAG
3078105 TATATTATAG
1 TATATTATAG
3078115 TATATTAT
1 TATATTAT
3078123 TATTATTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
9 6 0.17
10 30 0.83
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (10 bp):
TATATTATAG
Found at i:3080771 original size:12 final size:12
Alignment explanation
Indices: 3080754--3080813 Score: 66
Period size: 12 Copynumber: 4.9 Consensus size: 12
3080744 CATAAATCTT
*
3080754 TGAAACTCTAAG
1 TGAAACCCTAAG
*
3080766 TGAAACCCTAGG
1 TGAAACCCTAAG
* *
3080778 TAAAACCTTAAG
1 TGAAACCCTAAG
3080790 TGAAACCCTAATG
1 TGAAACCCTAA-G
*
3080803 TAAAACCCTAA
1 TGAAACCCTAA
3080814 AATGAAATCC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
12 28 0.72
13 11 0.28
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.22
Consensus pattern (12 bp):
TGAAACCCTAAG
Found at i:3080783 original size:24 final size:24
Alignment explanation
Indices: 3080756--3080809 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
3080746 TAAATCTTTG
3080756 AAACTCTAAGTGAAACCCT-AGGTA
1 AAAC-CTAAGTGAAACCCTAAGGTA
*
3080780 AAACCTTAAGTGAAACCCTAATGTA
1 AAACC-TAAGTGAAACCCTAAGGTA
3080805 AAACC
1 AAACC
3080810 CTAAAATGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 1 0.04
24 17 0.63
25 9 0.33
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.20
Consensus pattern (24 bp):
AAACCTAAGTGAAACCCTAAGGTA
Found at i:3080825 original size:26 final size:25
Alignment explanation
Indices: 3080766--3080826 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
3080756 AAACTCTAAG
* * *
3080766 TGAAACCCT-AGGTAAAACCTTAAG
1 TGAAACCCTAATGTAAAACCTAAAA
3080790 TGAAACCCTAATGTAAAACCCTAAAA
1 TGAAACCCTAATGTAAAA-CCTAAAA
*
3080816 TGAAATCCTAA
1 TGAAACCCTAA
3080827 ACCCTATGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 9 0.29
25 7 0.23
26 15 0.48
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.21
Consensus pattern (25 bp):
TGAAACCCTAATGTAAAACCTAAAA
Found at i:3080944 original size:20 final size:20
Alignment explanation
Indices: 3080921--3080960 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3080911 AATAAAACTT
*
3080921 GAAATCTTAAT-TGGAAACCC
1 GAAACCTTAATGT-GAAACCC
3080941 GAAACCTTAATGTGAAACCC
1 GAAACCTTAATGTGAAACCC
3080961 TAAAATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.23
Consensus pattern (20 bp):
GAAACCTTAATGTGAAACCC
Found at i:3086101 original size:10 final size:9
Alignment explanation
Indices: 3086082--3086122 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
3086072 TAAAAAAGAG
3086082 AAAGAAAAA
1 AAAGAAAAA
3086091 AAAGAAAAA
1 AAAGAAAAA
*
3086100 AAGTGAAAAA
1 AA-AGAAAAA
*
3086110 AAAGACAAA
1 AAAGAAAAA
3086119 AAAG
1 AAAG
3086123 GGAAAAATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:3086109 original size:20 final size:20
Alignment explanation
Indices: 3086085--3086129 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
3086075 AAAAGAGAAA
*
3086085 GAAAAAAAAGA-AAAAAAGT
1 GAAAAAAAAGACAAAAAAGG
3086104 GAAAAAAAAGACAAAAAAGG
1 GAAAAAAAAGACAAAAAAGG
3086124 GAAAAA
1 GAAAAA
3086130 TGATAGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (20 bp):
GAAAAAAAAGACAAAAAAGG
Found at i:3086874 original size:25 final size:25
Alignment explanation
Indices: 3086818--3086866 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
3086808 GGGTACATGC
3086818 AAAAAAAAAAAAAACAAAAAAGAGG
1 AAAAAAAAAAAAAACAAAAAAGAGG
*
3086843 AAAAAAAAAAAAAAGAAAAAAGAG
1 AAAAAAAAAAAAAACAAAAAAGAG
3086867 ATAGAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAAAAAACAAAAAAGAGG
Found at i:3087345 original size:20 final size:20
Alignment explanation
Indices: 3087317--3087370 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
3087307 GGATTCACTT
3087317 AAAGAAAAAG-GAAAAGAAA
1 AAAGAAAAAGTGAAAAGAAA
**
3087336 AAATGAAAAAGTGAACTGAAA
1 AAA-GAAAAAGTGAAAAGAAA
3087357 AAAGAAAAAGTGAA
1 AAAGAAAAAGTGAA
3087371 GAAAAGGGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 3 0.10
20 18 0.58
21 10 0.32
ACGTcount: A:0.70, C:0.02, G:0.20, T:0.07
Consensus pattern (20 bp):
AAAGAAAAAGTGAAAAGAAA
Found at i:3087417 original size:23 final size:22
Alignment explanation
Indices: 3087391--3087434 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
3087381 AAAATGAAAG
3087391 AAAGAAGAAAAAAAAAGGAAAAA
1 AAAGAAGAAAAAAAAA-GAAAAA
* *
3087414 AAAGAAGCAAAAGAAAGAAAA
1 AAAGAAGAAAAAAAAAGAAAA
3087435 GAAGACAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (22 bp):
AAAGAAGAAAAAAAAAGAAAAA
Found at i:3087429 original size:18 final size:19
Alignment explanation
Indices: 3087403--3087446 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
3087393 AGAAGAAAAA
3087403 AAAAGGAAAAAAAAGAAG-C
1 AAAA-GAAAAAAAAGAAGAC
*
3087422 AAAAGAAAGAAAAGAAGAC
1 AAAAGAAAAAAAAGAAGAC
3087441 AAAAGA
1 AAAAGA
3087447 GGTGAATGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.75, C:0.05, G:0.20, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAAAAGAAGAC
Found at i:3088396 original size:22 final size:22
Alignment explanation
Indices: 3088361--3088412 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
3088351 ATATAGGATT
* *
3088361 TAAGCCTAAATTAGCTGGCATA
1 TAAGCCCAAATTAGCTGGCACA
*
3088383 TAAGCCCAATTTAGCTGGCACA
1 TAAGCCCAAATTAGCTGGCACA
*
3088405 TAAACCCA
1 TAAGCCCA
3088413 GTTTGGTTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (22 bp):
TAAGCCCAAATTAGCTGGCACA
Found at i:3088673 original size:32 final size:32
Alignment explanation
Indices: 3088636--3088777 Score: 128
Period size: 32 Copynumber: 4.5 Consensus size: 32
3088626 TTATTGATTT
3088636 CAATGAAAATTTAAGCCTAGATTATCTAGCAC
1 CAATGAAAATTTAAGCCTAGATTATCTAGCAC
* * * *
3088668 TAATGAAAATTTAGGCCTAGTTTAAT-TGGCAC
1 CAATGAAAATTTAAGCCTAGATT-ATCTAGCAC
* * * * *
3088700 CAATGAAAGTTTAAGCCCATATTATTTGGCATC
1 CAATGAAAATTTAAGCCTAGATTATCTAGCA-C
* * *
3088733 CAATG--ATTTTAAGCCTAAATTAGCTAGCAC
1 CAATGAAAATTTAAGCCTAGATTATCTAGCAC
*
3088763 CAAGGAAAATTTAAG
1 CAATGAAAATTTAAG
3088778 GCCAGTCTAT
Statistics
Matches: 87, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
30 5 0.06
31 20 0.23
32 54 0.62
33 8 0.09
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (32 bp):
CAATGAAAATTTAAGCCTAGATTATCTAGCAC
Found at i:3088839 original size:95 final size:96
Alignment explanation
Indices: 3088636--3088845 Score: 232
Period size: 95 Copynumber: 2.2 Consensus size: 96
3088626 TTATTGATTT
* * * * * * *
3088636 CAATGAAAATTTAAGCCTAGATTATCTAGCACTAATGAAAATTTAGGCCTAGTTTAATTGGCACC
1 CAATG-AAATTTAAGCCTAAATTAGCTAGCACCAAGGAAAATTTAGGCCTAGTCTAATTGACACA
* * * * *
3088701 AATGAAAGTTTAAGCCCATATTATTTGGCATC
65 AATAAAAATTTAAACCCATATTAGTTGGCACC
*
3088733 CAATG-ATTTTAAGCCTAAATTAGCTAGCACCAAGGAAAATTTAAGGCC-AGTCT-ATCTGACA-
1 CAATGAAATTTAAGCCTAAATTAGCTAGCACCAAGGAAAATTT-AGGCCTAGTCTAAT-TGACAC
3088794 AAATAAAAATTTAAACCCA-ATTTAGTTGGCACC
64 AAATAAAAATTTAAACCCATA-TTAGTTGGCACC
3088827 CAATGAAATTTAAGCCTAA
1 CAATGAAATTTAAGCCTAA
3088846 TTATCTGGTA
Statistics
Matches: 95, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
93 1 0.01
94 32 0.34
95 52 0.55
96 5 0.05
97 5 0.05
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (96 bp):
CAATGAAATTTAAGCCTAAATTAGCTAGCACCAAGGAAAATTTAGGCCTAGTCTAATTGACACAA
ATAAAAATTTAAACCCATATTAGTTGGCACC
Found at i:3088996 original size:22 final size:22
Alignment explanation
Indices: 3088933--3088996 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
3088923 ATAAAAATTT
* * *
3088933 AAACCTAGTATAATTGGCACGC
1 AAACCTAGTTTAGTTGGCATGC
*
3088955 AAACCTAGTTTAGGTGGCATG-
1 AAACCTAGTTTAGTTGGCATGC
3088976 AAAGCCTAGTTTAGTTGGCAT
1 AAA-CCTAGTTTAGTTGGCAT
3088997 ATATGAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
21 3 0.08
22 33 0.92
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (22 bp):
AAACCTAGTTTAGTTGGCATGC
Found at i:3102785 original size:88 final size:89
Alignment explanation
Indices: 3102583--3102843 Score: 425
Period size: 88 Copynumber: 2.9 Consensus size: 89
3102573 CTAATAAAAA
* *
3102583 TAATCACTATTATTTTTTATCAAATTTAATACAAAAAATTATTCTTAAATATATCATATTTTAAT
1 TAATCACTATTACTTTTTATCAAATTTAATACAAAAAATTATTCTTAAATATATTATATTTTAAT
*
3102648 ATAACTAAAACGTATCAACTGATG
66 ATAACTGAAACGTATCAACTGATG
* *
3102672 TAATCACTATTACTTTTTATCAAATTTAACACAAAAAAATATTCTTAAATATATTATATTTTAAT
1 TAATCACTATTACTTTTTATCAAATTTAATACAAAAAATTATTCTTAAATATATTATATTTTAAT
*
3102737 ATAACTGAAATGTATCAACT-ATG
66 ATAACTGAAACGTATCAACTGATG
* *
3102760 TAATCACTATTACTTTTTATTAAATTTAATACAAAAAATTATTTTTAAATATATTATATTTTAAT
1 TAATCACTATTACTTTTTATCAAATTTAATACAAAAAATTATTCTTAAATATATTATATTTTAAT
* *
3102825 ATAGCTGAAACGTTTCAAC
66 ATAACTGAAACGTATCAAC
3102844 CGATATAACC
Statistics
Matches: 159, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
88 80 0.50
89 79 0.50
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (89 bp):
TAATCACTATTACTTTTTATCAAATTTAATACAAAAAATTATTCTTAAATATATTATATTTTAAT
ATAACTGAAACGTATCAACTGATG
Found at i:3111548 original size:19 final size:18
Alignment explanation
Indices: 3111524--3111579 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
3111514 AATTAAATAT
3111524 TAAAAAATAATTAAACAAA
1 TAAAAAA-AATTAAACAAA
3111543 T-AAAAAAATTAATA-AAA
1 TAAAAAAAATTAA-ACAAA
*
3111560 TAGAATAAAATTAAACAAA
1 TA-AAAAAAATTAAACAAA
3111579 T
1 T
3111580 TTAACATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
17 10 0.31
18 7 0.22
19 15 0.47
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (18 bp):
TAAAAAAAATTAAACAAA
Found at i:3111555 original size:21 final size:21
Alignment explanation
Indices: 3111525--3111569 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3111515 ATTAAATATT
*
3111525 AAAAAATAATTAAACA-AATA
1 AAAAAATAATAAAACAGAATA
*
3111545 AAAAAATTAATAAAATAGAATA
1 AAAAAA-TAATAAAACAGAATA
3111567 AAA
1 AAA
3111570 TTAAACAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 8 0.38
22 7 0.33
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAAAATAATAAAACAGAATA
Found at i:3113267 original size:21 final size:21
Alignment explanation
Indices: 3113254--3113293 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
3113244 TATTTAAAAT
3113254 AAAATTTATATTATTAAATAA
1 AAAATTTATATTATTAAATAA
*
3113275 AAAATTTAT-TTACTAAATA
1 AAAATTTATATTATTAAATA
3113294 TATAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAATTTATATTATTAAATAA
Found at i:3113277 original size:20 final size:19
Alignment explanation
Indices: 3113240--3113293 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 19
3113230 TATTAGATCT
3113240 AATTTATTTA--AAAT-AA
1 AATTTATTTACTAAATAAA
*
3113256 AATTTATATTATTAAATAAAA
1 AATTTAT-TTACTAAAT-AAA
3113277 AATTTATTTACTAAATA
1 AATTTATTTACTAAATA
3113294 TATAAAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
16 7 0.22
17 3 0.09
19 5 0.16
20 8 0.25
21 9 0.28
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTTATTTACTAAATAAA
Found at i:3115817 original size:19 final size:19
Alignment explanation
Indices: 3115785--3115827 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
3115775 TTGATTTAGG
3115785 GTTTAGGTCTTAGGGTTTA
1 GTTTAGGTCTTAGGGTTTA
*
3115804 GTTTATGGTC-TAGGGTTTG
1 GTTTA-GGTCTTAGGGTTTA
3115823 GTTTA
1 GTTTA
3115828 AGATTTAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.14, C:0.05, G:0.33, T:0.49
Consensus pattern (19 bp):
GTTTAGGTCTTAGGGTTTA
Found at i:3115836 original size:19 final size:19
Alignment explanation
Indices: 3115794--3115836 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
3115784 GGTTTAGGTC
* *
3115794 TTAGGGTTTAGTTTATGGT
1 TTAGGGTTTAGTTTAAGAT
* *
3115813 CTAGGGTTTGGTTTAAGAT
1 TTAGGGTTTAGTTTAAGAT
3115832 TTAGG
1 TTAGG
3115837 ACTTAGGTTA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.47
Consensus pattern (19 bp):
TTAGGGTTTAGTTTAAGAT
Found at i:3115896 original size:31 final size:31
Alignment explanation
Indices: 3115861--3115944 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 31
3115851 TTATATTGTT
3115861 TTGGGGTTT-GGTTTAGGATTT-GGGACTTAGG
1 TTGGGGTTTAGGTTT-GGATTTAGGG-CTTAGG
* * *
3115892 TTGGGGTTTAGGTTTGGTTTTAGGGTTTAGT
1 TTGGGGTTTAGGTTTGGATTTAGGGCTTAGG
3115923 TTGGGGTTTAGGGTTTGG-TTTA
1 TTGGGGTTTA-GGTTTGGATTTA
3115945 AGATTTAGGG
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
31 32 0.68
32 15 0.32
ACGTcount: A:0.11, C:0.01, G:0.40, T:0.48
Consensus pattern (31 bp):
TTGGGGTTTAGGTTTGGATTTAGGGCTTAGG
Found at i:3115919 original size:19 final size:20
Alignment explanation
Indices: 3115895--3116070 Score: 70
Period size: 19 Copynumber: 8.9 Consensus size: 20
3115885 ACTTAGGTTG
*
3115895 GGGTTTAGGTTT-GGTTTTA
1 GGGTTTAGGTTTGGGGTTTA
3115914 GGGTTTA-GTTTGGGGTTTA
1 GGGTTTAGGTTTGGGGTTTA
** *
3115933 GGGTTT-GGTTTAAGATTTA
1 GGGTTTAGGTTTGGGGTTTA
* ** *
3115952 GGGTTCA-ACTTAGGGTTTA
1 GGGTTTAGGTTTGGGGTTTA
* *
3115971 -GGTTT-GATTTTGGTGTTTA
1 GGGTTTAG-GTTTGGGGTTTA
*
3115990 --GTTTAAGGTTTGGAGTTT-
1 GGGTTT-AGGTTTGGGGTTTA
*
3116008 -GGTTTAGGGTTTGGGATTTGACTTA
1 GGGTTTA-GGTTTGGG----G-TTTA
*
3116033 GGGTTT-GGTTTGAGGTTTGA
1 GGGTTTAGGTTTGGGGTTT-A
3116053 GGGTTT-GGTTTGGGGTTT
1 GGGTTTAGGTTTGGGGTTT
3116071 GTGTTACATG
Statistics
Matches: 119, Mismatches: 21, Indels: 33
0.69 0.12 0.19
Matches are distributed among these distances:
18 13 0.11
19 71 0.60
20 20 0.17
23 1 0.01
24 9 0.08
26 5 0.04
ACGTcount: A:0.13, C:0.02, G:0.38, T:0.48
Consensus pattern (20 bp):
GGGTTTAGGTTTGGGGTTTA
Found at i:3115950 original size:69 final size:67
Alignment explanation
Indices: 3115864--3116071 Score: 215
Period size: 69 Copynumber: 3.0 Consensus size: 67
3115854 TATTGTTTTG
* *
3115864 GGGTTTGGTTTAGGATTTGGGACTTAGGTTGGGGTTTAGGTTTGGTTTTAGGGTTTAGTTTGGGG
1 GGGTTTGGTTTAGGATTTGGGA-TTAGCTTAGGGTTTAGGTTTGGTTTTAGGGTTTAGTTTGGGG
3115929 TTT
65 TTT
* * * *
3115932 AGGGTTTGGTTTAAGATTTAGGG-TTCAACTTAGGGTTTAGGTTTGATTTT-GGTGTTTAGTTTA
1 -GGGTTTGGTTTAGGATTT-GGGATT-AGCTTAGGGTTTAGGTTTGGTTTTAGG-GTTTAGTTTG
*
3115995 AGGTTT
62 GGGTTT
* * * *
3116001 GGAGTTTGGTTTAGGGTTTGGGATTTGACTTAGGGTTT-GGTTTGAGGTTTGAGGGTTTGGTTTG
1 GG-GTTTGGTTTAGGATTTGGGATTAG-CTTAGGGTTTAGGTTT--GGTTTTAGGGTTTAGTTTG
3116065 GGGTTT
62 GGGTTT
3116071 G
1 G
3116072 TGTTACATGA
Statistics
Matches: 114, Mismatches: 16, Indels: 17
0.78 0.11 0.12
Matches are distributed among these distances:
68 14 0.12
69 77 0.68
70 21 0.18
71 2 0.02
ACGTcount: A:0.13, C:0.02, G:0.38, T:0.47
Consensus pattern (67 bp):
GGGTTTGGTTTAGGATTTGGGATTAGCTTAGGGTTTAGGTTTGGTTTTAGGGTTTAGTTTGGGGT
TT
Found at i:3116057 original size:20 final size:20
Alignment explanation
Indices: 3116032--3116071 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
3116022 GATTTGACTT
3116032 AGGGTTTGGTTTGAGGTTTG
1 AGGGTTTGGTTTGAGGTTTG
*
3116052 AGGGTTTGGTTTGGGGTTTG
1 AGGGTTTGGTTTGAGGTTTG
3116072 TGTTACATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.45
Consensus pattern (20 bp):
AGGGTTTGGTTTGAGGTTTG
Found at i:3117516 original size:144 final size:143
Alignment explanation
Indices: 3117323--3117726 Score: 368
Period size: 143 Copynumber: 2.8 Consensus size: 143
3117313 ATTCACATGA
* ** ** * *
3117323 TTTT-AATGCACCAAAAATT-ATAAAATAATATTTAATTATGATTTAGAGCTTTTTATGAAAAAT
1 TTTTCAATGCATC-AAAATTCATAAAATAATATCAAAACATGATTTGGAGCTTTTTACGAAAAA-
* * * * * * * *
3117386 TAACCTTAAAAAGGTCAAATTATGAAAATACC-CTTAAAGAGTATTTTTGTAATTTTAACTTTTT
64 CAACATCAAAAAGATCAAATTATGAAAATACCTC-TAAAGAGCATTTTTATAATTTCAACCTTTT
** *
3117450 CGAGGTGCGATCAAGT
128 AAAGGTGCGATCAAGG
* ** *
3117466 TTTTCAATGTATCAAAATTCATAAAATAATATCAAAACATGATTTGGAGCTTTTTGGGAAAAACG
1 TTTTCAATGCATCAAAATTCATAAAATAATATCAAAACATGATTTGGAGCTTTTTACGAAAAACA
* *
3117531 ACATCGAGAAGATCAAATTATGAAAATACCTCTAAAGAGCATTTTTATAATTTCAACCTTTTAAA
66 ACATCAAAAAGATCAAATTATGAAAATACCTCTAAAGAGCATTTTTATAATTTCAACCTTTTAAA
* *
3117596 GGTGTGATCAGGG
131 GGTGCGATCAAGG
* ** ** * *
3117609 TTTTCAATGCATCAAAATTCATGAGCTAATATCAAAACACAATTTGAAGTTTTTTACG-AAAACA
1 TTTTCAATGCATCAAAATTCATAAAATAATATCAAAACATGATTTGGAGCTTTTTACGAAAAAC-
* * * * * * *
3117673 AACTTCAAAAAGA-CTAAATTACGAAAATGCCACTAAGGGGCATTTTTGTAATTT
65 AACATCAAAAAGATC-AAATTATGAAAATACCTCTAAAGAGCATTTTTATAATTT
3117727 TACACTTATG
Statistics
Matches: 211, Mismatches: 45, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
142 6 0.03
143 162 0.77
144 43 0.20
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.34
Consensus pattern (143 bp):
TTTTCAATGCATCAAAATTCATAAAATAATATCAAAACATGATTTGGAGCTTTTTACGAAAAACA
ACATCAAAAAGATCAAATTATGAAAATACCTCTAAAGAGCATTTTTATAATTTCAACCTTTTAAA
GGTGCGATCAAGG
Found at i:3118636 original size:71 final size:70
Alignment explanation
Indices: 3118558--3118763 Score: 227
Period size: 71 Copynumber: 2.9 Consensus size: 70
3118548 AAAAGTCATG
* * *
3118558 TTTTTAAGATAAAAACATAATAGATGTTAAAATTTTAGTTAT-AAAATTCTATAATTTTAAGAAA
1 TTTTTAAGATAAAAACATAATGGATGTTAAAATTTTA-TTATCAAAATTCTAAAATTTTAACAAA
*
3118622 TACCACA
65 AACCA-A
* * * * *
3118629 TTTTTAAGATAAAAA-AGTAATGGATGTTGAAACTATATTTTCTAAATTCTAAAATTTTAACAAA
1 TTTTTAAGATAAAAACA-TAATGGATGTTAAAATTTTATTATCAAAATTCTAAAATTTTAACAAA
3118693 AACCAA
65 AACCAA
* * * * * *
3118699 TTTTTAATATTAAAAACATAGTGGATGTTAAAATTTTATTTTCAAACTTATAAAACTTTAACAAA
1 TTTTTAAGA-TAAAAACATAATGGATGTTAAAATTTTATTATCAAAATTCTAAAATTTTAACAAA
3118764 GATCATGTTT
Statistics
Matches: 113, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
70 13 0.12
71 99 0.88
72 1 0.01
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (70 bp):
TTTTTAAGATAAAAACATAATGGATGTTAAAATTTTATTATCAAAATTCTAAAATTTTAACAAAA
ACCAA
Found at i:3118919 original size:72 final size:71
Alignment explanation
Indices: 3118807--3119108 Score: 270
Period size: 72 Copynumber: 4.2 Consensus size: 71
3118797 AAAGACTTCA
* * * * * *
3118807 TTTTGAAGGTAAAATATGTAATTGATGTTAAAACTATATTTTCGAAATTATGAAATTTTAACAAA
1 TTTTTAAGATAAAAAATGTAGTAGATGTTAAAACTATATTTT-GAAATTATAAAATTTTAACAAA
3118872 GACCATG
65 GACCATG
* * * * *
3118879 TTTTTAAGATAAAAAATGTAGTAGATGTTGAAATTTTATTTTTGTAATTTTAAAATTTTAACAAA
1 TTTTTAAGATAAAAAATGTAGTAGATGTTAAAACTATA-TTTTGAAATTATAAAATTTTAACAAA
* **
3118944 AACCACA
65 GACCATG
* * * * * *
3118951 TTTATAAGATAAAAAATGTAGTAGATGTTAAAACTATACTTTTAAAATTGTGAAATTTTAATAGA
1 TTTTTAAGATAAAAAATGTAGTAGATGTTAAAACTATA-TTTTGAAATTATAAAATTTTAACAAA
* *
3119016 CACCA-C
65 GACCATG
* * * * * *
3119022 TTTTTAAAATAAAAACA--TAGTGGTTG-TATACACTTTATTTTAGAAATTCTAAAATTTTAACA
1 TTTTTAAGATAAAAA-ATGTAGTAGATGTTA-AAACTATATTTT-GAAATTATAAAATTTTAACA
3119084 AAGACCATG
63 AAGACCATG
3119093 TTTTTAAGATAAAAAA
1 TTTTTAAGATAAAAAA
3119109 GTAATCCTTC
Statistics
Matches: 184, Mismatches: 41, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
69 6 0.03
70 35 0.19
71 27 0.15
72 112 0.61
73 4 0.02
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (71 bp):
TTTTTAAGATAAAAAATGTAGTAGATGTTAAAACTATATTTTGAAATTATAAAATTTTAACAAAG
ACCATG
Found at i:3119182 original size:36 final size:37
Alignment explanation
Indices: 3119136--3119220 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 37
3119126 TTATAACAAA
*
3119136 ATTAAA-AT-AAAACATAAATTAT-TTTACTTAATATT
1 ATTAAATATAAAAAC-TAAAATATATTTACTTAATATT
*
3119171 ATTACATATAAAAACTAAAATATATTTACTTAATATT
1 ATTAAATATAAAAACTAAAATATATTTACTTAATATT
3119208 ATTAAATA-AAAAA
1 ATTAAATATAAAAA
3119221 TTTGTTCCAC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
35 5 0.11
36 14 0.32
37 25 0.57
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (37 bp):
ATTAAATATAAAAACTAAAATATATTTACTTAATATT
Found at i:3121599 original size:14 final size:14
Alignment explanation
Indices: 3121579--3121611 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
3121569 CCACTTTATT
*
3121579 ATTTTTTTTCTTAC
1 ATTTTTTTTTTTAC
3121593 -TTTTTTTTTTTAC
1 ATTTTTTTTTTTAC
3121606 ATTTTT
1 ATTTTT
3121612 GGCTTTCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (14 bp):
ATTTTTTTTTTTAC
Found at i:3125288 original size:87 final size:87
Alignment explanation
Indices: 3125161--3125344 Score: 350
Period size: 87 Copynumber: 2.1 Consensus size: 87
3125151 TTTGTCGCAT
3125161 TGGGTCGGCATAAGAAAAGAAGGTGTTTCGGTGGCTTTAAAGCTTTGCCCTTTATTGTTGCTTGC
1 TGGGT-GG-ATAAGAAAAGAAGGTGTTTCGGTGGCTTTAAAGCTTTGCCCTTTATTGTTGCTTGC
3125226 TGGTTCTTTTCTATGCACAGTTTA
64 TGGTTCTTTTCTATGCACAGTTTA
3125250 TGGGTGGATAAGAAAAGAAGGTGTTTCGGTGGCTTTAAAGCTTTGCCCTTTATTGTTGCTTGCTG
1 TGGGTGGATAAGAAAAGAAGGTGTTTCGGTGGCTTTAAAGCTTTGCCCTTTATTGTTGCTTGCTG
3125315 GTTCTTTTCTATGCACAGTTTA
66 GTTCTTTTCTATGCACAGTTTA
3125337 TGGGTGGA
1 TGGGTGGA
3125345 AATTTAAAAC
Statistics
Matches: 95, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
87 88 0.93
88 2 0.02
89 5 0.05
ACGTcount: A:0.19, C:0.14, G:0.28, T:0.39
Consensus pattern (87 bp):
TGGGTGGATAAGAAAAGAAGGTGTTTCGGTGGCTTTAAAGCTTTGCCCTTTATTGTTGCTTGCTG
GTTCTTTTCTATGCACAGTTTA
Found at i:3126509 original size:13 final size:13
Alignment explanation
Indices: 3126487--3126520 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
3126477 TAAAATCTCC
*
3126487 TAAAATATAATAA
1 TAAAAAATAATAA
3126500 TAAAAAATAATAA
1 TAAAAAATAATAA
3126513 TAATAAAA
1 TAA-AAAA
3126521 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAAAAATAATAA
Found at i:3126514 original size:16 final size:15
Alignment explanation
Indices: 3126488--3126522 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
3126478 AAAATCTCCT
3126488 AAAATATAATAATAA
1 AAAATATAATAATAA
3126503 AAAATAATAATAATAA
1 AAAAT-ATAATAATAA
3126519 AAAA
1 AAAA
3126523 ATTTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATATAATAATAA
Found at i:3126637 original size:18 final size:17
Alignment explanation
Indices: 3126607--3126640 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
3126597 GGGAATTATC
3126607 AAATAAAAATAATAAAT
1 AAATAAAAATAATAAAT
3126624 AAATAAACAATAATAAA
1 AAATAAA-AATAATAAA
3126641 AATCTTAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATAAAAATAATAAAT
Found at i:3126793 original size:13 final size:13
Alignment explanation
Indices: 3126775--3126850 Score: 100
Period size: 13 Copynumber: 5.8 Consensus size: 13
3126765 CGTAAATTCT
*
3126775 TGAAACCTTAAAA
1 TGAAACCCTAAAA
3126788 TGAAACCCTAAAGA
1 TGAAACCCTAAA-A
* *
3126802 TGTAACCCCAAAA
1 TGAAACCCTAAAA
3126815 CT-AAACCCTAAAA
1 -TGAAACCCTAAAA
3126828 TGAAACCCTAAAA
1 TGAAACCCTAAAA
3126841 TGAAACCCTA
1 TGAAACCCTA
3126851 GAGCCTTTGT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
12 1 0.02
13 42 0.76
14 12 0.22
ACGTcount: A:0.50, C:0.25, G:0.08, T:0.17
Consensus pattern (13 bp):
TGAAACCCTAAAA
Found at i:3137745 original size:21 final size:21
Alignment explanation
Indices: 3137721--3137760 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
3137711 TTCTTGTTCT
3137721 AGCTCATCT-TTTTCAGTTTGG
1 AGCTCATCTATTTT-AGTTTGG
3137742 AGCTCATCTATTTTAGTTT
1 AGCTCATCTATTTTAGTTT
3137761 AGAGTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.50
Consensus pattern (21 bp):
AGCTCATCTATTTTAGTTTGG
Found at i:3148488 original size:17 final size:17
Alignment explanation
Indices: 3148462--3148505 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
3148452 TGACATGCAA
* *
3148462 AAAAAAAAAAATGAAGG
1 AAAAAGAAAAATGAAAG
3148479 AAAAAGAAAAATGAAAG
1 AAAAAGAAAAATGAAAG
3148496 AGAAAAGAAA
1 A-AAAAGAAA
3148506 GAAAGAGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (17 bp):
AAAAAGAAAAATGAAAG
Found at i:3148511 original size:15 final size:15
Alignment explanation
Indices: 3148491--3148520 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3148481 AAAGAAAAAT
3148491 GAAAGAGAAAAGAAA
1 GAAAGAGAAAAGAAA
*
3148506 GAAAGAGAGAAGAAA
1 GAAAGAGAAAAGAAA
3148521 TTTTTTATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (15 bp):
GAAAGAGAAAAGAAA
Found at i:3149055 original size:36 final size:36
Alignment explanation
Indices: 3149015--3149085 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 36
3149005 AGAAAAATGG
* *
3149015 AAAGAAATGAAGGGAAAA-AAAAAGAAGAATAGAATT
1 AAAGAAAAGAAGGGAAAAGAAAAA-AAGAAAAGAATT
3149051 AAAGAAAAGAAGGGAAAAGGAAAAAAAGAAAAGAA
1 AAAGAAAAGAAGGGAAAA-GAAAAAAAGAAAAGAA
3149086 GAAATGAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 17 0.55
37 9 0.29
38 5 0.16
ACGTcount: A:0.70, C:0.00, G:0.24, T:0.06
Consensus pattern (36 bp):
AAAGAAAAGAAGGGAAAAGAAAAAAAGAAAAGAATT
Found at i:3150704 original size:27 final size:28
Alignment explanation
Indices: 3150656--3150724 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 28
3150646 ATGACTGAAC
* **
3150656 AAAAGGAT-AATGAT-GATGGAGAAACG
1 AAAAAGATGAATGATGGATGGAGAAAAA
* *
3150682 AAAATGATGACTGATGGAT-GAGAAAAA
1 AAAAAGATGAATGATGGATGGAGAAAAA
3150709 AAAAAGATGAATGATG
1 AAAAAGATGAATGATG
3150725 AGGATAAGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
26 7 0.20
27 25 0.71
28 3 0.09
ACGTcount: A:0.52, C:0.03, G:0.28, T:0.17
Consensus pattern (28 bp):
AAAAAGATGAATGATGGATGGAGAAAAA
Found at i:3151763 original size:31 final size:31
Alignment explanation
Indices: 3151694--3151778 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 31
3151684 TAGCTTTTAC
* *
3151694 AAGGAAAATTAAGCCCAATTTAGCTAGCACA
1 AAGGAGAATTAAGCCCAAATTAGCTAGCACA
* * **
3151725 AAAGAGAATAAAGCCCAAATTAGCTAGCATT
1 AAGGAGAATTAAGCCCAAATTAGCTAGCACA
* *
3151756 GAGGAGAATTAAGCCCAGATTAG
1 AAGGAGAATTAAGCCCAAATTAG
3151779 TTGGCTCTCG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.19
Consensus pattern (31 bp):
AAGGAGAATTAAGCCCAAATTAGCTAGCACA
Found at i:3151917 original size:51 final size:50
Alignment explanation
Indices: 3151789--3151949 Score: 159
Period size: 51 Copynumber: 3.3 Consensus size: 50
3151779 TTGGCTCTCG
* ** * *
3151789 AAAGA-TTTTTAAGGTTCATTGGTTATTTTCATAAGAACCCTTT-C-TAG
1 AAAGATTTTTTAAAGTTCATTGCCTATTTTCATAAGAACCCTTTCCAAAA
** * * *
3151836 AAAGATTTTTTAAAGTTTGTTACCTGTTTTCATATGAACCCTTTCCAAAA
1 AAAGATTTTTTAAAGTTCATTGCCTATTTTCATAAGAACCCTTTCCAAAA
* *
3151886 AAGAGATTTTTTAAAGTTCATTGCCTATTTTCATAGGAACCCTTT-CTAAA
1 AA-AGATTTTTTAAAGTTCATTGCCTATTTTCATAAGAACCCTTTCCAAAA
*
3151936 ATAGATCTTTTTAA
1 AAAGAT-TTTTTAA
3151950 GTTTGTGGCC
Statistics
Matches: 92, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
47 5 0.05
48 30 0.33
49 5 0.05
50 15 0.16
51 37 0.40
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (50 bp):
AAAGATTTTTTAAAGTTCATTGCCTATTTTCATAAGAACCCTTTCCAAAA
Found at i:3153248 original size:19 final size:19
Alignment explanation
Indices: 3153226--3153319 Score: 55
Period size: 19 Copynumber: 4.9 Consensus size: 19
3153216 TTAGGATATG
3153226 ATGGGTGGTTTAGGGTTTC
1 ATGGGTGGTTTAGGGTTTC
* * * *
3153245 ATGGATGGCTTAAGCTTTC
1 ATGGGTGGTTTAGGGTTTC
* * * *
3153264 ATTGGTGATTTAGGATTTGG
1 ATGGGTGGTTTAGGGTTT-C
* *
3153284 AT-GATAGTTTAGGGTTTC
1 ATGGGTGGTTTAGGGTTTC
* * *
3153302 GTGAGTGGTTTAGAGTTT
1 ATGGGTGGTTTAGGGTTT
3153320 GGAGGATAGT
Statistics
Matches: 52, Mismatches: 21, Indels: 4
0.68 0.27 0.05
Matches are distributed among these distances:
18 1 0.02
19 49 0.94
20 2 0.04
ACGTcount: A:0.18, C:0.05, G:0.34, T:0.43
Consensus pattern (19 bp):
ATGGGTGGTTTAGGGTTTC
Found at i:3153348 original size:38 final size:37
Alignment explanation
Indices: 3153279--3153355 Score: 100
Period size: 38 Copynumber: 2.1 Consensus size: 37
3153269 TGATTTAGGA
* * *
3153279 TTTGGATGATAGTTTAGGGTTTCGTGAGTGGTTTAGAG
1 TTTGGAGGATAGTTTAGGATTTCGAGAGTGGTTTA-AG
* *
3153317 TTTGGAGGATAGTTTAGGATTTGGAGGGTGGTTTAAG
1 TTTGGAGGATAGTTTAGGATTTCGAGAGTGGTTTAAG
3153354 TT
1 TT
3153356 CTAGAGTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
37 4 0.12
38 30 0.88
ACGTcount: A:0.19, C:0.01, G:0.38, T:0.42
Consensus pattern (37 bp):
TTTGGAGGATAGTTTAGGATTTCGAGAGTGGTTTAAG
Found at i:3153350 original size:19 final size:19
Alignment explanation
Indices: 3153267--3153351 Score: 64
Period size: 19 Copynumber: 4.5 Consensus size: 19
3153257 AGCTTTCATT
* *
3153267 GGTGATTTAGGATTTGGAT
1 GGTGGTTTAGGATTTGGAG
* * * * *
3153286 GATAGTTTAGGGTTTCGTG
1 GGTGGTTTAGGATTTGGAG
*
3153305 AGTGGTTTA-GAGTTTGGAG
1 GGTGGTTTAGGA-TTTGGAG
* *
3153324 GATAGTTTAGGATTTGGAG
1 GGTGGTTTAGGATTTGGAG
3153343 GGTGGTTTA
1 GGTGGTTTA
3153352 AGTTCTAGAG
Statistics
Matches: 46, Mismatches: 18, Indels: 4
0.68 0.26 0.06
Matches are distributed among these distances:
18 1 0.02
19 43 0.93
20 2 0.04
ACGTcount: A:0.20, C:0.01, G:0.39, T:0.40
Consensus pattern (19 bp):
GGTGGTTTAGGATTTGGAG
Found at i:3153605 original size:13 final size:13
Alignment explanation
Indices: 3153587--3153630 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
3153577 ACCACTCGTC
*
3153587 TTTAAGATTTAGG
1 TTTAAGGTTTAGG
3153600 TTTAAGGTTTAAGG
1 TTTAAGGTTT-AGG
3153614 -TTAAGGTTTAGGG
1 TTTAAGGTTTA-GG
3153627 TTTA
1 TTTA
3153631 CTTTAGTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 1 0.04
13 20 0.74
14 6 0.22
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (13 bp):
TTTAAGGTTTAGG
Found at i:3153607 original size:7 final size:7
Alignment explanation
Indices: 3153587--3153630 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
3153577 ACCACTCGTC
*
3153587 TTTAAGA
1 TTTAAGG
3153594 TTT-AGG
1 TTTAAGG
3153600 TTTAAGG
1 TTTAAGG
3153607 TTTAAGG
1 TTTAAGG
3153614 -TTAAGG
1 TTTAAGG
*
3153620 TTTAGGG
1 TTTAAGG
3153627 TTTA
1 TTTA
3153631 CTTTAGTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 11 0.33
7 22 0.67
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (7 bp):
TTTAAGG
Found at i:3153612 original size:20 final size:20
Alignment explanation
Indices: 3153587--3153630 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
3153577 ACCACTCGTC
*
3153587 TTTAAGATTTAGGTTTAAGG
1 TTTAAGATTAAGGTTTAAGG
* *
3153607 TTTAAGGTTAAGGTTTAGGG
1 TTTAAGATTAAGGTTTAAGG
3153627 TTTA
1 TTTA
3153631 CTTTAGTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (20 bp):
TTTAAGATTAAGGTTTAAGG
Found at i:3154622 original size:21 final size:20
Alignment explanation
Indices: 3154586--3154624 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
3154576 ATATTCTTCA
3154586 AGAAAAAAATAGAAAAATAG
1 AGAAAAAAATAGAAAAATAG
*
3154606 AGAAAACAAATATAAAAAT
1 AGAAAA-AAATAGAAAAAT
3154625 GCAATGGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.74, C:0.03, G:0.10, T:0.13
Consensus pattern (20 bp):
AGAAAAAAATAGAAAAATAG
Found at i:3160307 original size:20 final size:19
Alignment explanation
Indices: 3160284--3160321 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
3160274 TAATTTATTT
*
3160284 TTATTTTATTTAAATTTTAC
1 TTATTTTAATT-AATTTTAC
3160304 TTATTTTAATTAATTTTA
1 TTATTTTAATTAATTTTA
3160322 ATCAGTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATTTTAATTAATTTTAC
Found at i:3160351 original size:9 final size:9
Alignment explanation
Indices: 3160330--3160382 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
3160320 TAATCAGTAA
3160330 ATTTTATTTT
1 ATTTTA-TTT
3160340 ATTTTATTT
1 ATTTTATTT
3160349 ATTTTATTT
1 ATTTTATTT
* **
3160358 ATTTGTGTAA
1 ATTT-TATTT
3160368 ATTTTATTT
1 ATTTTATTT
3160377 ATTTTA
1 ATTTTA
3160383 ATTGATATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
9 24 0.67
10 12 0.33
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (9 bp):
ATTTTATTT
Done.