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 75 of 211
Found at i:20085722 original size:21 final size:22
Alignment explanation
Indices: 20085684--20085743 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
20085674 TTAGGCAAAA
20085684 ATAAATAAATAAAT-AAATAGAG
1 ATAAATAAA-AAATAAAATAGAG
* *
20085706 A-AAATAAAAAATAAAATATAT
1 ATAAATAAAAAATAAAATAGAG
*
20085727 ATAAATGAAAAATAAAA
1 ATAAATAAAAAATAAAA
20085744 GAACGATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 4 0.12
21 14 0.42
22 15 0.45
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (22 bp):
ATAAATAAAAAATAAAATAGAG
Found at i:20085738 original size:29 final size:32
Alignment explanation
Indices: 20085683--20085743 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
20085673 TTTAGGCAAA
20085683 AATAAATAAATAAATAAATAGAGAAAATAAAA
1 AATAAATAAATAAATAAATAGAGAAAATAAAA
* *
20085715 AATAAA-ATATATATAAAT-GA-AAAATAAAA
1 AATAAATAAATAAATAAATAGAGAAAATAAAA
20085744 GAACGATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 9 0.33
30 2 0.07
31 10 0.37
32 6 0.22
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (32 bp):
AATAAATAAATAAATAAATAGAGAAAATAAAA
Found at i:20087688 original size:26 final size:27
Alignment explanation
Indices: 20087659--20087714 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
20087649 TCAACTTCTC
20087659 TTTTAAGTTTATA-AA-TTCTCTTTGAG
1 TTTTAAGTTTA-AGAATTTCTCTTTGAG
**
20087685 TTTTATTTTTAAGAATTTCTCTTTGAG
1 TTTTAAGTTTAAGAATTTCTCTTTGAG
20087712 TTT
1 TTT
20087715 GTTTTAGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 1 0.04
26 11 0.42
27 14 0.54
ACGTcount: A:0.23, C:0.07, G:0.11, T:0.59
Consensus pattern (27 bp):
TTTTAAGTTTAAGAATTTCTCTTTGAG
Found at i:20087725 original size:27 final size:27
Alignment explanation
Indices: 20087674--20087725 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
20087664 AGTTTATAAA
**
20087674 TTCTCTTTGAGTTTTATTTTTAAGAAT
1 TTCTCTTTGAGTTTTATTTAGAAGAAT
20087701 TTCTCTTTGAGTTTGT-TTTAGAAGA
1 TTCTCTTTGAGTTT-TATTTAGAAGA
20087726 GTTTTAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.21, C:0.08, G:0.15, T:0.56
Consensus pattern (27 bp):
TTCTCTTTGAGTTTTATTTAGAAGAAT
Found at i:20089874 original size:45 final size:45
Alignment explanation
Indices: 20089802--20089952 Score: 178
Period size: 45 Copynumber: 3.4 Consensus size: 45
20089792 ATATGCCAAT
20089802 ATGAGTAAGACCATAGCTAAAAGATGTTATGGCATCATGATAAAA
1 ATGAGTAAGACCATAGCTAAAAGATGTTATGGCATCATGATAAAA
* * ** * *
20089847 ATGAATAAGACCCTAGCTGAAAA-ATGTTATGGCATCAAAACAGAA
1 ATGAGTAAGACCATAGCT-AAAAGATGTTATGGCATCATGATAAAA
* * * *
20089892 ATGAGTAAGACCATGGCTAAAAGACGTTATGGCATCATGGTAAAC
1 ATGAGTAAGACCATAGCTAAAAGATGTTATGGCATCATGATAAAA
* *
20089937 AGGACTAAGACCATAG
1 ATGAGTAAGACCATAG
20089953 TTGAAAGACT
Statistics
Matches: 85, Mismatches: 19, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
44 4 0.05
45 77 0.91
46 4 0.05
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (45 bp):
ATGAGTAAGACCATAGCTAAAAGATGTTATGGCATCATGATAAAA
Found at i:20090179 original size:27 final size:27
Alignment explanation
Indices: 20090120--20090181 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
20090110 GCATCATAGT
* *
20090120 TAGTCCAACGGGACATTAAACATGAGA
1 TAGTCCGACGGGACATTAAACAAGAGA
* *
20090147 TCGTCCGACGGGACATTAAACAAGGGA
1 TAGTCCGACGGGACATTAAACAAGAGA
20090174 TAGTCCGA
1 TAGTCCGA
20090182 TAAGACGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (27 bp):
TAGTCCGACGGGACATTAAACAAGAGA
Found at i:20099442 original size:18 final size:19
Alignment explanation
Indices: 20099419--20099461 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
20099409 TTCAATAATT
*
20099419 TTTTTACAATTTTTT-TTA
1 TTTTTACAATTTTTTCATA
*
20099437 TTTTTATAATTTTTTCATA
1 TTTTTACAATTTTTTCATA
20099456 TTTTTA
1 TTTTTA
20099462 TAAAATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTACAATTTTTTCATA
Found at i:20099450 original size:19 final size:18
Alignment explanation
Indices: 20099419--20099464 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
20099409 TTCAATAATT
* **
20099419 TTTTTACAATTTTTTTTA
1 TTTTTATAATTTTTCATA
20099437 TTTTTATAATTTTTTCATA
1 TTTTTATAA-TTTTTCATA
20099456 TTTTTATAA
1 TTTTTATAA
20099465 AATTTAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTTATAATTTTTCATA
Found at i:20100604 original size:21 final size:22
Alignment explanation
Indices: 20100554--20100608 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
20100544 ATTTATTAAC
*
20100554 TTTTGTAAT-TTTTAAATAATT
1 TTTTGTAATATTTTTAATAATT
*
20100575 CTTT-T-ATATTTTTAAT-ATT
1 TTTTGTAATATTTTTAATAATT
20100594 TTTTGTAATATTTTT
1 TTTTGTAATATTTTT
20100609 TTTCTATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 8 0.29
20 9 0.32
21 11 0.39
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTTGTAATATTTTTAATAATT
Found at i:20101878 original size:19 final size:19
Alignment explanation
Indices: 20101838--20101879 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
20101828 CAACGTCAAC
* *
20101838 AAATAATTTAAAAACTATA
1 AAATAATTTAAAAAATAAA
*
20101857 AAATATTTTAAAAAATAAA
1 AAATAATTTAAAAAATAAA
20101876 AAAT
1 AAAT
20101880 TCAAAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATAATTTAAAAAATAAA
Found at i:20102163 original size:16 final size:17
Alignment explanation
Indices: 20102142--20102173 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
20102132 AATTTATTAC
20102142 ATTTTTTGAAA-ATTTA
1 ATTTTTTGAAACATTTA
20102158 ATTTTTTGAAACATTT
1 ATTTTTTGAAACATTT
20102174 TAGGTATTTT
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:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (17 bp):
ATTTTTTGAAACATTTA
Found at i:20102629 original size:37 final size:37
Alignment explanation
Indices: 20102570--20102650 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
20102560 ATTCTATAGA
*
20102570 GTCTGTGGCGAGATCCCAGATTGACTACTGATGGTCAT
1 GTCT-TGGCGAGATCCCAGATTGACTACTGACGGTCAT
* * *
20102608 GTCTTGGCGAGATCTCGGATTGACTGCTGACGGTCAT
1 GTCTTGGCGAGATCCCAGATTGACTACTGACGGTCAT
20102645 GTCTTG
1 GTCTTG
20102651 TTGATCAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
37 35 0.90
38 4 0.10
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.31
Consensus pattern (37 bp):
GTCTTGGCGAGATCCCAGATTGACTACTGACGGTCAT
Found at i:20106803 original size:28 final size:30
Alignment explanation
Indices: 20106741--20106804 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
20106731 CCAACGTGAA
20106741 TATATTATGTTATAAAAAATATTATATTAAT
1 TATA-TATGTTATAAAAAATATTATATTAAT
* * *
20106772 TATATATGTTA-AATAAGTATTATA-TATT
1 TATATATGTTATAAAAAATATTATATTAAT
20106800 TATAT
1 TATAT
20106805 TAAATCACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 8 0.27
29 11 0.37
30 7 0.23
31 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (30 bp):
TATATATGTTATAAAAAATATTATATTAAT
Found at i:20106953 original size:39 final size:40
Alignment explanation
Indices: 20106909--20106998 Score: 119
Period size: 39 Copynumber: 2.2 Consensus size: 40
20106899 AAAAATTATA
**
20106909 TTTAATATAATAAAATATTTATTATATTTAT-TTGTGTTT
1 TTTAATATAATAAAATATTTATTATATTTATGTAATGTTT
* * *
20106948 TTTAATGTAATGAAATATTTATTATGTTTATGGTAATGTTT
1 TTTAATATAATAAAATATTTATTATATTTAT-GTAATGTTT
20106989 TTTAATATAA
1 TTTAATATAA
20106999 ATATTTTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 28 0.65
41 15 0.35
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (40 bp):
TTTAATATAATAAAATATTTATTATATTTATGTAATGTTT
Found at i:20109568 original size:42 final size:42
Alignment explanation
Indices: 20109492--20109642 Score: 160
Period size: 42 Copynumber: 3.6 Consensus size: 42
20109482 ATTGAAGCAT
* * * *
20109492 CATACTGACACGTAGGTGCATCATCTGATGTACCGAAGAAAA
1 CATACTGGCACGTAAGTGCATCATCAGATATACCGAAGAAAA
*
20109534 CATATTGGCACGTAAGTGCATCATCAGATATACCGAAGAAAA
1 CATACTGGCACGTAAGTGCATCATCAGATATACCGAAGAAAA
* * * ** * * *
20109576 CATACTGGCACATGAGTGCATAATTGGACATACCAAAGTAATA
1 CATACTGGCACGTAAGTGCATCATCAGATATACCGAAG-AAAA
*
20109619 -ATACTGGCACGTAAATGCATCATC
1 CATACTGGCACGTAAGTGCATCATC
20109643 GGCTACATCG
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 86 0.97
43 3 0.03
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.23
Consensus pattern (42 bp):
CATACTGGCACGTAAGTGCATCATCAGATATACCGAAGAAAA
Found at i:20110251 original size:28 final size:28
Alignment explanation
Indices: 20110220--20110281 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
20110210 CTATTTAGTA
20110220 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
20110248 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
20110276 ACAGTA
1 ACAGTA
20110282 TCGGTACAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:20110662 original size:27 final size:27
Alignment explanation
Indices: 20110645--20110808 Score: 197
Period size: 27 Copynumber: 6.1 Consensus size: 27
20110635 GGGTATAACA
*
20110645 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTAATTCG
*
20110672 GTCATTTTACCCTATGGGGGTAATTCG
1 GTCATTTTACCCTATAGGGGTAATTCG
* * *
20110699 TTCATTTTACCCTGTAGAGGTAATTCG
1 GTCATTTTACCCTATAGGGGTAATTCG
* * *
20110726 GTCATTTTACCCTATTGAGGTAATTCA
1 GTCATTTTACCCTATAGGGGTAATTCG
* *
20110753 GTCATTTTATCCTAT-GGAGATAATTCG
1 GTCATTTTACCCTATAGG-GGTAATTCG
*
20110780 GTCATTTTACCCTA-CGGGGATAATTCG
1 GTCATTTTACCCTATAGGGG-TAATTCG
20110807 GT
1 GT
20110809 TGTTTATTGA
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
26 2 0.02
27 116 0.98
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTAATTCG
Found at i:20111172 original size:30 final size:29
Alignment explanation
Indices: 20111136--20111264 Score: 149
Period size: 30 Copynumber: 4.5 Consensus size: 29
20111126 AAATATTTTT
*
20111136 ATTTTTTTAATTTTAAAATACTTTTTTTAA
1 ATTTTTTTAATTTTAAAATA-TTTTTTAAA
20111166 A-TTTTTTAATTTTAAAAT-TTTTTTAAA
1 ATTTTTTTAATTTTAAAATATTTTTTAAA
** **
20111193 ATACTTTT--TTTTAAAATACTTTTTTTTA
1 ATTTTTTTAATTTTAAAATA-TTTTTTAAA
*
20111221 ATTTTTTTAATTTTAAAATATTTTTAAAA
1 ATTTTTTTAATTTTAAAATATTTTTTAAA
20111250 TATTTTTTTAATTTT
1 -ATTTTTTTAATTTT
20111265 TATTTTAATT
Statistics
Matches: 83, Mismatches: 10, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
26 9 0.11
27 9 0.11
28 17 0.20
29 23 0.28
30 25 0.30
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (29 bp):
ATTTTTTTAATTTTAAAATATTTTTTAAA
Found at i:20111201 original size:15 final size:15
Alignment explanation
Indices: 20111183--20111221 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
20111173 AATTTTAAAA
20111183 TTTTTTTAAAATACT
1 TTTTTTTAAAATACT
20111198 TTTTTTTAAAATACT
1 TTTTTTTAAAATACT
20111213 TTTTTTTAA
1 TTTTTTTAA
20111222 TTTTTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTTTTAAAATACT
Found at i:20111211 original size:55 final size:55
Alignment explanation
Indices: 20111146--20111258 Score: 192
Period size: 56 Copynumber: 2.1 Consensus size: 55
20111136 ATTTTTTTAA
*
20111146 TTTTAAAATAC-TTTTTTTAAATTTTTTAATTTTAAAATTTTTTTAAAATACTTTT
1 TTTTAAAATACTTTTTTTTAAATTTTTTAATTTTAAAATATTTTTAAAATA-TTTT
*
20111201 TTTTAAAATACTTTTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATATTTT
1 TTTTAAAATACTTTTTTTTAAATTTTTTAATTTTAAAATATTTTTAAAATATTTT
20111256 TTT
1 TTT
20111259 AATTTTTATT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
55 18 0.33
56 37 0.67
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (55 bp):
TTTTAAAATACTTTTTTTTAAATTTTTTAATTTTAAAATATTTTTAAAATATTTT
Found at i:20113259 original size:20 final size:20
Alignment explanation
Indices: 20113245--20113283 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
20113235 GATATGAATG
20113245 GTAGTGAATTGATATAACGA
1 GTAGTGAATTGATATAACGA
20113265 GTAGTGAATTGATATAACG
1 GTAGTGAATTGATATAACG
20113284 TATGTGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (20 bp):
GTAGTGAATTGATATAACGA
Found at i:20115057 original size:42 final size:41
Alignment explanation
Indices: 20114868--20115047 Score: 144
Period size: 42 Copynumber: 4.3 Consensus size: 41
20114858 TGCATCATTG
* * * ** * * *
20114868 GATAAACCGAAGCAATCATACTAACACGTAAATGTATCACC
1 GATATACCGAAGAAAACATACTGGCATGTAAGTGTATCATC
* * * * * * *
20114909 GAATGTACCAAAAAAAACATACCGACATTTAAATGTATCATC
1 G-ATATACCGAAGAAAACATACTGGCATGTAAGTGTATCATC
* *
20114951 GGATATGCCGAAGAAAACATACTGGCATGTAAGTGCATCATC
1 -GATATACCGAAGAAAACATACTGGCATGTAAGTGTATCATC
**
20114993 TGATATACCGAAGAAAACATACTGGCATGTACTTGTATCATC
1 -GATATACCGAAGAAAACATACTGGCATGTAAGTGTATCATC
*
20115035 GAACATACCGAAG
1 G-ATATACCGAAG
20115048 TAATAATACT
Statistics
Matches: 110, Mismatches: 26, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
41 2 0.02
42 107 0.97
43 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (41 bp):
GATATACCGAAGAAAACATACTGGCATGTAAGTGTATCATC
Found at i:20116038 original size:52 final size:52
Alignment explanation
Indices: 20115960--20116082 Score: 246
Period size: 52 Copynumber: 2.4 Consensus size: 52
20115950 TGTCAAAAAG
20115960 TGTTATAAAGTAACAAATACTTTAGACATTTGTAATATCATTTTAGACTTTA
1 TGTTATAAAGTAACAAATACTTTAGACATTTGTAATATCATTTTAGACTTTA
20116012 TGTTATAAAGTAACAAATACTTTAGACATTTGTAATATCATTTTAGACTTTA
1 TGTTATAAAGTAACAAATACTTTAGACATTTGTAATATCATTTTAGACTTTA
20116064 TGTTATAAAGTAACAAATA
1 TGTTATAAAGTAACAAATA
20116083 TGCTTTTAAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.41
Consensus pattern (52 bp):
TGTTATAAAGTAACAAATACTTTAGACATTTGTAATATCATTTTAGACTTTA
Found at i:20116695 original size:18 final size:18
Alignment explanation
Indices: 20116672--20116710 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
20116662 CTAAACAAAC
20116672 AAATAATAA-AATTAAATA
1 AAATAA-AACAATTAAATA
20116690 AAATAAAACAATTAAATA
1 AAATAAAACAATTAAATA
20116708 AAA
1 AAA
20116711 CTTATATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
AAATAAAACAATTAAATA
Found at i:20117363 original size:20 final size:19
Alignment explanation
Indices: 20117326--20117365 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
20117316 AGATGACCAA
**
20117326 ATTAAATAATATTTCAAAT
1 ATTAAATAATATAACAAAT
20117345 ATTAAATAAATATAACAAAT
1 ATTAAAT-AATATAACAAAT
20117365 A
1 A
20117366 CTTGAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTAAATAATATAACAAAT
Found at i:20123221 original size:25 final size:24
Alignment explanation
Indices: 20123171--20123231 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
20123161 ATCATTAATA
* *
20123171 AATAAACGAG-TCATAAATGAATC
1 AATAAACGAGCTTATAAATGAACC
*
20123194 AATAAACGAGCTTATAAAATGAGCC
1 AATAAACGAGCTTAT-AAATGAACC
*
20123219 AATAAACAAGCTT
1 AATAAACGAGCTT
20123232 GTTCGTGAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 10 0.31
24 3 0.09
25 19 0.59
ACGTcount: A:0.51, C:0.15, G:0.13, T:0.21
Consensus pattern (24 bp):
AATAAACGAGCTTATAAATGAACC
Found at i:20125296 original size:34 final size:35
Alignment explanation
Indices: 20125248--20125313 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 35
20125238 CAGTAAAATA
*
20125248 TTTCCGTAAAATGATTT-CTCAAAAATGTTTTACT
1 TTTCCGTAAAATGATTTACTCAAAAATATTTTACT
* *
20125282 TTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTCCGTAAAATGATTTACTCAAAAATATTTT
20125314 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (35 bp):
TTTCCGTAAAATGATTTACTCAAAAATATTTTACT
Found at i:20126033 original size:111 final size:111
Alignment explanation
Indices: 20125839--20126060 Score: 426
Period size: 111 Copynumber: 2.0 Consensus size: 111
20125829 TGATGAAATA
20125839 TTGTTGTCTAAGAGAGAGAGTAGTGATATATATATACCATATAAACATACACTACTTTTTCTAAA
1 TTGTTGTCTAAGAGAGAGAGTAGTGATATATATATACCATATAAACATACACTACTTTTTCTAAA
*
20125904 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTGCATG
66 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
*
20125950 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
1 TTGTTGTCTAAGAGAGAGAGTAGTGATATATATATACCATATAAACATACACTACTTTTTCTAAA
20126015 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
66 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
20126061 CATGGTATTG
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 109 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (111 bp):
TTGTTGTCTAAGAGAGAGAGTAGTGATATATATATACCATATAAACATACACTACTTTTTCTAAA
TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
Found at i:20132815 original size:18 final size:18
Alignment explanation
Indices: 20132747--20132818 Score: 55
Period size: 18 Copynumber: 4.3 Consensus size: 18
20132737 AAGTTTTTTA
20132747 ATTTTTAA-TTAATAAAT
1 ATTTTTAATTTAATAAAT
* *
20132764 A-TATT-ATTT--TCAAT
1 ATTTTTAATTTAATAAAT
* * **
20132778 TTTTTTATTTTAATTCAT
1 ATTTTTAATTTAATAAAT
20132796 ATTTTTAATTTAATAAAT
1 ATTTTTAATTTAATAAAT
20132814 ATTTT
1 ATTTT
20132819 ATTCATAAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 9
0.66 0.19 0.15
Matches are distributed among these distances:
14 4 0.10
15 4 0.10
16 8 0.21
17 1 0.03
18 22 0.56
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTAATTTAATAAAT
Found at i:20133257 original size:19 final size:20
Alignment explanation
Indices: 20133222--20133260 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
20133212 ATGATATATG
*
20133222 TAAAATATATATTTTTATTA
1 TAAAATATATATATTTATTA
20133242 TAAAAT-TATATATTTATTA
1 TAAAATATATATATTTATTA
20133261 GCTTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TAAAATATATATATTTATTA
Found at i:20134406 original size:107 final size:102
Alignment explanation
Indices: 20134283--20134543 Score: 292
Period size: 104 Copynumber: 2.5 Consensus size: 102
20134273 AAAAATTATT
* **** **
20134283 TTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCA-AC-AGTAAAAGAAAAATTTTCCTTTTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGACAAGTAAAA-AAAAA----AAAATTTCGT
20134346 GTCAGAATAAGATATAAATATACGAAAAAAATAAAAATAAAAAA
61 GTCAGAATAAGATATAAATATACG-AAAAAATAAAAA-AAAAAA
* *
20134390 TTTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACAAATTAAAAAAAAAAAAATTTCGTGTC
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG-AC-AAGTAAAAAAAAAAAAATTTCGTGTC
* **
20134455 AGAATCAGATATAAATATACGAAAAAATTTAAAAAAAAA
64 AGAATAAGATATAAATATACGAAAAAATAAAAAAAAAAA
* *
20134494 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAA
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG-ACAAGTAAAAAAAA
20134544 CTTTTTTTTC
Statistics
Matches: 136, Mismatches: 14, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
103 11 0.08
104 43 0.32
105 10 0.07
106 27 0.20
107 32 0.24
109 2 0.01
110 5 0.04
111 6 0.04
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.26
Consensus pattern (102 bp):
TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGACAAGTAAAAAAAAAAAAATTTCGTGTCAG
AATAAGATATAAATATACGAAAAAATAAAAAAAAAAA
Found at i:20134514 original size:104 final size:106
Alignment explanation
Indices: 20134345--20134543 Score: 339
Period size: 104 Copynumber: 1.9 Consensus size: 106
20134335 TCCTTTTTTT
20134345 TGTCAGAATAAGATATAAATATACGAAAAAAATAAAAATAAAAAATTTTGGGTGCTGGCCTGTCA
1 TGTCAGAATAAGATATAAATATACGAAAAAAATAAAAATAAAAAATTTTGGGTGCTGGCCTGTCA
*
20134410 ATGGCTGGCACCCAGTACAAATTAAAAAAAAAAAAATTTCG
66 ATGGCCGGCACCCAGTACAAATTAAAAAAAAAAAAATTTCG
* **
20134451 TGTCAGAATCAGATATAAATATACG-AAAAAATTTAAA-AAAAAATTTTGGGTGCTGGCCTGTCA
1 TGTCAGAATAAGATATAAATATACGAAAAAAATAAAAATAAAAAATTTTGGGTGCTGGCCTGTCA
*
20134514 ATGGCCGGCACCCAGTACAATTTAAAAAAA
66 ATGGCCGGCACCCAGTACAAATTAAAAAAA
20134544 CTTTTTTTTC
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 54 0.61
105 10 0.11
106 24 0.27
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.24
Consensus pattern (106 bp):
TGTCAGAATAAGATATAAATATACGAAAAAAATAAAAATAAAAAATTTTGGGTGCTGGCCTGTCA
ATGGCCGGCACCCAGTACAAATTAAAAAAAAAAAAATTTCG
Found at i:20137156 original size:109 final size:107
Alignment explanation
Indices: 20136844--20137699 Score: 1075
Period size: 109 Copynumber: 8.1 Consensus size: 107
20136834 GATGTTTGGT
*
20136844 CAGCACCCAAAA--TTTTTTTTATTTTTTTCGTATATTTATATCTGACTCCGACAC-AAAAAAAA
1 CAGCACCCAAAATTTTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAA
* * * *
20136906 GATTTTTTTTTAAAAATTTGTACTGCGTGCCGGCCATTGACAGGG
66 AAATTTTTTTT--AAA-TTGTACTGGGTGCCGGCCATTGACAGGC
*
20136951 CAGCACCCAAAAATTTTTTTTTTAAATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAA
1 CAGCACCC-AAAATTTTTTTTTT--ATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAA
* *
20137016 AAAAAATTTTTTTTAATTTGTACTGGATGCCGGCCATTGACAGGC
63 AAAAAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGC
* *
20137061 TAGCACCCAAAAATTTTTATTTTATTTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAA
1 CAGCACCC-AAAATTTTTTTTTTA-TTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAA
** *
20137126 ATTAATTTTTTTTAAATTGTAGTGGGTGCCGGCCATTGACAGGC
64 AAAAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGC
20137170 CAGCACCC-AAATTTTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAA
1 CAGCACCCAAAATTTTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAA
* *
20137234 AGAA-ATTTTTTAAATTTGTACTGGGTGCCGGCTATTGACAGGC
66 A-AATTTTTTTTAAA-TTGTACTGGGTGCCGGCCATTGACAGGC
** * *
20137277 CAGCACTTAAATTTTTTTTTTTTAATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAA
1 CAGCACCCAAA-ATTTTTTTTTT-ATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAA
* * *
20137342 AAGAA-TTTTTTTAATTTGTACTGAGTGCCGGCCATTGACAGGC
64 AAAAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGC
* *
20137385 CATCACCC-AAA--TTTTTTTTATTTTTTTCGTATATTTATATCTAACTCTGACAC-AAAAAAAA
1 CAGCACCCAAAATTTTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAA
20137446 GTAAATTTTTTTTAAAATTGTACTGGGTGCCGGCCATTGACA-GC
66 --AAATTTTTTTT-AAATTGTACTGGGTGCCGGCCATTGACAGGC
20137490 CAGCACCCAAAATTTTTTTATTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAA
1 CAGCACCCAAAATTTTTTT-TTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAA
*
20137555 AGAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGC
65 AAAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGC
* * * * * *
20137598 TAGCATCC--AA--------TT-TTTTTTTCGTATATTTATATCTTATTTTGA-A--AAAAAAAG
1 CAGCACCCAAAATTTTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAA
* *
20137649 AAATTTTTTTT-TACTGT--TGGGTGCCGGCCATTGACAGGC
66 AAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGC
20137688 CAGCACCCAAAA
1 CAGCACCCAAAA
20137700 AATAAATTTT
Statistics
Matches: 670, Mismatches: 55, Indels: 63
0.85 0.07 0.08
Matches are distributed among these distances:
90 28 0.04
92 6 0.01
93 17 0.03
95 1 0.00
96 27 0.04
97 2 0.00
102 8 0.01
103 32 0.05
104 10 0.01
105 16 0.02
106 81 0.12
107 85 0.13
108 61 0.09
109 141 0.21
110 104 0.16
111 2 0.00
112 32 0.05
113 17 0.03
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (107 bp):
CAGCACCCAAAATTTTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAA
AAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGC
Found at i:20137676 original size:90 final size:94
Alignment explanation
Indices: 20137514--20137697 Score: 243
Period size: 90 Copynumber: 2.0 Consensus size: 94
20137504 TTTTTATTTA
*
20137514 TTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAGAATTTTTTTTAAATTGTACTGG
1 TTTTTTTCGTATATTTATATCTGACTCTGACAC-AAAAAAAAGAATTTTTTTTAAACTGTA-TGG
* *
20137579 GTGCCGGCCATTGACAGGCTAGCATCCAATT
64 GTGCCGGCCATTGACAGGCCAGCACCCAATT
* * * *
20137610 TTTTTTTCGTATATTTATATCTTATTTTG--A-AAAAAAAAGAAATTTTTTTT-TACTGT-TGGG
1 TTTTTTTCGTATATTTATATCTGACTCTGACACAAAAAAAAG-AATTTTTTTTAAACTGTATGGG
20137670 TGCCGGCCATTGACAGGCCAGCACCCAA
65 TGCCGGCCATTGACAGGCCAGCACCCAA
20137698 AAAATAAATT
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
90 30 0.38
92 13 0.16
93 10 0.12
94 1 0.01
96 26 0.32
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (94 bp):
TTTTTTTCGTATATTTATATCTGACTCTGACACAAAAAAAAGAATTTTTTTTAAACTGTATGGGT
GCCGGCCATTGACAGGCCAGCACCCAATT
Found at i:20147008 original size:146 final size:147
Alignment explanation
Indices: 20146683--20147033 Score: 384
Period size: 146 Copynumber: 2.4 Consensus size: 147
20146673 AAATTGTGGT
* * * * * *
20146683 ATACCAAAATTTATAAGTGAATATCCTTAGATATTTTGGTATATACCATAATTTCTAAGGGAATA
1 ATACCAAAATTTCTAAGAGCACATCCTTAGATATTTTGGTATATACCATAATTTCTAAAGAAATA
* * * *
20146748 CCAATATTTTTATGGAACCTCGTAAGAAATTTTGGTATACCAAAATCGTGTTGTATAAACTTATA
66 CCAATATTTCTATGGAACCTCGTAAGAAATTTTGATATACCAAAATCGTATTGTATAAACCTATA
*
20146813 ACAAGATTTCTAACGAA
131 ACAAGATTTCTAACAAA
* *** * * *
20146830 ATACCAAAATTTCTACGAGGTTATCTTTAGATATTCTGGTATATACCTTAATTTCTAAAGAAATA
1 ATACCAAAATTTCTAAGAGCACATCCTTAGATATTTTGGTATATACCATAATTTCTAAAGAAATA
** * * *
20146895 TTAATATTTCTATGGAACCTCGTTAG-AATTTTGATATACCAAAATC-TAAATT-TATGAGCCTA
66 CCAATATTTCTATGGAACCTCGTAAGAAATTTTGATATACCAAAATCGT--ATTGTATAAACCTA
* *
20146957 TACCAAGATTTCTAATAAA
129 TAACAAGATTTCTAACAAA
* ** * * *
20146976 ATATCACTATTTCTAATAGCACATCCTTAGATATTTTGGTATATACTAAAATTTCTAA
1 ATACCAAAATTTCTAAGAGCACATCCTTAGATATTTTGGTATATACCATAATTTCTAA
20147034 CAAGATGGTA
Statistics
Matches: 167, Mismatches: 35, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
145 1 0.01
146 87 0.52
147 79 0.47
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (147 bp):
ATACCAAAATTTCTAAGAGCACATCCTTAGATATTTTGGTATATACCATAATTTCTAAAGAAATA
CCAATATTTCTATGGAACCTCGTAAGAAATTTTGATATACCAAAATCGTATTGTATAAACCTATA
ACAAGATTTCTAACAAA
Found at i:20157421 original size:15 final size:15
Alignment explanation
Indices: 20157392--20157426 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
20157382 AACTCTATTT
20157392 TAATT-ATATTAAGA
1 TAATTAATATTAAGA
*
20157406 TAATTAATATTGAGA
1 TAATTAATATTAAGA
20157421 TAATTA
1 TAATTA
20157427 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:20161384 original size:21 final size:21
Alignment explanation
Indices: 20161360--20161403 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
20161350 GCAACCCAAT
*
20161360 TTTTATT-TTTATTATTATTTA
1 TTTTATTCTTTACT-TTATTTA
*
20161381 TTTTTTTCTTTACTTTATTTA
1 TTTTATTCTTTACTTTATTTA
20161402 TT
1 TT
20161404 ACTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTATTCTTTACTTTATTTA
Found at i:20161397 original size:17 final size:17
Alignment explanation
Indices: 20161377--20161418 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
20161367 TTTATTATTA
*
20161377 TTTATTTTTTTCTTTAC
1 TTTATTTTTTACTTTAC
* *
20161394 TTTATTTATTACTTTAT
1 TTTATTTTTTACTTTAC
20161411 TTTATTTT
1 TTTATTTT
20161419 ATTTTACTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTTTACTTTAC
Found at i:20161413 original size:27 final size:26
Alignment explanation
Indices: 20161367--20161430 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 26
20161357 AATTTTTATT
*
20161367 TTTATTATTATTTATTTTTTTCTTTAC
1 TTTATTATTATTTATTTTTAT-TTTAC
*
20161394 TTTATTTATTACTTTA-TTTTATTTTAT
1 TTTA-TTATTA-TTTATTTTTATTTTAC
20161421 TTTACTTATT
1 TTTA-TTATT
20161431 TGAATATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 17 0.53
28 11 0.34
29 4 0.12
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTATTATTATTTATTTTTATTTTAC
Found at i:20162478 original size:18 final size:17
Alignment explanation
Indices: 20162442--20162474 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20162432 CTAAAGCATA
*
20162442 AAAAAAAAGGAAAAAAT
1 AAAAAAAAGAAAAAAAT
20162459 AAAAAAAAGAAAAAAA
1 AAAAAAAAGAAAAAAA
20162475 ATAATTTGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (17 bp):
AAAAAAAAGAAAAAAAT
Found at i:20167171 original size:50 final size:50
Alignment explanation
Indices: 20167096--20167271 Score: 190
Period size: 50 Copynumber: 3.5 Consensus size: 50
20167086 TTTGGAAAGT
* * *
20167096 AAGATTCACCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * ** ** * * *
20167146 AAGATTTGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGGAAGT
1 AAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
*
20167196 AAGATTCGTCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* ** *
20167246 AAGATTGGCCACTGTGGCTTTAATCT
1 AAGATTCGCCGTTGTAGCTTTAATCT
20167272 ATTCCACTGT
Statistics
Matches: 97, Mismatches: 29, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
50 97 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (50 bp):
AAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
Found at i:20167265 original size:100 final size:100
Alignment explanation
Indices: 20167089--20167304 Score: 324
Period size: 100 Copynumber: 2.2 Consensus size: 100
20167079 CGTAACTTTT
* *
20167089 GGAAAGTAAGATTCACCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTG
1 GGAAAGTAAGATTCGCCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTGG
** * *
20167154 CCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCT
66 CCACTGTGGCTTTAATCTATTCCACTGCACCGCCA
* * * *
20167189 GGGAAGTAAGATTCGTCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTGG
1 GGAAAGTAAGATTCGCCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTGG
* *
20167254 CCACTGTGGCTTTAATCTATTCCACTGTACTGCCA
66 CCACTGTGGCTTTAATCTATTCCACTGCACCGCCA
20167289 GGAAAGTAAGATTCGC
1 GGAAAGTAAGATTCGC
20167305 TATTCTTAGT
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 102 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (100 bp):
GGAAAGTAAGATTCGCCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTGG
CCACTGTGGCTTTAATCTATTCCACTGCACCGCCA
Found at i:20167300 original size:50 final size:50
Alignment explanation
Indices: 20167092--20167304 Score: 147
Period size: 50 Copynumber: 4.3 Consensus size: 50
20167082 AACTTTTGGA
* * * * * ** * * *
20167092 AAGTAAGATTCACCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGG
1 AAGTAAGATTCGCCACTGTGGCTTTAATCTATTCCACTGCACTGCCAGGG
* * ** * * *
20167142 AAGCAAGATTTGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
1 AAGTAAGATTCGCCACTGTGGCTTTAATCTATTCCACTGCACTGCCAGGG
* ** * * ** * * *
20167192 AAGTAAGATTCGTCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGG
1 AAGTAAGATTCGCCACTGTGGCTTTAATCTATTCCACTGCACTGCCAGGG
* * * *
20167242 AAGCAAGATTGGCCACTGTGGCTTTAATCTATTCCACTGTACTGCCAGGA
1 AAGTAAGATTCGCCACTGTGGCTTTAATCTATTCCACTGCACTGCCAGGG
20167292 AAGTAAGATTCGC
1 AAGTAAGATTCGC
20167305 TATTCTTAGT
Statistics
Matches: 123, Mismatches: 40, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
50 123 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (50 bp):
AAGTAAGATTCGCCACTGTGGCTTTAATCTATTCCACTGCACTGCCAGGG
Found at i:20167425 original size:85 final size:85
Alignment explanation
Indices: 20167322--20167555 Score: 236
Period size: 85 Copynumber: 2.8 Consensus size: 85
20167312 AGTCTGCCCC
* * ** ***
20167322 ACTGCAACTTCAGGGGGATAAGACCTGCTT-TCTCAATCTGCTCTGTTGCAACCTCAGGGAGATA
1 ACTGCAACTTCAGAGGGATAAGACCT-ATTATCTCAATCCACTCCACTGCAACCTCAGGGAGATA
*
20167386 AGACCTGATGTGATATACTCT
65 AGACCTGATGCGATATACTCT
** * * *
20167407 ACTGCAACTTCAGAGGGATAAGGTCTATTATTTCAATCCACTCCACTGCAACTTTAGGGAGATAA
1 ACTGCAACTTCAGAGGGATAAGACCTATTATCTCAATCCACTCCACTGCAACCTCAGGGAGATAA
*
20167472 GACCTGATGCGATCTACTCT
66 GACCTGATGCGATATACTCT
* ** ** * * * * *
20167492 ATTGCAACTTCAGATAGATAAGATTTTTTATTTTAATCCACTCCACTACAACTTCAGGGAGATA
1 ACTGCAACTTCAGAGGGATAAGACCTATTATCTCAATCCACTCCACTGCAACCTCAGGGAGATA
20167556 GGATTACTGG
Statistics
Matches: 125, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
84 2 0.02
85 123 0.98
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (85 bp):
ACTGCAACTTCAGAGGGATAAGACCTATTATCTCAATCCACTCCACTGCAACCTCAGGGAGATAA
GACCTGATGCGATATACTCT
Found at i:20167427 original size:41 final size:41
Alignment explanation
Indices: 20167368--20167514 Score: 118
Period size: 41 Copynumber: 3.5 Consensus size: 41
20167358 TCTGCTCTGT
*
20167368 TGCAACCTCAGGGAGATAAGACCTGATGTGATATACTCTAC
1 TGCAACTTCAGGGAGATAAGACCTGATGTGATATACTCTAC
* * * * * *
20167409 TGCAACTTCAGAGG-GATAAGGTCTATTATTTCA-ATCCACTCCAC
1 TGCAACTTCAG-GGAGATAA-GAC-CTGATGTGATAT--ACTCTAC
* * * *
20167453 TGCAACTTTAGGGAGATAAGACCTGATGCGATCTACTCTAT
1 TGCAACTTCAGGGAGATAAGACCTGATGTGATATACTCTAC
**
20167494 TGCAACTTCAGATAGATAAGA
1 TGCAACTTCAGGGAGATAAGA
20167515 TTTTTTATTT
Statistics
Matches: 79, Mismatches: 20, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
41 38 0.48
42 10 0.13
43 10 0.13
44 21 0.27
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (41 bp):
TGCAACTTCAGGGAGATAAGACCTGATGTGATATACTCTAC
Found at i:20167984 original size:131 final size:131
Alignment explanation
Indices: 20167763--20168095 Score: 546
Period size: 131 Copynumber: 2.6 Consensus size: 131
20167753 ACTGCAACTT
* *
20167763 CAGGGAGATATGATTAGTGGCTTAAATCTGTTTCCCTACT-CTTGGGGAAGATAAGATTCG-CCG
1 CAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCCTT-GGGAAGATAAGATTCGACCG
* * *
20167826 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTTTCTTTGACCTATTCCACTGTTG
65 TCTTCGATCAACTCCACTACTGCTTAGGGAGATAAGATCTGTTTCTTCGACCTATTCCACTGCTG
20167891 AC
130 AC
*
20167893 CAGGGAGATAGGATTAGTGGCTTAAATATGCTTCCCTACTCCTTGGGAAGATAAGATTCGACCGT
1 CAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCCTTGGGAAGATAAGATTCGACCGT
20167958 CTTCGATCAACTCCACTACTGCTTAGGGAGATAAGATCTGTTTCTTCGACCTATTCCACTGCTGA
66 CTTCGATCAACTCCACTACTGCTTAGGGAGATAAGATCTGTTTCTTCGACCTATTCCACTGCTGA
20168023 C
131 C
* * *
20168024 CAGGGAGATAGGATTAGTGGCTTAAATCTTCTTCCCTACTCCTGGGGAAGATAAGATTC-ACCAT
1 CAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCCTTGGGAAGATAAGATTCGACCGT
*
20168088 TTTCGATC
66 CTTCGATC
20168096 TGCTTCGCTG
Statistics
Matches: 190, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
130 64 0.34
131 126 0.66
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (131 bp):
CAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCCTTGGGAAGATAAGATTCGACCGT
CTTCGATCAACTCCACTACTGCTTAGGGAGATAAGATCTGTTTCTTCGACCTATTCCACTGCTGA
C
Found at i:20179342 original size:18 final size:18
Alignment explanation
Indices: 20179307--20179341 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20179297 TAAACTGGAC
*
20179307 ATTTATTTGGTATATTTT
1 ATTTATTTGATATATTTT
20179325 ATTTATTTGATAT-TTTT
1 ATTTATTTGATATATTTT
20179342 TCATATCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (18 bp):
ATTTATTTGATATATTTT
Found at i:20179597 original size:3 final size:3
Alignment explanation
Indices: 20179589--20179650 Score: 101
Period size: 3 Copynumber: 21.0 Consensus size: 3
20179579 AGTCCTATTT
20179589 AAG AAG AAG AA- AGAG AAG AAG AA- AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
20179633 AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG
20179651 TGACTATAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 3 0.05
3 52 0.93
4 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:20181234 original size:28 final size:29
Alignment explanation
Indices: 20181172--20181235 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
20181162 AAATAAACCA
*
20181172 AACTTATTAAAAATCCTAAAAATAAATTT
1 AACTTATTAAAAACCCTAAAAATAAATTT
* *
20181201 ATCTTATT-AAAACCCTAAATAT-AATTCT
1 AACTTATTAAAAACCCTAAAAATAAATT-T
20181229 AACTTAT
1 AACTTAT
20181236 AAGGACCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 4 0.13
28 19 0.63
29 7 0.23
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (29 bp):
AACTTATTAAAAACCCTAAAAATAAATTT
Found at i:20181413 original size:41 final size:42
Alignment explanation
Indices: 20181278--20181432 Score: 158
Period size: 41 Copynumber: 3.7 Consensus size: 42
20181268 AATTTATTAG
* * *
20181278 AAAACTTAA-ATATAATTTAG-AAATTAAATTCTACCCTATT
1 AAAACTTAAGATCTAATTTAGCAAAATAAATTCTAACCTATT
*
20181318 AAAACTTAA-ATCTAATTTAAAGCAAAATAAAATTCTAACCGATT
1 AAAACTTAAGATCTAATTT--AGCAAAAT-AAATTCTAACCTATT
* * * * *
20181362 ATAACCTAAGACCTAATTTAG-AAAATAAATTCTAACATAGT
1 AAAACTTAAGATCTAATTTAGCAAAATAAATTCTAACCTATT
*
20181403 AAAACTTAAGATCTAAATT-GCAAAATAAAT
1 AAAACTTAAGATCTAATTTAGCAAAATAAAT
20181433 CCTGACCGAT
Statistics
Matches: 95, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
40 18 0.19
41 36 0.38
42 7 0.07
43 6 0.06
44 20 0.21
45 8 0.08
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (42 bp):
AAAACTTAAGATCTAATTTAGCAAAATAAATTCTAACCTATT
Found at i:20185078 original size:151 final size:152
Alignment explanation
Indices: 20184803--20185098 Score: 531
Period size: 151 Copynumber: 2.0 Consensus size: 152
20184793 TGGCTTCTTA
20184803 GAGCCTTAGGTCAACTTTGTTAGAAAGTGATCCCACATCATTTTCAGAATATTATTGAGTTTGAT
1 GAGCCTTAGGTCAACTTTGTTAGAAAGTGATCCCACATCATTTTCAGAATATTATTGAGTTTGAT
*
20184868 TACTCTTTAAAAGTTATAAGTGAGAAAATCTTAACTTATTTTCTTTGTCTCCTAGAGTTGTTTAT
66 TACTCTTTAAAAGTTACAAGTGAGAAAATCTTAACTTATTTTCTTTGTCTCCTAGAGTTGTTTAT
20184933 TTTATTGCGAGTGCATAACGGC
131 TTTATTGCGAGTGCATAACGGC
* * *
20184955 GAGCCTTAGGTCAACTTTGTTAGAAATTGATCCTACATCTTTTTC-GAATATTATTGAGTTTGAT
1 GAGCCTTAGGTCAACTTTGTTAGAAAGTGATCCCACATCATTTTCAGAATATTATTGAGTTTGAT
* *
20185019 TACTCTTTGAAAGTTACAAGTGAGAAAATCTTAACTTGTTTTCTTTGTCTCCTAGAGTTGTTTAT
66 TACTCTTTAAAAGTTACAAGTGAGAAAATCTTAACTTATTTTCTTTGTCTCCTAGAGTTGTTTAT
20185084 TTTATTGCGAGTGCA
131 TTTATTGCGAGTGCA
20185099 AAATGATGAG
Statistics
Matches: 138, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
151 96 0.70
152 42 0.30
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (152 bp):
GAGCCTTAGGTCAACTTTGTTAGAAAGTGATCCCACATCATTTTCAGAATATTATTGAGTTTGAT
TACTCTTTAAAAGTTACAAGTGAGAAAATCTTAACTTATTTTCTTTGTCTCCTAGAGTTGTTTAT
TTTATTGCGAGTGCATAACGGC
Found at i:20187964 original size:26 final size:26
Alignment explanation
Indices: 20187914--20187964 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
20187904 TTTCTCGAAA
*
20187914 TTTACCAGGGGTAAAATCTTCAAAAT
1 TTTACCAGGGGTAAAATCTTAAAAAT
*
20187940 TTTACTAGGGGTAAAAT-TGTAAAAA
1 TTTACCAGGGGTAAAATCT-TAAAAA
20187965 AATTTATTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (26 bp):
TTTACCAGGGGTAAAATCTTAAAAAT
Found at i:20188360 original size:9 final size:9
Alignment explanation
Indices: 20188346--20188400 Score: 56
Period size: 9 Copynumber: 5.6 Consensus size: 9
20188336 AAATAGAGGG
*
20188346 AATTTTTCC
1 AATTTTACC
20188355 AATTTTACC
1 AATTTTACC
20188364 AATTTCTATTGACC
1 AA--T-T-TT-ACC
20188378 AATTTTACC
1 AATTTTACC
20188387 AATTTTACC
1 AATTTTACC
20188396 AATTT
1 AATTT
20188401 CTATTAAAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
9 27 0.68
10 2 0.05
11 2 0.05
12 2 0.05
13 2 0.05
14 5 0.12
ACGTcount: A:0.31, C:0.20, G:0.02, T:0.47
Consensus pattern (9 bp):
AATTTTACC
Found at i:20192205 original size:57 final size:55
Alignment explanation
Indices: 20192136--20192620 Score: 220
Period size: 57 Copynumber: 8.6 Consensus size: 55
20192126 CCGCCTAAAA
* *
20192136 CCTTAAAGAGGTGGATTATATAAAGTCCATATTAGAAAGATGTGACTATCAACTTT
1 CCTTAAAGAGGTGAATTATATAAAGTCCATATTA-AAAGACGTGACTATCAACTTT
* *
20192192 GCCTTAAAGAGGTG-A--AT-T--AGTCCATCTT-AAAGAGGTTCGACTATCAACTTCT
1 -CCTTAAAGAGGTGAATTATATAAAGTCCATATTAAAAGACG-T-GACTATCAACTT-T
* * * *
20192244 CCTTAAAGAGGTGAATTCTTTAAAGTCCAT-TTAAAAAAAGGCGTGACTATCAATTTTT
1 CCTTAAAGAGGTGAATTATATAAAGTCCATATT---AAAAGACGTGACTATCAA-CTTT
* * * *
20192302 CCTTAAAGAGGTGAATTATATAAAGACCATATTAAAGAGGCGTGATTATCAATTTT
1 CCTTAAAGAGGTGAATTATATAAAGTCCATATTAAA-AGACGTGACTATCAACTTT
* * * * ** * ** *** *
20192358 CCCTCAGAGAGATGAATTATATAAAATCCATCCT-AAAGAGGTATGGTTATTTGCGTCT
1 -CCTTAAAGAGGTGAATTATATAAAGTCCATATTAAAAGACG--TGACTATCAAC-TTT
* * * * ** *
20192416 CCTTAAATAGGTGAATTATACAAATTCCAT-TTAAGGAGGTGTGATTATCAACTTT
1 CCTTAAAGAGGTGAATTATATAAAGTCCATATTAA-AAGACGTGACTATCAACTTT
* * * * * * * * * * * *
20192471 ACTTTAAAAAAGTAAACTACATAAAGTCCATCTTAAGGAGGCATGACTATGAACTTCG
1 -CCTTAAAGAGGTGAATTATATAAAGTCCATATTAA-AAGACGTGACTATCAACTT-T
* * * * * *
20192529 CCTTAAAGAGGTGAATCATATAGAGTCCATGTT-AAAGATGTGTGACTATTAGC-TT
1 CCTTAAAGAGGTGAATTATATAAAGTCCATATTAAAAGA--CGTGACTATCAACTTT
* *
20192584 CACTTTAAATAGGTGAATTATATAAAGTCCATCTTAA
1 C-C-TTAAAGAGGTGAATTATATAAAGTCCATATTAA
20192621 GAAAGTGTGA
Statistics
Matches: 325, Mismatches: 73, Indels: 59
0.71 0.16 0.13
Matches are distributed among these distances:
49 6 0.02
50 1 0.00
51 34 0.10
52 2 0.01
53 1 0.00
54 3 0.01
55 9 0.03
56 45 0.14
57 171 0.53
58 43 0.13
59 5 0.02
60 5 0.02
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.32
Consensus pattern (55 bp):
CCTTAAAGAGGTGAATTATATAAAGTCCATATTAAAAGACGTGACTATCAACTTT
Found at i:20200731 original size:20 final size:20
Alignment explanation
Indices: 20200694--20200732 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
20200684 TTACAATCTA
*
20200694 AAAATTGAATAAATTTAATC
1 AAAATTGAATAAAATTAATC
20200714 AAAATTGAA-ACAAATTAAT
1 AAAATTGAATA-AAATTAAT
20200733 AATGTTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (20 bp):
AAAATTGAATAAAATTAATC
Found at i:20203551 original size:57 final size:57
Alignment explanation
Indices: 20203118--20203607 Score: 343
Period size: 57 Copynumber: 8.6 Consensus size: 57
20203108 TCCACTTAAA
* * * *
20203118 ACCTTAAAGAGGTGGATTATATAAAGTCCATATTAGAA-AGATGTGACTATCAACTTT
1 ACCTTAAAGAGGTGAATTATATAAAGTCCATCTTA-AAGAGGTGTGACTATCAACTTC
* *
20203175 GCCTTAAAGAGGTG-A--AT-T--AGTCCATCTTAAAGAGGTTTGACTATCAACTTC
1 ACCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAAGAGGTGTGACTATCAACTTC
* * * * * * *
20203226 TCCTTAAAGAGGTGAATTCTATAAAGTCCATTTTAAAAAAGGCGTGACTATCAATTTT
1 ACCTTAAAGAGGTGAATTATATAAAGTCCATCTT-AAAGAGGTGTGACTATCAACTTC
* * * * * * *
20203284 TCCTTTAAGAGGTGAATTATATAAAGACCATATTAAAGAGGCGTGATTATCAATTTTC
1 ACCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAAGAGGTGTGACTATCAA-CTTC
* * * * * * ** ****
20203342 -CCTCAGAGAGATAAATTATATAAAATCCATCTTAAAGAGGTATGGTTATTTGTGTTTC
1 ACCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAAGAGGTGTGACTA--TCAACTTC
* * * * * * *
20203400 -CC-TAAAGAGGTGAATTATATAAATTCCATTTTAAGGAGGTGTGATTGTGAACTTT
1 ACCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAAGAGGTGTGACTATCAACTTC
* * * * * ** *
20203455 ACTTTAAAAAAAAAGTGAACTACATAAAGTCCATCTTAAAGAGGCATGACTATGAACTTC
1 ACCTT---AAAGAGGTGAATTATATAAAGTCCATCTTAAAGAGGTGTGACTATCAACTTC
* * * * * *
20203515 ACCTTAAAGAGGTGAATCATATAGAGTCCATGTTAAAGATGTGTGACTATTAGCTTC
1 ACCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAAGAGGTGTGACTATCAACTTC
* *
20203572 ACTTTAAATAGGTGAATTATATAAAGTCCATCTTAA
1 ACCTTAAAGAGGTGAATTATATAAAGTCCATCTTAA
20203608 GAAAGTGTAA
Statistics
Matches: 338, Mismatches: 79, Indels: 32
0.75 0.18 0.07
Matches are distributed among these distances:
50 2 0.01
51 39 0.12
52 1 0.00
53 1 0.00
54 3 0.01
55 5 0.01
56 2 0.01
57 183 0.54
58 57 0.17
59 1 0.00
60 44 0.13
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (57 bp):
ACCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAAGAGGTGTGACTATCAACTTC
Found at i:20217698 original size:24 final size:24
Alignment explanation
Indices: 20217670--20217721 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
20217660 TTAGTAAGTC
*
20217670 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
20217694 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
20217718 AAAT
1 AAAT
20217722 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:20219668 original size:24 final size:24
Alignment explanation
Indices: 20219640--20219691 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
20219630 TTAGTAAGTC
*
20219640 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
20219664 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
20219688 AAAT
1 AAAT
20219692 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:20225434 original size:26 final size:27
Alignment explanation
Indices: 20225405--20225471 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
20225395 GTAATAAAAA
* *
20225405 TAATAATAACTAAT-TTAATTATATTT
1 TAATAATAACTAATATTAAATATAATT
* *
20225431 TAAT-ATAATTATTATTAAATATAATT
1 TAATAATAACTAATATTAAATATAATT
*
20225457 TAATAA-AAATAATAT
1 TAATAATAACTAATAT
20225472 ATAATTTAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 7 0.21
26 25 0.76
27 1 0.03
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (27 bp):
TAATAATAACTAATATTAAATATAATT
Found at i:20225439 original size:16 final size:16
Alignment explanation
Indices: 20225415--20225456 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
20225405 TAATAATAAC
*
20225415 TAATTTAATTA-TATTT
1 TAATATAATTATTA-TT
20225431 TAATATAATTATTATT
1 TAATATAATTATTATT
*
20225447 AAATATAATT
1 TAATATAATT
20225457 TAATAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 21 0.91
17 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATAATTATTATT
Found at i:20225444 original size:61 final size:58
Alignment explanation
Indices: 20225361--20225500 Score: 181
Period size: 61 Copynumber: 2.3 Consensus size: 58
20225351 AACTATTGTT
* ** *
20225361 ATTAAATTTTAATAGGATTATTATTAAATATGATGTAATAAAAATAATAATAACTAATTTA
1 ATTATATTTTAATATAATTATTATTAAATATAATGTAATAAAAATAAT-AT-A-TAATTTA
*
20225422 ATTATATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATATATAATTTA
1 ATTATATTTTAATATAATTATTATTAAATATAATGTAATAAAAATAATATATAATTTA
* *
20225480 GTAATATTCTTAATATAATTA
1 ATTATATT-TTAATATAATTA
20225501 ATTTTATATT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
58 13 0.18
59 13 0.18
60 2 0.03
61 43 0.61
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (58 bp):
ATTATATTTTAATATAATTATTATTAAATATAATGTAATAAAAATAATATATAATTTA
Found at i:20225577 original size:24 final size:24
Alignment explanation
Indices: 20225534--20225582 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
20225524 AGATTCTTTA
20225534 ATTTTATATTAAAATATTTAAAAT
1 ATTTTATATTAAAATATTTAAAAT
20225558 ATTTTAT-TTAATACAT-TTTAAAAT
1 ATTTTATATTAA-A-ATATTTAAAAT
20225582 A
1 A
20225583 ATACACTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.17
24 17 0.74
25 2 0.09
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
ATTTTATATTAAAATATTTAAAAT
Found at i:20234452 original size:18 final size:17
Alignment explanation
Indices: 20234419--20234457 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
20234409 TTGTATAAAT
20234419 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
20234437 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
20234454 TGTG
1 TGTG
20234458 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:20234589 original size:8 final size:8
Alignment explanation
Indices: 20234576--20234604 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
20234566 CACTAGAGAC
20234576 CAGTGTTA
1 CAGTGTTA
20234584 CAGTGTTA
1 CAGTGTTA
20234592 CAGTGTTA
1 CAGTGTTA
20234600 CAGTG
1 CAGTG
20234605 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:20234718 original size:23 final size:23
Alignment explanation
Indices: 20234691--20234763 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
20234681 AGTGTTATTG
20234691 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
20234714 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
20234737 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
20234760 ATCA
1 ATCA
20234764 ATGTGGCACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:20235763 original size:19 final size:20
Alignment explanation
Indices: 20235733--20235774 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
20235723 ATGAGTATAG
20235733 TTTCAGGGAAAATTTACGGA
1 TTTCAGGGAAAATTTACGGA
20235753 TTTCA-GGAAAATTTACGGA
1 TTTCAGGGAAAATTTACGGA
20235772 TTT
1 TTT
20235775 AAAATTTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (20 bp):
TTTCAGGGAAAATTTACGGA
Found at i:20241817 original size:18 final size:17
Alignment explanation
Indices: 20241784--20241822 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
20241774 TTGTATAAAT
20241784 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
20241802 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
20241819 TGTG
1 TGTG
20241823 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:20241954 original size:8 final size:8
Alignment explanation
Indices: 20241941--20241969 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
20241931 CACTAGAGAC
20241941 CAGTGTTA
1 CAGTGTTA
20241949 CAGTGTTA
1 CAGTGTTA
20241957 CAGTGTTA
1 CAGTGTTA
20241965 CAGTG
1 CAGTG
20241970 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:20242097 original size:22 final size:23
Alignment explanation
Indices: 20242056--20242132 Score: 129
Period size: 23 Copynumber: 3.3 Consensus size: 23
20242046 AGTGTTATTG
20242056 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
20242079 TTCAGTGGTAGC-TCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
20242101 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
20242124 ATCATGTGG
1 ATCA-GTGG
20242133 CACTTATGTG
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
22 21 0.42
23 25 0.50
24 4 0.08
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:20245473 original size:22 final size:21
Alignment explanation
Indices: 20245449--20245488 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
20245439 TAAAAGGAAA
*
20245449 AAAACAAACTTAAAAATGGTG
1 AAAACAAACCTAAAAATGGTG
20245470 AAAACAAACCTAAAAATGG
1 AAAACAAACCTAAAAATGG
20245489 ACAAATCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.15
Consensus pattern (21 bp):
AAAACAAACCTAAAAATGGTG
Found at i:20247812 original size:47 final size:47
Alignment explanation
Indices: 20247737--20247982 Score: 402
Period size: 47 Copynumber: 5.2 Consensus size: 47
20247727 TTCGGGACTC
* * * * * * *
20247737 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
20247784 GTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
20247831 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
20247878 ATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
20247925 ATCACATATATACACTTTCACATTCATCACATCGGCCATTACGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
20247972 ATCACATATAT
1 ATCACATATAT
20247983 TAGGCCTTAT
Statistics
Matches: 187, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 187 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:20247989 original size:19 final size:19
Alignment explanation
Indices: 20247962--20248001 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
20247952 CACATCGGCC
20247962 ATTACGCCTTATCACATAT
1 ATTACGCCTTATCACATAT
*
20247981 ATTAGGCCTTATCACATAT
1 ATTACGCCTTATCACATAT
20248000 AT
1 AT
20248002 ACACTTTCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (19 bp):
ATTACGCCTTATCACATAT
Found at i:20247994 original size:66 final size:66
Alignment explanation
Indices: 20247915--20248048 Score: 250
Period size: 66 Copynumber: 2.0 Consensus size: 66
20247905 CACATCGGCC
20247915 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTACGCCTTATCACATA
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTACGCCTTATCACATA
20247980 T
66 T
* *
20247981 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGCCTTATCACATA
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTACGCCTTATCACATA
20248046 T
66 T
20248047 AT
1 AT
20248049 ACACTTTCAC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.34
Consensus pattern (66 bp):
ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTACGCCTTATCACATA
T
Found at i:20247999 original size:160 final size:161
Alignment explanation
Indices: 20247821--20248144 Score: 587
Period size: 160 Copynumber: 2.0 Consensus size: 161
20247811 CACATCGGCC
*
20247821 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCATATA
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
20247886 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTC
66 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTC
20247950 ATCACATCGGCCATTACGCCTTATCACATAT
131 ATCACATCGGCCATTACGCCTTATCACATAT
*
20247981 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGCCTTATCACATA
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
20248046 TATACACTTTCACATTCATCACCTCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
66 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATT
* *
20248111 CATCACGTCGGCCATTAGGCCTTATCACATAT
130 CATCACATCGGCCATTACGCCTTATCACATAT
20248143 AT
1 AT
20248145 ACACTTTCAC
Statistics
Matches: 157, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
160 106 0.68
162 51 0.32
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (161 bp):
ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTC
ATCACATCGGCCATTACGCCTTATCACATAT
Found at i:20248000 original size:113 final size:113
Alignment explanation
Indices: 20247868--20248095 Score: 420
Period size: 113 Copynumber: 2.0 Consensus size: 113
20247858 CACATCGGCC
*
20247868 ATTAGGCCTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
20247933 TATACACTTTCACATTCATCACATCGGCCATTACGCCTTATCACATAT
66 TATACACTTTCACATTCATCACATCGGCCATTACGCCTTATCACATAT
*
20247981 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGCCTTATCACATA
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
* *
20248046 TATACACTTTCACATTCATCACCTCGGCCATTAGGCCTTATCACATAT
66 TATACACTTTCACATTCATCACATCGGCCATTACGCCTTATCACATAT
20248094 AT
1 AT
20248096 ATACACTTTC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 111 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (113 bp):
ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
TATACACTTTCACATTCATCACATCGGCCATTACGCCTTATCACATAT
Found at i:20248115 original size:49 final size:47
Alignment explanation
Indices: 20247981--20248157 Score: 309
Period size: 47 Copynumber: 3.7 Consensus size: 47
20247971 TATCACATAT
*
20247981 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCG
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
*
20248028 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACCTCGGCC
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
*
20248075 ATTAGGCCTTATCACATATATATACACTTTCACATTCATCACGTCGGCC
1 ATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCC
20248124 ATTAGGCCTTATCACATATATACACTTTCACATT
1 ATTAGGCCTTATCACATATATACACTTTCACATT
20248158 TATTCAAATA
Statistics
Matches: 125, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
47 79 0.63
49 46 0.37
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.33
Consensus pattern (47 bp):
ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
Found at i:20248143 original size:96 final size:94
Alignment explanation
Indices: 20247981--20248157 Score: 318
Period size: 96 Copynumber: 1.9 Consensus size: 94
20247971 TATCACATAT
*
20247981 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGCCTTATCACATA
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
20248046 TATACACTTTCACATTCATCACCTCGGCC
66 TATACACTTTCACATTCATCACCTCGGCC
*
20248075 ATTAGGCCTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACA
1 ATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
20248140 TATATACACTTTCACATT
64 TATATACACTTTCACATT
20248158 TATTCAAATA
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
94 15 0.19
96 64 0.81
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.33
Consensus pattern (94 bp):
ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
TATACACTTTCACATTCATCACCTCGGCC
Found at i:20252357 original size:20 final size:20
Alignment explanation
Indices: 20252332--20252369 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
20252322 ATACAAATTA
20252332 TTATTCCTAGAAAATAAAAT
1 TTATTCCTAGAAAATAAAAT
*
20252352 TTATTCTTAGAAAATAAA
1 TTATTCCTAGAAAATAAA
20252370 TTCTCACTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (20 bp):
TTATTCCTAGAAAATAAAAT
Found at i:20252798 original size:18 final size:17
Alignment explanation
Indices: 20252749--20252790 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
20252739 GGAATGTGAC
* *
20252749 TCATTTATCTAATTTTA
1 TCATTTCTCTAATTTCA
20252766 TCATTTCTCTAATTTCA
1 TCATTTCTCTAATTTCA
20252783 TCATTTCT
1 TCATTTCT
20252791 ATTAATTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.24, C:0.19, G:0.00, T:0.57
Consensus pattern (17 bp):
TCATTTCTCTAATTTCA
Found at i:20253121 original size:43 final size:43
Alignment explanation
Indices: 20253060--20253252 Score: 216
Period size: 43 Copynumber: 4.5 Consensus size: 43
20253050 TCCTTAATCA
* * *
20253060 CTTTTTCCCCAAACGCCGCTAAAGATCATGGTCTTTAGCGGCG
1 CTTTTTTCACAAACGCCGCTAAAGATCATGATCTTTAGCGGCG
*
20253103 CTTTTTTCACAAACGCCGCTAAAGATCATGGTCTTTAGCGGCG
1 CTTTTTTCACAAACGCCGCTAAAGATCATGATCTTTAGCGGCG
** * *
20253146 CTTTTCACACAAACGCCGCTAAAAATCATGACCTTTAGCGGCG
1 CTTTTTTCACAAACGCCGCTAAAGATCATGATCTTTAGCGGCG
* * * *
20253189 CTTCTATT-ACAAACGCCGCTATAA-A-AAT-AACTTTTAGCGGCA
1 CTT-TTTTCACAAACGCCGCTA-AAGATCATGATC-TTTAGCGGCG
20253231 C-TTTTTCACAAACGCCGCTAAA
1 CTTTTTTCACAAACGCCGCTAAA
20253253 AACATGACTT
Statistics
Matches: 132, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
40 5 0.04
41 16 0.12
42 12 0.09
43 96 0.73
44 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (43 bp):
CTTTTTTCACAAACGCCGCTAAAGATCATGATCTTTAGCGGCG
Found at i:20255806 original size:21 final size:21
Alignment explanation
Indices: 20255782--20255823 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
20255772 ATTTCTTGAC
20255782 TAATTTAATG-GATAAATAAAA
1 TAATTTAATGAGA-AAATAAAA
20255803 TAATTTAATGAGAAAATAAAA
1 TAATTTAATGAGAAAATAAAA
20255824 GTTAAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (21 bp):
TAATTTAATGAGAAAATAAAA
Found at i:20257974 original size:5 final size:5
Alignment explanation
Indices: 20257964--20257989 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
20257954 ACTTGGTTTG
20257964 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
20257990 CAAATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:20258951 original size:20 final size:21
Alignment explanation
Indices: 20258914--20258954 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20258904 AAATGTCGCA
20258914 AAAAATCATTTCATTTTAAAT
1 AAAAATCATTTCATTTTAAAT
* *
20258935 AAAAATTATTTTA-TTTAAAT
1 AAAAATCATTTCATTTTAAAT
20258955 TAATATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (21 bp):
AAAAATCATTTCATTTTAAAT
Found at i:20258963 original size:12 final size:12
Alignment explanation
Indices: 20258946--20259051 Score: 71
Period size: 12 Copynumber: 8.8 Consensus size: 12
20258936 AAAATTATTT
20258946 TATTTAAATTAA
1 TATTTAAATTAA
20258958 TATTTAAA-T-A
1 TATTTAAATTAA
*
20258968 TATTTATTAATT-C
1 TATTTA--AATTAA
20258981 TATTTAAATTAA
1 TATTTAAATTAA
*
20258993 TATTTAAATATATTT
1 TATTTAAAT-TA--A
20259008 TATTTAAAATTAA
1 TATTT-AAATTAA
*
20259021 T-TATT-AATT-C
1 TAT-TTAAATTAA
*
20259031 TATTTAAACTAA
1 TATTTAAATTAA
20259043 TATTTAAAT
1 TATTTAAAT
20259052 ATTTAAATAT
Statistics
Matches: 74, Mismatches: 8, Indels: 24
0.70 0.08 0.23
Matches are distributed among these distances:
10 10 0.14
11 13 0.18
12 28 0.38
13 12 0.16
15 7 0.09
16 4 0.05
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (12 bp):
TATTTAAATTAA
Found at i:20258988 original size:35 final size:35
Alignment explanation
Indices: 20258946--20259115 Score: 138
Period size: 35 Copynumber: 4.8 Consensus size: 35
20258936 AAAATTATTT
20258946 TATTTAAATTAATATTTAAATATATTTATTAATTC
1 TATTTAAATTAATATTTAAATATATTTATTAATTC
20258981 TATTTAAATTAATATTTAAATATATTTTATTTAAAATT-
1 TATTTAAATTAATATTTAAATATA-TTTA-TT--AATTC
* * * * *
20259019 AATTATTAATT-CTATTTAAACTA-ATAT-TTAA--A
1 TATT-TAAATTAATATTTAAA-TATATTTATTAATTC
*
20259051 TATTTAAATATATTTTATTTAAACT-TATTTATTAATTC
1 TATTTAAAT-TA--ATATTTAAA-TATATTTATTAATTC
*
20259089 TATTTAAACTAATATTTAAATATATTT
1 TATTTAAATTAATATTTAAATATATTT
20259116 TATTTAAACT
Statistics
Matches: 108, Mismatches: 11, Indels: 32
0.72 0.07 0.21
Matches are distributed among these distances:
31 4 0.04
32 4 0.04
33 2 0.02
34 1 0.01
35 52 0.48
36 8 0.07
37 6 0.06
38 20 0.19
39 11 0.10
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (35 bp):
TATTTAAATTAATATTTAAATATATTTATTAATTC
Found at i:20258993 original size:15 final size:14
Alignment explanation
Indices: 20258937--20259022 Score: 57
Period size: 12 Copynumber: 6.6 Consensus size: 14
20258927 TTTTAAATAA
*
20258937 AAATTATTTTATTT
1 AAATTAATTTATTT
20258951 AAATTAA--TATTT
1 AAATTAATTTATTT
20258963 AAA-T-A--TATTT
1 AAATTAATTTATTT
20258973 --ATTAATTCTATTT
1 AAATTAATT-TATTT
20258986 AAATTAA--TATTT
1 AAATTAATTTATTT
*
20258998 AAATATATTTTATTT
1 AAAT-TAATTTATTT
20259013 AAAATTAATT
1 -AAATTAATT
20259023 ATTAATTCTA
Statistics
Matches: 58, Mismatches: 3, Indels: 21
0.71 0.04 0.26
Matches are distributed among these distances:
8 1 0.02
9 1 0.02
10 7 0.12
11 1 0.02
12 17 0.29
13 7 0.12
14 6 0.10
15 14 0.24
16 4 0.07
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (14 bp):
AAATTAATTTATTT
Found at i:20259025 original size:50 final size:50
Alignment explanation
Indices: 20258958--20259163 Score: 288
Period size: 50 Copynumber: 4.0 Consensus size: 50
20258948 TTTAAATTAA
20258958 TATTT-AAATATATTTATTAATTCTATTTAAATTAATATTTAAATATATTT
1 TATTTAAAAT-TATTTATTAATTCTATTTAAATTAATATTTAAATATATTT
*
20259008 TATTTAAAATTAATTATTAATTCTATTTAAACTAATATTTAAATATTTAAATATATTT
1 TATTTAAAATTATTTATTAATTCTA-TT----TAA-A-TT-AATATTTAAATATATTT
* *
20259066 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
1 TATTTAAAATTATTTATTAATTCTATTTAAATTAATATTTAAATATATTT
*
20259116 TATTTAAACTTATTTATTAATTCTATTTAAATTAATATTTAAATATAT
1 TATTTAAAATTATTTATTAATTCTATTTAAATTAATATTTAAATATAT
20259164 CAAATGGTTT
Statistics
Matches: 142, Mismatches: 5, Indels: 18
0.86 0.03 0.11
Matches are distributed among these distances:
50 83 0.58
51 7 0.05
52 1 0.01
53 3 0.02
55 3 0.02
56 1 0.01
57 4 0.03
58 40 0.28
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (50 bp):
TATTTAAAATTATTTATTAATTCTATTTAAATTAATATTTAAATATATTT
Found at i:20259069 original size:23 final size:23
Alignment explanation
Indices: 20259043--20259163 Score: 77
Period size: 25 Copynumber: 4.9 Consensus size: 23
20259033 TTTAAACTAA
20259043 TATTTAAATATTTAAATATATTT
1 TATTTAAATATTTAAATATATTT
* *
20259066 TATTTAAACTTATTT-ATTA-ATTC
1 TATTTAAA--TATTTAAATATATTT
20259089 TATTTAAACTAATATTTAAATATATTT
1 TATTT--A--AATATTTAAATATATTT
*
20259116 TATTTAAACTTATTTATTAATTCTATTT
1 TATTTAAA--TATTTA--AA-TATATTT
* *
20259144 AAATT-AATATTTAAATATAT
1 TATTTAAATATTTAAATATAT
20259164 CAAATGGTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 27
0.69 0.07 0.24
Matches are distributed among these distances:
22 4 0.05
23 20 0.26
24 3 0.04
25 24 0.31
26 3 0.04
27 14 0.18
28 9 0.12
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTTAAATATTTAAATATATTT
Found at i:20259070 original size:58 final size:58
Alignment explanation
Indices: 20258991--20259161 Score: 259
Period size: 58 Copynumber: 3.1 Consensus size: 58
20258981 TATTTAAATT
* *
20258991 AATATTTAAATATATTTTATTTAAAATTAATTATTAATTCTATTTAAACTAATATTTA
1 AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTA
20259049 AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAAC-------T-
1 AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTA
*
20259099 AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAATTAATATTTA
1 AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTA
20259157 AATAT
1 AATAT
20259162 ATCAAATGGT
Statistics
Matches: 102, Mismatches: 3, Indels: 16
0.84 0.02 0.13
Matches are distributed among these distances:
50 48 0.47
51 1 0.01
57 1 0.01
58 52 0.51
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (58 bp):
AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTA
Found at i:20259114 original size:108 final size:108
Alignment explanation
Indices: 20258958--20259161 Score: 356
Period size: 108 Copynumber: 1.9 Consensus size: 108
20258948 TTTAAATTAA
*
20258958 TATTTAAATATATTTATTAATTCTATTTAAATTAATATTTAAATATATTTTATTTAAAATTAATT
1 TATTTAAATATATTTATTAATTCTATTTAAACTAATATTTAAATATATTTTATTTAAAATTAATT
20259023 ATTAATTCTATTTAAACTAATATTTAAATATTTAAATATATTT
66 ATTAATTCTATTTAAACTAATATTTAAATATTTAAATATATTT
* *
20259066 TATTTAAACT-TATTTATTAATTCTATTTAAACTAATATTTAAATATATTTTATTTAAACTTATT
1 TATTTAAA-TATATTTATTAATTCTATTTAAACTAATATTTAAATATATTTTATTTAAAATTAAT
*
20259130 TATTAATTCTATTTAAATTAATATTTAAATAT
65 TATTAATTCTATTTAAACTAATATTTAAATAT
20259162 ATCAAATGGT
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
108 90 0.99
109 1 0.01
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (108 bp):
TATTTAAATATATTTATTAATTCTATTTAAACTAATATTTAAATATATTTTATTTAAAATTAATT
ATTAATTCTATTTAAACTAATATTTAAATATTTAAATATATTT
Found at i:20259473 original size:21 final size:21
Alignment explanation
Indices: 20259449--20259505 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
20259439 ACCTCTGAAT
20259449 CTCTAAACCC-TAAA-TCCCTAA
1 CTCTAAACCCATAAAGT--CTAA
*
20259470 CTCTTAACCCATAAAGTCTAA
1 CTCTAAACCCATAAAGTCTAA
20259491 CTCCTAAACCCATAA
1 CT-CTAAACCCATAA
20259506 CCCTTAAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 15 0.48
22 15 0.48
23 1 0.03
ACGTcount: A:0.39, C:0.35, G:0.02, T:0.25
Consensus pattern (21 bp):
CTCTAAACCCATAAAGTCTAA
Found at i:20259484 original size:29 final size:30
Alignment explanation
Indices: 20259452--20259524 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 30
20259442 TCTGAATCTC
* *
20259452 TAAACCCTAAATCCCT-AACTCTTAACCCA
1 TAAACCCTAAATCCCTAAACCCATAACCCA
** * *
20259481 TAAAGTCTAACT-CCTAAACCCATAACCCT
1 TAAACCCTAAATCCCTAAACCCATAACCCA
*
20259510 TAAACCTTAAATCCC
1 TAAACCCTAAATCCC
20259525 AACCCTAAAA
Statistics
Matches: 32, Mismatches: 10, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
28 3 0.09
29 27 0.84
30 2 0.06
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (30 bp):
TAAACCCTAAATCCCTAAACCCATAACCCA
Found at i:20259562 original size:27 final size:27
Alignment explanation
Indices: 20259519--20259580 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
20259509 TTAAACCTTA
20259519 AATCCC-AACCCTAAAACCCTAA-CTCG
1 AATCCCTAACCCTAAAACCCTAACCT-G
*
20259545 AATCCCTAACCCCT-AAACTCTAACCTG
1 AATCCCTAA-CCCTAAAACCCTAACCTG
20259572 AATCCCTAA
1 AATCCCTAA
20259581 ACCAATTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 6 0.19
27 20 0.62
28 6 0.19
ACGTcount: A:0.37, C:0.40, G:0.03, T:0.19
Consensus pattern (27 bp):
AATCCCTAACCCTAAAACCCTAACCTG
Found at i:20260328 original size:41 final size:41
Alignment explanation
Indices: 20260222--20260662 Score: 564
Period size: 41 Copynumber: 10.8 Consensus size: 41
20260212 TATCTTTGCA
20260222 GCGCTTTTTCAAAAACGCCGCTAAAG-CACCGAGCATTAGCG
1 GCGCTTTTTCAAAAACGCCGCTAAAGAC-CCGAGCATTAGCG
* * * **
20260263 ACGCTTTTT-GAAAACGCCACTAAAGACTAGAGCATTAGCG
1 GCGCTTTTTCAAAAACGCCGCTAAAGACCCGAGCATTAGCG
* *
20260303 GCGC-TTTTCTGAAAACGCCGCTAAAGACCAGAGCATTAGCG
1 GCGCTTTTTC-AAAAACGCCGCTAAAGACCCGAGCATTAGCG
* * * * * *
20260344 GTGCTTTTTTAAAAACACCACTAAAGTCTCGAGCATTAGCG
1 GCGCTTTTTCAAAAACGCCGCTAAAGACCCGAGCATTAGCG
* **
20260385 GCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTAATG
1 GCGCTTTTTCAAAAACGCCGCTAAAGACCCGAGCATTAGCG
* * *
20260426 GCGCTTTTTAAAAAACGCCGCTAAAGACCAGAGCATTAACG
1 GCGCTTTTTCAAAAACGCCGCTAAAGACCCGAGCATTAGCG
* * * * *
20260467 ACGCTTTTTAAAAAATGCCGCTAAAGTCCCGAGCATTAGTG
1 GCGCTTTTTCAAAAACGCCGCTAAAGACCCGAGCATTAGCG
* *
20260508 GCGCTTTTTAAAAAACGCCGCTAAAGTCCCGAGCATTAGCG
1 GCGCTTTTTCAAAAACGCCGCTAAAGACCCGAGCATTAGCG
* *
20260549 GCACTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCG
1 GCGCTTTTTCAAAAACGCCGCTAAAGACCCGAGCATTAGCG
**
20260590 GTACTTTTTCAAAAACGCCGCTAAAGACCCGAGCATTAGCG
1 GCGCTTTTTCAAAAACGCCGCTAAAGACCCGAGCATTAGCG
*
20260631 GCGCTTTTTCAAAAACGCCGCTAAAGCCCCGA
1 GCGCTTTTTCAAAAACGCCGCTAAAGACCCGA
20260663 AAGGTTAGAA
Statistics
Matches: 352, Mismatches: 44, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
39 4 0.01
40 28 0.08
41 316 0.90
42 4 0.01
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (41 bp):
GCGCTTTTTCAAAAACGCCGCTAAAGACCCGAGCATTAGCG
Found at i:20264921 original size:9 final size:9
Alignment explanation
Indices: 20264907--20264967 Score: 54
Period size: 9 Copynumber: 6.6 Consensus size: 9
20264897 CACTTCTAAG
20264907 TAATTTTTA
1 TAATTTTTA
20264916 TAATTTTT-
1 TAATTTTTA
*
20264924 GAATATTTTA
1 TAAT-TTTTA
20264934 TAAGATTTTTAA
1 T-A-ATTTTT-A
*
20264946 TAATTTTAA
1 TAATTTTTA
20264955 TAATTTTT-
1 TAATTTTTA
20264963 TAATT
1 TAATT
20264968 CTATAATTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
8 8 0.19
9 20 0.47
10 5 0.12
11 6 0.14
12 4 0.09
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (9 bp):
TAATTTTTA
Found at i:20264962 original size:20 final size:19
Alignment explanation
Indices: 20264911--20264966 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
20264901 TCTAAGTAAT
*
20264911 TTTTATAATTTTTGAAT-A
1 TTTTATAATTTTTTAATAA
*
20264929 TTTTATAAGATTTTTAATAA
1 TTTTATAA-TTTTTTAATAA
20264949 TTTTAATAATTTTTTAAT
1 TTTT-ATAATTTTTTAAT
20264967 TCTATAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 8 0.25
19 7 0.22
20 13 0.41
21 4 0.12
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTATAATTTTTTAATAA
Found at i:20264989 original size:37 final size:36
Alignment explanation
Indices: 20264930--20265017 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 36
20264920 TTTTGAATAT
* *
20264930 TTTATAA-GATTTTTAATAATTTTAAT-AATTTTTTAA
1 TTTATAATTATTTTTTATAATTTT--TGAATTTTTTAA
*
20264966 TTCTATAATTATTTTTTAT-ATTTTTGAATTTTTTTA
1 TT-TATAATTATTTTTTATAATTTTTGAATTTTTTAA
*
20265002 TTTATAATTTTTTTTT
1 TTTATAATTATTTTTT
20265018 TTAAAATTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
35 14 0.31
36 13 0.29
37 10 0.22
38 8 0.18
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (36 bp):
TTTATAATTATTTTTTATAATTTTTGAATTTTTTAA
Found at i:20264995 original size:20 final size:19
Alignment explanation
Indices: 20264938--20265016 Score: 60
Period size: 19 Copynumber: 4.4 Consensus size: 19
20264928 ATTTTATAAG
* * *
20264938 ATTTTTAATAATTTTAATA
1 ATTTTTTATATTTTTAATT
*
20264957 ATTTTTTA-ATTCTATAATT
1 ATTTTTTATATT-TTTAATT
*
20264976 ATTTTTTATATTTTTGA--
1 ATTTTTTATATTTTTAATT
*
20264993 ATTTTTT-TATTTATAATT
1 ATTTTTTATATTTTTAATT
20265011 -TTTTTT
1 ATTTTTT
20265017 TTTAAAATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
16 7 0.15
17 13 0.27
18 2 0.04
19 23 0.48
20 3 0.06
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (19 bp):
ATTTTTTATATTTTTAATT
Found at i:20265010 original size:15 final size:15
Alignment explanation
Indices: 20264976--20265026 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
20264966 TTCTATAATT
*
20264976 ATTTTTTATATTTTTGA
1 ATTTTTT-TATTTAT-A
20264993 ATTTTTTTATTTATA
1 ATTTTTTTATTTATA
* *
20265008 ATTTTTTTTTTTAAA
1 ATTTTTTTATTTATA
20265023 ATTT
1 ATTT
20265027 AGAATTAGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 18 0.58
16 6 0.19
17 7 0.23
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (15 bp):
ATTTTTTTATTTATA
Found at i:20265032 original size:37 final size:36
Alignment explanation
Indices: 20264956--20265032 Score: 84
Period size: 37 Copynumber: 2.1 Consensus size: 36
20264946 TAATTTTAAT
* * *
20264956 AATTTTTTAATTCTATAATTATTTTTTATATTTTTG
1 AATTTTTTAATTCTATAATTATTTTTTAAAATTTAG
* *
20264992 AATTTTTTTATT-TATAATTTTTTTTTTTAAAATTTAG
1 AATTTTTTAATTCTATAA--TTATTTTTTAAAATTTAG
20265029 AATT
1 AATT
20265033 AGACAAAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
35 5 0.15
36 11 0.32
37 18 0.53
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (36 bp):
AATTTTTTAATTCTATAATTATTTTTTAAAATTTAG
Found at i:20286565 original size:10 final size:10
Alignment explanation
Indices: 20286550--20286579 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
20286540 GTAAATCCTA
20286550 ATGGATAAAG
1 ATGGATAAAG
20286560 ATGGATAAAG
1 ATGGATAAAG
*
20286570 ATGCATAAAG
1 ATGGATAAAG
20286580 TTTAAACCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.27, T:0.20
Consensus pattern (10 bp):
ATGGATAAAG
Found at i:20291296 original size:35 final size:35
Alignment explanation
Indices: 20291228--20291298 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
20291218 AAAAATAAAA
*
20291228 GAAAAACTAAAAAAATAAGACCACACGATCGTGTG
1 GAAAAACTAAAAAAATAAGACCACACGACCGTGTG
*
20291263 GAAAAACTAAAAAAATAGGACCACAC-AGCCGTGTG
1 GAAAAACTAAAAAAATAAGACCACACGA-CCGTGTG
20291298 G
1 G
20291299 GAAGGCTCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 1 0.03
35 32 0.97
ACGTcount: A:0.49, C:0.18, G:0.20, T:0.13
Consensus pattern (35 bp):
GAAAAACTAAAAAAATAAGACCACACGACCGTGTG
Found at i:20291812 original size:27 final size:26
Alignment explanation
Indices: 20291782--20291844 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
20291772 TTTCCACTCC
*
20291782 TAGGGGTATAACAGTTATTTTACCCT
1 TAGGGGTATAACAGTCATTTTACCCT
* ** *
20291808 ATAGGTGTATTTCGGTCATTTTACCCT
1 -TAGGGGTATAACAGTCATTTTACCCT
20291835 TCAGGGGTAT
1 T-AGGGGTAT
20291845 TTCGATAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (26 bp):
TAGGGGTATAACAGTCATTTTACCCT
Found at i:20291845 original size:27 final size:27
Alignment explanation
Indices: 20291814--20292021 Score: 222
Period size: 27 Copynumber: 7.7 Consensus size: 27
20291804 CCCTATAGGT
*
20291814 GTATTTCGGTCATTTTACCCTTC-AGGG
1 GTATTTCGGTCATTTTACCCTTCGA-GA
* * * * *
20291841 GTATTTCGATAATTTTACCCTTTGGGG
1 GTATTTCGGTCATTTTACCCTTCGAGA
* * *
20291868 GTATTTTGGTTATTTTGCCCTTCGAGA
1 GTATTTCGGTCATTTTACCCTTCGAGA
* * *
20291895 GTATTTTGGTCATTTTAACCTTTGAGA
1 GTATTTCGGTCATTTTACCCTTCGAGA
* * *
20291922 GTATTTCGGTTATTTTACCCATCGAGG
1 GTATTTCGGTCATTTTACCCTTCGAGA
*
20291949 GTCTTTCGGTCATTTTACCCTTCGAGA
1 GTATTTCGGTCATTTTACCCTTCGAGA
* *
20291976 GTATTTCGGTCATTTTAGCCATT-AAGA
1 GTATTTCGGTCATTTTA-CCCTTCGAGA
20292003 GTATTTCGGTCATTTTACC
1 GTATTTCGGTCATTTTACC
20292022 TTATGGGGGT
Statistics
Matches: 151, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.01
27 145 0.96
28 4 0.03
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (27 bp):
GTATTTCGGTCATTTTACCCTTCGAGA
Found at i:20291856 original size:54 final size:53
Alignment explanation
Indices: 20291798--20292044 Score: 212
Period size: 54 Copynumber: 4.6 Consensus size: 53
20291788 TATAACAGTT
* * * * *
20291798 ATTTTACCCTATAGGTGTATTTCGGTCATTTTACCCTTC-AGGGGTATTTCGATA
1 ATTTTACCCT-TGGGAGTATTTCGGTCATTTTACCCTTCGA-GAGTATTTCGGTC
* * * * *
20291852 ATTTTACCCTTTGGGGGTATTTTGGTTATTTTGCCCTTCGAGAGTATTTTGGTC
1 ATTTTACCC-TTGGGAGTATTTCGGTCATTTTACCCTTCGAGAGTATTTCGGTC
* * * * * *
20291906 ATTTTAACCTTTGAGAGTATTTCGGTTATTTTACCCATCGAGGGTCTTTCGGTC
1 ATTTT-ACCCTTGGGAGTATTTCGGTCATTTTACCCTTCGAGAGTATTTCGGTC
* * *
20291960 ATTTTACCCTTCGAGAGTATTTCGGTCATTTTAGCCATT-AAGAGTATTTCGGTC
1 ATTTTACCCTT-GGGAGTATTTCGGTCATTTTA-CCCTTCGAGAGTATTTCGGTC
* *
20292014 ATTTTACCTTATGGGGGTAATTT-GGTCATTT
1 ATTTTACCCT-TGGGAGT-ATTTCGGTCATTT
20292045 ATTGACCTCT
Statistics
Matches: 158, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
53 5 0.03
54 140 0.89
55 13 0.08
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.44
Consensus pattern (53 bp):
ATTTTACCCTTGGGAGTATTTCGGTCATTTTACCCTTCGAGAGTATTTCGGTC
Found at i:20291926 original size:81 final size:81
Alignment explanation
Indices: 20291814--20292044 Score: 268
Period size: 81 Copynumber: 2.9 Consensus size: 81
20291804 CCCTATAGGT
* * * *
20291814 GTATTTCGGTCATTTT-ACCCTTCAGGGGTATTTCGATAATTTTACCCTTTGGGGGTATTTTGGT
1 GTATTTCGGTCATTTTAACCATT-AAGAGTATTTCGGTAATTTTACCCTTTGGGGGTATTTTGGT
* *
20291878 TATTTTGCCCTTCGAGA
65 CATTTTACCCTTCGAGA
* * * * * * * * *
20291895 GTATTTTGGTCATTTTAACCTTTGAGAGTATTTCGGTTATTTTACCCATCGAGGGTCTTTCGGTC
1 GTATTTCGGTCATTTTAACCATTAAGAGTATTTCGGTAATTTTACCCTTTGGGGGTATTTTGGTC
20291960 ATTTTACCCTTCGAGA
66 ATTTTACCCTTCGAGA
* * *
20291976 GTATTTCGGTCATTTTAGCCATTAAGAGTATTTCGGTCATTTTA-CCTTATGGGGGTAATTTGGT
1 GTATTTCGGTCATTTTAACCATTAAGAGTATTTCGGTAATTTTACCCTT-TGGGGGTATTTTGGT
20292040 CATTT
65 CATTT
20292045 ATTGACCTCT
Statistics
Matches: 123, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
80 3 0.02
81 115 0.93
82 5 0.04
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.44
Consensus pattern (81 bp):
GTATTTCGGTCATTTTAACCATTAAGAGTATTTCGGTAATTTTACCCTTTGGGGGTATTTTGGTC
ATTTTACCCTTCGAGA
Found at i:20298233 original size:29 final size:29
Alignment explanation
Indices: 20298201--20298285 Score: 82
Period size: 30 Copynumber: 2.9 Consensus size: 29
20298191 TTAAAAAAAA
* *
20298201 TTAACTCTTATTTAAACATTTTA-AAAAGT
1 TTAACT-TTATTTGAACATTGTATAAAAGT
*
20298230 TTAACTTTGATTTGAGCATTGTATAAAAGT
1 TTAACTTT-ATTTGAACATTGTATAAAAGT
* * *
20298260 TTGACTTTTATATGAACATTCTATAA
1 TTAAC-TTTATTTGAACATTGTATAA
20298286 GATGAAACCC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
28 2 0.04
29 17 0.37
30 24 0.52
31 3 0.07
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (29 bp):
TTAACTTTATTTGAACATTGTATAAAAGT
Found at i:20302802 original size:30 final size:30
Alignment explanation
Indices: 20302768--20302825 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
20302758 CACGGGCTGG
** *
20302768 CACATGGGTTTGTGTCCAGCCCGTGTGGGT
1 CACATGGGCATGTGCCCAGCCCGTGTGGGT
20302798 CACATGGGCATGTGCCCAGCCCGTGTGG
1 CACATGGGCATGTGCCCAGCCCGTGTGG
20302826 CTCTTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.12, C:0.28, G:0.36, T:0.24
Consensus pattern (30 bp):
CACATGGGCATGTGCCCAGCCCGTGTGGGT
Found at i:20317720 original size:25 final size:25
Alignment explanation
Indices: 20317672--20317720 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
20317662 TTGCAGTGGC
* *
20317672 TGATTTCTCTTTTGTTAGCTCTGAT
1 TGATTTCTCTTTTGTCAGCGCTGAT
20317697 TGATTTCTCTTTTG-CAGCGGCTGA
1 TGATTTCTCTTTTGTCAGC-GCTGA
20317721 CAATGCCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.12, C:0.18, G:0.20, T:0.49
Consensus pattern (25 bp):
TGATTTCTCTTTTGTCAGCGCTGAT
Found at i:20318766 original size:67 final size:67
Alignment explanation
Indices: 20318695--20318967 Score: 424
Period size: 67 Copynumber: 4.0 Consensus size: 67
20318685 AGAAAATTTT
20318695 AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTATAGAAAATTT-TAACAATATG
1 AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTATAGAAAATTTGT-ACAATATG
20318759 ATA
65 ATA
* * *
20318762 AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTAGTTG-CAATGTTTTAACAATA
1 AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTA-TAGAAAAT-TTGT-ACAATA
*
20318826 TTATA
63 TGATA
* *
20318831 AACAATATTATAAACAATCTAAATAAAGGGTAATTGTATTATTATAGAAAATTTGTACAATATGA
1 AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTATAGAAAATTTGTACAATATGA
20318896 TA
66 TA
* *
20318898 AACAATACGATAAACAATCTAAATAAAGGGTAATTATAATATTATAGAAAATTTGTACAATATGA
1 AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTATAGAAAATTTGTACAATATGA
20318963 TA
66 TA
20318965 AAC
1 AAC
20318968 CTTGTATACA
Statistics
Matches: 189, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
67 123 0.65
68 9 0.05
69 57 0.30
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (67 bp):
AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTATAGAAAATTTGTACAATATGA
TA
Found at i:20318767 original size:12 final size:12
Alignment explanation
Indices: 20318750--20318779 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
20318740 AGAAAATTTT
20318750 AACAATATGATA
1 AACAATATGATA
20318762 AACAATATGATA
1 AACAATATGATA
20318774 AACAAT
1 AACAAT
20318780 CTAAATAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.23
Consensus pattern (12 bp):
AACAATATGATA
Found at i:20318836 original size:12 final size:12
Alignment explanation
Indices: 20318819--20318848 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
20318809 GCAATGTTTT
20318819 AACAATATTATA
1 AACAATATTATA
20318831 AACAATATTATA
1 AACAATATTATA
20318843 AACAAT
1 AACAAT
20318849 CTAAATAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (12 bp):
AACAATATTATA
Found at i:20318941 original size:136 final size:136
Alignment explanation
Indices: 20318695--20318941 Score: 442
Period size: 136 Copynumber: 1.8 Consensus size: 136
20318685 AGAAAATTTT
20318695 AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTATAGAAAATTTTAACAATATGA
1 AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTATAGAAAATTTTAACAATATGA
* *
20318760 TAAACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTAGTTGCAATGTTTTAACAAT
66 TAAACAATACGATAAACAATCTAAATAAAGGGTAATTATAATATTAGTTGCAATGTTTTAACAAT
20318825 ATTATA
131 ATTATA
* *
20318831 AACAATATTATAAACAATCTAAATAAAGGGTAATTGTATTATTATAGAAAATTTGT-ACAATATG
1 AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTATAGAAAATTT-TAACAATATG
20318895 ATAAACAATACGATAAACAATCTAAATAAAGGGTAATTATAATATTA
65 ATAAACAATACGATAAACAATCTAAATAAAGGGTAATTATAATATTA
20318942 TAGAAAATTT
Statistics
Matches: 106, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
136 105 0.99
137 1 0.01
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (136 bp):
AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTATAGAAAATTTTAACAATATGA
TAAACAATACGATAAACAATCTAAATAAAGGGTAATTATAATATTAGTTGCAATGTTTTAACAAT
ATTATA
Found at i:20321062 original size:26 final size:28
Alignment explanation
Indices: 20321008--20321089 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 28
20320998 TAAGGATAAG
* * *
20321008 AATTTTATTAAATTATATATTATTATTA
1 AATTATATTTAATAATATATTATTATTA
20321036 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
* *
20321062 AATTATATTTTATAGTATTATATATTAT
1 AATTATATTTAATAATA-TAT-TATTAT
20321090 GATTTTATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 18 0.40
27 6 0.13
28 16 0.36
29 4 0.09
30 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (28 bp):
AATTATATTTAATAATATATTATTATTA
Found at i:20321088 original size:110 final size:114
Alignment explanation
Indices: 20320921--20321183 Score: 385
Period size: 120 Copynumber: 2.3 Consensus size: 114
20320911 AATAAAGTAG
20320921 ATTA-TAAATTATATTTAATAATAATTA-TTTAAATTATATTTTATAGTATTATATATTATGA-T
1 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATT
*
20320983 T-TTAGTAAATTCATATAAG-GA-TAAGAATTTTATTAAATTATATATT
66 TATTAGTAAATTCATATAAGAGATTAACAATTTTATTAAATTATATATT
20321029 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATT
1 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGA-T
*
20321094 TTATTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATT
65 TTATTAGTAAATTCATATAAG---A--GATTAACAATTTTATTAAATTATATATT
* * *
20321149 TTTATTAAATTATATTTAATAACAATTATGTTAAA
1 ATTATTAAATTATATTTAATAATAATTATTTTAAA
20321184 ATATGATTAA
Statistics
Matches: 138, Mismatches: 5, Indels: 12
0.89 0.03 0.08
Matches are distributed among these distances:
108 4 0.03
109 23 0.17
110 34 0.25
112 2 0.01
113 18 0.13
119 1 0.01
120 56 0.41
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (114 bp):
ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATT
TATTAGTAAATTCATATAAGAGATTAACAATTTTATTAAATTATATATT
Found at i:20321377 original size:44 final size:46
Alignment explanation
Indices: 20321328--20321415 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 46
20321318 ACCTCTATTC
* * **
20321328 CATTCAACTAAACACAAGAA-TACC-ATTATGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCATTA
20321372 CATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCAT
1 CATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCAT
20321416 ACGCCTCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 18 0.47
45 4 0.11
46 16 0.42
ACGTcount: A:0.40, C:0.28, G:0.03, T:0.28
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCATTA
Found at i:20324750 original size:37 final size:37
Alignment explanation
Indices: 20324707--20324795 Score: 160
Period size: 37 Copynumber: 2.4 Consensus size: 37
20324697 ATCATAAATA
*
20324707 AATAAACTAATCAATGTTCAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
20324744 AGTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
20324781 AATAAACTAATCAAT
1 AATAAACTAATCAAT
20324796 ATATTTATAC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.34
Consensus pattern (37 bp):
AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
Found at i:20325024 original size:33 final size:33
Alignment explanation
Indices: 20324987--20325052 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
20324977 AATCTAACAA
20324987 ATACCAACAATTAATTTTAGGTCAATTATACAT
1 ATACCAACAATTAATTTTAGGTCAATTATACAT
20325020 ATACCAACAATTAATTTTAGGTCAATTATACAT
1 ATACCAACAATTAATTTTAGGTCAATTATACAT
20325053 GCTTTATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.36
Consensus pattern (33 bp):
ATACCAACAATTAATTTTAGGTCAATTATACAT
Found at i:20328203 original size:91 final size:91
Alignment explanation
Indices: 20328056--20328263 Score: 353
Period size: 91 Copynumber: 2.3 Consensus size: 91
20328046 TTGATTTTAG
* *
20328056 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* *
20328121 ATTTAATATTAATTATTTTAAATTATA
65 ATGTAATAATAATTATTTTAAATTATA
*
20328148 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
20328213 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
*
20328239 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
20328264 GTTATAATTA
Statistics
Matches: 110, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 94 0.85
92 16 0.15
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:20328230 original size:47 final size:46
Alignment explanation
Indices: 20328088--20328231 Score: 120
Period size: 47 Copynumber: 3.1 Consensus size: 46
20328078 ATTATTAAGA
* *
20328088 ATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATA-TTAATAATAATT
* * * **
20328135 A-TTT-T-AAATTATATA-AATTCATATAAGA--AAATTTATTATCAAGA
1 ATTTTATGAAATTATATATAATT-AT-TAA-ATTATATTAATAAT-AATT
*
20328179 ATTTTATGAAATTATATATTATTATTAAATTATATGTAATAATAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATAT-TAATAATAATT
20328226 ATTTTA
1 ATTTTA
20328232 AATTATACAA
Statistics
Matches: 73, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
43 8 0.11
44 17 0.23
45 8 0.11
46 8 0.11
47 24 0.33
48 8 0.11
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (46 bp):
ATTTTATGAAATTATATATAATTATTAAATTATATTAATAATAATT
Done.