Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 76 of 153
Found at i:24143315 original size:18 final size:18
Alignment explanation
Indices: 24143166--24143303 Score: 73
Period size: 18 Copynumber: 7.3 Consensus size: 18
24143156 TATACTTATG
24143166 ATTTTATTAAATTCATATA
1 ATTTTATTAAATT-ATATA
*** *
24143185 AGAATATTTAATATTA-AGA
1 ATTTTA-TTAA-ATTATATA
24143204 ATTTTATTAAATTATATA
1 ATTTTATTAAATTATATA
*
24143222 TTTTTATTAAATTATATTTA
1 ATTTTATTAAATTATA--TA
* * ** * *
24143242 ATAATAATTATTTTAAATT
1 AT-TTTATTAAATTATATA
* *
24143261 ATATTATATAGTATTATATA
1 ATTTTAT-TA-AATTATATA
24143281 ATTTTATTAAATTATAT-
1 ATTTTATTAAATTATATA
24143298 ATTTTA
1 ATTTTA
24143304 ATTATAATAT
Statistics
Matches: 89, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
17 10 0.11
18 32 0.36
19 15 0.17
20 20 0.22
21 12 0.13
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTTTATTAAATTATATA
Found at i:24143504 original size:39 final size:40
Alignment explanation
Indices: 24143461--24143567 Score: 128
Period size: 45 Copynumber: 2.6 Consensus size: 40
24143451 TTTTCCATTA
*
24143461 TGCTATTACACCTCTATTCCATTCAACCAAACACA-AGA-T
1 TGCTATTACGCCTCTATTCCATTCAACCAAACA-ATAGATT
*
24143500 TGCTATTACGCCTCTATTCCATTACATTCAACCAAACAATTGATT
1 TGCTATTACGCCTCTATT-C----CATTCAACCAAACAATAGATT
24143545 TGCTATTACGCCTCTATTCCATT
1 TGCTATTACGCCTCTATTCCATT
24143568 ACGCCTCTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 13
0.80 0.03 0.18
Matches are distributed among these distances:
39 17 0.29
40 5 0.08
43 1 0.02
44 17 0.29
45 19 0.32
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.35
Consensus pattern (40 bp):
TGCTATTACGCCTCTATTCCATTCAACCAAACAATAGATT
Found at i:24143557 original size:45 final size:44
Alignment explanation
Indices: 24143480--24143569 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 44
24143470 ACCTCTATTC
24143480 CATTCAACCAAACACAAGATTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTGCTATTACGCCTCTATTCCATTA
*
24143524 CATTCAACCAAACA-ATTGATTTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACA-AGA-TTGCTATTACGCCTCTATTCCATTA
24143569 C
1 C
24143570 GCCTCTAATC
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.37
45 26 0.60
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTGCTATTACGCCTCTATTCCATTA
Found at i:24143570 original size:16 final size:16
Alignment explanation
Indices: 24143549--24143597 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
24143539 TTGATTTGCT
24143549 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
24143565 ATTACGCCTCTAATCC
1 ATTACGCCTCTATTCC
24143581 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
24143597 A
1 A
24143598 ATACAGCGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.22, C:0.37, G:0.06, T:0.35
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:24143798 original size:17 final size:17
Alignment explanation
Indices: 24143772--24143805 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24143762 GGATTGTTGG
*
24143772 ATTTTTTTATTGTTATT
1 ATTTTCTTATTGTTATT
*
24143789 ATTTTCTTATTTTTATT
1 ATTTTCTTATTGTTATT
24143806 TTAATTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (17 bp):
ATTTTCTTATTGTTATT
Found at i:24149398 original size:50 final size:50
Alignment explanation
Indices: 24149336--24149570 Score: 227
Period size: 50 Copynumber: 4.6 Consensus size: 50
24149326 CAATGTCATA
* * ** * *
24149336 TCCCAAATATGGTCTTACATTGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
** * * *
24149386 TCCCAAACATGGTCTTACGGGGGACCTCTCATTTTGGTGCCAACGCTATG
1 TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
* * *
24149436 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCAAG
1 TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
* * * *
24149486 TCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGCCATG
1 TCCCAAACATGGTCTTACATGGGACCTCTCATA---TC---GGTGCCAACGCCATG
* * *
24149542 TCCTAGACATGGTCTTACATGGGATCTCT
1 TCCCAAACATGGTCTTACATGGGACCTCT
24149571 TTACCCAAAT
Statistics
Matches: 153, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
50 113 0.74
53 2 0.01
56 38 0.25
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
Found at i:24155311 original size:71 final size:72
Alignment explanation
Indices: 24155224--24155357 Score: 216
Period size: 71 Copynumber: 1.9 Consensus size: 72
24155214 TTTATTATTG
* *
24155224 TTATTATTGTAAATTATATGATTTGATGTTTTAAATTCATCAATCGAAAAT-TATTCACTTGAAG
1 TTATTATTGTAAATTATATAATTTGATGTTTTAAACTCATCAATCGAAAATATATTCACTTGAAG
24155288 TTATTTA
66 TTATTTA
* **
24155295 TTATTATTGTGAATTATATAATTTGATGTTTTAAACTCATCAATTTAAAATATATTCACTTGA
1 TTATTATTGTAAATTATATAATTTGATGTTTTAAACTCATCAATCGAAAATATATTCACTTGA
24155358 TATTTTTAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
71 46 0.81
72 11 0.19
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (72 bp):
TTATTATTGTAAATTATATAATTTGATGTTTTAAACTCATCAATCGAAAATATATTCACTTGAAG
TTATTTA
Found at i:24167478 original size:17 final size:17
Alignment explanation
Indices: 24167456--24167495 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
24167446 TATAACCGTG
*
24167456 TGGGCCACACGGGCATA
1 TGGGCCACACGGGAATA
24167473 TGGGCCACACGGGAATA
1 TGGGCCACACGGGAATA
24167490 TGGGCC
1 TGGGCC
24167496 CATATGAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (17 bp):
TGGGCCACACGGGAATA
Found at i:24167543 original size:35 final size:35
Alignment explanation
Indices: 24167453--24167544 Score: 96
Period size: 35 Copynumber: 2.7 Consensus size: 35
24167443 GGGTATAACC
** *
24167453 GTGTGGG-CCACACGGGCATATGGGCCACACGGGA
1 GTGTGGGCCCACACGAACGTATGGGCCACACGGGA
* * * * *
24167487 ATATGGGCCCATATGAACGTATGGGCCACATGGGA
1 GTGTGGGCCCACACGAACGTATGGGCCACACGGGA
*
24167522 GTGTGGGCCCACACGATCGTATG
1 GTGTGGGCCCACACGAACGTATG
24167545 TGTTTGGGCC
Statistics
Matches: 44, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
34 5 0.11
35 39 0.89
ACGTcount: A:0.23, C:0.24, G:0.36, T:0.17
Consensus pattern (35 bp):
GTGTGGGCCCACACGAACGTATGGGCCACACGGGA
Found at i:24169055 original size:15 final size:15
Alignment explanation
Indices: 24169037--24169081 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
24169027 AACTTTAACT
*
24169037 CAAAAAATCCAAACC
1 CAAAAAATTCAAACC
24169052 CAAAAAATTTCAAA-C
1 CAAAAAA-TTCAAACC
24169067 CAAAAGAATTCAAAC
1 CAAAA-AATTCAAAC
24169082 AAAATCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.60, C:0.24, G:0.02, T:0.13
Consensus pattern (15 bp):
CAAAAAATTCAAACC
Found at i:24175444 original size:11 final size:11
Alignment explanation
Indices: 24175428--24175459 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
24175418 ACCCCAAACA
24175428 TATACATATCT
1 TATACATATCT
24175439 TATACATATCT
1 TATACATATCT
*
24175450 TATACTTATC
1 TATACATATC
24175460 ATGATCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (11 bp):
TATACATATCT
Found at i:24184569 original size:20 final size:20
Alignment explanation
Indices: 24184544--24184581 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24184534 ATAAAAAATT
*
24184544 AAAAAAATTAATTGAGCTAA
1 AAAAAAATTAATAGAGCTAA
*
24184564 AAAAAACTTAATAGAGCT
1 AAAAAAATTAATAGAGCT
24184582 TTCAATGCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.08, G:0.11, T:0.24
Consensus pattern (20 bp):
AAAAAAATTAATAGAGCTAA
Found at i:24185071 original size:3 final size:3
Alignment explanation
Indices: 24185063--24185087 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
24185053 AACTACATAA
24185063 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
24185088 TGATAGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:24187066 original size:24 final size:24
Alignment explanation
Indices: 24187039--24187116 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
24187029 TTTGGTATAC
24187039 GAACCCCCATATGTTTTAATTTGT
1 GAACCCCCATATGTTTTAATTTGT
** * * * *
24187063 GAACCCTAATATGATTTAGTATAT
1 GAACCCCCATATGTTTTAATTTGT
24187087 GAACCCCCATATGTTTT-ATTATGT
1 GAACCCCCATATGTTTTAATT-TGT
24187111 GAACCC
1 GAACCC
24187117 TTATGGATTT
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
23 1 0.02
24 40 0.98
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (24 bp):
GAACCCCCATATGTTTTAATTTGT
Found at i:24187085 original size:48 final size:47
Alignment explanation
Indices: 24187027--24187179 Score: 166
Period size: 48 Copynumber: 3.2 Consensus size: 47
24187017 AACACTTATG
*
24187027 GATTTGGTATACGAACCCCCATATGTTTTAATT-TGTGAACCCTAATAT
1 GATTTAGTATACGAACCCCCATATGTTTT-ATTATGTGAACCCT-ATAT
*
24187075 GATTTAGTATATGAACCCCCATATGTTTTATTATGTGAACCCT-TAT
1 GATTTAGTATACGAACCCCCATATGTTTTATTATGTGAACCCTATAT
* * ** * * * *
24187121 GGATTTAATATGCGAACCCTTATGTGATTTATTATGCGAACCCTCATGT
1 -GATTTAGTATACGAACCCCCATATGTTTTATTATGTGAACCCT-ATAT
24187170 GATTTAGTAT
1 GATTTAGTAT
24187180 GTAAACCTTA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
46 3 0.03
47 38 0.43
48 46 0.52
49 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (47 bp):
GATTTAGTATACGAACCCCCATATGTTTTATTATGTGAACCCTATAT
Found at i:24187181 original size:71 final size:70
Alignment explanation
Indices: 24187053--24187190 Score: 159
Period size: 71 Copynumber: 2.0 Consensus size: 70
24187043 CCCCATATGT
* * * * * *
24187053 TTTAATTTGTGAACCCTAATATGATTTAGTATATGAACCCCCATATGTTTTATTATGTGAACCCT
1 TTTAATATGCGAACCCTAATATGATTTAGTATACGAACCCCCATATGATTTAGTATGT-AAACCT
24187118 TATGGA
65 TATGGA
* * * * * *
24187124 TTTAATATGCGAACCCTTATGTGATTTATTATGCGAACCCTCATGTGATTTAGTATGTAAACCTT
1 TTTAATATGCGAACCCTAATATGATTTAGTATACGAACCCCCATATGATTTAGTATGTAAACCTT
24187189 AT
66 AT
24187191 ATGCGAACCA
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
70 8 0.15
71 47 0.85
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (70 bp):
TTTAATATGCGAACCCTAATATGATTTAGTATACGAACCCCCATATGATTTAGTATGTAAACCTT
ATGGA
Found at i:24187186 original size:24 final size:24
Alignment explanation
Indices: 24187060--24187186 Score: 121
Period size: 24 Copynumber: 5.3 Consensus size: 24
24187050 TGTTTTAATT
* *
24187060 TGTGAACCCTAATATGATTTAGTA
1 TGTGAACCCTCATGTGATTTAGTA
* * * * *
24187084 TATGAACCCCCATATGTTTTATTA
1 TGTGAACCCTCATGTGATTTAGTA
* *
24187108 TGTGAACCCTTATG-GATTTAATA
1 TGTGAACCCTCATGTGATTTAGTA
* * *
24187131 TGCGAACCCTTATGTGATTTATTA
1 TGTGAACCCTCATGTGATTTAGTA
*
24187155 TGCGAACCCTCATGTGATTTAGTA
1 TGTGAACCCTCATGTGATTTAGTA
*
24187179 TGTAAACC
1 TGTGAACC
24187187 TTATATGCGA
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
23 20 0.24
24 65 0.76
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (24 bp):
TGTGAACCCTCATGTGATTTAGTA
Found at i:24187189 original size:47 final size:47
Alignment explanation
Indices: 24187101--24187190 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 47
24187091 CCCCATATGT
* * *
24187101 TTTATTATGTGAACCCTTATGGATTTAATATGCGAACCCTTATGTGA
1 TTTATTATGCGAACCCTCATGGATTTAATATGCGAAACCTTATGTGA
* *
24187148 TTTATTATGCGAACCCTCATGTGATTTAGTATG-TAAACCTTAT
1 TTTATTATGCGAACCCTCATG-GATTTAATATGCGAAACCTTAT
24187191 ATGCGAACCA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
47 27 0.73
48 10 0.27
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (47 bp):
TTTATTATGCGAACCCTCATGGATTTAATATGCGAAACCTTATGTGA
Found at i:24188026 original size:3 final size:3
Alignment explanation
Indices: 24188018--24188151 Score: 259
Period size: 3 Copynumber: 44.7 Consensus size: 3
24188008 AGCATCTAGT
24188018 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
24188066 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24188114 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24188152 TCCATTGAAG
Statistics
Matches: 129, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 129 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24188750 original size:37 final size:40
Alignment explanation
Indices: 24188704--24188795 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 40
24188694 AAATTTGTGC
*
24188704 TTAAAAATAACAT-ATAATAA-ATAATAAA-ATGTATGAT-
1 TTAAAAATAA-ATAATAATAACACAATAAATATGTATGATA
* *
24188741 TTAAAAATAATTAATAATAACACATTAAATATGTATGATA
1 TTAAAAATAAATAATAATAACACAATAAATATGTATGATA
24188781 TT-AAAATAAA-AATAA
1 TTAAAAATAAATAATAA
24188796 ATTAAATTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
36 1 0.02
37 17 0.36
38 11 0.23
39 16 0.34
40 2 0.04
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (40 bp):
TTAAAAATAAATAATAATAACACAATAAATATGTATGATA
Found at i:24192832 original size:25 final size:26
Alignment explanation
Indices: 24192802--24192859 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
24192792 ACAGCTCTTA
24192802 TGAGCTTCCCGATT-A-TGGCTCTTTG
1 TGAGCTTCCCG-TTAATTGGCTCTTTG
*
24192827 TGAGCTTCTCGTTAATTGGCTCTTTG
1 TGAGCTTCCCGTTAATTGGCTCTTTG
24192853 TGAGCTT
1 TGAGCTT
24192860 TTCTATAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 2 0.07
25 11 0.37
26 17 0.57
ACGTcount: A:0.12, C:0.21, G:0.24, T:0.43
Consensus pattern (26 bp):
TGAGCTTCCCGTTAATTGGCTCTTTG
Found at i:24192967 original size:24 final size:25
Alignment explanation
Indices: 24192935--24192983 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
24192925 AGAGCTACCC
24192935 AATATTGGCTCGCATGAGCTTCCTG
1 AATATTGGCTCGCATGAGCTTCCTG
**
24192960 AATA-TGGCTCTTATGAGCTTCCTG
1 AATATTGGCTCGCATGAGCTTCCTG
24192984 TTATACAGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (25 bp):
AATATTGGCTCGCATGAGCTTCCTG
Found at i:24195158 original size:35 final size:35
Alignment explanation
Indices: 24195110--24195181 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
24195100 ATTCCACAAC
* *
24195110 ATAAACCCATCATTGGAATCGGTCTTTGTTTATGG
1 ATAAACCCATCATTGGAATCAGTCTTTGTCTATGG
* *
24195145 ATAAACTCGTCATTGGAATCAGTCTTTGTCTATGG
1 ATAAACCCATCATTGGAATCAGTCTTTGTCTATGG
24195180 AT
1 AT
24195182 TCACAATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (35 bp):
ATAAACCCATCATTGGAATCAGTCTTTGTCTATGG
Found at i:24196575 original size:42 final size:43
Alignment explanation
Indices: 24196502--24196586 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 43
24196492 TATGTTCTAT
*
24196502 AACCACACGGGCATAGGACAAAGGCATGTGTCCAAGCCGTGTG
1 AACCACACGGGCATAGGACAAAGGCATGTGTCCAAGCCATGTG
** * *
24196545 AACCACACGGGCA-AGGACATGGGCGTGTGTCCAGGCCATGTG
1 AACCACACGGGCATAGGACAAAGGCATGTGTCCAAGCCATGTG
24196587 GCATATAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 24 0.65
43 13 0.35
ACGTcount: A:0.27, C:0.26, G:0.33, T:0.14
Consensus pattern (43 bp):
AACCACACGGGCATAGGACAAAGGCATGTGTCCAAGCCATGTG
Found at i:24205526 original size:31 final size:32
Alignment explanation
Indices: 24205491--24205559 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
24205481 GTATAACAAT
24205491 ATTTTGAGATAAATATTA-AATTT-ATACATAA
1 ATTTTGAGATAAATA-TACAATTTAATACATAA
* *
24205522 ATTTTG-GTTTAATATACAATTTAATACATAA
1 ATTTTGAGATAAATATACAATTTAATACATAA
24205553 ATTTTGA
1 ATTTTGA
24205560 TTTGACGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 2 0.06
30 11 0.33
31 20 0.61
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.45
Consensus pattern (32 bp):
ATTTTGAGATAAATATACAATTTAATACATAA
Found at i:24205811 original size:37 final size:37
Alignment explanation
Indices: 24205761--24205836 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
24205751 TATTTAGCTC
*
24205761 AACAATGAATGTCATATTACTTGGGAAA-GTCACATGG
1 AACAATAAATGTCATATTA-TTGGGAAACGTCACATGG
* *
24205798 AACAATAAATGTCATATTATTTGGAAACTTCACATGG
1 AACAATAAATGTCATATTATTGGGAAACGTCACATGG
24205835 AA
1 AA
24205837 GGTTAGATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
36 7 0.20
37 28 0.80
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (37 bp):
AACAATAAATGTCATATTATTGGGAAACGTCACATGG
Found at i:24207153 original size:28 final size:28
Alignment explanation
Indices: 24207113--24207169 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
24207103 ATAAATAAAG
24207113 TAAATTTCACATTTCATTATTATGTATT
1 TAAATTTCACATTTCATTATTATGTATT
24207141 TAAATTTCACATTTCATTATTATGTATT
1 TAAATTTCACATTTCATTATTATGTATT
24207169 T
1 T
24207170 TGTGTTTCTG
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:0.32, C:0.11, G:0.04, T:0.54
Consensus pattern (28 bp):
TAAATTTCACATTTCATTATTATGTATT
Found at i:24208912 original size:61 final size:61
Alignment explanation
Indices: 24208779--24208909 Score: 196
Period size: 61 Copynumber: 2.2 Consensus size: 61
24208769 CAAAAATAAT
* * **
24208779 ATTATTTTAATAGTTTTAATATTAAATTTAATCTAATAATTATCTTATAGATAAGTATTCT
1 ATTAATTTAATAGATTTAATATTAAATTTAATCTAATAATTATCTTATAGATAAGTATTAA
*
24208840 ATTAATTTAATAGATTTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAGTATTAA
1 ATTAATTTAATAGATTTAATATTAAATTTAATCTAATAATTATCTTATAGATAAGTATTAA
24208898 ATTAATTTAATA
1 ATTAATTTAATA
24208910 ATAAAGTGAT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
58 22 0.34
59 1 0.02
60 1 0.02
61 41 0.63
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.50
Consensus pattern (61 bp):
ATTAATTTAATAGATTTAATATTAAATTTAATCTAATAATTATCTTATAGATAAGTATTAA
Found at i:24210080 original size:68 final size:68
Alignment explanation
Indices: 24209824--24210072 Score: 372
Period size: 68 Copynumber: 3.7 Consensus size: 68
24209814 TCCGTTAGGT
* **
24209824 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATGAAGTTTTCCAG
1 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTTCGCCAG
*
24209889 GAC
66 AAC
* * * *
24209892 AACAAAAATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTCCGCCAA
1 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTTCGCCAG
24209957 AAC
66 AAC
* * * *
24209960 AATAAACATGGGATCATATTGTGTAAAACCACAACTATGCTATAGTAACATATAAAGTTCGCCAG
1 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTTCGCCAG
24210025 AAC
66 AAC
* *
24210028 AATAAACATGGGATCATATTGTTTAAGACCACAGCTAGGCTATGG
1 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGG
24210073 TGCCATATGA
Statistics
Matches: 160, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 160 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (68 bp):
AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTTCGCCAG
AAC
Found at i:24212769 original size:21 final size:21
Alignment explanation
Indices: 24212744--24212800 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
24212734 ACCAAGAAGT
*
24212744 GGTATCAATACTTTGGGTA-AG
1 GGTATCAATACTTT-GATAGAG
* * *
24212765 GGTATTATTACCTT-ATAGAG
1 GGTATCAATACTTTGATAGAG
24212785 GGTATCAATACTTTGA
1 GGTATCAATACTTTGA
24212801 CCCTTGGGAG
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
19 2 0.07
20 13 0.48
21 12 0.44
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.37
Consensus pattern (21 bp):
GGTATCAATACTTTGATAGAG
Found at i:24216591 original size:23 final size:25
Alignment explanation
Indices: 24216550--24216597 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
24216540 TTATCTTTTG
* *
24216550 TATTATTATATTAAGTTTCTTCATA
1 TATTAATATATTAAGTTTCATCATA
24216575 TATTAATAT-TTAA-TTTCATCATA
1 TATTAATATATTAAGTTTCATCATA
24216598 AATCATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 4 0.19
25 8 0.38
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.54
Consensus pattern (25 bp):
TATTAATATATTAAGTTTCATCATA
Found at i:24219819 original size:24 final size:24
Alignment explanation
Indices: 24219787--24219835 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
24219777 AAAAAAAACA
24219787 CATAAAAAATTTCTTTCTATTCTT
1 CATAAAAAATTTCTTTCTATTCTT
24219811 CATAAAAAATTTCTTTCTATTCTT
1 CATAAAAAATTTCTTTCTATTCTT
24219835 C
1 C
24219836 CACTATCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (24 bp):
CATAAAAAATTTCTTTCTATTCTT
Found at i:24221448 original size:21 final size:21
Alignment explanation
Indices: 24221423--24221473 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
24221413 CTTGCACAAA
24221423 GTATCAATATCTTTGTAATAC
1 GTATCAATATCTTTGTAATAC
* * * *
24221444 GTATCAATATTTTTTTATTAG
1 GTATCAATATCTTTGTAATAC
24221465 GTATCAATA
1 GTATCAATA
24221474 CCAAATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (21 bp):
GTATCAATATCTTTGTAATAC
Found at i:24224103 original size:17 final size:17
Alignment explanation
Indices: 24224077--24224112 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
24224067 AAAATTAAAT
* *
24224077 ATTTTGATATGACACTA
1 ATTTTAATATAACACTA
24224094 ATTTTAATATAACACTA
1 ATTTTAATATAACACTA
24224111 AT
1 AT
24224113 GACTTTGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.42
Consensus pattern (17 bp):
ATTTTAATATAACACTA
Found at i:24224928 original size:26 final size:26
Alignment explanation
Indices: 24224872--24224928 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
24224862 GTGATTATGT
*
24224872 ATTATCCACACAAACATCTTTCATTC
1 ATTATCCACACAAACATCTTTCATCC
* *
24224898 ATTATCCACTCACACA-CTTTTCATCC
1 ATTATCCACACAAACATC-TTTCATCC
*
24224924 TTTAT
1 ATTAT
24224929 AGAGGAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.39
Consensus pattern (26 bp):
ATTATCCACACAAACATCTTTCATCC
Found at i:24236999 original size:28 final size:28
Alignment explanation
Indices: 24236968--24237032 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
24236958 ATTTAAGAAA
**
24236968 TAAATATAATATATGTAAATTAA-AATAT
1 TAAA-ATAATATAAATAAATTAACAATAT
*
24236996 TAAAATAAATTTAAATAAATTAACAATAT
1 TAAAAT-AATATAAATAAATTAACAATAT
24237025 TAAAATAA
1 TAAAATAA
24237033 GTTGAAGTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.06
28 19 0.59
29 11 0.34
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (28 bp):
TAAAATAATATAAATAAATTAACAATAT
Found at i:24237045 original size:29 final size:28
Alignment explanation
Indices: 24236983--24237079 Score: 99
Period size: 29 Copynumber: 3.5 Consensus size: 28
24236973 ATAATATATG
*
24236983 TAAATTAAAATATTAAAATAAATTTAAA
1 TAAATTAAAATATTAAAATAAATTGAAA
* *
24237011 TAAATTAACAATATTAAAATAAGTTGAAG
1 TAAATTAA-AATATTAAAATAAATTGAAA
* * *
24237040 TGAATTAAAGATGTTAAAAT-ATTTGAAA
1 TAAATTAAA-ATATTAAAATAAATTGAAA
*
24237068 GAAA-TAAAATAT
1 TAAATTAAAATAT
24237080 CTATATAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.05
27 4 0.07
28 17 0.30
29 33 0.58
ACGTcount: A:0.58, C:0.01, G:0.08, T:0.33
Consensus pattern (28 bp):
TAAATTAAAATATTAAAATAAATTGAAA
Found at i:24238848 original size:50 final size:50
Alignment explanation
Indices: 24238780--24238961 Score: 204
Period size: 50 Copynumber: 3.6 Consensus size: 50
24238770 AATCTATTTT
* * *
24238780 ACTACAACGTCGGAGAAGTAAAATTCGTTGTTGTAGCTTTAACCCGCTTC
1 ACTACAACGTCGGAGAAGTAAGATTCGCTGTTGTAGCTTTAACCTGCTTC
* * * * ** ** *
24238830 ACTACAACGCCGGGGAAGTAAGATTCACTGTTGTAACTTTAGTCTATTTT
1 ACTACAACGTCGGAGAAGTAAGATTCGCTGTTGTAGCTTTAACCTGCTTC
** *
24238880 ACTGTAACGTCGGAGAAGTAAGATTCGTTGTTGTAGCTTTAACCTGCTTC
1 ACTACAACGTCGGAGAAGTAAGATTCGCTGTTGTAGCTTTAACCTGCTTC
*
24238930 ACTACAACGTC-GAGGAAATAAGATTCGCTGTT
1 ACTACAACGTCGGA-GAAGTAAGATTCGCTGTT
24238962 ATAACCTCAA
Statistics
Matches: 103, Mismatches: 28, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
49 2 0.02
50 101 0.98
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.31
Consensus pattern (50 bp):
ACTACAACGTCGGAGAAGTAAGATTCGCTGTTGTAGCTTTAACCTGCTTC
Found at i:24238889 original size:100 final size:100
Alignment explanation
Indices: 24238740--24238966 Score: 312
Period size: 100 Copynumber: 2.3 Consensus size: 100
24238730 TGCATCTTCA
* * *
24238740 GAGGAAATAAGATTCATTGCCTT-CAGCTTTAATCTATTTTACTACAACGTCGGAGAAGTAAAAT
1 GAGGAAATAAGATTCACTG--TTATAACTTTAATCTATTTTACTACAACGTCGGAGAAGTAAAAT
24238804 TCGTTGTTGTAGCTTTAACCCGCTTCACTACAACGCC
64 TCGTTGTTGTAGCTTTAACCCGCTTCACTACAACGCC
* * * * ** *
24238841 GGGGAAGTAAGATTCACTGTTGTAACTTTAGTCTATTTTACTGTAACGTCGGAGAAGTAAGATTC
1 GAGGAAATAAGATTCACTGTTATAACTTTAATCTATTTTACTACAACGTCGGAGAAGTAAAATTC
* *
24238906 GTTGTTGTAGCTTTAACCTGCTTCACTACAACGTC
66 GTTGTTGTAGCTTTAACCCGCTTCACTACAACGCC
*
24238941 GAGGAAATAAGATTCGCTGTTATAAC
1 GAGGAAATAAGATTCACTGTTATAAC
24238967 CTCAATCTGC
Statistics
Matches: 110, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
99 2 0.02
100 92 0.84
101 16 0.15
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (100 bp):
GAGGAAATAAGATTCACTGTTATAACTTTAATCTATTTTACTACAACGTCGGAGAAGTAAAATTC
GTTGTTGTAGCTTTAACCCGCTTCACTACAACGCC
Found at i:24238977 original size:50 final size:49
Alignment explanation
Indices: 24238766--24238983 Score: 193
Period size: 50 Copynumber: 4.4 Consensus size: 49
24238756 TTGCCTTCAG
** * * * *
24238766 CTTTAATCTATTTTACTACAACGTCGGAGAAGTAAAATTCGTTGTTGTAG
1 CTTTAATCTGCTTCACTACAACGTCGG-GAAGTAAGATTCGCTGTTGTAA
* * * *
24238816 CTTTAACCCGCTTCACTACAACGCCGGGGAAGTAAGATTCACTGTTGTAA
1 CTTTAATCTGCTTCACTACAACGTC-GGGAAGTAAGATTCGCTGTTGTAA
* ** * ** * *
24238866 CTTTAGTCTATTTTACTGTAACGTCGGAGAAGTAAGATTCGTTGTTGTAG
1 CTTTAATCTGCTTCACTACAACGTCGG-GAAGTAAGATTCGCTGTTGTAA
* * *
24238916 CTTTAACCTGCTTCACTACAACGTCGAGGAAATAAGATTCGCTGTTATAA
1 CTTTAATCTGCTTCACTACAACGTCG-GGAAGTAAGATTCGCTGTTGTAA
* *
24238966 CCTCAATCTGCTTCACTA
1 CTTTAATCTGCTTCACTA
24238984 TTGCTCAGAG
Statistics
Matches: 129, Mismatches: 36, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
49 2 0.02
50 124 0.96
51 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (49 bp):
CTTTAATCTGCTTCACTACAACGTCGGGAAGTAAGATTCGCTGTTGTAA
Found at i:24239208 original size:132 final size:132
Alignment explanation
Indices: 24238993--24239364 Score: 573
Period size: 132 Copynumber: 2.8 Consensus size: 132
24238983 ATTGCTCAGA
* * * *
24238993 GAGACATGATCTACAATCTTCAACCTACTCCGCTGGTGCTCAGGGAGATAGGACTGGTGGTTTAA
1 GAGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAA
* * ** *
24239058 ATCTACTTCCCTACTACCTTGGGAAGGTAAGATTCACTGTCTTTGATCTGCTCCACTACTACTTA
66 ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTTGGATCTGCTCCACTACTACTTA
24239123 GG
131 GG
* * * * *
24239125 GAGACGAGATCTACATTCTTTAACCTACTCCACTGCTGCTCAGGGAGATAGAATTGGTGGCTTAA
1 GAGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAA
24239190 ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTTGGATCTGCTCCACTACTACTTA
66 ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTTGGATCTGCTCCACTACTACTTA
24239255 GG
131 GG
* * *
24239257 GAGACAAGATCCACAATCTTCAACCTACTCCACTGCTGCTTAGGGAGACAGGACTGGTGGCTTAA
1 GAGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAA
* *
24239322 ATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCATCTT
66 ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTT
24239365 CTTCAATCCA
Statistics
Matches: 216, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 216 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (132 bp):
GAGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAA
ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTTGGATCTGCTCCACTACTACTTA
GG
Found at i:24239241 original size:45 final size:44
Alignment explanation
Indices: 24239190--24239306 Score: 112
Period size: 44 Copynumber: 2.6 Consensus size: 44
24239180 GGTGGCTTAA
* * *
24239190 ATCTGCTTCC-CTACTACCTT-GGGAAGATAAGATTCACCATCTTGG
1 ATCTGC-TCCACTACTA-CTTAGGG-AGACAAGATCCACAATCTTGG
**
24239235 ATCTGCTCCACTACTACTTAGGGAGACAAGATCCACAATCTTCA
1 ATCTGCTCCACTACTACTTAGGGAGACAAGATCCACAATCTTGG
* * * *
24239279 ACCTACTCCACTGCTGCTTAGGGAGACA
1 ATCTGCTCCACTACTACTTAGGGAGACA
24239307 GGACTGGTGG
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
44 46 0.75
45 15 0.25
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.26
Consensus pattern (44 bp):
ATCTGCTCCACTACTACTTAGGGAGACAAGATCCACAATCTTGG
Found at i:24240361 original size:26 final size:26
Alignment explanation
Indices: 24240307--24240361 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
24240297 AGTATCTTGA
* *
24240307 AAAGAATAAAGTATTCCAAGAATAGC
1 AAAGAATAAAGTATTCCAAGAACAAC
* *
24240333 AAAGAATAAATTATTCCAAGGACAAC
1 AAAGAATAAAGTATTCCAAGAACAAC
24240359 AAA
1 AAA
24240362 ATCAATATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.56, C:0.13, G:0.13, T:0.18
Consensus pattern (26 bp):
AAAGAATAAAGTATTCCAAGAACAAC
Found at i:24242850 original size:50 final size:49
Alignment explanation
Indices: 24242733--24242923 Score: 186
Period size: 50 Copynumber: 3.7 Consensus size: 49
24242723 AAAGAGATCA
* *
24242733 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCC
1 CATGTAAGACCATGTCTAGGACATGGC-TTGGCA-CC--GAG---ATGAGAAGTCC
* *
24242789 CATGGAAGACCATGTCTACGACATGGCGTTGGCACCGAGATGAGAAGTCC
1 CATGTAAGACCATGTCTAGGACATGGC-TTGGCACCGAGATGAGAAGTCC
* * * *
24242839 CCTGTAAGACCATGTCT-GAGACATGGCATGGACACCGATATGAGAACATCC
1 CATGTAAGACCATGTCTAG-GACATGGCTTGG-CACCGAGATGAGAA-GTCC
*
24242890 CATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTAGGACATGGC-TTGGCA
24242924 TGTTATGATC
Statistics
Matches: 117, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
49 3 0.03
50 46 0.39
51 29 0.25
52 4 0.03
53 3 0.03
55 2 0.02
56 30 0.26
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (49 bp):
CATGTAAGACCATGTCTAGGACATGGCTTGGCACCGAGATGAGAAGTCC
Found at i:24250329 original size:50 final size:50
Alignment explanation
Indices: 24250218--24250466 Score: 273
Period size: 50 Copynumber: 4.8 Consensus size: 50
24250208 ATTTGGGTAA
* *
24250218 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* * *
24250274 AGAGGTCCCATGTAAGATCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** *
24250324 AGAGGTCCCATGGAAGACCATGTCTACGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
24250374 AGAGGTCCCCCGTAAGACCATGTCTGGGCCATGGCATCGGCACCCATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
24250424 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
24250467 TGTTATGATC
Statistics
Matches: 165, Mismatches: 27, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
50 90 0.55
51 33 0.20
53 3 0.02
55 1 0.01
56 38 0.23
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:24260686 original size:34 final size:34
Alignment explanation
Indices: 24260643--24260710 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
24260633 CTATGGCTGC
*
24260643 ATTTCGAAAGCGGTCCACTATCCTGCACGGAGGT
1 ATTTCGAAAGCAGTCCACTATCCTGCACGGAGGT
*
24260677 ATTTCGAAAGCAGTCCACTATCCTGCATGGAGGT
1 ATTTCGAAAGCAGTCCACTATCCTGCACGGAGGT
24260711 GAAAACCTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (34 bp):
ATTTCGAAAGCAGTCCACTATCCTGCACGGAGGT
Found at i:24261826 original size:28 final size:28
Alignment explanation
Indices: 24261795--24261887 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 28
24261785 ATTTAAGAAA
**
24261795 TAAATATAATATATGTAAATT-AAAATAT
1 TAAA-ATAATATAAATAAATTAAAAATAT
*
24261823 TAAAATAAATTTAAATAAATTAAAAATAT
1 TAAAAT-AATATAAATAAATTAAAAATAT
* * *
24261852 TAAAATAAGT-TGAAATGAATTAAAGATTT
1 TAAAATAA-TAT-AAATAAATTAAAAATAT
24261881 TAAAATA
1 TAAAATA
24261888 TTTGAAAGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
27 2 0.04
28 18 0.33
29 35 0.64
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (28 bp):
TAAAATAATATAAATAAATTAAAAATAT
Found at i:24261833 original size:18 final size:19
Alignment explanation
Indices: 24261810--24261887 Score: 54
Period size: 19 Copynumber: 4.1 Consensus size: 19
24261800 ATAATATATG
24261810 TAAATTAAA-ATATTAAAA
1 TAAATTAAAGATATTAAAA
* *
24261828 TAAATTTAAATAAATTAAAA
1 TAAA-TTAAAGATATTAAAA
* *
24261848 -ATATTAAA-ATAAGTTGAAA
1 TAAATTAAAGAT-A-TTAAAA
* *
24261867 TGAATTAAAGATTTTAAAA
1 TAAATTAAAGATATTAAAA
24261886 TA
1 TA
24261888 TTTGAAAGAA
Statistics
Matches: 45, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
17 1 0.02
18 10 0.22
19 18 0.40
20 14 0.31
21 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
TAAATTAAAGATATTAAAA
Found at i:24261848 original size:29 final size:29
Alignment explanation
Indices: 24261810--24261903 Score: 104
Period size: 29 Copynumber: 3.3 Consensus size: 29
24261800 ATAATATATG
*
24261810 TAAATT-AAAATATTAAAATAAATTTAAA
1 TAAATTAAAAATATTAAAATAAATTGAAA
*
24261838 TAAATTAAAAATATTAAAATAAGTTGAAA
1 TAAATTAAAAATATTAAAATAAATTGAAA
* * * *
24261867 TGAATTAAAGATTTTAAAAT-ATTTGAAA
1 TAAATTAAAAATATTAAAATAAATTGAAA
*
24261895 GAAA-TAAAA
1 TAAATTAAAA
24261904 TATCTATATA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
27 4 0.07
28 15 0.27
29 37 0.66
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (29 bp):
TAAATTAAAAATATTAAAATAAATTGAAA
Found at i:24261849 original size:11 final size:10
Alignment explanation
Indices: 24261810--24261875 Score: 66
Period size: 10 Copynumber: 6.9 Consensus size: 10
24261800 ATAATATATG
24261810 TAAATTAAAA
1 TAAATTAAAA
24261820 T--ATTAAAA
1 TAAATTAAAA
*
24261828 TAAATTTAAA
1 TAAATTAAAA
24261838 TAAATTAAAA
1 TAAATTAAAA
*
24261848 -ATATTAAAA
1 TAAATTAAAA
* *
24261857 TAAGTTGAAA
1 TAAATTAAAA
*
24261867 TGAATTAAA
1 TAAATTAAA
24261876 GATTTTAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
8 8 0.18
9 8 0.18
10 28 0.64
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (10 bp):
TAAATTAAAA
Found at i:24261859 original size:19 final size:20
Alignment explanation
Indices: 24261810--24261875 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 20
24261800 ATAATATATG
24261810 TAAATTAAAAT--ATTAAAA
1 TAAATTAAAATAAATTAAAA
*
24261828 TAAATTTAAATAAATTAAAA
1 TAAATTAAAATAAATTAAAA
* * *
24261848 -ATATTAAAATAAGTTGAAA
1 TAAATTAAAATAAATTAAAA
*
24261867 TGAATTAAA
1 TAAATTAAA
24261876 GATTTTAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 10 0.26
19 15 0.39
20 13 0.34
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
TAAATTAAAATAAATTAAAA
Found at i:24281267 original size:14 final size:14
Alignment explanation
Indices: 24281239--24281267 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
24281229 GCTTAGTGGC
24281239 TTTTGACTTGATTT
1 TTTTGACTTGATTT
24281253 TTTTG-CTTGATTT
1 TTTTGACTTGATTT
24281266 TT
1 TT
24281268 AAGCAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.10, C:0.07, G:0.14, T:0.69
Consensus pattern (14 bp):
TTTTGACTTGATTT
Found at i:24283754 original size:21 final size:21
Alignment explanation
Indices: 24283730--24283774 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
24283720 TCCTTGAACA
24283730 TATCGCCCCTTCAGATTTACT
1 TATCGCCCCTTCAGATTTACT
24283751 TATCGCCCCTTCAGATTTACT
1 TATCGCCCCTTCAGATTTACT
24283772 TAT
1 TAT
24283775 GTTTTAACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.31, G:0.09, T:0.40
Consensus pattern (21 bp):
TATCGCCCCTTCAGATTTACT
Found at i:24291613 original size:13 final size:13
Alignment explanation
Indices: 24291595--24291624 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
24291585 CTGACAAGGC
*
24291595 TGCTTTGTTCCTT
1 TGCTTTGCTCCTT
24291608 TGCTTTGCTCCTT
1 TGCTTTGCTCCTT
24291621 TGCT
1 TGCT
24291625 GATGGCTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.27, G:0.17, T:0.57
Consensus pattern (13 bp):
TGCTTTGCTCCTT
Found at i:24291784 original size:22 final size:22
Alignment explanation
Indices: 24291759--24291800 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
24291749 GAGGAGTGAA
*
24291759 TGAGGAATGGTTGAGGGATGCT
1 TGAGGAATGGTTCAGGGATGCT
* *
24291781 TGAGGGATGTTTCAGGGATG
1 TGAGGAATGGTTCAGGGATG
24291801 TTTTAGTGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.05, G:0.45, T:0.29
Consensus pattern (22 bp):
TGAGGAATGGTTCAGGGATGCT
Found at i:24296608 original size:22 final size:22
Alignment explanation
Indices: 24296578--24296626 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
24296568 TATATCTATT
*
24296578 TATTATAATCATGTTAACATAA
1 TATTTTAATCATGTTAACATAA
*
24296600 TATTTTAATCATTTTAACATAA
1 TATTTTAATCATGTTAACATAA
24296622 TATTT
1 TATTT
24296627 CCAAACTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (22 bp):
TATTTTAATCATGTTAACATAA
Found at i:24303321 original size:21 final size:22
Alignment explanation
Indices: 24303297--24303344 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
24303287 AAAATAATCT
* *
24303297 AAAC-TAATCAGAGTTTAATTG
1 AAACATAAACAGAGTTTAACTG
24303318 AAACAAATAAACAGAGTTTAACTG
1 AAAC--ATAAACAGAGTTTAACTG
24303342 AAA
1 AAA
24303345 AAATATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 4 0.18
24 18 0.82
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.25
Consensus pattern (22 bp):
AAACATAAACAGAGTTTAACTG
Found at i:24303336 original size:24 final size:23
Alignment explanation
Indices: 24303305--24303349 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
24303295 CTAAACTAAT
*
24303305 CAGAGTTTAATTGAAACAAATAAA
1 CAGAGTTTAACTGAAA-AAATAAA
24303329 CAGAGTTTAACTGAAAAAATA
1 CAGAGTTTAACTGAAAAAATA
24303350 TTTCTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.24
Consensus pattern (23 bp):
CAGAGTTTAACTGAAAAAATAAA
Found at i:24308685 original size:17 final size:17
Alignment explanation
Indices: 24308659--24308691 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24308649 CAATGTTTAC
24308659 AACTAAATAAA-AGATT
1 AACTAAATAAACAGATT
24308675 AACTGAAATAAACAGAT
1 AACT-AAATAAACAGAT
24308692 ATTCAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.21
Consensus pattern (17 bp):
AACTAAATAAACAGATT
Found at i:24311457 original size:15 final size:16
Alignment explanation
Indices: 24311437--24311466 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24311427 AGAAAAAGGC
24311437 AAGATTAAAT-GAAAA
1 AAGATTAAATCGAAAA
24311452 AAGATTAAATCGAAA
1 AAGATTAAATCGAAA
24311467 CCATAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.63, C:0.03, G:0.13, T:0.20
Consensus pattern (16 bp):
AAGATTAAATCGAAAA
Found at i:24312556 original size:18 final size:17
Alignment explanation
Indices: 24312535--24312577 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
24312525 ATTGTTTCTG
*
24312535 CTCTTTTTGTTTTCTGTT
1 CTCTTTTTATTTTCT-TT
*
24312553 CTCTGCTTTATTTTCTTT
1 CTCT-TTTTATTTTCTTT
24312571 CTCTTTT
1 CTCTTTT
24312578 GTAGGTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.10
18 10 0.48
19 9 0.43
ACGTcount: A:0.02, C:0.21, G:0.07, T:0.70
Consensus pattern (17 bp):
CTCTTTTTATTTTCTTT
Found at i:24313254 original size:94 final size:94
Alignment explanation
Indices: 24313133--24313412 Score: 273
Period size: 94 Copynumber: 3.0 Consensus size: 94
24313123 CAATTTCAAA
* * * * *
24313133 GAGATAAGATTTGTTGTAGTAGATTCAATCTGATCCACTGCAACTTTAGGAGTATAGGATTTGTA
1 GAGATAAGATTCGCTATAGTAGATTCAATCTGACCCACTGCAACTTAAGGAGTATAGGATTTGTA
*
24313198 GCTTCAATCTGCTTCACTACAACTTCAGG
66 GCTTCAATCTGATTCACTACAACTTCAGG
*
24313227 GAGATAAGATTCGCTATGGTAGATTCAAT-TAGACCCACTGCAACTTCAAGGA-TAT-GAGATTT
1 GAGATAAGATTCGCTATAGTAGATTCAATCT-GACCCACTGCAACTT-AAGGAGTATAG-GATTT
* * * *
24313289 GTAGCTTC-ATCTTGTTTTACTGCAACTTTAGG
63 GTAGCTTCAATC-TGATTCACTACAACTTCAGG
* * * * * ** * * * *
24313321 GAGATAAGATTCGCCATCGCAGTTTCATTCCAACCCACTACAACTTCACGG-GTATAGAAATTGT
1 GAGATAAGATTCGCTATAGTAGATTCAATCTGACCCACTGCAACTT-AAGGAGTATAGGATTTGT
*
24313385 AGCTTTAATCTGATTCACTACAACTTCA
65 AGCTTCAATCTGATTCACTACAACTTCA
24313413 AGGATATAGG
Statistics
Matches: 152, Mismatches: 26, Indels: 16
0.78 0.13 0.08
Matches are distributed among these distances:
93 5 0.03
94 139 0.91
95 8 0.05
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (94 bp):
GAGATAAGATTCGCTATAGTAGATTCAATCTGACCCACTGCAACTTAAGGAGTATAGGATTTGTA
GCTTCAATCTGATTCACTACAACTTCAGG
Found at i:24322124 original size:40 final size:40
Alignment explanation
Indices: 24321927--24322110 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
24321917 CGAATGATGT
* * * *
24321927 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * * *
24321967 TCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
24322007 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
24322045 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
24322086 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
24322111 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:24322132 original size:79 final size:79
Alignment explanation
Indices: 24321979--24322143 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
24321969 GGACTAAGAT
* **
24321979 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
24322044 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
24322058 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
24322121 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
24322137 CCGAAGG
1 CCGAAGG
24322144 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:24329043 original size:32 final size:30
Alignment explanation
Indices: 24328983--24329049 Score: 80
Period size: 32 Copynumber: 2.2 Consensus size: 30
24328973 TTATGGGGTA
* ** *
24328983 AAAATAAAAAAATAAAAAAGGAGTAGGACG
1 AAAATAAAAAAACAAAAAAGGAAAAGGACC
24329013 AAAATAAAAAGGAACAAAAAAGGAAAAGGACC
1 AAAATAAAAA--AACAAAAAAGGAAAAGGACC
24329045 AAAAT
1 AAAAT
24329050 GGAAATTACC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 10 0.32
32 21 0.68
ACGTcount: A:0.69, C:0.06, G:0.18, T:0.07
Consensus pattern (30 bp):
AAAATAAAAAAACAAAAAAGGAAAAGGACC
Found at i:24335591 original size:12 final size:12
Alignment explanation
Indices: 24335561--24335591 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
24335551 AAACTGGTTT
*
24335561 GGGTAAAGTTGA
1 GGGTAAGGTTGA
24335573 GGGTAAGGTTGA
1 GGGTAAGGTTGA
24335585 GGGTAAG
1 GGGTAAG
24335592 TTTCGTATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (12 bp):
GGGTAAGGTTGA
Found at i:24338644 original size:8 final size:8
Alignment explanation
Indices: 24338631--24338656 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
24338621 AAATTTTTAT
24338631 TTTTAAAA
1 TTTTAAAA
24338639 TTTTAAAA
1 TTTTAAAA
24338647 TTTTAAAA
1 TTTTAAAA
24338655 TT
1 TT
24338657 AATCAATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTTTAAAA
Found at i:24343021 original size:18 final size:18
Alignment explanation
Indices: 24342998--24343046 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
24342988 TTTAGATTAA
24342998 TTAGAGTTTCATTACATT
1 TTAGAGTTTCATTACATT
* *
24343016 TTAGAGTTTTATTATATT
1 TTAGAGTTTCATTACATT
*
24343034 TTATAGTTTCATT
1 TTAGAGTTTCATT
24343047 TAGAGGTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.57
Consensus pattern (18 bp):
TTAGAGTTTCATTACATT
Found at i:24344896 original size:22 final size:24
Alignment explanation
Indices: 24344854--24344897 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
24344844 TGATAATATG
24344854 TTTTGATATAATAAATTAAAGTGA
1 TTTTGATATAATAAATTAAAGTGA
*
24344878 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAATAAATTAAAGT
24344898 TGAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAATAAATTAAAGTGA
Found at i:24365234 original size:3 final size:3
Alignment explanation
Indices: 24365226--24365254 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
24365216 GTATTGCCAT
24365226 TGA TGA TGA TGA TGA TGA TGA TGA T-A TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
24365255 ATAAGCAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:24369730 original size:21 final size:24
Alignment explanation
Indices: 24369704--24369755 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 24
24369694 TATTTCTATT
24369704 TAATTTTATTA-ATTTTTA-G-AG
1 TAATTTTATTATATTTTTATGTAG
* *
24369725 TAATTTTTTTATTTTTTTATGTAG
1 TAATTTTATTATATTTTTATGTAG
24369749 TAATTTT
1 TAATTTT
24369756 TTTTATGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 10 0.38
22 6 0.23
23 1 0.04
24 9 0.35
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (24 bp):
TAATTTTATTATATTTTTATGTAG
Found at i:24369750 original size:24 final size:23
Alignment explanation
Indices: 24369707--24369758 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
24369697 TTCTATTTAA
24369707 TTTTATTAATTTTTAGAGTAATTT
1 TTTTATT-ATTTTTAGAGTAATTT
24369731 TTTTATT-TTTTTATGTAGTAATTT
1 TTTTATTATTTTTA-G-AGTAATTT
24369755 TTTT
1 TTTT
24369759 TATGTTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.23
23 1 0.04
24 19 0.73
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (23 bp):
TTTTATTATTTTTAGAGTAATTT
Found at i:24369766 original size:25 final size:22
Alignment explanation
Indices: 24369716--24369766 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 22
24369706 ATTTTATTAA
*
24369716 TTTTTAGAGTAATTTTTTTATT
1 TTTTTAGAGTAATTTTTTTATG
24369738 TTTTTATGTAGTAATTTTTTTTATG
1 TTTTTA-G-AGTAA-TTTTTTTATG
24369763 TTTT
1 TTTT
24369767 GTTTATTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 6 0.24
23 1 0.04
24 5 0.20
25 13 0.52
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.71
Consensus pattern (22 bp):
TTTTTAGAGTAATTTTTTTATG
Found at i:24372558 original size:28 final size:29
Alignment explanation
Indices: 24372502--24372563 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
24372492 AATTACTTGA
* *
24372502 CCATTCTTCAATATATTTTTATATTAACT
1 CCATACTTCAATATATTTTTATAGTAACT
*
24372531 TCATACTTCAATATA-TTTTATAGTAACT
1 CCATACTTCAATATATTTTTATAGTAACT
24372559 CCATA
1 CCATA
24372564 AATATTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 16 0.55
29 13 0.45
ACGTcount: A:0.34, C:0.18, G:0.02, T:0.47
Consensus pattern (29 bp):
CCATACTTCAATATATTTTTATAGTAACT
Found at i:24373433 original size:18 final size:18
Alignment explanation
Indices: 24373412--24373446 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
24373402 TCTTATTCTA
*
24373412 TTACAGATTCTAACACAC
1 TTACACATTCTAACACAC
24373430 TTACACATTCTAACACA
1 TTACACATTCTAACACA
24373447 TTATGAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.29, G:0.03, T:0.29
Consensus pattern (18 bp):
TTACACATTCTAACACAC
Found at i:24373573 original size:22 final size:22
Alignment explanation
Indices: 24373547--24373591 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
24373537 ATACGTTCTC
*
24373547 CCAATATGATCTTATTTTATCT
1 CCAATATAATCTTATTTTATCT
24373569 CCAATATAATCTTATTTTATCT
1 CCAATATAATCTTATTTTATCT
24373591 C
1 C
24373592 ATGGTTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.02, T:0.49
Consensus pattern (22 bp):
CCAATATAATCTTATTTTATCT
Found at i:24374865 original size:64 final size:64
Alignment explanation
Indices: 24374784--24374910 Score: 245
Period size: 64 Copynumber: 2.0 Consensus size: 64
24374774 AAAAGCACAC
24374784 CATAAATAATAAAAAGCATCATTATTATTTTATTTAAAATTTTAATTCTTTAAAATAGATTTTG
1 CATAAATAATAAAAAGCATCATTATTATTTTATTTAAAATTTTAATTCTTTAAAATAGATTTTG
*
24374848 CATAAATAATGAAAAGCATCATTATTATTTTATTTAAAATTTTAATTCTTTAAAATAGATTTT
1 CATAAATAATAAAAAGCATCATTATTATTTTATTTAAAATTTTAATTCTTTAAAATAGATTTT
24374911 ATGCAAGTGC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (64 bp):
CATAAATAATAAAAAGCATCATTATTATTTTATTTAAAATTTTAATTCTTTAAAATAGATTTTG
Found at i:24375771 original size:20 final size:21
Alignment explanation
Indices: 24375732--24375771 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
24375722 GATAAAATTG
* *
24375732 TTTTCTTTTAAGAATCTAAAT
1 TTTTCTTATAAAAATCTAAAT
24375753 TTTTCTTATAAAAAT-TAAA
1 TTTTCTTATAAAAATCTAAA
24375772 GTAATTTCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (21 bp):
TTTTCTTATAAAAATCTAAAT
Found at i:24376150 original size:30 final size:31
Alignment explanation
Indices: 24376101--24376163 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
24376091 TGTACAAAAT
*
24376101 CAAAATTTATATATTAAATT-ATATATTATAA
1 CAAAATGTATATATTAAATTCATAT-TTATAA
*
24376132 CAAAATGTATCTA-TAAATTCGATATTTATAA
1 CAAAATGTATATATTAAATTC-ATATTTATAA
24376163 C
1 C
24376164 TTGATTAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 6 0.21
31 18 0.64
32 4 0.14
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (31 bp):
CAAAATGTATATATTAAATTCATATTTATAA
Found at i:24387760 original size:54 final size:54
Alignment explanation
Indices: 24387701--24387889 Score: 146
Period size: 54 Copynumber: 3.3 Consensus size: 54
24387691 TTGTTAGTTA
*
24387701 TAATTATTTTAAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
1 TAATTATTTTAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAT
* * * * **
24387755 TAATTATTTCAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATA
1 TAATTATTTTAAATT-T-TATTA-A--ATTATATATT-TTA-ATTA--AAA-T-ATAT-TTAATA
24387820 T
54 T
* * * *
24387821 TGATTA-TTGAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAA
1 TAATTATTTTA-AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAT
*
24387875 TAATTATGTTAAATT
1 TAATTATTTTAAATT
24387890 AAAATATGAT
Statistics
Matches: 102, Mismatches: 19, Indels: 28
0.68 0.13 0.19
Matches are distributed among these distances:
54 27 0.26
55 7 0.07
56 5 0.05
57 3 0.03
59 12 0.12
60 4 0.04
61 13 0.13
63 4 0.04
64 5 0.05
65 8 0.08
66 14 0.14
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (54 bp):
TAATTATTTTAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAT
Found at i:24387867 original size:16 final size:16
Alignment explanation
Indices: 24387846--24387896 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
24387836 TTATTAAATT
24387846 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
24387862 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
* *
24387877 AT-TATGTTAAATTAAA
1 ATATAT-TTTAATTATA
24387893 ATAT
1 ATAT
24387897 GATTAAATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
14 2 0.07
15 11 0.39
16 14 0.50
17 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:24388127 original size:16 final size:16
Alignment explanation
Indices: 24388106--24388159 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
24388096 TTGATTTGCT
* *
24388106 ATTACACCTCTATTTC
1 ATTACACCTCTAATCC
24388122 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
* *
24388138 AATACACCTCGAATCC
1 ATTACACCTCTAATCC
*
24388154 AATACA
1 ATTACA
24388160 GTGAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.33, G:0.02, T:0.30
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:24394118 original size:61 final size:60
Alignment explanation
Indices: 24394003--24394125 Score: 167
Period size: 61 Copynumber: 2.0 Consensus size: 60
24393993 AAATGCATAC
*
24394003 GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAACATAATATTAAAATTTTGCAAAT
1 GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAACAT-ATACTAAAATTTTGCAAAT
* * * *
24394064 GAATGGTGCTTCCAATATAGTTACCATGGTGATTCCAATGCAT-TACTAAGATTTTGCAAAT
1 GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAA--CATATACTAAAATTTTGCAAAT
24394125 G
1 G
24394126 CAAATGAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
61 52 0.95
63 3 0.05
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (60 bp):
GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAACATATACTAAAATTTTGCAAAT
Found at i:24394159 original size:23 final size:23
Alignment explanation
Indices: 24394133--24394192 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
24394123 ATGCAAATGA
*
24394133 ATAGTGATTCCAATACAATTATC
1 ATAGTGATTCCAATACAATTACC
*
24394156 ATAGTGATTGCAATACAATTACC
1 ATAGTGATTCCAATACAATTACC
*
24394179 ATGGTGATTCCAAT
1 ATAGTGATTCCAAT
24394193 GTAGTACTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (23 bp):
ATAGTGATTCCAATACAATTACC
Found at i:24394420 original size:17 final size:17
Alignment explanation
Indices: 24394398--24394430 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24394388 AATACTTAGT
24394398 GTTATGACCATTTTGAG
1 GTTATGACCATTTTGAG
*
24394415 GTTATGACCTTTTTGA
1 GTTATGACCATTTTGA
24394431 AATAACACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.45
Consensus pattern (17 bp):
GTTATGACCATTTTGAG
Found at i:24394486 original size:46 final size:46
Alignment explanation
Indices: 24394373--24394478 Score: 160
Period size: 46 Copynumber: 2.3 Consensus size: 46
24394363 CAAAATATTT
*
24394373 TGACTTTTCTAAAACAATACTTAGTGTTATGACCATTTTGAGGTTA
1 TGACTTTTCTAAAACAACACTTAGTGTTATGACCATTTTGAGGTTA
* * *
24394419 TGACCTTTT-TGAAATAACACTTAGTGTTATGACCTTTTTGAGGTTA
1 TGA-CTTTTCTAAAACAACACTTAGTGTTATGACCATTTTGAGGTTA
24394465 TGACTTTTCTAAAA
1 TGACTTTTCTAAAA
24394479 GGACACTTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
45 5 0.09
46 43 0.81
47 5 0.09
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (46 bp):
TGACTTTTCTAAAACAACACTTAGTGTTATGACCATTTTGAGGTTA
Found at i:24396601 original size:23 final size:23
Alignment explanation
Indices: 24396558--24396601 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
24396548 TTCGGTACTA
*
24396558 CTGTTACTTGCACTTTAGTGCTC
1 CTGTTACTTGCACTATAGTGCTC
* *
24396581 CTGTTCCTTGCACTATGGTGC
1 CTGTTACTTGCACTATAGTGC
24396602 GATCCTAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.11, C:0.27, G:0.20, T:0.41
Consensus pattern (23 bp):
CTGTTACTTGCACTATAGTGCTC
Found at i:24398371 original size:25 final size:25
Alignment explanation
Indices: 24398337--24398388 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
24398327 TAAGTATTAG
24398337 TAAGTTAAAATAGAATATCTAAACT
1 TAAGTTAAAATAGAATATCTAAACT
24398362 TAAGTTAAAATAGAATATCTAAACT
1 TAAGTTAAAATAGAATATCTAAACT
24398387 TA
1 TA
24398389 CCTTAATCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.33
Consensus pattern (25 bp):
TAAGTTAAAATAGAATATCTAAACT
Found at i:24398394 original size:25 final size:25
Alignment explanation
Indices: 24398341--24398394 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
24398331 TATTAGTAAG
*
24398341 TTAAAATAGAATATCTAAACTTAAG
1 TTAAAATAGAATATCTAAACTTAAC
*
24398366 TTAAAATAGAATATCTAAACTTACC
1 TTAAAATAGAATATCTAAACTTAAC
24398391 TTAA
1 TTAA
24398395 TCCATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (25 bp):
TTAAAATAGAATATCTAAACTTAAC
Found at i:24399410 original size:6 final size:6
Alignment explanation
Indices: 24399392--24399421 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
24399382 CCAAATGAAT
24399392 CATTTC TCATTTC CATTTC CATTTC CATTT
1 CATTTC -CATTTC CATTTC CATTTC CATTT
24399422 TGAGAAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (6 bp):
CATTTC
Found at i:24401201 original size:41 final size:41
Alignment explanation
Indices: 24401120--24401206 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
24401110 ATGTACTATC
**
24401120 CAGGGGTACTGAAGAACAAACAAGGGCACGTATGTGCAATT
1 CAGGGGTACTGAAGAACAAACAAGGGCACACATGTGCAATT
* * *
24401161 TAGGGGTACTGAAGTACAAACAAGGGCACACATGTTCAATT
1 CAGGGGTACTGAAGAACAAACAAGGGCACACATGTGCAATT
24401202 CAGGG
1 CAGGG
24401207 TATAATTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (41 bp):
CAGGGGTACTGAAGAACAAACAAGGGCACACATGTGCAATT
Found at i:24403219 original size:77 final size:77
Alignment explanation
Indices: 24403092--24403245 Score: 272
Period size: 77 Copynumber: 2.0 Consensus size: 77
24403082 CTCAAATACA
*
24403092 GAAAAACCACAAGATATAAAGAAACTCAATAAAACTTCAAAAGAAATTAAAAGGAGATCTTCAAT
1 GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCAAAAGAAATTAAAAGGAGATCTTCAAT
24403157 CTTAATGGAGAT
66 CTTAATGGAGAT
* *
24403169 GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCGAAATAAATTAAAAGGAGATCTTCAAT
1 GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCAAAAGAAATTAAAAGGAGATCTTCAAT
*
24403234 CTTGATGGAGAT
66 CTTAATGGAGAT
24403246 CCACTTCCGA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (77 bp):
GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCAAAAGAAATTAAAAGGAGATCTTCAAT
CTTAATGGAGAT
Found at i:24403454 original size:30 final size:30
Alignment explanation
Indices: 24403420--24403507 Score: 131
Period size: 30 Copynumber: 2.9 Consensus size: 30
24403410 CACGGCCTGG
* * *
24403420 CACATGGGCGTGTGTCCGGCCCATGTGGCT
1 CACATGGACGTGTGCCCAGCCCATGTGGCT
24403450 CACATGGACGTGTGCCCAGCCCATGTGGCT
1 CACATGGACGTGTGCCCAGCCCATGTGGCT
* *
24403480 CACATGGAAGTGTGCCCAGCCCGTGTGG
1 CACATGGACGTGTGCCCAGCCCATGTGG
24403508 AAATGCCCAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.15, C:0.31, G:0.34, T:0.20
Consensus pattern (30 bp):
CACATGGACGTGTGCCCAGCCCATGTGGCT
Found at i:24415205 original size:26 final size:25
Alignment explanation
Indices: 24415157--24415276 Score: 87
Period size: 26 Copynumber: 4.6 Consensus size: 25
24415147 GAGCTGGTGG
* * * *
24415157 TTATTCAGTAGGCTTTGAGCCAACGT
1 TTATTTAGTAGGCCTT-AACCAATGT
24415183 TTATTTAGTAGGCCTTACACCAATGT
1 TTATTTAGTAGGCCTTA-ACCAATGT
* * * * *
24415209 TCATTTAGCAGGCCTTGAGCCGATGA
1 TTATTTAGTAGGCCTT-AACCAATGT
***
24415235 TTATTTAGTAGGCCTTAAGCTGGTGT
1 TTATTTAGTAGGCCTTAA-CCAATGT
*
24415261 TTATTTAGCAGGCCTT
1 TTATTTAGTAGGCCTT
24415277 GAGTCGGTGG
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
25 2 0.03
26 72 0.96
27 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (25 bp):
TTATTTAGTAGGCCTTAACCAATGT
Found at i:24415249 original size:52 final size:52
Alignment explanation
Indices: 24415183--24415294 Score: 145
Period size: 52 Copynumber: 2.2 Consensus size: 52
24415173 GAGCCAACGT
24415183 TTATTTAGTAGGCCTTACA-CCAATGTTCATTTAGCAGGCCTTGAGCCGATGA
1 TTATTTAGTAGGCCTTA-AGCCAATGTTCATTTAGCAGGCCTTGAGCCGATGA
*** * * * *
24415235 TTATTTAGTAGGCCTTAAGCTGGTGTTTATTTAGCAGGCCTTGAGTCGGTGG
1 TTATTTAGTAGGCCTTAAGCCAATGTTCATTTAGCAGGCCTTGAGCCGATGA
24415287 TTATTTAG
1 TTATTTAG
24415295 CAGGTCTTGG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
51 1 0.02
52 51 0.98
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.38
Consensus pattern (52 bp):
TTATTTAGTAGGCCTTAAGCCAATGTTCATTTAGCAGGCCTTGAGCCGATGA
Found at i:24415285 original size:26 final size:26
Alignment explanation
Indices: 24415206--24415324 Score: 130
Period size: 26 Copynumber: 4.6 Consensus size: 26
24415196 CTTACACCAA
* *
24415206 TGTTCATTTAGCAGGCCTTGAGCCGA
1 TGTTTATTTAGCAGGCCTTGAGCCGG
* * * *
24415232 TGATTATTTAGTAGGCCTTAAGCTGG
1 TGTTTATTTAGCAGGCCTTGAGCCGG
*
24415258 TGTTTATTTAGCAGGCCTTGAGTCGG
1 TGTTTATTTAGCAGGCCTTGAGCCGG
* * * *
24415284 TGGTTATTTAGCAGGTCTTGGGCCAG
1 TGTTTATTTAGCAGGCCTTGAGCCGG
*
24415310 TGTATATTTAGCAGG
1 TGTTTATTTAGCAGG
24415325 TACTATGTAG
Statistics
Matches: 75, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.19, C:0.15, G:0.29, T:0.36
Consensus pattern (26 bp):
TGTTTATTTAGCAGGCCTTGAGCCGG
Found at i:24415318 original size:52 final size:52
Alignment explanation
Indices: 24415183--24415324 Score: 144
Period size: 52 Copynumber: 2.7 Consensus size: 52
24415173 GAGCCAACGT
* *
24415183 TTATTTAGTAGGCCTTACA-CCAATGT-TCATTTAGCAGGCCTTGAGCCGATGA
1 TTATTTAGCAGGCCTTA-AGCCAGTGTAT-ATTTAGCAGGCCTTGAGCCGATGA
* ** * * * *
24415235 TTATTTAGTAGGCCTTAAGCTGGTGTTTATTTAGCAGGCCTTGAGTCGGTGG
1 TTATTTAGCAGGCCTTAAGCCAGTGTATATTTAGCAGGCCTTGAGCCGATGA
* **
24415287 TTATTTAGCAGGTCTTGGGCCAGTGTATATTTAGCAGG
1 TTATTTAGCAGGCCTTAAGCCAGTGTATATTTAGCAGG
24415325 TACTATGTAG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
51 1 0.01
52 73 0.97
53 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (52 bp):
TTATTTAGCAGGCCTTAAGCCAGTGTATATTTAGCAGGCCTTGAGCCGATGA
Found at i:24423047 original size:26 final size:26
Alignment explanation
Indices: 24423016--24423100 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
24423006 GAGCCGATGG
24423016 TTATTTAGCAGGACTTAAGTTGGTGT
1 TTATTTAGCAGGACTTAAGTTGGTGT
* ****
24423042 TGATTTAGCA-GACCTTAAACCAGTGT
1 TTATTTAGCAGGA-CTTAAGTTGGTGT
* *
24423068 TTA-TTAGCAGGCCTTGAGTTGGTGT
1 TTATTTAGCAGGACTTAAGTTGGTGT
24423093 TTATTTAG
1 TTATTTAG
24423101 TAGGCCTTGA
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
25 19 0.43
26 25 0.57
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.40
Consensus pattern (26 bp):
TTATTTAGCAGGACTTAAGTTGGTGT
Found at i:24423119 original size:29 final size:28
Alignment explanation
Indices: 24423064--24423140 Score: 76
Period size: 26 Copynumber: 2.9 Consensus size: 28
24423054 CCTTAAACCA
*
24423064 GTGTTTA-TTAGCAGGCCTTGAG---TT
1 GTGTTTATTTAGTAGGCCTTGAGCCATT
24423088 GGTGTTTATTTAGTAGGCCTTGAGCCATT
1 -GTGTTTATTTAGTAGGCCTTGAGCCATT
* *
24423117 G-G-TTATTTAGTAAGCTTTGAGCCA
1 GTGTTTATTTAGTAGGCCTTGAGCCA
24423141 GTGTATGTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
25 7 0.16
26 34 0.76
27 1 0.02
28 1 0.02
29 2 0.04
ACGTcount: A:0.19, C:0.13, G:0.27, T:0.40
Consensus pattern (28 bp):
GTGTTTATTTAGTAGGCCTTGAGCCATT
Found at i:24423123 original size:51 final size:50
Alignment explanation
Indices: 24422996--24423123 Score: 139
Period size: 51 Copynumber: 2.5 Consensus size: 50
24422986 ATACCAGAAA
*
24422996 AGCAAGCCTTGAGCCGATGGTTATTTAGCAGGACTTAAGTTGGTGTTGATTT
1 AGCAGGCCTTGAGCC-ATGGTTA-TTAGCAGGACTTAAGTTGGTGTTGATTT
* * * * * * *
24423048 AGCAGACCTTAAACCAGTGTTTATTAGCAGGCCTTGAGTTGGTGTTTATTT
1 AGCAGGCCTTGAGCCA-TGGTTATTAGCAGGACTTAAGTTGGTGTTGATTT
*
24423099 AGTAGGCCTTGAGCCATTGGTTATT
1 AGCAGGCCTTGAGCCA-TGGTTATT
24423124 TAGTAAGCTT
Statistics
Matches: 61, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
51 45 0.74
52 16 0.26
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.36
Consensus pattern (50 bp):
AGCAGGCCTTGAGCCATGGTTATTAGCAGGACTTAAGTTGGTGTTGATTT
Found at i:24427861 original size:124 final size:124
Alignment explanation
Indices: 24427652--24427894 Score: 364
Period size: 124 Copynumber: 2.0 Consensus size: 124
24427642 ATCGCTTCTA
* * *
24427652 CCAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATTTCACTACAGTGG
1 CCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCACTACAGTGG
*
24427717 TCATGTAAGAAATAA-TTTTTTTTGACGTTTTCTGAGCAAAAAGTATTAAATCGCTAATG
66 TCATGTAAGAAATAACTTTTTTTTGACG-TTTCTGAGCAAAAAGTATAAAATCGCTAATG
* * *
24427776 CCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTG
1 CCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCACTACAG-TG
* * *
24427841 GTCATGTAGGAAAT-ACTTTTTTTTGACGTTTCTGAGCAAATAGTGTAAAATCGC
65 GTCATGTAAGAAATAACTTTTTTTTGACGTTTCTGAGCAAAAAGTATAAAATCGC
24427895 GCCCTCGTGG
Statistics
Matches: 107, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
124 80 0.75
125 27 0.25
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (124 bp):
CCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCACTACAGTGG
TCATGTAAGAAATAACTTTTTTTTGACGTTTCTGAGCAAAAAGTATAAAATCGCTAATG
Found at i:24431193 original size:29 final size:29
Alignment explanation
Indices: 24431112--24431903 Score: 492
Period size: 23 Copynumber: 30.3 Consensus size: 29
24431102 GGTTTTTACA
24431112 TTAATTAAATTAGGTTAGGGTTAGGGATTT
1 TTAATTAAATTAGGTTAGGGTTAGGG-TTT
** * ** * * *
24431142 CAAATAAAATGATAAATCAGGGTAAGAGTTT
1 TTAATTAAAT--TAGGTTAGGGTTAGGGTTT
*
24431173 TTAATTAAATTAGGTTAGGGTTAGGGATT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
24431202 TTAATTAAAATAGGTTAGGGTTAGGG-TT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* * *
24431230 TTCATGTAAAATAGGTTAGGGTTGGGGTTT
1 TTAAT-TAAATTAGGTTAGGGTTAGGGTTT
*
24431260 TTAATTAAATTAGGTTA-GGTTAGAGATTT
1 TTAATTAAATTAGGTTAGGGTTAG-GGTTT
* *
24431289 CT-ATTAAATTAGGTTAGAGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
** * *
24431317 TTAATTAAATTAAATTA-GCTTATGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
24431345 TTAATT--A--A-GTTA-TGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
24431368 TTAATT-AA----GTTA-TGTTTGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
24431391 TTAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
24431420 TTAATT--A--A-G-TAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
24431443 TTAATTAAATTA---T---GTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* * *
24431466 TTAATTTAATTAAGTTA-GGTTAGGTTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
24431494 TTAATT--A--A-GTTA-TGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
24431517 TTAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
24431546 TTAATT--A--A-G-TAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
24431569 TTAATT--A--A-GTT-GTGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
24431592 TTAATTTAATTAAGTTA-GGTTA-GG-TT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
24431618 TT--TT-AATTAAGTTA-TGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
24431643 TTAATT-AA--A--TTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
24431666 TTAATTAAACTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
24431695 TTAATT-AA-T---TTA-TGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* * * *
24431718 TTAATTTAATTAAG-TA-AGTTAGGTTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
24431745 TTAATT--A--A-GTTA-TGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
24431768 TTAATT-AA----GTTA-TGTTAGGCTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
24431791 TTAATT-AA--A--TTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
24431814 TTAATTAAATTA-GTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
24431842 TTAATT--A--A-G-TAAGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
24431865 TTAATTAAATTAGGTTAGTGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
24431894 TTAATCAAAT
1 TTAATTAAAT
24431904 AATGTCAAAA
Statistics
Matches: 636, Mismatches: 61, Indels: 131
0.77 0.07 0.16
Matches are distributed among these distances:
22 1 0.00
23 263 0.41
24 24 0.04
25 13 0.02
26 11 0.02
27 33 0.05
28 97 0.15
29 160 0.25
30 13 0.02
31 10 0.02
32 11 0.02
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.47
Consensus pattern (29 bp):
TTAATTAAATTAGGTTAGGGTTAGGGTTT
Found at i:24431250 original size:58 final size:57
Alignment explanation
Indices: 24431115--24431716 Score: 263
Period size: 52 Copynumber: 11.3 Consensus size: 57
24431105 TTTTACATTA
* * * * * *
24431115 ATTAAATTAGGTTAGGGTTAGGGATTTCAAATAAAAT-GATAAATCAGGGTAAGAGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGT---T-AGGGTTAG-GGTTTTC
24431176 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * * * *
24431233 ATGTAAAATAGGTTAGGGTTGGGGTTTTTAATTAAATTAGGTTA-GGTTAGAGATTTC
1 AT-TAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * ** * *
24431290 TATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAATTAAATTA-GCTTATGG-TTT-
1 -ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * * * *
24431345 -TT-AATTAAGTTA-TGTTAGGGTTTTTAATT---A-A-GTTA-TGTTTGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
* *
24431394 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATT---A-A-G-TAGGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
* * * *
24431446 ATTAAATTA---T---GTTAGGGTTTTTAATTTAATTAAGTTA-GGTTA-GGTTTT-
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * *
24431494 -TT-AATTAAGTTA-TGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG-TTT-
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * *
24431546 -TT-AATTAAG-TAGGGTTAGGGTTTTTAATT---A-A-GTT-GTGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
* * * * * *
24431595 ATTTAATTAAGTTA-GGTTA-GG-TTTT--TT-AATTAAGTTA-TGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
* *
24431646 ATTAAATTAGGTTAGGG-T-----TTTTAATTAAACTAGGTTAGGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
* *
24431698 ATTAATTTATGTTAGGGTT
1 ATTAAATTAGGTTAGGGTT
24431717 TTTAATTTAA
Statistics
Matches: 454, Mismatches: 46, Indels: 90
0.77 0.08 0.15
Matches are distributed among these distances:
46 36 0.08
47 8 0.02
48 11 0.02
49 10 0.02
50 12 0.03
51 110 0.24
52 116 0.26
53 5 0.01
56 3 0.01
57 59 0.13
58 46 0.10
59 1 0.00
61 35 0.08
62 2 0.00
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (57 bp):
ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
Found at i:24431446 original size:126 final size:125
Alignment explanation
Indices: 24431254--24431882 Score: 752
Period size: 126 Copynumber: 5.0 Consensus size: 125
24431244 GTTAGGGTTG
* * *
24431254 GGGTTTTTAATTAAATTAGGTTA-GGTTAGAGATTTCTATTAAATTAGGTTAGAGTTAGGGTTTT
1 GGGTTTTTAATTAAATTAGGTTAGGGTTAG-G-GTT-T-TT-AATTAAG-TAGGGTTAGGGTTTT
** * * *
24431318 TAATTAAATTAAATTA-GCTTATGGTT-TTTAATTAAGTTATGTTAGGGTTTTTAATTAAGTTAT
60 TAATTAAATTATGTTAGGGTT-T--TTATTTAATTAAGTTAGGTTAGGTTTTTTAATTAAGTTAT
*
24431381 GTTT
122 GTTA
24431385 GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTA
1 GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTA
24431450 AATTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGTTTTTTAATTAAGTTATGTTA
66 AATTATGTTAGGGTTTTT-ATTTAATTAAGTTAGGTTAGGTTTTTTAATTAAGTTATGTTA
24431511 GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTA
1 GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTA
* *
24431576 AGTTGTGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGTTTTTTAATTAAGTTATGTTA
66 AATTATGTTAGGGTTTTT-ATTTAATTAAGTTAGGTTAGGTTTTTTAATTAAGTTATGTTA
* *
24431637 GGGTTTTTAATTAAATTAGGTTAGGGTT----TTTAATTAAACTAGGTTAGGGTTAGGGTTTTTA
1 GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTT--TT-AATTAAG-TAGGGTTAGGGTTTTTA
* *
24431698 ATTAATTTATGTTAGGGTTTTTAATTTAATTAAG-TAAGTTAGGTTTTTTAATTAAGTTATGTTA
62 ATTAAATTATGTTAGGGTTTTT-ATTTAATTAAGTTAGGTTAGGTTTTTTAATTAAGTTATGTTA
* * *
24431762 GGGTTTTTAATT--A--A-GTTA-TGTTAGGCTTTTTAATTAAATTA-GGTTAGGGTTTTTAATT
1 GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT-AAGTAGGGTTAGGGTTTTTAATT
* * * * *
24431820 AAATTA-GTTAGGGTTAGGGTT-TTTAATTAAGTAAGGTTAGGGTTTTTAATTAAATTAGGTTA
65 AAATTATGTTAGGGTT---TTTATTTAATTAAGTTAGGTTAGGTTTTTTAATTAAGTTATGTTA
24431882 G
1 G
24431883 TGTTAGGGTT
Statistics
Matches: 454, Mismatches: 27, Indels: 45
0.86 0.05 0.09
Matches are distributed among these distances:
118 9 0.02
119 35 0.08
120 35 0.08
121 6 0.01
122 3 0.01
123 4 0.01
124 4 0.01
125 46 0.10
126 268 0.59
127 9 0.02
128 2 0.00
129 1 0.00
130 2 0.00
131 24 0.05
132 6 0.01
ACGTcount: A:0.28, C:0.01, G:0.22, T:0.49
Consensus pattern (125 bp):
GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTA
AATTATGTTAGGGTTTTTATTTAATTAAGTTAGGTTAGGTTTTTTAATTAAGTTATGTTA
Found at i:24431477 original size:149 final size:151
Alignment explanation
Indices: 24431191--24431863 Score: 602
Period size: 149 Copynumber: 4.4 Consensus size: 151
24431181 ATTAGGTTAG
* * * *
24431191 GGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTCATGTAAAATAGGTTAGGGTTGG
1 GGTTAGGGTTTTTAATT--AATA-GTTAGGGTTAGGGTTTTTAAT-TAAATTAGGTTAGGGTTAG
* * *
24431255 GGTTTTTAATTAAATTAGGTTAGGTTAGAGATTTCT-ATTAAATTAGGTTAGAGTTAGGGTTTTT
62 GGTTTTTAATT-AAGTA-G--A-GTTAG-GGTTTTTAATTAAATTA---T---GTTAGGGTTTTT
* *
24431319 AATTAAATTAAATTAGCTTATGG-TTTTTAATTAAGTTA
115 AATTTAATTAAATTAG-TTA-GGCTTTTTAATTAAATTA
* * *
24431357 TGTTAGGGTTTTTAATT-A-AGTTA-TGTTTGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTT
1 GGTTAGGGTTTTTAATTAATAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTT
* *
24431419 TTTAATTAAGTAGGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTTAATTAAGTTAG
66 TTTAATTAAGTAGAGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTTAATTAAATTA-
* *
24431484 GTTAGGTTTTTTAATTAAGTTA
130 GTTAGGCTTTTTAATTAAATTA
*
24431506 TGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT--A--A-G-TAGGGTTAGG
1 GGTTAGGGTTTTTAATT-AA-TA-GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
* * * *
24431565 GTTTTTAATTAAGTTGTGTTAGGGTTTTTAATTTAATTAAGTTA-GGTTAGGTTT--TTTAATTA
63 GTTTTTAATTAAGTAGAGTTAGGGTTTTTAATTAAATTATGTTAGGGTT---TTTAATTTAATTA
* *
24431627 AGTTATGTTAGGGTTTTTAATTAAATTA
125 AATTA-GTTAGGCTTTTTAATTAAATTA
* *
24431655 GGTTAGGGTTTTTAATTAAACTAGGTTAGGGTTAGGGTTTTTAATTAATTTATGTTAGGGTT---
1 GGTTAGGGTTTTTAATT-AA-TA-GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
* * *
24431717 TTTAATTTAATTAAGTA-AGTTAGGTTTTTTAATTAAGTTATGTTAGGGTTTTTAA-TTAAGTT-
63 GTT--TTTAATTAAGTAGAGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTTAA-TTA
24431779 -A-T-GTTAGGCTTTTTAATTAAATTA
125 AATTAGTTAGGCTTTTTAATTAAATTA
* *
24431803 GGTTAGGGTTTTTAATTAAATTAGTTAGGGTTAGGGTTTTTAATTAAGTAAGGTTAGGGTT
1 GGTTAGGGTTTTTAATT-AA-TAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
24431864 TTTAATTAAA
Statistics
Matches: 444, Mismatches: 38, Indels: 69
0.81 0.07 0.13
Matches are distributed among these distances:
147 35 0.08
148 49 0.11
149 187 0.42
150 3 0.01
151 8 0.02
152 7 0.02
153 28 0.06
154 25 0.06
155 36 0.08
158 1 0.00
159 4 0.01
160 34 0.08
161 10 0.02
162 1 0.00
163 1 0.00
166 15 0.03
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.48
Consensus pattern (151 bp):
GGTTAGGGTTTTTAATTAATAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTT
TTTAATTAAGTAGAGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTTAATTAAATTAG
TTAGGCTTTTTAATTAAATTA
Found at i:24434058 original size:14 final size:15
Alignment explanation
Indices: 24434041--24434074 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24434031 AATAAATATC
24434041 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
24434055 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
24434070 TAAAA
1 TAAAA
24434075 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:24434301 original size:22 final size:22
Alignment explanation
Indices: 24434271--24434312 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
24434261 ATTTGGAGAT
*
24434271 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
24434293 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
24434313 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:24434320 original size:30 final size:30
Alignment explanation
Indices: 24434284--24434342 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
24434274 TTGAAGGAAA
*
24434284 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAATTTGAGAGT
24434314 TTGAGAGAATTTTGGAAGGAATTTGAGAG
1 TTGAGAGAATTTTGGAAGGAATTTGAGAG
24434343 AAATTTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAATTTGAGAGT
Found at i:24434338 original size:22 final size:21
Alignment explanation
Indices: 24434314--24434405 Score: 121
Period size: 22 Copynumber: 4.2 Consensus size: 21
24434304 ATTTGAGAGT
*
24434314 TTGAGAGAATTTTGGAAGGAA
1 TTGAGAGAATTTTTGAAGGAA
*
24434335 TTTGAGAGAAATTTTGAAGGGAA
1 -TTGAGAGAATTTTTGAA-GGAA
*
24434358 TTGAGAGAATTTTTTAAAGGAA
1 TTGAGAGAA-TTTTTGAAGGAA
24434380 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAGG-AA
24434402 TTGA
1 TTGA
24434406 TATTGAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
21 9 0.15
22 43 0.69
23 10 0.16
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (21 bp):
TTGAGAGAATTTTTGAAGGAA
Found at i:24434340 original size:52 final size:51
Alignment explanation
Indices: 24434262--24434364 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
24434252 TTAATATGGA
* * *
24434262 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
*
24434313 TTTGAGAGAATTTTGGAAGGAATTTGAGAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
24434365 AATTTTTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.34, C:0.00, G:0.33, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:24438320 original size:40 final size:40
Alignment explanation
Indices: 24438275--24438474 Score: 269
Period size: 40 Copynumber: 5.0 Consensus size: 40
24438265 AGATTATTGT
* *
24438275 TTGATTGCACATACGTGCCCCTATTTATACTTCAGTACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
* *
24438315 TTGATTGCACACACGTGCCCCTGTTTGTACTTCAATACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
* * *
24438355 CTGATTGCACATACGTGTCCCAT-TTTGTACTTCGGTACCC
1 TTGATTGCACATACGTG-CCCCTGTTTGTACTTCAGTACCC
* * *
24438395 CTGATTGCACATACATGCCCCTGTTTATACTTC-GATACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAG-TACCC
*
24438435 TTGATTGCACATACGTGTCCCTGTTTGTACTTCAGTACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
24438475 CGAATGCACA
Statistics
Matches: 140, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 5 0.04
40 130 0.93
41 5 0.04
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.34
Consensus pattern (40 bp):
TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
Found at i:24438368 original size:80 final size:80
Alignment explanation
Indices: 24438276--24438484 Score: 296
Period size: 80 Copynumber: 2.6 Consensus size: 80
24438266 GATTATTGTT
* * * *
24438276 TGATTGCACATACGTGCCCCTATTTATACTTCAGTACCCTTGATTGCACACACGTGCCCCTGTTT
1 TGATTGCACATACGTGTCCCTATTTGTACTTCAGTACCCCTGATTGCACACACATGCCCCTGTTT
*
24438341 GTACTTCAATACCCC
66 ATACTTCAATACCCC
* *
24438356 TGATTGCACATACGTGTCCC-ATTTTGTACTTCGGTACCCCTGATTGCACATACATGCCCCTGTT
1 TGATTGCACATACGTGTCCCTA-TTTGTACTTCAGTACCCCTGATTGCACACACATGCCCCTGTT
* *
24438420 TATACTTCGATACCCT
65 TATACTTCAATACCCC
* *
24438436 TGATTGCACATACGTGTCCCTGTTTGTACTTCAGTACCCC-GAATGCACA
1 TGATTGCACATACGTGTCCCTATTTGTACTTCAGTACCCCTGATTGCACA
24438485 TTTGTGCCCT
Statistics
Matches: 115, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
79 9 0.08
80 106 0.92
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (80 bp):
TGATTGCACATACGTGTCCCTATTTGTACTTCAGTACCCCTGATTGCACACACATGCCCCTGTTT
ATACTTCAATACCCC
Found at i:24445170 original size:40 final size:40
Alignment explanation
Indices: 24445125--24445324 Score: 269
Period size: 40 Copynumber: 5.0 Consensus size: 40
24445115 AGATTATTGT
* *
24445125 TTGATTGCACATACGTGCCCCTATTTATACTTCAGTACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
* *
24445165 TTGATTGCACACACGTGCCCCTGTTTGTACTTCAATACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
* * *
24445205 CTGATTGCACATACGTGTCCCAT-TTTGTACTTCGGTACCC
1 TTGATTGCACATACGTG-CCCCTGTTTGTACTTCAGTACCC
* * *
24445245 CTGATTGCACATACATGCCCCTGTTTATACTTC-GATACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAG-TACCC
*
24445285 TTGATTGCACATACGTGTCCCTGTTTGTACTTCAGTACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
24445325 CGAATGCACA
Statistics
Matches: 140, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 5 0.04
40 130 0.93
41 5 0.04
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.34
Consensus pattern (40 bp):
TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
Found at i:24445218 original size:80 final size:80
Alignment explanation
Indices: 24445126--24445334 Score: 296
Period size: 80 Copynumber: 2.6 Consensus size: 80
24445116 GATTATTGTT
* * * *
24445126 TGATTGCACATACGTGCCCCTATTTATACTTCAGTACCCTTGATTGCACACACGTGCCCCTGTTT
1 TGATTGCACATACGTGTCCCTATTTGTACTTCAGTACCCCTGATTGCACACACATGCCCCTGTTT
*
24445191 GTACTTCAATACCCC
66 ATACTTCAATACCCC
* *
24445206 TGATTGCACATACGTGTCCC-ATTTTGTACTTCGGTACCCCTGATTGCACATACATGCCCCTGTT
1 TGATTGCACATACGTGTCCCTA-TTTGTACTTCAGTACCCCTGATTGCACACACATGCCCCTGTT
* *
24445270 TATACTTCGATACCCT
65 TATACTTCAATACCCC
* *
24445286 TGATTGCACATACGTGTCCCTGTTTGTACTTCAGTACCCC-GAATGCACA
1 TGATTGCACATACGTGTCCCTATTTGTACTTCAGTACCCCTGATTGCACA
24445335 TTTGTGCCCT
Statistics
Matches: 115, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
79 9 0.08
80 106 0.92
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (80 bp):
TGATTGCACATACGTGTCCCTATTTGTACTTCAGTACCCCTGATTGCACACACATGCCCCTGTTT
ATACTTCAATACCCC
Found at i:24453097 original size:40 final size:40
Alignment explanation
Indices: 24453052--24453251 Score: 269
Period size: 40 Copynumber: 5.0 Consensus size: 40
24453042 AGATTATTGT
* *
24453052 TTGATTGCACATACGTGCCCCTATTTATACTTCAGTACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
* *
24453092 TTGATTGCACACACGTGCCCCTGTTTGTACTTCAATACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
* * *
24453132 CTGATTGCACATACGTGTCCCAT-TTTGTACTTCGGTACCC
1 TTGATTGCACATACGTG-CCCCTGTTTGTACTTCAGTACCC
* * *
24453172 CTGATTGCACATACATGCCCCTGTTTATACTTC-GATACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAG-TACCC
*
24453212 TTGATTGCACATACGTGTCCCTGTTTGTACTTCAGTACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
24453252 CGAATGCACA
Statistics
Matches: 140, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 5 0.04
40 130 0.93
41 5 0.04
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.34
Consensus pattern (40 bp):
TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
Found at i:24453145 original size:80 final size:80
Alignment explanation
Indices: 24453053--24453261 Score: 296
Period size: 80 Copynumber: 2.6 Consensus size: 80
24453043 GATTATTGTT
* * * *
24453053 TGATTGCACATACGTGCCCCTATTTATACTTCAGTACCCTTGATTGCACACACGTGCCCCTGTTT
1 TGATTGCACATACGTGTCCCTATTTGTACTTCAGTACCCCTGATTGCACACACATGCCCCTGTTT
*
24453118 GTACTTCAATACCCC
66 ATACTTCAATACCCC
* *
24453133 TGATTGCACATACGTGTCCC-ATTTTGTACTTCGGTACCCCTGATTGCACATACATGCCCCTGTT
1 TGATTGCACATACGTGTCCCTA-TTTGTACTTCAGTACCCCTGATTGCACACACATGCCCCTGTT
* *
24453197 TATACTTCGATACCCT
65 TATACTTCAATACCCC
* *
24453213 TGATTGCACATACGTGTCCCTGTTTGTACTTCAGTACCCC-GAATGCACA
1 TGATTGCACATACGTGTCCCTATTTGTACTTCAGTACCCCTGATTGCACA
24453262 TTTGTGCCCT
Statistics
Matches: 115, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
79 9 0.08
80 106 0.92
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (80 bp):
TGATTGCACATACGTGTCCCTATTTGTACTTCAGTACCCCTGATTGCACACACATGCCCCTGTTT
ATACTTCAATACCCC
Found at i:24475437 original size:89 final size:89
Alignment explanation
Indices: 24475313--24475495 Score: 350
Period size: 89 Copynumber: 2.1 Consensus size: 89
24475303 GAGTTATGGA
24475313 ATGATATTATATAGTTTTACAAAATTGTTTTTTTTTAAGTTAAATTTTTGTGCTGTATTGTAACA
1 ATGATATTATATAGTTTTACAAAATTGTTTTTTTTTAAGTTAAATTTTTGTGCTGTATTGTAACA
24475378 CTCCGTAACCCTAATCTAACTACG
66 CTCCGTAACCCTAATCTAACTACG
*
24475402 ATGATATTATTTAGTTTTACAAAATTGTTTTTTTTTAAGTTAAATTTTTGTGCTGTATTGTAACA
1 ATGATATTATATAGTTTTACAAAATTGTTTTTTTTTAAGTTAAATTTTTGTGCTGTATTGTAACA
24475467 CTCCGTAACCCTAATCTAACTACG
66 CTCCGTAACCCTAATCTAACTACG
24475491 A-GATA
1 ATGATA
24475496 AGGGTGTTAC
Statistics
Matches: 93, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
88 4 0.04
89 89 0.96
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (89 bp):
ATGATATTATATAGTTTTACAAAATTGTTTTTTTTTAAGTTAAATTTTTGTGCTGTATTGTAACA
CTCCGTAACCCTAATCTAACTACG
Found at i:24476680 original size:21 final size:23
Alignment explanation
Indices: 24476631--24476685 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 23
24476621 ACTCTATACT
* * *
24476631 ATTTCATATCAATTGTCATTCTT
1 ATTTCATTTCAATTGTCAATCTA
24476654 ATTTCATTTCAA-T-TCAATCTA
1 ATTTCATTTCAATTGTCAATCTA
24476675 ATTTCATTTCA
1 ATTTCATTTCA
24476686 TTTTCTAGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 17 0.59
22 1 0.03
23 11 0.38
ACGTcount: A:0.29, C:0.18, G:0.02, T:0.51
Consensus pattern (23 bp):
ATTTCATTTCAATTGTCAATCTA
Found at i:24487238 original size:22 final size:18
Alignment explanation
Indices: 24487199--24487237 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
24487189 TGAAACATGT
24487199 AACTTTATCATATTAACA
1 AACTTTATCATATTAACA
*
24487217 AACTTTATCATATTAATA
1 AACTTTATCATATTAACA
24487235 AAC
1 AAC
24487238 ATATACATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (18 bp):
AACTTTATCATATTAACA
Found at i:24487450 original size:13 final size:13
Alignment explanation
Indices: 24487434--24487476 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
24487424 TCGTATAGCA
24487434 ATTTCATTTAAAC
1 ATTTCATTTAAAC
*
24487447 ATTTCATCTT-ACC
1 ATTTCAT-TTAAAC
*
24487460 ATTTCATTTACAC
1 ATTTCATTTAAAC
24487473 ATTT
1 ATTT
24487477 AACAGAATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
12 2 0.08
13 21 0.84
14 2 0.08
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTTCATTTAAAC
Done.