Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 81 of 349
Found at i:24102506 original size:17 final size:19
Alignment explanation
Indices: 24102484--24102523 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
24102474 TTTCTTTTCT
24102484 TTTTAT-AAAT-TTATATA
1 TTTTATAAAATCTTATATA
*
24102501 TTTTATAAAATCTTATGTA
1 TTTTATAAAATCTTATATA
24102520 TTTT
1 TTTT
24102524 TTATTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 4 0.20
19 10 0.50
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTTATAAAATCTTATATA
Found at i:24103363 original size:16 final size:16
Alignment explanation
Indices: 24103342--24103374 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24103332 GAGTGAAAAG
24103342 AAAATTGGAA-AGATAA
1 AAAATT-GAATAGATAA
24103358 AAAATTGAATAGATAA
1 AAAATTGAATAGATAA
24103374 A
1 A
24103375 TACTAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21
Consensus pattern (16 bp):
AAAATTGAATAGATAA
Found at i:24106150 original size:22 final size:22
Alignment explanation
Indices: 24106108--24106148 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
24106098 TGCCATTAGG
24106108 GTTCAAATGGAAAAAGGAAATT
1 GTTCAAATGGAAAAAGGAAATT
*
24106130 GTTCAACT-GAAAAAGGAAA
1 GTTCAAATGGAAAAAGGAAA
24106149 ATGAGTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.51, C:0.07, G:0.22, T:0.20
Consensus pattern (22 bp):
GTTCAAATGGAAAAAGGAAATT
Found at i:24109538 original size:32 final size:31
Alignment explanation
Indices: 24109459--24109543 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 31
24109449 CAAGTGTTTA
*
24109459 TATTTTTGGTAAATTT-AAATTTAAATTTTTT
1 TATTTTT-TTAAATTTAAAATTTAAATTTTTT
* ** *
24109490 TATATTTTTATTTTTAAAAGTTTAATTTTTTT
1 TATTTTTTTAAATTTAAAA-TTTAAATTTTTT
24109522 TATTTTTTTAAATTT-AAATTTA
1 TATTTTTTTAAATTTAAAATTTA
24109544 GGTCAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
30 9 0.20
31 12 0.27
32 23 0.52
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.65
Consensus pattern (31 bp):
TATTTTTTTAAATTTAAAATTTAAATTTTTT
Found at i:24110797 original size:31 final size:32
Alignment explanation
Indices: 24110739--24110799 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
24110729 AATATTATAT
24110739 ATAAAAAATATTTCAAAAAATTAAATATAAGA
1 ATAAAAAATATTTCAAAAAATTAAATATAAGA
* *
24110771 ATAAATAAAT-TTT-AAATAATTTAATATAA
1 ATAAA-AAATATTTCAAAAAATTAAATATAA
24110800 AACAGAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 14 0.54
32 8 0.31
33 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (32 bp):
ATAAAAAATATTTCAAAAAATTAAATATAAGA
Found at i:24112658 original size:50 final size:50
Alignment explanation
Indices: 24112513--24112646 Score: 223
Period size: 50 Copynumber: 2.7 Consensus size: 50
24112503 ATCTATTGTG
*
24112513 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTT
** *
24112563 AGGTCACGTGTGTAGTACTAAGTGCAGGAAACTACGTGTACCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTT
*
24112613 AGGTCACCTGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
24112647 TTCGTACCAG
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTT
Found at i:24117692 original size:47 final size:47
Alignment explanation
Indices: 24117635--24118034 Score: 547
Period size: 47 Copynumber: 8.4 Consensus size: 47
24117625 ATTGATGTAC
* * *
24117635 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
24117682 AAGTATATATATGCGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
24117731 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
24117780 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
24117827 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
24117874 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
24117921 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
24117968 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
24118015 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
24118035 TCTCGAAGGG
Statistics
Matches: 335, Mismatches: 14, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 244 0.73
49 89 0.27
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:24117719 original size:40 final size:41
Alignment explanation
Indices: 24117675--24117770 Score: 104
Period size: 49 Copynumber: 2.2 Consensus size: 41
24117665 CAATGTGATG
*
24117675 AATGTGAAAGTATATATATGCGTGATAAGGCCGAGTGGCCAATGTGA
1 AATGTGAAAGTATATATATGCGTGATAAGGCCGAATGGCC------A
24117722 TGAATGTGAAAGTATATATATGCGTGATAAGGCCGAATGGCC-
1 --AATGTGAAAGTATATATATGCGTGATAAGGCCGAATGGCCA
24117764 AATGTGA
1 AATGTGA
24117771 TGAATGTGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
40 7 0.15
49 39 0.85
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.26
Consensus pattern (41 bp):
AATGTGAAAGTATATATATGCGTGATAAGGCCGAATGGCCA
Found at i:24117912 original size:22 final size:22
Alignment explanation
Indices: 24117885--24118006 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
24117875 CATGTGTATG
24117885 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
24117907 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
24117932 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
24117954 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
24117979 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
24118001 TGTGAT
1 TGTGAT
24118007 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:24122231 original size:50 final size:50
Alignment explanation
Indices: 24122107--24122303 Score: 241
Period size: 50 Copynumber: 3.9 Consensus size: 50
24122097 ATCTATTGTG
* * * ** **
24122107 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACCTTATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTT
* * * * *
24122158 CGATCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTT
*
24122208 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTT
* * *
24122258 AGGTCACCTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
24122304 AGCTTTGGCT
Statistics
Matches: 124, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 87 0.70
51 37 0.30
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTT
Found at i:24126781 original size:19 final size:19
Alignment explanation
Indices: 24126757--24126837 Score: 135
Period size: 19 Copynumber: 4.2 Consensus size: 19
24126747 AATCTTTAAG
24126757 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24126776 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24126795 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
24126814 GATATACAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
24126835 GAT
1 GAT
24126838 CTTGTAATCT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
19 50 0.85
21 9 0.15
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:24130929 original size:14 final size:15
Alignment explanation
Indices: 24130910--24130940 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
24130900 AAAGATATTC
24130910 TTTTTCTAAAT-AAA
1 TTTTTCTAAATGAAA
24130924 TTTTTCTAAATGAAA
1 TTTTTCTAAATGAAA
24130939 TT
1 TT
24130941 GAATCGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (15 bp):
TTTTTCTAAATGAAA
Found at i:24134662 original size:132 final size:132
Alignment explanation
Indices: 24134424--24134727 Score: 500
Period size: 132 Copynumber: 2.3 Consensus size: 132
24134414 CAAAGAAACA
* * *
24134424 AGATTTGGCACCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGATCTGACTTTCCAATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCAATGCTT
* * *
24134489 ATAGCGAAGTAGATCGAAGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
24134554 GC
131 GC
**
24134556 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCAATGCTT
24134621 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
24134686 GC
131 GC
* * * *
24134688 AGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGA
24134728 CATAGCTGAT
Statistics
Matches: 160, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 160 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCAATGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:24134717 original size:44 final size:44
Alignment explanation
Indices: 24134424--24134742 Score: 243
Period size: 44 Copynumber: 7.2 Consensus size: 44
24134414 CAAAGAAACA
* * *
24134424 AGATTTGGCACCCCTGTGTTTATAGGGAACAAATTGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * ** * * ** **
24134468 AGATCTGACTTTCCAATGCTTATAGCGAAGTAGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGC
* *
24134513 AGCA--TGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
*
24134556 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * * * **
24134600 AGATCTGACATTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
*
24134645 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * *
24134688 AGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAG--ATAGC
*
24134734 TGATTTGGC
1 AGATTTGGC
24134743 TTTCACGGTT
Statistics
Matches: 208, Mismatches: 55, Indels: 22
0.73 0.19 0.08
Matches are distributed among these distances:
42 2 0.01
43 21 0.10
44 148 0.71
45 22 0.11
46 15 0.07
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
Found at i:24135752 original size:49 final size:49
Alignment explanation
Indices: 24135699--24135923 Score: 306
Period size: 49 Copynumber: 4.5 Consensus size: 49
24135689 CTGGTATGCA
* * *
24135699 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
*
24135748 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
** **
24135797 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAACATCTGACACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGGTACACG
* * * * *
24135847 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCTGGTACACG
24135898 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
24135924 AGCGACCTCA
Statistics
Matches: 155, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 78 0.50
50 42 0.27
51 34 0.22
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
Found at i:24135869 original size:99 final size:100
Alignment explanation
Indices: 24135697--24135930 Score: 319
Period size: 99 Copynumber: 2.4 Consensus size: 100
24135687 ACCTGGTATG
* * ** **
24135697 CATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACT
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCAAACATCTGACACACGTAGTAGCCTGCACT
*
24135762 TAGTACTACACACGTGA-C-CAATTATCTAGTACA
66 TAGTACTACACACGTGATCACAATTATCGAGTACA
* *
24135795 CGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAACATCTGACACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAACATCTGACACACGTAGTAGCCTGCAC
* * * *
24135860 TTAGTACTACACACGTGATCACAGTTTTCGGGTACG
65 TTAGTACTACACACGTGATCACAATTATCGAGTACA
*
24135896 CATAGTAGCCTGCACTTAGTACTACACAAGCGACC
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACC
24135931 TCACAATAGA
Statistics
Matches: 117, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 31 0.26
99 43 0.37
100 1 0.01
101 42 0.36
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (100 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGACCAAACATCTGACACACGTAGTAGCCTGCACT
TAGTACTACACACGTGATCACAATTATCGAGTACA
Found at i:24138073 original size:27 final size:27
Alignment explanation
Indices: 24138043--24138532 Score: 587
Period size: 27 Copynumber: 18.2 Consensus size: 27
24138033 AAAGTACTCC
24138043 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
24138070 CGATTTATAGAATTACCG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
24138096 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
24138123 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
24138150 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
24138177 CGATTTACAGAATTATCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
24138204 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
24138231 TGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
24138258 TGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
24138285 CGATTTACAGAATTACCATTTTATCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
24138312 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
24138339 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
24138366 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
24138393 CAATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
24138420 CGATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
24138447 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
24138474 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
24138501 CGATTTACAGAATTATCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
24138528 TGATT
1 CGATT
24138533 GTGAAATTAT
Statistics
Matches: 400, Mismatches: 52, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
26 29 0.07
27 366 0.92
28 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:24138567 original size:27 final size:27
Alignment explanation
Indices: 24138544--24138732 Score: 243
Period size: 27 Copynumber: 7.0 Consensus size: 27
24138534 TGAAATTATT
*
24138544 GAAATACCCCTGTAGGGTAGAATTTCC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
24138571 GAAATATCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
24138598 GAAATACCCTTATAGGATAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
24138625 AAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
24138652 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
24138679 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
24138706 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
24138733 ATTTTGCCCC
Statistics
Matches: 139, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:24138874 original size:17 final size:17
Alignment explanation
Indices: 24138849--24138885 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
24138839 ATGACTTGAC
*
24138849 TGTTGCTGAAGCAACTA
1 TGTTACTGAAGCAACTA
24138866 TGTTACTGAAGCAACTA
1 TGTTACTGAAGCAACTA
24138883 TGT
1 TGT
24138886 CCATTTCGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (17 bp):
TGTTACTGAAGCAACTA
Found at i:24139821 original size:29 final size:29
Alignment explanation
Indices: 24139758--24139825 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
24139748 TAATCAACCA
24139758 CGCACACTTAGTGCCATGCACTTCAAACT
1 CGCACACTTAGTGCCATGCACTTCAAACT
* * **
24139787 CACACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTCAAACT
24139816 CGCACACTTA
1 CGCACACTTA
24139826 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTCAAACT
Found at i:24139937 original size:173 final size:173
Alignment explanation
Indices: 24139648--24140147 Score: 892
Period size: 173 Copynumber: 2.9 Consensus size: 173
24139638 AACTCAAGGT
24139648 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
24139713 GAAAATATATACTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
66 GAAAATATATACTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
*
24139778 CTTCAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
24139821 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
24139886 GAAAATATATACTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
66 GAAAATATATACTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
24139951 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* *
24139994 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
* * * * * * *
24140059 GAAAATATTTATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATACTGGGTT-GCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGC
*
24140124 ACTTTAAACTCGCACACTTAGTGC
130 ACTTTAAACTCACACACTTAGTGC
24140148 TGTACAATTT
Statistics
Matches: 315, Mismatches: 11, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
173 251 0.80
174 64 0.20
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (173 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
GAAAATATATACTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:24139994 original size:29 final size:29
Alignment explanation
Indices: 24139931--24139998 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
24139921 TAATCAACCA
24139931 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
24139960 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
24139989 CGCACACTTA
1 CGCACACTTA
24139999 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:24140139 original size:29 final size:30
Alignment explanation
Indices: 24140100--24140178 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
24140090 CTTAATAATC
24140100 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
24140130 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
24140159 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
24140179 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:24143882 original size:49 final size:49
Alignment explanation
Indices: 24143829--24144053 Score: 297
Period size: 49 Copynumber: 4.5 Consensus size: 49
24143819 CTGGTACGCA
* * *
24143829 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
24143878 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** ***
24143927 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * * *
24143977 TAGTAGCCTGCACTTAATACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
24144028 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
24144054 TGCGACCTCA
Statistics
Matches: 154, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 79 0.51
50 41 0.27
51 33 0.21
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:24144061 original size:101 final size:99
Alignment explanation
Indices: 24143816--24144061 Score: 332
Period size: 101 Copynumber: 2.5 Consensus size: 99
24143806 TAGCCAAAGC
* * ** **
24143816 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCGGTACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCAATACACGTA
*
24143880 GTAGCCTGCACTTAGTACTACACACGTGACCAAT
66 GTAGCCTGCACTTAATACTACACACGTGACCAAT
* * * * *
24143914 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCAATACACGTA
*
24143979 GTAGCCTGCACTTAATACTACACACGTGATCACAGT
66 GTAGCCTGCACTTAATACTACACACGTGA-C-CAAT
* *
24144015 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
24144062 CACAATAGAT
Statistics
Matches: 126, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
98 40 0.32
99 41 0.33
100 1 0.01
101 44 0.35
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (99 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCAATACACGTA
GTAGCCTGCACTTAATACTACACACGTGACCAAT
Found at i:24146268 original size:205 final size:206
Alignment explanation
Indices: 24145577--24146356 Score: 1202
Period size: 206 Copynumber: 3.8 Consensus size: 206
24145567 GGGATATTAC
* ** * * *
24145577 ACACATAGCAAATCTGGCCTTCATATGTTTATACTGAAGCAGAGCCAAGGTGATTTGGCATCCTT
1 ACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTT
*
24145642 GTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAACAAA
66 GTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAA
24145707 TCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCG
131 TCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCG
*
24145772 ATGGAGAGCAG
196 ACGGAGAGCAG
** ** * * *
24145783 ACACATAGTTGATCTGGCCTTCATATGTTTATACTGAAGCAGATCTAAGGTGATTTGGCATCCTT
1 ACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTT
* *
24145848 GTGCTTACAAGGAATAAATTGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAA
66 GTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAA
* * *
24145913 TCTAAGATGATTTGGCATCTCTGTATTTTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCG
131 TCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCG
* *
24145978 ACAGAGAGAAG
196 ACGGAGAGCAG
*
24145989 ACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTT
1 ACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTT
* *
24146054 GTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTACTTACGATGAAGCAAA
66 GTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAA
* *
24146119 TCTAAGATGATTTGGCATATCTGTATTGT-AGAGAACAAATCGAAGTTTGGCATCTCCATATTCA
131 TCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCG
*
24146183 ACGGAGGGCAG
196 ACGGAGAGCAG
* * * * *
24146194 ACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCGAAGATGGTTTGGTATCCTT
1 ACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTT
* * * * *
24146259 GTGCTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGTTTTCGCGTGCTTATGATGAAGCAAA
66 GTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAA
*
24146324 TCTAAGATGATTTGGCATCTCTGTATTGTCAGA
131 TCTAAGATGATTTGGCATATCTGTATTGTCAGA
24146357 AAATAGATCG
Statistics
Matches: 525, Mismatches: 48, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
205 185 0.35
206 340 0.65
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (206 bp):
ACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTT
GTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAA
TCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCG
ACGGAGAGCAG
Found at i:24146340 original size:411 final size:412
Alignment explanation
Indices: 24145577--24146356 Score: 1256
Period size: 411 Copynumber: 1.9 Consensus size: 412
24145567 GGGATATTAC
** * *
24145577 ACACATAGCAAATCTGGCCTTCATATGTTTATACTGAAGCAGAGCCAAGGTGATTTGGCATCCTT
1 ACACATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGAGCCAAGATGATTTGGCATCCTT
* *
24145642 GTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAACAAA
66 GTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTACTTACGATGAAACAAA
* *
24145707 TCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCG
131 TCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCA
* ** ** * * * * *
24145772 ATGGAGAGCAGACACATAGTTGATCTGGCCTTCATATGTTTATACTGAAGCAGATCTAAGGTGAT
196 ACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCGAAGATGAT
* *
24145837 TTGGCATCCTTGTGCTTACAAGGAATAAATTGAAGACATAGCTGATTTGGCTTTCACGTGCTTAC
261 TTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTAC
*
24145902 GATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTTTCAGAGAACAAATCAAAGTTTGGCGT
326 GATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGT
24145967 CTCCATATTCGACAGAGAGAAG
391 CTCCATATTCGACAGAGAGAAG
* * *
24145989 ACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTT
1 ACACATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGAGCCAAGATGATTTGGCATCCTT
*
24146054 GTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTACTTACGATGAAGCAAA
66 GTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTACTTACGATGAAACAAA
24146119 TCTAAGATGATTTGGCATATCTGTATTGT-AGAGAACAAATCGAAGTTTGGCATCTCCATATTCA
131 TCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCA
* *
24146183 ACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCGAAGATGGT
196 ACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCGAAGATGAT
* * * * * *
24146248 TTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGTTTTCGCGTGCTTAT
261 TTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTAC
24146313 GATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
326 GATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
24146357 AAATAGATCG
Statistics
Matches: 335, Mismatches: 33, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
411 186 0.56
412 149 0.44
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (412 bp):
ACACATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGAGCCAAGATGATTTGGCATCCTT
GTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTACTTACGATGAAACAAA
TCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCA
ACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCGAAGATGAT
TTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTAC
GATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGT
CTCCATATTCGACAGAGAGAAG
Found at i:24146775 original size:19 final size:21
Alignment explanation
Indices: 24146751--24146793 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
24146741 AATCTTTAAG
24146751 GATATGCAATC-TT-AGATAT
1 GATATGCAATCTTTAAGATAT
24146770 GATATGCAATCTTTAAGATAT
1 GATATGCAATCTTTAAGATAT
24146791 GAT
1 GAT
24146794 CTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 11 0.50
20 2 0.09
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (21 bp):
GATATGCAATCTTTAAGATAT
Found at i:24146791 original size:16 final size:16
Alignment explanation
Indices: 24146741--24146791 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
24146731 ATGGAAATAT
24146741 AATCTTTAAGGATATGC
1 AATCTTTAA-GATATGC
*
24146758 AATCTTAGATATGATATGC
1 AATCTT---TAAGATATGC
24146777 AATCTTTAAGATATG
1 AATCTTTAAGATATG
24146792 ATCTTGTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
16 8 0.28
17 6 0.21
19 13 0.45
20 2 0.07
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (16 bp):
AATCTTTAAGATATGC
Found at i:24149887 original size:20 final size:21
Alignment explanation
Indices: 24149849--24149888 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
24149839 AATGATTGAC
**
24149849 ATTTTCATGAATGTTTGGTTA
1 ATTTTCATGAATGACTGGTTA
24149870 ATTTT-ATGAATGACTGGTT
1 ATTTTCATGAATGACTGGTT
24149889 GTATGTATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.50
Consensus pattern (21 bp):
ATTTTCATGAATGACTGGTTA
Found at i:24152460 original size:18 final size:18
Alignment explanation
Indices: 24152423--24152463 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
24152413 TATAATATAT
*
24152423 ATAAAAAAATAATAAGTA
1 ATAAAAAAATAATAACTA
24152441 ATAAAAAAATAA-AACCTA
1 ATAAAAAAATAATAA-CTA
24152459 ATAAA
1 ATAAA
24152464 TGATATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (18 bp):
ATAAAAAAATAATAACTA
Found at i:24152581 original size:24 final size:23
Alignment explanation
Indices: 24152544--24152589 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
24152534 ATAAATGGTA
24152544 TTTTAGTAATAATATAAGTATATT
1 TTTTAGTAATAATA-AAGTATATT
*
24152568 TTTTA-TAATAAATAAATTATAT
1 TTTTAGTAAT-AATAAAGTATAT
24152590 AAAGAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
TTTTAGTAATAATAAAGTATATT
Found at i:24154367 original size:115 final size:116
Alignment explanation
Indices: 24154157--24154471 Score: 454
Period size: 115 Copynumber: 2.7 Consensus size: 116
24154147 CAGTTTGAGT
* * * * *
24154157 CTAT-TTTGAGAACATTCGAGAGTCATATCTGCTACGTCCTCGATTTGTTCCTTGTAAGTACAAG
1 CTATATTTGAGAACATTTGAGAGTCAAATCTGCTATGTCCTCG---TGTCCCTTGTAAGCACAAG
*
24154221 GATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTG
63 GATGCCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTG
*
24154275 CTATATTTGAGAACTTTTGAGAGTCAAATCTGCTATGTCCTCG-GTCCCTTGTAAGCACAAGGAT
1 CTATATTTGAGAACATTTGAGAGTCAAATCTGCTATGTCCTCGTGTCCCTTGTAAGCACAAGGAT
24154339 GCCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTG
66 GCCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTG
* * * *
24154390 CTATATCTGAGAACGTCTGAGAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAG
1 CTATATTTGAGAACATTTGAGAGTCAAATCTGCTATGTCCTCG---TGTCCCTTGTAAGCACAAG
*
24154455 GATGCCAAACCCTCTTG
63 GATGCCAAACCATCTTG
24154472 AGTTTGTTTA
Statistics
Matches: 180, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
115 108 0.60
118 4 0.02
119 68 0.38
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (116 bp):
CTATATTTGAGAACATTTGAGAGTCAAATCTGCTATGTCCTCGTGTCCCTTGTAAGCACAAGGAT
GCCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTG
Found at i:24154561 original size:202 final size:198
Alignment explanation
Indices: 24154284--24154665 Score: 539
Period size: 202 Copynumber: 1.9 Consensus size: 198
24154274 GCTATATTTG
* * * * *
24154284 AGAACTTTTGAGAGTCAAATCTGCTATGTCCTCGGTCCCTTGTAAGCACAAGGATGCCAAACCAT
1 AGAACATTTGAGAGTCAAATCTGCAATGTCCTCGGTCCCTTGTAAACACAAGAATACCAAACCAT
* * *
24154349 CTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACGTCTGAGAAT
66 CTTGGATCTGCTTCAATATAAACATCTGAAGGTTAGATCTGCTACATCTAAGAACGTCTGAGAAT
* * *
24154414 CAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAACCCTCTTGAGTTTGT
131 CAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAACCCTCTTGAGTTTGT
24154479 TTA
196 TTA
* *
24154482 AGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAA
1 AGAACATTTGAGAGTCAAATCTGCAATGTCCTCG----GTCCCTTGTAAACACAAGAATACCAAA
* * * * *
24154547 TCATCTTGGATCTGCTTCAATATAAATATCTGAAGGTTAGATCTGCTACATTTAAGAACTTTTGA
62 CCATCTTGGATCTGCTTCAATATAAACATCTGAAGGTTAGATCTGCTACATCTAAGAACGTCTGA
* * *
24154612 GAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAA
127 GAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAA
24154666 TCATCTTGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
198 31 0.19
202 128 0.81
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (198 bp):
AGAACATTTGAGAGTCAAATCTGCAATGTCCTCGGTCCCTTGTAAACACAAGAATACCAAACCAT
CTTGGATCTGCTTCAATATAAACATCTGAAGGTTAGATCTGCTACATCTAAGAACGTCTGAGAAT
CAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAACCCTCTTGAGTTTGT
TTA
Found at i:24154690 original size:119 final size:119
Alignment explanation
Indices: 24154478--24154831 Score: 584
Period size: 119 Copynumber: 3.0 Consensus size: 119
24154468 CTTGAGTTTG
*
24154478 TTTAAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTAAGAACATTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
24154543 CAAATCATCTTGGATCTGCTTCAATATAAATATCTGAAGGTTAGATCTGCTACA
66 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTACA
*
24154597 TTTAAGAACTTTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTAAGAACATTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
24154662 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTACA
* * * * *
24154716 TTTGAGAACATATGAGAGTCAAATCTGCTATGTCCTCAATTTGTTCCTTGTAAACACAAGAAAAC
1 TTTAAGAACATTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
24154781 CAAATCATCTTGGATCTGCTTCAGCATAAATGTCTGAA-GTCTAGATCTGCT
66 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGT-TAGATCTGCT
24154832 GTCTTCAATT
Statistics
Matches: 220, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
118 2 0.01
119 218 0.99
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.34
Consensus pattern (119 bp):
TTTAAGAACATTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTACA
Found at i:24166881 original size:19 final size:20
Alignment explanation
Indices: 24166841--24166882 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
24166831 TATATAATAT
*
24166841 ATATAAAAAAATAATAAGTA
1 ATATAAAAAAATAATAACTA
24166861 ATAT-AAAAAATAA-AACCTA
1 ATATAAAAAAATAATAA-CTA
24166880 ATA
1 ATA
24166883 AATGCTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 14 0.70
20 4 0.20
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (20 bp):
ATATAAAAAAATAATAACTA
Found at i:24167008 original size:22 final size:22
Alignment explanation
Indices: 24166927--24167009 Score: 59
Period size: 22 Copynumber: 3.9 Consensus size: 22
24166917 GTAAACAATG
*
24166927 TATAATAAATAAA--A-GTTTT
1 TATAATAAATAAATTATATTTT
* **
24166946 TATAAATATATAAATGGTA-TTT
1 TAT-AATAAATAAATTATATTTT
*
24166968 TAGTAAT-AATATAAGTATATTTT
1 TA-TAATAAATA-AATTATATTTT
24166991 TATAATAAATAAATTATAT
1 TATAATAAATAAATTATAT
24167010 AAAGAAAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 13
0.70 0.12 0.19
Matches are distributed among these distances:
19 3 0.06
20 9 0.19
21 3 0.06
22 23 0.48
23 10 0.21
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (22 bp):
TATAATAAATAAATTATATTTT
Found at i:24170053 original size:29 final size:31
Alignment explanation
Indices: 24170021--24170078 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
24170011 TGTGCATCAT
*
24170021 ATATATATGCTGAA-TT-AAGT-TGTAAAAGA
1 ATATAAATG-TGAAGTTGAAGTATGTAAAAGA
24170050 ATATAAATGTGAAGTTGAAGTATGTAAAA
1 ATATAAATGTGAAGTTGAAGTATGTAAAA
24170079 TATGAACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 4 0.16
31 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (31 bp):
ATATAAATGTGAAGTTGAAGTATGTAAAAGA
Found at i:24170282 original size:43 final size:42
Alignment explanation
Indices: 24170170--24170282 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 42
24170160 TAACAGCATT
* *
24170170 GGCTAAGTAAATGGCACTATGTGTGCGATACTGATATGAGTTC
1 GGCTAA-TAAATGGCACTAAGTGTGCGATACTAATATGAGTTC
* *
24170213 GGTTTACTATAATGGCACTAAGTGTGCGATA-TAATTAT-AGCTTC
1 GG-CTAATA-AATGGCACTAAGTGTGCGATACTAA-TATGAG-TTC
24170257 GGCTAATAAATTGGCACTAAGTGTGC
1 GGCTAATAAA-TGGCACTAAGTGTGC
24170283 AAGTTCATTG
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.03
43 27 0.46
44 30 0.51
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (42 bp):
GGCTAATAAATGGCACTAAGTGTGCGATACTAATATGAGTTC
Found at i:24172526 original size:48 final size:48
Alignment explanation
Indices: 24172345--24172559 Score: 156
Period size: 48 Copynumber: 4.6 Consensus size: 48
24172335 TGAGATCCCA
* * * * *
24172345 TGTAAGACCATGTCTAGGACATGGCATTGGCATCGAGATGAGAT-CTCG
1 TGTAAGACCATGTTTGGGACATGGCATCGGCATCGACATGTGATGC-CG
* * * ** * * *
24172393 TATAAGACCGTGTATGGGACATGGCATAAGCGTTGATATGTG-TG-C-
1 TGTAAGACCATGTTTGGGACATGGCATCGGCATCGACATGTGATGCCG
* * * *
24172438 --TAAGACCATGTCTGGGACATGGCATCGGCCTTGACGTGTGA-GCCAG
1 TGTAAGACCATGTTTGGGACATGGCATCGGCATCGACATGTGATGCC-G
* * **
24172484 TGTAAGACCATATTTGGGACATGGCATCGGCATCGATATGTGATTTCG
1 TGTAAGACCATGTTTGGGACATGGCATCGGCATCGACATGTGATGCCG
* *
24172532 TGTAAGACCATGTTTGGGGCATAGCATC
1 TGTAAGACCATGTTTGGGACATGGCATC
24172560 ATTATGAGAC
Statistics
Matches: 131, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
43 34 0.26
44 1 0.01
46 1 0.01
47 1 0.01
48 93 0.71
49 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (48 bp):
TGTAAGACCATGTTTGGGACATGGCATCGGCATCGACATGTGATGCCG
Found at i:24175720 original size:16 final size:16
Alignment explanation
Indices: 24175692--24175736 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
24175682 CTTATTTTTA
24175692 TATTATATATTATAAAAT
1 TATT-TATATTAT-AAAT
*
24175710 TATTT-TATTATATAT
1 TATTTATATTATAAAT
24175725 TATTTATATTAT
1 TATTTATATTAT
24175737 TATTTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 8 0.32
16 12 0.48
17 1 0.04
18 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTTATATTATAAAT
Found at i:24175731 original size:39 final size:38
Alignment explanation
Indices: 24175631--24175740 Score: 100
Period size: 43 Copynumber: 2.8 Consensus size: 38
24175621 ATATGTTTAT
* * *
24175631 TTTTATTATATATATATTT-T-TTATATATTGTTAATTG
1 TTTTATTATATAT-TATTTATATTATATATTATAAATTA
*
24175668 TTTTATTTTTATACCTTATTTTTATATTATATATTATAAAATTA
1 TTTTA-TTATATA--TTA--TTTATATTATATATTAT-AAATTA
24175712 TTTTATTATATATTATTTATATTAT-TATT
1 TTTTATTATATATTATTTATATTATATATT
24175741 TATTATGTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
37 5 0.08
38 10 0.17
39 12 0.20
40 1 0.02
41 6 0.10
42 1 0.02
43 16 0.27
44 9 0.15
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (38 bp):
TTTTATTATATATTATTTATATTATATATTATAAATTA
Found at i:24175743 original size:23 final size:23
Alignment explanation
Indices: 24175684--24175743 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
24175674 TTTTATACCT
*
24175684 TATTTTTATATTATATATTATAA
1 TATTATTATATTATATATTATAA
* * *
24175707 AATTATTTTATTATATATTATTTA
1 TATTATTATATTATATATTA-TAA
24175731 TATTATTAT-TTAT
1 TATTATTATATTAT
24175744 TATGTTTTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 21 0.70
24 9 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTATTATATTATATATTATAA
Found at i:24176004 original size:12 final size:12
Alignment explanation
Indices: 24175989--24176052 Score: 60
Period size: 12 Copynumber: 5.1 Consensus size: 12
24175979 TTTTTATAGG
24175989 TTATATATATC-A
1 TTATAT-TATCTA
24176001 TTATATTATCTA
1 TTATATTATCTA
*
24176013 TTATATTATTTA
1 TTATATTATCTA
24176025 CGTTTATATTAT-TCA
1 ---TTATATTATCT-A
24176040 TTATATTATCTA
1 TTATATTATCTA
24176052 T
1 T
24176053 AATTTTAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
11 4 0.09
12 29 0.64
13 1 0.02
14 1 0.02
15 10 0.22
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.58
Consensus pattern (12 bp):
TTATATTATCTA
Found at i:24176123 original size:15 final size:15
Alignment explanation
Indices: 24176103--24176136 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
24176093 ATTATACATA
*
24176103 TATTTAATTATTATT
1 TATTTAATTATTATG
*
24176118 TATTTATTTATTATG
1 TATTTAATTATTATG
24176133 TATT
1 TATT
24176137 ATTTCATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TATTTAATTATTATG
Found at i:24180309 original size:40 final size:40
Alignment explanation
Indices: 24180121--24180345 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
24180111 TTGAATGATG
* * * *
24180121 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
24180161 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
24180200 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
24180240 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24180280 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
24180321 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24180346 AACGAGGAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 39 0.23
40 118 0.71
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24188224 original size:40 final size:40
Alignment explanation
Indices: 24188036--24188260 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
24188026 TTGAATGATG
* * * *
24188036 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
24188076 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
24188115 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
24188155 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24188195 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
24188236 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24188261 AACGAGGAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 39 0.23
40 118 0.71
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24190721 original size:29 final size:31
Alignment explanation
Indices: 24190689--24190746 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
24190679 TGTGCATCAT
*
24190689 ATATATATGCTGAA-TT-AAGT-TGTAAAAGA
1 ATATAAATG-TGAAGTTGAAGTATGTAAAAGA
24190718 ATATAAATGTGAAGTTGAAGTATGTAAAA
1 ATATAAATGTGAAGTTGAAGTATGTAAAA
24190747 TATGAACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 4 0.16
31 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (31 bp):
ATATAAATGTGAAGTTGAAGTATGTAAAAGA
Found at i:24193430 original size:39 final size:40
Alignment explanation
Indices: 24193385--24193609 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
24193375 GCTCCTCGTT
* * * *
24193385 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
24193425 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
24193464 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
24193504 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
24193544 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
24193585 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
24193610 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.24
40 105 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:24193618 original size:41 final size:41
Alignment explanation
Indices: 24193541--24193618 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
24193531 CTTGTATCTC
* * *
24193541 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
24193582 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
24193619 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:24201017 original size:39 final size:40
Alignment explanation
Indices: 24200972--24201196 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
24200962 GCTCCTCGTT
* * * *
24200972 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
24201012 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
24201051 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
24201091 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
24201131 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
24201172 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
24201197 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
39 39 0.25
40 105 0.66
41 15 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:24201205 original size:41 final size:41
Alignment explanation
Indices: 24201128--24201205 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
24201118 TTTGTATCTC
* * *
24201128 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
24201169 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
24201206 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:24206896 original size:43 final size:43
Alignment explanation
Indices: 24206843--24207040 Score: 360
Period size: 43 Copynumber: 4.6 Consensus size: 43
24206833 CCAGCATTAC
* *
24206843 GCCTACTAGGCACGAAGGCTCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
24206886 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
24206929 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
24206972 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
24207015 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
24207041 TAATACCAGC
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 151 1.00
ACGTcount: A:0.29, C:0.34, G:0.27, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:24207081 original size:38 final size:38
Alignment explanation
Indices: 24207033--24207156 Score: 140
Period size: 38 Copynumber: 3.2 Consensus size: 38
24207023 GGCACGAAGG
* * * *
24207033 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAA
** *
24207071 CTTGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAA
** *
24207109 CCCGGATATTTTACCAGCACAAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACAAAGCCTGCGGG-ATTTAA
24207148 GCCCGGATA
1 -CCCGGATA
24207157 CACATCAAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 59 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAA
Found at i:24210598 original size:18 final size:18
Alignment explanation
Indices: 24210577--24210647 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
24210567 AATTTGGCAA
24210577 ATTAATATAATTCACCAT
1 ATTAATATAATTCACCAT
* * * *
24210595 ATTAATACAGTTCACTAA
1 ATTAATATAATTCACCAT
* * *
24210613 ATTAACATAGTTCGCCAT
1 ATTAATATAATTCACCAT
*
24210631 AATAATATAATTCACCA
1 ATTAATATAATTCACCA
24210648 AGTTAACATG
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.34
Consensus pattern (18 bp):
ATTAATATAATTCACCAT
Found at i:24210645 original size:36 final size:36
Alignment explanation
Indices: 24210574--24210656 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
24210564 CACAATTTGG
* * *
24210574 CAAATTAATATAATTCACCATATTAATACAGTTCAC
1 CAAATTAACATAATTCACCATAATAATACAATTCAC
* * * *
24210610 TAAATTAACATAGTTCGCCATAATAATATAATTCAC
1 CAAATTAACATAATTCACCATAATAATACAATTCAC
*
24210646 CAAGTTAACAT
1 CAAATTAACAT
24210657 GGTTTACAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.33
Consensus pattern (36 bp):
CAAATTAACATAATTCACCATAATAATACAATTCAC
Found at i:24211179 original size:22 final size:22
Alignment explanation
Indices: 24211154--24211197 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
24211144 TTACAGCTAC
24211154 GGCCTGTCTATTTTATTCCTAT
1 GGCCTGTCTATTTTATTCCTAT
24211176 GGCCTGTCTATTTTATTCCTAT
1 GGCCTGTCTATTTTATTCCTAT
24211198 AACTACATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.50
Consensus pattern (22 bp):
GGCCTGTCTATTTTATTCCTAT
Found at i:24215307 original size:28 final size:28
Alignment explanation
Indices: 24215275--24215331 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
24215265 CGGACATCGC
24215275 TGTTTTATTTTATATCTTTTTGTTGCAG
1 TGTTTTATTTTATATCTTTTTGTTGCAG
24215303 TGTTTTATTTTATATCTTTTTGTTGCAG
1 TGTTTTATTTTATATCTTTTTGTTGCAG
24215331 T
1 T
24215332 ATTTCCAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.65
Consensus pattern (28 bp):
TGTTTTATTTTATATCTTTTTGTTGCAG
Found at i:24227077 original size:26 final size:26
Alignment explanation
Indices: 24227048--24227100 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
24227038 AAAAACTTCA
24227048 AAAATTAATAAAATATATTTAAAATT
1 AAAATTAATAAAATATATTTAAAATT
*
24227074 AAAATTAATAAAATATATTTAACATT
1 AAAATTAATAAAATATATTTAAAATT
24227100 A
1 A
24227101 TTAATAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
AAAATTAATAAAATATATTTAAAATT
Found at i:24227878 original size:20 final size:21
Alignment explanation
Indices: 24227838--24227884 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
24227828 TTTGTAATAT
*
24227838 TTTTATTAATTTTTTAAATAAC
1 TTTTATTAA-TTTTAAAATAAC
*
24227860 TTTTATTAA-TTTAAAATAAT
1 TTTTATTAATTTTAAAATAAC
24227880 TTTTA
1 TTTTA
24227885 AATTTTTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 14 0.61
22 9 0.39
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTATTAATTTTAAAATAAC
Found at i:24228953 original size:50 final size:50
Alignment explanation
Indices: 24228845--24228968 Score: 196
Period size: 49 Copynumber: 2.5 Consensus size: 50
24228835 GAAAGAATGT
* *
24228845 TTTATTTTTTTATGAAATTTATTTGTCTTGTGTGGTTTAGGTTTATTAAA
1 TTTATTTTTTTATGTAATTTATTTGTCATGTGTGGTTTAGGTTTATTAAA
* * *
24228895 TTTA-TTTTTTATGTAAGTTATTTGTCATGTGTGTTTTAGGTTTATTAGA
1 TTTATTTTTTTATGTAATTTATTTGTCATGTGTGGTTTAGGTTTATTAAA
24228944 TTTATTTTTTTATGTAATTTATTTG
1 TTTATTTTTTTATGTAATTTATTTG
24228969 GAATTTGTGA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
49 44 0.66
50 23 0.34
ACGTcount: A:0.21, C:0.02, G:0.15, T:0.62
Consensus pattern (50 bp):
TTTATTTTTTTATGTAATTTATTTGTCATGTGTGGTTTAGGTTTATTAAA
Found at i:24229369 original size:27 final size:27
Alignment explanation
Indices: 24229331--24229404 Score: 148
Period size: 27 Copynumber: 2.7 Consensus size: 27
24229321 TAAAAGTTTA
24229331 GACCATTGAGTTGGAATTTGTGAATGG
1 GACCATTGAGTTGGAATTTGTGAATGG
24229358 GACCATTGAGTTGGAATTTGTGAATGG
1 GACCATTGAGTTGGAATTTGTGAATGG
24229385 GACCATTGAGTTGGAATTTG
1 GACCATTGAGTTGGAATTTG
24229405 AGTTGAAATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.26, C:0.08, G:0.32, T:0.34
Consensus pattern (27 bp):
GACCATTGAGTTGGAATTTGTGAATGG
Found at i:24230534 original size:14 final size:14
Alignment explanation
Indices: 24230515--24230542 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24230505 TTTTTCCAAT
24230515 GATACTATTCTAAC
1 GATACTATTCTAAC
24230529 GATACTATTCTAAC
1 GATACTATTCTAAC
24230543 ATGTAATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
GATACTATTCTAAC
Found at i:24231747 original size:36 final size:36
Alignment explanation
Indices: 24231707--24231783 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
24231697 CTGTGTATGT
* *
24231707 ATTAAGAGAAGATAAGTTACAATTTCACATTAAAAC
1 ATTAAGAAAAGATAAGTTACAATTTCACACTAAAAC
*
24231743 ATTAAGAAAAGATAAGTTACAATTTCGCACTAAAAC
1 ATTAAGAAAAGATAAGTTACAATTTCACACTAAAAC
24231779 ATTAA
1 ATTAA
24231784 AACATATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (36 bp):
ATTAAGAAAAGATAAGTTACAATTTCACACTAAAAC
Found at i:24235652 original size:26 final size:26
Alignment explanation
Indices: 24235635--24235691 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
24235625 CCGATATATA
24235635 GCTCTTCGTGAGCTTCCCGATTAAAG
1 GCTCTTCGTGAGCTTCCCGATTAAAG
* ** *
24235661 GCTCTTTGTGAGCTTCCTAATTAATG
1 GCTCTTCGTGAGCTTCCCGATTAAAG
24235687 GCTCT
1 GCTCT
24235692 CTAGAGCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
GCTCTTCGTGAGCTTCCCGATTAAAG
Found at i:24237594 original size:44 final size:45
Alignment explanation
Indices: 24237539--24237712 Score: 210
Period size: 47 Copynumber: 3.8 Consensus size: 45
24237529 TATACGTGCT
* *
24237539 GATGCATGTCCCAGACATGTCTTACACTAGCACAAC-TCTTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACATCGTCTTAGCC
* * *
24237583 GATGCGTGTCCCAGACACGTCTTACACTGGCTATCATCGTC-GAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-A-CATCGTCTTA-GCC
*
24237630 GATGCATGTCCCAGACATGTCTTACACTGGCAC-TCGTCTCTGTGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACATCGTCT-T-AGCC
24237676 GATGCCATGTCCCAGACATGGTCTTACACTGGCACAT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACAT
24237713 AAGAAGTCTG
Statistics
Matches: 111, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
44 33 0.30
45 2 0.02
46 12 0.11
47 48 0.43
48 15 0.14
49 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACATCGTCTTAGCC
Found at i:24237640 original size:91 final size:95
Alignment explanation
Indices: 24237539--24237708 Score: 251
Period size: 91 Copynumber: 1.8 Consensus size: 95
24237529 TATACGTGCT
*
24237539 GATGCATGTCCCAGACATGTCTTACACTAGCACAAC-TCT-T-AGCCGATG-CGTGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCAC-ACGTCTCTGAGCCGATGCCATGTCCCAGACA
24237600 -CGTCTTACACTGGCTATCATCGTCGAGGCC
65 TCGTCTTACACTGGCTATCATCGTCGAGGCC
* * *
24237630 GATGCATGTCCCAGACATGTCTTACACTGGCACTCGTCTCTGTGCCGATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACACGTCTCTGAGCCGATGCCATGTCCCAGACAT
*
24237695 GGTCTTACACTGGC
66 CGTCTTACACTGGC
24237709 ACATAAGAAG
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
90 1 0.01
91 35 0.51
92 1 0.01
93 7 0.10
94 12 0.17
95 13 0.19
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.25
Consensus pattern (95 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACACGTCTCTGAGCCGATGCCATGTCCCAGACAT
CGTCTTACACTGGCTATCATCGTCGAGGCC
Found at i:24237643 original size:47 final size:46
Alignment explanation
Indices: 24237438--24237708 Score: 194
Period size: 47 Copynumber: 5.7 Consensus size: 46
24237428 GGATAAGTAA
*
24237438 CCGATGCCATGTCCCAGACACGGTCTTACACTGGCTATCATCACCGAGG
1 CCGATG-CATGTCCCAGACAC-GTCTTACACTGGCTATCATC-TCGAGG
* * * ** * * * *
24237487 TCGATACCATGTCCCAGACATGGTCTTATTCTAGCTCTCGTATATACG-TG
1 CCGAT-GCATGTCCCAGACA-CGTCTTACACTGGCTATC--ATCT-CGAGG
* * * * *
24237537 CTGATGCATGTCCCAGACATGTCTTACACTAGC-A-CAACTCTTA-G
1 CCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCTC-GAGG
*
24237581 CCGATGCGTGTCCCAGACACGTCTTACACTGGCTATCATCGTCGAGG
1 CCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATC-TCGAGG
* * *
24237628 CCGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCGTCTCTG-TG
1 CCGATGCATGTCCCAGACACGTCTTACACTGGCTA-TCATCTC-GAGG
*
24237674 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC
1 CCGATG-CATGTCCCAGACA-CGTCTTACACTGGC
24237709 ACATAAGAAG
Statistics
Matches: 176, Mismatches: 31, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
43 1 0.01
44 32 0.18
45 1 0.01
46 15 0.09
47 52 0.30
48 24 0.14
49 43 0.24
50 4 0.02
51 4 0.02
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.26
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCTCGAGG
Found at i:24239050 original size:26 final size:26
Alignment explanation
Indices: 24239015--24239065 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
24239005 ATGTGAAAAG
*
24239015 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
24239041 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
24239066 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:24239071 original size:104 final size:104
Alignment explanation
Indices: 24238936--24239202 Score: 439
Period size: 104 Copynumber: 2.6 Consensus size: 104
24238926 TTGTATATAA
** *
24238936 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
24239001 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATT-CCCCG
66 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
24239040 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
24239104 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
24239144 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
24239203 ATAACGGTTA
Statistics
Matches: 152, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
103 24 0.16
104 127 0.84
105 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:24241550 original size:50 final size:50
Alignment explanation
Indices: 24241475--24241579 Score: 194
Period size: 50 Copynumber: 2.1 Consensus size: 50
24241465 TTACATGACT
*
24241475 AATACTACCTTAATAATAAGCCAATGCCTTTGGCTAAATCATAATATTAC
1 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
24241525 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
1 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
24241575 -ATACT
1 AATACT
24241580 CACATTAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 5 0.09
50 49 0.91
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (50 bp):
AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
Found at i:24242652 original size:114 final size:114
Alignment explanation
Indices: 24242448--24242682 Score: 452
Period size: 114 Copynumber: 2.1 Consensus size: 114
24242438 GTGAAAATAG
24242448 ACTCATTAAGCTTTAATCCCATATTTTATTCTACCTCTAACTCATTTTCCACTATTTTTAGTGTA
1 ACTCATTAAGCTTTAATCCCATATTTTATTCTACCTCTAACTCATTTTCCACTATTTTTAGTGTA
24242513 TTTTCAAAGTTACACTACTGCAGTAACTCAAATCTGTCAAGGCTAAGTT
66 TTTTCAAAGTTACACTACTGCAGTAACTCAAATCTGTCAAGGCTAAGTT
*
24242562 ACTCATTAAGCTTTAATCCCATATTTTATTCTGCCTCTAACTCATTTTCCACTATTTTTAGTGTA
1 ACTCATTAAGCTTTAATCCCATATTTTATTCTACCTCTAACTCATTTTCCACTATTTTTAGTGTA
*
24242627 TTTTCAAAGTTACACTACTGTAGTAACTCAAATCTGTCAAGGCTAAGTT
66 TTTTCAAAGTTACACTACTGCAGTAACTCAAATCTGTCAAGGCTAAGTT
24242676 ACTCATT
1 ACTCATT
24242683 CATGGTCATT
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 119 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.41
Consensus pattern (114 bp):
ACTCATTAAGCTTTAATCCCATATTTTATTCTACCTCTAACTCATTTTCCACTATTTTTAGTGTA
TTTTCAAAGTTACACTACTGCAGTAACTCAAATCTGTCAAGGCTAAGTT
Found at i:24243519 original size:20 final size:18
Alignment explanation
Indices: 24243485--24243521 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
24243475 GCAACTCATA
24243485 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
24243503 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
24243522 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:24244337 original size:164 final size:164
Alignment explanation
Indices: 24244066--24244389 Score: 612
Period size: 164 Copynumber: 2.0 Consensus size: 164
24244056 AGTCCTTTTT
*
24244066 CGAAATTGGACTAGAAATCGCTAAAATTAACTTACCAAAATTTACATGCACTTATAAAATTATAT
1 CGAAATTGGACTAGAAATCGCTAAAATTAACTTACCAAAATTTACATACACTTATAAAATTATAT
24244131 TATAACACAAAATAATACTAAAATAATTTTATCTGGCCTCGAAATAGTGGTCCCGAAACTACTGT
66 TATAACACAAAATAATACTAAAATAATTTTATCTGGCCTCGAAATAGTGGTCCCGAAACTACTGT
*
24244196 TCTGACTAGGCCCAAAATCGGGCTGTTACATTTA
131 TCTAACTAGGCCCAAAATCGGGCTGTTACATTTA
24244230 CGAAATTGGACTAGAAATCGCTAAAATTAACTTACCAAAATTTACATACACTTATAAAATTATAT
1 CGAAATTGGACTAGAAATCGCTAAAATTAACTTACCAAAATTTACATACACTTATAAAATTATAT
* *
24244295 TATAACACAAAATAATACTAAAATAATTTTCTCTGGCCTCGAAATAGTGGTCCTGAAACTACTGT
66 TATAACACAAAATAATACTAAAATAATTTTATCTGGCCTCGAAATAGTGGTCCCGAAACTACTGT
24244360 TCTAACTAGGCCCAAAATCGGGCTGTTACA
131 TCTAACTAGGCCCAAAATCGGGCTGTTACA
24244390 GGCAATCATA
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
164 156 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.30
Consensus pattern (164 bp):
CGAAATTGGACTAGAAATCGCTAAAATTAACTTACCAAAATTTACATACACTTATAAAATTATAT
TATAACACAAAATAATACTAAAATAATTTTATCTGGCCTCGAAATAGTGGTCCCGAAACTACTGT
TCTAACTAGGCCCAAAATCGGGCTGTTACATTTA
Found at i:24246101 original size:41 final size:39
Alignment explanation
Indices: 24245997--24246114 Score: 141
Period size: 37 Copynumber: 3.0 Consensus size: 39
24245987 GCCTTATTGG
* *
24245997 ATAATTCGAAGTAATAAATTGACACCCAGTGTCTCATCGG
1 ATAAATCGAAG-AATAAATTGACACCCAGTGTCTCATCGA
* * *
24246037 CTAAATCGAAG--TAAATTGGCACCCAGTGCCTCATCGA
1 ATAAATCGAAGAATAAATTGACACCCAGTGTCTCATCGA
*
24246074 ATATATCCGAAGCAATAAATTGACACCCAGTGTCTCATCGA
1 ATAAAT-CGAAG-AATAAATTGACACCCAGTGTCTCATCGA
24246115 CTCGAAGTCG
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
37 27 0.42
38 5 0.08
40 9 0.14
41 24 0.37
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.25
Consensus pattern (39 bp):
ATAAATCGAAGAATAAATTGACACCCAGTGTCTCATCGA
Found at i:24246704 original size:18 final size:19
Alignment explanation
Indices: 24246678--24246713 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
24246668 TAAACTAAAT
*
24246678 TTAACTCCCT-AATTTCAC
1 TTAAATCCCTAAATTTCAC
24246696 TTAAATCCCTAAATTTCA
1 TTAAATCCCTAAATTTCA
24246714 AAATTTCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAATCCCTAAATTTCAC
Found at i:24247014 original size:12 final size:11
Alignment explanation
Indices: 24246992--24247030 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 11
24246982 GTTTTCTTTC
24246992 TTTCTTTTCTA
1 TTTCTTTTCTA
24247003 TTTCTATTTCTA
1 TTTCT-TTTCTA
24247015 TTTC-TTT-TA
1 TTTCTTTTCTA
24247024 TTTCTTT
1 TTTCTTT
24247031 GTTTTATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 6 0.23
10 5 0.19
11 5 0.19
12 10 0.38
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTCTTTTCTA
Found at i:24250856 original size:35 final size:35
Alignment explanation
Indices: 24250810--24250877 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
24250800 ATTAAAGACT
*
24250810 TAATAGAGTATATTTTTACTAAGGTTTCAATTGCA
1 TAATAAAGTATATTTTTACTAAGGTTTCAATTGCA
24250845 TAATAAAGTATATTTTTACTAAGGTTTCAATTG
1 TAATAAAGTATATTTTTACTAAGGTTTCAATTG
24250878 ATTTTTTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.44
Consensus pattern (35 bp):
TAATAAAGTATATTTTTACTAAGGTTTCAATTGCA
Found at i:24252400 original size:56 final size:56
Alignment explanation
Indices: 24252309--24252419 Score: 213
Period size: 56 Copynumber: 2.0 Consensus size: 56
24252299 TGAAAGGGCT
*
24252309 CAAAGGCAATTAAGTTGGCTAGGGTGTTGAAATGGCCAGAAAGAAAATACTCCCTG
1 CAAAAGCAATTAAGTTGGCTAGGGTGTTGAAATGGCCAGAAAGAAAATACTCCCTG
24252365 CAAAAGCAATTAAGTTGGCTAGGGTGTTGAAATGGCCAGAAAGAAAATACTCCCT
1 CAAAAGCAATTAAGTTGGCTAGGGTGTTGAAATGGCCAGAAAGAAAATACTCCCT
24252420 ACAGAGGATG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (56 bp):
CAAAAGCAATTAAGTTGGCTAGGGTGTTGAAATGGCCAGAAAGAAAATACTCCCTG
Found at i:24263740 original size:14 final size:14
Alignment explanation
Indices: 24263721--24263750 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
24263711 CATTCCGAAG
24263721 TATATATATATACA
1 TATATATATATACA
24263735 TATATATATATACA
1 TATATATATATACA
24263749 TA
1 TA
24263751 AGTATGCCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TATATATATATACA
Found at i:24264266 original size:28 final size:28
Alignment explanation
Indices: 24264226--24264379 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
24264216 TAAATTGTAC
24264226 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
24264254 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
24264282 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
24264310 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
24264338 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
24264365 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24264380 GACTTAATAT
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.20
28 98 0.80
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:24267580 original size:17 final size:17
Alignment explanation
Indices: 24267546--24267588 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
24267536 TTTATTTTTT
**
24267546 CTTCTTTCATTTTTTTC
1 CTTCTTTCATTTCCTTC
*
24267563 CTTCTTTCCTTTCCTTC
1 CTTCTTTCATTTCCTTC
24267580 CTCTCTTTC
1 CT-TCTTTC
24267589 TCCCTCTCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (17 bp):
CTTCTTTCATTTCCTTC
Found at i:24269269 original size:8 final size:8
Alignment explanation
Indices: 24269258--24269284 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
24269248 AATATATTAC
24269258 ATAAATTT
1 ATAAATTT
24269266 ATAAATTT
1 ATAAATTT
24269274 ATAAATTT
1 ATAAATTT
24269282 ATA
1 ATA
24269285 TTTTAATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATAAATTT
Found at i:24279292 original size:26 final size:26
Alignment explanation
Indices: 24279263--24279341 Score: 140
Period size: 26 Copynumber: 3.0 Consensus size: 26
24279253 TACAAATTGG
24279263 TAATGGGTTAGGTAAATGTTCCATGA
1 TAATGGGTTAGGTAAATGTTCCATGA
* *
24279289 TAATGAGTTAGGTAAATGTTTCATGA
1 TAATGGGTTAGGTAAATGTTCCATGA
24279315 TAATGGGTTAGGTAAATGTTCCATGA
1 TAATGGGTTAGGTAAATGTTCCATGA
24279341 T
1 T
24279342 GGGAATTTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TAATGGGTTAGGTAAATGTTCCATGA
Found at i:24281034 original size:26 final size:27
Alignment explanation
Indices: 24280958--24281071 Score: 137
Period size: 27 Copynumber: 4.2 Consensus size: 27
24280948 AGGAAGCGTC
24280958 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTATGCCAC-AATTATCTGAT
* *
24280986 CTGGTGGCTCTACCAC-ATATATCT-AT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
24281012 CCTGGTGGC-ATGCCACAATTATCTGAT
1 -CTGGTGGCTATGCCACAATTATCTGAT
*
24281039 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
24281066 CTGGTG
1 CTGGTG
24281072 ACTTCGTCAC
Statistics
Matches: 75, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
26 28 0.37
27 33 0.44
28 14 0.19
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:24281071 original size:53 final size:55
Alignment explanation
Indices: 24280956--24281061 Score: 182
Period size: 53 Copynumber: 2.0 Consensus size: 55
24280946 GGAGGAAGCG
24280956 TCCTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTACCACATATATCTA
1 TCCTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTACCACATATATCTA
*
24281011 TCCTGGTGGC-ATGCCAC-AATTATCTGATCTGGTGGCTCTGCCACA-ATATCT
1 TCCTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTACCACATATATCT
24281062 GTATCTGGTG
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
52 6 0.12
53 27 0.54
54 7 0.14
55 10 0.20
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (55 bp):
TCCTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTACCACATATATCTA
Found at i:24281082 original size:27 final size:26
Alignment explanation
Indices: 24280958--24281089 Score: 108
Period size: 27 Copynumber: 4.9 Consensus size: 26
24280948 AGGAAGCGTC
* *
24280958 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGACTCTGCCAC-AA-TATCTGAT
* *
24280986 CTGGTGGCTCTACCACATATATCT-AT
1 CTGGTGACTCTGCCACA-ATATCTGAT
* *
24281012 CCTGGTGGC-ATGCCACAATTATCTGAT
1 -CTGGTGACTCTGCCACAA-TATCTGAT
*
24281039 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTG-AT
*
24281066 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTCT-GCCACAATATCTG
24281090 GCAGCCTCAC
Statistics
Matches: 90, Mismatches: 7, Indels: 15
0.80 0.06 0.13
Matches are distributed among these distances:
25 1 0.01
26 28 0.31
27 46 0.51
28 15 0.17
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGAT
Found at i:24282568 original size:29 final size:29
Alignment explanation
Indices: 24282523--24282581 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
24282513 GAAATGTATG
24282523 CGCAAAAACTTACGTAACTCTACTAGTGC
1 CGCAAAAACTTACGTAACTCTACTAGTGC
*
24282552 CGCAAAAACTTATGTAACTCTACTAGTGC
1 CGCAAAAACTTACGTAACTCTACTAGTGC
24282581 C
1 C
24282582 ATCTATTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (29 bp):
CGCAAAAACTTACGTAACTCTACTAGTGC
Found at i:24282915 original size:9 final size:9
Alignment explanation
Indices: 24282903--24282927 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
24282893 TAATTTATTT
24282903 AATTAATCA
1 AATTAATCA
24282912 AATTAATCA
1 AATTAATCA
24282921 AATTAAT
1 AATTAAT
24282928 TTCTTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (9 bp):
AATTAATCA
Found at i:24286105 original size:16 final size:18
Alignment explanation
Indices: 24286070--24286106 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
24286060 TTCTTTTTTT
*
24286070 TTTATATAAAATTTAAAA
1 TTTATATAAAATTGAAAA
24286088 TTTA-ATAAAA-TGAAAA
1 TTTATATAAAATTGAAAA
24286104 TTT
1 TTT
24286107 CACCTATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
TTTATATAAAATTGAAAA
Found at i:24287778 original size:36 final size:36
Alignment explanation
Indices: 24287738--24287810 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
24287728 TGTTTTGTCC
24287738 TATGTTGTCTTTTATTTCCTAATGTTACTGTATTTT
1 TATGTTGTCTTTTATTTCCTAATGTTACTGTATTTT
*
24287774 TATGTTGTCTTTTATTTCCTAATGTTACTGTTTTTT
1 TATGTTGTCTTTTATTTCCTAATGTTACTGTATTTT
24287810 T
1 T
24287811 TACAGGTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.15, C:0.11, G:0.11, T:0.63
Consensus pattern (36 bp):
TATGTTGTCTTTTATTTCCTAATGTTACTGTATTTT
Found at i:24287789 original size:18 final size:19
Alignment explanation
Indices: 24287738--24287791 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 19
24287728 TGTTTTGTCC
24287738 TATGTTGTCTTTTATTTCCT
1 TATGTTGTCTTTTATTT-CT
* * *
24287758 AATGTT-AC-TGTATTT-T
1 TATGTTGTCTTTTATTTCT
24287774 TATGTTGTCTTTTATTTC
1 TATGTTGTCTTTTATTTC
24287792 CTAATGTTAC
Statistics
Matches: 25, Mismatches: 6, Indels: 7
0.66 0.16 0.18
Matches are distributed among these distances:
16 6 0.24
17 1 0.04
18 12 0.48
19 1 0.04
20 5 0.20
ACGTcount: A:0.15, C:0.11, G:0.11, T:0.63
Consensus pattern (19 bp):
TATGTTGTCTTTTATTTCT
Found at i:24290304 original size:43 final size:45
Alignment explanation
Indices: 24290234--24290319 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 45
24290224 AAGTGTAATG
*
24290234 AAATAAAATTGTAATTTCAATTATTTATA-A-TTGAATGGAATAA
1 AAATAAAATTGTAATGTCAATTATTTATATAGTTGAATGGAATAA
* * *
24290277 AAATAAAATTGTAATAGT-ATTTTTTTATATAGTTGAGTGGAAT
1 AAATAAAATTGTAAT-GTCAATTATTTATATAGTTGAATGGAAT
24290320 GGTGTTGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 24 0.67
44 2 0.06
45 10 0.28
ACGTcount: A:0.44, C:0.01, G:0.13, T:0.42
Consensus pattern (45 bp):
AAATAAAATTGTAATGTCAATTATTTATATAGTTGAATGGAATAA
Found at i:24290475 original size:16 final size:15
Alignment explanation
Indices: 24290420--24290481 Score: 56
Period size: 16 Copynumber: 4.1 Consensus size: 15
24290410 ATTATTATTA
24290420 AAAATAATTTAATA-
1 AAAATAATTTAATAT
* *
24290434 AAAATAA-ATAATTT
1 AAAATAATTTAATAT
* *
24290448 AACCATATTTTAATAT
1 AA-AATAATTTAATAT
24290464 AAATATAATTTAATAT
1 AAA-ATAATTTAATAT
24290480 AA
1 AA
24290482 TTATTTTTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
13 4 0.11
14 9 0.25
15 3 0.08
16 20 0.56
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATAATTTAATAT
Found at i:24291449 original size:2 final size:2
Alignment explanation
Indices: 24291442--24291469 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24291432 TGACTACATT
24291442 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24291470 GTTGAATTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24292614 original size:17 final size:18
Alignment explanation
Indices: 24292592--24292625 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24292582 GTAATTGTAA
24292592 TTTAAAT-TCTAATTATT
1 TTTAAATGTCTAATTATT
*
24292609 TTTAAATGTGTAATTAT
1 TTTAAATGTCTAATTAT
24292626 CACAACTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAAATGTCTAATTATT
Found at i:24298632 original size:22 final size:21
Alignment explanation
Indices: 24298591--24298647 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
24298581 ATAAAATTGG
* *
24298591 AATATTAAATAATTTTATTAA
1 AATAATAAATTATTTTATTAA
*
24298612 AATAATAAATTATATTTATTAT
1 AATAATAAATTAT-TTTATTAA
* *
24298634 ATTAATAATTTATT
1 AATAATAAATTATT
24298648 ATATGACTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATAATAAATTATTTTATTAA
Found at i:24306122 original size:40 final size:39
Alignment explanation
Indices: 24305932--24306115 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
24305922 CGAATGATGT
* * * *
24305932 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
24305972 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
24306012 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
24306050 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
24306091 CCGGGCTATGTCCCGATGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
24306116 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24306137 original size:79 final size:79
Alignment explanation
Indices: 24305984--24306148 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
24305974 GGACTAAGAT
* **
24305984 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
* *
24306049 ATTCGGGTTAAGTC
66 ATTCCGGTTAAATC
* * *
24306063 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGATGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
24306126 TATA-TCCGGTTAAATT
63 TAAATTCCGGTTAAATC
24306142 CCGAAGG
1 CCGAAGG
24306149 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 51 0.70
80 20 0.27
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATTCCGGTTAAATC
Found at i:24314153 original size:79 final size:81
Alignment explanation
Indices: 24314017--24314199 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
24314007 TCGAATGATG
* *
24314017 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
24314081 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
24314096 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
24314158 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
24314176 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
24314200 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:24314215 original size:40 final size:40
Alignment explanation
Indices: 24314018--24314201 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
24314008 CGAATGATGT
* * * *
24314018 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
24314058 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
24314098 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
24314136 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
24314177 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
24314202 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:24314223 original size:79 final size:79
Alignment explanation
Indices: 24314070--24314234 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
24314060 GGACTAAGAT
* **
24314070 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
24314135 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
24314149 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
24314212 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
24314228 CCGAAGG
1 CCGAAGG
24314235 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:24318474 original size:14 final size:14
Alignment explanation
Indices: 24318455--24318490 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
24318445 ACTTGCACCG
*
24318455 CTTGCACATTACAA
1 CTTGCACATCACAA
*
24318469 CTTGCAAATCACAA
1 CTTGCACATCACAA
24318483 CTTGCACA
1 CTTGCACA
24318491 ATTAGGCAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.36, C:0.31, G:0.08, T:0.25
Consensus pattern (14 bp):
CTTGCACATCACAA
Found at i:24322905 original size:21 final size:21
Alignment explanation
Indices: 24322836--24322905 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
24322826 ACGGTTATGA
*
24322836 GACTGAAAAACACACCCGTGT
1 GACTGAGAAACACACCCGTGT
* * * *
24322857 AACTGAGATACATAGCCGTGT
1 GACTGAGAAACACACCCGTGT
** *
24322878 GGTTGAGAGACACACCCGTGT
1 GACTGAGAAACACACCCGTGT
24322899 GACTGAG
1 GACTGAG
24322906 GTACACGACC
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (21 bp):
GACTGAGAAACACACCCGTGT
Found at i:24324868 original size:40 final size:40
Alignment explanation
Indices: 24324750--24324886 Score: 147
Period size: 40 Copynumber: 3.5 Consensus size: 40
24324740 CTTCGAGTCA
* *
24324750 ATGAGGCACTGGGTGTCACATTATTACTTCGAATTAATTCG
1 ATGAGGCACTGGGTGTCAAATTATTACTTCGAATT-ATCCG
* * ** *
24324791 ATGAGGCACT-GGTG-CCAA-T-TTACTTTGGTTTAGCCG
1 ATGAGGCACTGGGTGTCAAATTATTACTTCGAATTATCCG
*
24324827 ATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCCG
1 ATGAGGCACTGGGTGTCAAATTATTACTTCGAATTATCCG
* *
24324867 ATGAGGCACTAGGTGCCAAA
1 ATGAGGCACTGGGTGTCAAA
24324887 CTAGTGTGTT
Statistics
Matches: 76, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
36 12 0.16
37 13 0.17
38 4 0.05
39 3 0.04
40 34 0.45
41 10 0.13
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (40 bp):
ATGAGGCACTGGGTGTCAAATTATTACTTCGAATTATCCG
Found at i:24329371 original size:19 final size:19
Alignment explanation
Indices: 24329347--24329384 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
24329337 TGGGCCTCAA
24329347 TGGGCCGAAATGGGC-CGTG
1 TGGGCC-AAATGGGCTCGTG
*
24329366 TGGGCCCAATGGGCTCGTG
1 TGGGCCAAATGGGCTCGTG
24329385 GGCCCACACG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.13, C:0.24, G:0.45, T:0.18
Consensus pattern (19 bp):
TGGGCCAAATGGGCTCGTG
Found at i:24329635 original size:27 final size:27
Alignment explanation
Indices: 24329600--24329788 Score: 288
Period size: 27 Copynumber: 7.0 Consensus size: 27
24329590 TCGTTATATA
* *
24329600 ACCGTAATGCCCCTGTAGAGTAAAATA
1 ACCGTAATGCCCCTGTAGGGTAAAATG
* * *
24329627 ACCATAATGGCCCTGTAGAGTAAAATG
1 ACCGTAATGCCCCTGTAGGGTAAAATG
24329654 ACCGTAATGCCCCTGTAGGGTAAAATG
1 ACCGTAATGCCCCTGTAGGGTAAAATG
*
24329681 ACTGTAATGCCCCTGTAGGGTAAAATG
1 ACCGTAATGCCCCTGTAGGGTAAAATG
24329708 ACCGTAATGCCCCTGTAGGGTAAAATG
1 ACCGTAATGCCCCTGTAGGGTAAAATG
*
24329735 ACTGTAATGCCCCTGTAGGGTAAAATG
1 ACCGTAATGCCCCTGTAGGGTAAAATG
* * *
24329762 ACCATAATACCCCTGTATGGTAAAATG
1 ACCGTAATGCCCCTGTAGGGTAAAATG
24329789 TCGGTTATGC
Statistics
Matches: 149, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 149 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (27 bp):
ACCGTAATGCCCCTGTAGGGTAAAATG
Found at i:24329969 original size:27 final size:27
Alignment explanation
Indices: 24329930--24330011 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
24329920 GGAAGTTCTG
* * *
24329930 TACTGGTGACTATGTCACATTTACTGT
1 TACTGGTGGCTATGCCACATTTACTGA
* *
24329957 TACTGGAGGCTATGCCATATTTACTGA
1 TACTGGTGGCTATGCCACATTTACTGA
*
24329984 TACTGGTGGCT-TAGCCACATATA-TGA
1 TACTGGTGGCTAT-GCCACATTTACTGA
24330010 TA
1 TA
24330012 TTGATTTATC
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
26 6 0.13
27 40 0.87
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACATTTACTGA
Found at i:24333181 original size:44 final size:42
Alignment explanation
Indices: 24333046--24333198 Score: 150
Period size: 43 Copynumber: 3.6 Consensus size: 42
24333036 GTACAATGCT
* * *
24333046 AACGTTCCAGACGTGGTCTTACATGT-AATCAAACATCGATG-C
1 AACGTCCCAGACATGGTCTTACACGTAAATC-AA-ATCGATGTC
* * *
24333088 CACTGTCCCAGACAAGGTCTTACACG-AAATCAAATATGATGTC
1 AAC-GTCCCAGACATGGTCTTACACGTAAATCAAAT-CGATGTC
* *
24333131 AACGTCCCAAACGTGGTCTTACACGTAAATCATAAGTCGATGTC
1 AACGTCCCAGACATGGTCTTACACGTAAATCA-AA-TCGATGTC
*
24333175 AACGTCCTAGACATGGTCTTACAC
1 AACGTCCCAGACATGGTCTTACAC
24333199 AATAACACAT
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 2 0.02
42 27 0.30
43 31 0.34
44 29 0.32
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
AACGTCCCAGACATGGTCTTACACGTAAATCAAATCGATGTC
Found at i:24343719 original size:42 final size:43
Alignment explanation
Indices: 24343619--24343731 Score: 151
Period size: 43 Copynumber: 2.7 Consensus size: 43
24343609 ATCTCGTACA
* *
24343619 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAACATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAACATTG
*
24343662 ATGCC-ACTGTCCCAGACAG-GGTCTTACATGAAATCAAATA-TG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATCAAACATTG
*
24343704 ATGCCAACGTCCCAGACGTAGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
24343732 CAATAACACA
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
41 1 0.02
42 26 0.42
43 34 0.55
44 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAACATTG
Found at i:24347084 original size:13 final size:12
Alignment explanation
Indices: 24347065--24347100 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
24347055 ATTTAAGTAA
24347065 ATATATTATATT
1 ATATATTATATT
24347077 ATTATATTATATT
1 A-TATATTATATT
24347090 ATATTATTATA
1 ATA-TATTATA
24347101 ATTAAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 19 0.86
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATATATTATATT
Found at i:24347089 original size:18 final size:18
Alignment explanation
Indices: 24347066--24347100 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
24347056 TTTAAGTAAA
24347066 TATATTATATTATTATAT
1 TATATTATATTATTATAT
24347084 TATATTATATTATTATA
1 TATATTATATTATTATA
24347101 ATTAAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATTATATTATTATAT
Found at i:24352174 original size:29 final size:29
Alignment explanation
Indices: 24352074--24352175 Score: 143
Period size: 29 Copynumber: 3.4 Consensus size: 29
24352064 AGCTGAAGCT
* * *
24352074 ATCCCTTTTTCATAATTTGATGGTCATCACA
1 ATCCC-TTTTCAT-AGTTGATGGTCGTCACC
24352105 AT-CCTTTTCAATAGTTGATGGTCGTCACC
1 ATCCCTTTTC-ATAGTTGATGGTCGTCACC
24352134 ATCCCTTTTCATAGTTGATGGTCGTCACC
1 ATCCCTTTTCATAGTTGATGGTCGTCACC
24352163 ATCCCTTTTCATA
1 ATCCCTTTTCATA
24352176 ATCGAGAACA
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
29 53 0.80
30 11 0.17
31 2 0.03
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (29 bp):
ATCCCTTTTCATAGTTGATGGTCGTCACC
Found at i:24355247 original size:44 final size:44
Alignment explanation
Indices: 24355158--24355721 Score: 367
Period size: 44 Copynumber: 12.9 Consensus size: 44
24355148 CATGCTGATA
* * * * * *
24355158 CTTCTATCTGCTCTCTGTCGAACACAAAGATGCCAAATCTGCTAT
1 CTTCGATCTGCTCTCTGAC-AATACAGAGACGCCAAATCAGCTAT
*
24355203 CTTCGATCTGCTCTCTGACAATGCAGAGACGCCAAATCTA-CTAT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATC-AGCTAT
*
24355247 CTTCGATCTGCTCTCTGACAATACAGAGACGCC-AATCATCTAT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAGCTAT
24355290 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAGCTAT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAGCTAT
* *
24355334 GTTTCGATCTGCTCTCTGACAATACAGAGACACCAAAT---C-AT
1 -CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAGCTAT
* * * * *
24355375 CTTAGATTTGCT-TC-AACGTAA-ACACATGATAGCCAAATCAGCTATAT
1 CTTCGATCTGCTCTCTGAC--AATACAGA-GA-CGCCAAATCAGC--TAT
*
24355422 CTTCGATCTGCTCTCTGACGATACAGAGACGCCAAAT---C-AT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAGCTAT
* * * * * *
24355462 CTTAGATTTGCT-TC-AACATAAACACGTGAAAGCCAAATCAGCTAATT
1 CTTCGATCTGCTCTCTGACA-ATACA-GAG-ACGCCAAATCAGCT-A-T
* * *
24355509 CTTCGATCTGCTCTTTGACAATATAGAGACACCAAAT---C-AT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAGCTAT
* * * * *
24355549 CTTAGATTTGCT-TC-AACGTAA-ACACGTGAAAGCCAAATCAGCTATGT
1 CTTCGATCTGCTCTCTGAC--AATACA-GAG-ACGCCAAATCAGCTA--T
24355596 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAAT---C-AT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAGCTAT
* * * * * *
24355636 CTTAGATTTGCT-TC-AACGTAA-ACACGTGAAAGCTAAATCAGCTATGT
1 CTTCGATCTGCTCTCTGAC--AATACA-GAG-ACGCCAAATCAGCTA--T
24355683 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCA
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCA
24355722 TCTTAGATTT
Statistics
Matches: 400, Mismatches: 65, Indels: 107
0.70 0.11 0.19
Matches are distributed among these distances:
38 8 0.02
39 20 0.05
40 57 0.14
41 31 0.08
42 3 0.01
43 44 0.11
44 64 0.16
45 54 0.14
46 32 0.08
47 58 0.14
48 20 0.05
49 9 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (44 bp):
CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAGCTAT
Found at i:24355414 original size:41 final size:40
Alignment explanation
Indices: 24355366--24355501 Score: 96
Period size: 41 Copynumber: 3.2 Consensus size: 40
24355356 TACAGAGACA
24355366 CCAAATCATCTTAGATTTGCTTCAACGTAAACACATGATAG
1 CCAAATCATCTTAGATTTGCTTCAACGTAAACACATGA-AG
* * * * * *
24355407 CCAAATCAGCTATATCTTCGATCTGCTCTCTGACG-ATACAGA-GACG
1 CCAAAT---C---ATCTTAGATTTGCT-TC-AACGTAAACACATGAAG
* *
24355453 CCAAATCATCTTAGATTTGCTTCAACATAAACACGTGAAAG
1 CCAAATCATCTTAGATTTGCTTCAACGTAAACACATG-AAG
24355494 CCAAATCA
1 CCAAATCA
24355502 GCTAATTCTT
Statistics
Matches: 70, Mismatches: 14, Indels: 22
0.66 0.13 0.21
Matches are distributed among these distances:
38 2 0.03
39 6 0.09
40 13 0.19
41 16 0.23
43 1 0.01
44 1 0.01
46 7 0.10
47 14 0.20
48 7 0.10
49 3 0.04
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.26
Consensus pattern (40 bp):
CCAAATCATCTTAGATTTGCTTCAACGTAAACACATGAAG
Found at i:24355465 original size:87 final size:87
Alignment explanation
Indices: 24355244--24355808 Score: 809
Period size: 87 Copynumber: 6.5 Consensus size: 87
24355234 CCAAATCTAC
* * *
24355244 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAATCATCTATCTTCGATCTGCTCTCTGAC
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA--ATC-ATCTTAGATTTGCT-TC-AAC
* *
24355309 --AATACA-GAG-ACGCCAAATCAGCTA
61 GTAA-ACACGTGAAAGCCAAATCAGCTA
* *
24355333 TGT-TTCGATCTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAACGTAAA
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAA
* *
24355397 CACATGATAGCCAAATCAGCTA
66 CACGTGAAAGCCAAATCAGCTA
* *
24355419 TATCTTCGATCTGCTCTCTGACGATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACATAAA
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAA
24355484 CACGTGAAAGCCAAATCAGCTA
66 CACGTGAAAGCCAAATCAGCTA
* * *
24355506 -ATTCTTCGATCTGCTCTTTGACAATATAGAGACACCAAATCATCTTAGATTTGCTTCAACGTAA
1 TA-TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAA
24355570 ACACGTGAAAGCCAAATCAGCTA
65 ACACGTGAAAGCCAAATCAGCTA
*
24355593 TGTCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAA
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAA
*
24355658 CACGTGAAAGCTAAATCAGCTA
66 CACGTGAAAGCCAAATCAGCTA
* *
24355680 TGTCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACATAAA
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAA
24355745 CACGTGAAAGCCAAATCAGCTA
66 CACGTGAAAGCCAAATCAGCTA
* * * * *
24355767 TATCTCCGATCTGCTCCCTGTCGAATACAGATATGCCAAATC
1 TATCTTCGATCTGCTCTCTGAC-AATACAGAGACGCCAAATC
24355809 TGTTTCTCCA
Statistics
Matches: 435, Mismatches: 33, Indels: 17
0.90 0.07 0.04
Matches are distributed among these distances:
83 2 0.00
84 5 0.01
85 15 0.03
86 19 0.04
87 342 0.79
88 50 0.11
89 2 0.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (87 bp):
TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAA
CACGTGAAAGCCAAATCAGCTA
Found at i:24366627 original size:17 final size:17
Alignment explanation
Indices: 24366607--24366689 Score: 53
Period size: 18 Copynumber: 4.6 Consensus size: 17
24366597 TATGATAAAC
24366607 AAAATAATATATATAAT
1 AAAATAATATATATAAT
* *
24366624 AAAATGTATAAATATAAT
1 AAAAT-AATATATATAAT
*
24366642 ATATAA-AATATCATATGGAGT
1 A-A-AATAATAT-ATAT--AAT
*
24366663 AAAAT-ATAATATGTAAT
1 AAAATAAT-ATATATAAT
24366680 AAAATAATAT
1 AAAATAATAT
24366690 GAAAACAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 18
0.67 0.09 0.24
Matches are distributed among these distances:
17 14 0.28
18 16 0.32
19 12 0.24
20 5 0.10
21 3 0.06
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (17 bp):
AAAATAATATATATAAT
Found at i:24368307 original size:9 final size:9
Alignment explanation
Indices: 24368293--24368318 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
24368283 TTTTTACAGC
24368293 TTTGGGCCT
1 TTTGGGCCT
24368302 TTTGGGCCT
1 TTTGGGCCT
24368311 TTTGGGCC
1 TTTGGGCC
24368319 CCGTGTAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.23, G:0.35, T:0.42
Consensus pattern (9 bp):
TTTGGGCCT
Found at i:24375233 original size:20 final size:20
Alignment explanation
Indices: 24375196--24375234 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
24375186 TTGTTAAATT
*
24375196 TTATAAAAATCATTAAAAAA
1 TTATAAAAATCATCAAAAAA
24375216 TTAT-AAAATACATCAAAAA
1 TTATAAAAAT-CATCAAAAA
24375235 GACTCTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (20 bp):
TTATAAAAATCATCAAAAAA
Found at i:24375249 original size:19 final size:19
Alignment explanation
Indices: 24375227--24375264 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
24375217 TATAAAATAC
24375227 ATCAAAAAGACTCTTTAAT
1 ATCAAAAAGACTCTTTAAT
24375246 ATCAAAAAGACTCTTTAAT
1 ATCAAAAAGACTCTTTAAT
24375265 CATTAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (19 bp):
ATCAAAAAGACTCTTTAAT
Done.