Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 331 of 332
Found at i:108679380 original size:26 final size:25
Alignment explanation
Indices: 108679305--108679386 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
108679295 ATTACTTTCG
* *
108679305 AAAAATACA-AGTACCACATTGAAA
1 AAAAAAACATAGTACAACATTGAAA
*
108679329 AAAAAAACATAGTACCACATTGAAA
1 AAAAAAACATAGTACAACATTGAAA
* * *
108679354 AAAAAAACATAGGTTCAATATTTAAA
1 AAAAAAACATA-GTACAACATTGAAA
108679380 AAAAAAA
1 AAAAAAA
108679387 AGTGTCAGAC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
24 8 0.16
25 26 0.51
26 17 0.33
ACGTcount: A:0.62, C:0.12, G:0.07, T:0.18
Consensus pattern (25 bp):
AAAAAAACATAGTACAACATTGAAA
Found at i:108679617 original size:42 final size:42
Alignment explanation
Indices: 108679556--108679645 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 42
108679546 TATGGTCATA
* * *
108679556 ATTGTATGAATTTATTGATTATAATTGTAATTTCATTTATGC
1 ATTGTACGAATGTAATGATTATAATTGTAATTTCATTTATGC
*
108679598 ATTGTACGAATGTAATGATTATAATTGTAATTTTATTTATGC
1 ATTGTACGAATGTAATGATTATAATTGTAATTTCATTTATGC
108679640 ATTGTA
1 ATTGTA
108679646 TTAGTTCAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.50
Consensus pattern (42 bp):
ATTGTACGAATGTAATGATTATAATTGTAATTTCATTTATGC
Found at i:108682114 original size:13 final size:13
Alignment explanation
Indices: 108682098--108682129 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
108682088 TATCAAATTT
108682098 TATAAATTAATAA
1 TATAAATTAATAA
*
108682111 TATAAGTTAATAA
1 TATAAATTAATAA
108682124 TATAAA
1 TATAAA
108682130 AAATTAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
TATAAATTAATAA
Found at i:108688783 original size:36 final size:36
Alignment explanation
Indices: 108688739--108688808 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
108688729 TTTAATTAAT
108688739 TTTGTTTTATAAATAAGGACAAAATGTTGGTGCTAA
1 TTTGTTTTATAAATAAGGACAAAATGTTGGTGCTAA
*
108688775 TTTGTTTTATAAATAAGGACAAAATGTTTGTGCT
1 TTTGTTTTATAAATAAGGACAAAATGTTGGTGCT
108688809 TTCCACAGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (36 bp):
TTTGTTTTATAAATAAGGACAAAATGTTGGTGCTAA
Found at i:108695898 original size:22 final size:23
Alignment explanation
Indices: 108695856--108695898 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
108695846 GGCTTTAATA
*
108695856 TTCAATTTGGTACCTGAGTTTTT
1 TTCAATTTGATACCTGAGTTTTT
*
108695879 TTCAATTTGATA-TTGAGTTT
1 TTCAATTTGATACCTGAGTTT
108695899 GGGCCTAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.21, C:0.09, G:0.16, T:0.53
Consensus pattern (23 bp):
TTCAATTTGATACCTGAGTTTTT
Found at i:108698332 original size:35 final size:33
Alignment explanation
Indices: 108698261--108698340 Score: 83
Period size: 35 Copynumber: 2.4 Consensus size: 33
108698251 GGTCCGGCTC
* *
108698261 AAATTTAACTTA-AATGATTTTTATTATGTATCT
1 AAATTTAA-TTATAAAGATTTTTAATATGTATCT
108698294 AAATTTAATTATAAAGATATTTTAATATTGATAT-T
1 AAATTTAATTATAAAGAT-TTTTAATA-TG-TATCT
*
108698329 AAATTTTATTAT
1 AAATTTAATTAT
108698341 TATTATTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
32 3 0.08
33 13 0.32
34 7 0.17
35 14 0.35
36 3 0.08
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (33 bp):
AAATTTAATTATAAAGATTTTTAATATGTATCT
Found at i:108701476 original size:9 final size:9
Alignment explanation
Indices: 108701462--108701502 Score: 73
Period size: 9 Copynumber: 4.6 Consensus size: 9
108701452 ATAAGTATAA
108701462 AATTAACCG
1 AATTAACCG
108701471 AATTAACCG
1 AATTAACCG
108701480 AATTAACCG
1 AATTAACCG
*
108701489 AATTAACTG
1 AATTAACCG
108701498 AATTA
1 AATTA
108701503 TTTGTATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:108701538 original size:14 final size:12
Alignment explanation
Indices: 108701521--108701562 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 12
108701511 AAATTATATG
108701521 TTTTTAATTTTTA
1 TTTTT-ATTTTTA
108701534 TTTTTATTTTTAGA
1 TTTTTATTTTT--A
108701548 TTTTTATTTTTA
1 TTTTTATTTTTA
108701560 TTT
1 TTT
108701563 ATTAAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 10 0.37
13 5 0.19
14 12 0.44
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:108701543 original size:5 final size:6
Alignment explanation
Indices: 108701521--108701562 Score: 57
Period size: 6 Copynumber: 6.5 Consensus size: 6
108701511 AAATTATATG
108701521 TTTTTAA TTTTTA TTTTTA TTTTTAGA TTTTTA TTTTTA TTT
1 TTTTT-A TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
108701563 ATTAAATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 22 0.67
7 5 0.15
8 6 0.18
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:108701550 original size:20 final size:19
Alignment explanation
Indices: 108701521--108701567 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
108701511 AAATTATATG
108701521 TTTTTAATTTTTATTTTTA
1 TTTTTAATTTTTATTTTTA
108701540 TTTTTAGATTTTTATTTTTA
1 TTTTTA-ATTTTTATTTTTA
108701560 TTTATTAA
1 TTT-TTAA
108701568 ATTATTTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.23
20 17 0.65
21 3 0.12
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTAATTTTTATTTTTA
Found at i:108707778 original size:21 final size:22
Alignment explanation
Indices: 108707749--108707792 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
108707739 CAGAAGGAGT
*
108707749 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
108707771 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
108707792 G
1 G
108707793 GTTTGAGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.20, G:0.39, T:0.20
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:108709934 original size:21 final size:21
Alignment explanation
Indices: 108709908--108709951 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
108709898 TTATAATTTT
108709908 TAAAAAAATCTAAAAAATATA
1 TAAAAAAATCTAAAAAATATA
** *
108709929 TAAAAATTTTTAAAAAATATA
1 TAAAAAAATCTAAAAAATATA
108709950 TA
1 TA
108709952 GAATATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAAAAAATCTAAAAAATATA
Found at i:108713528 original size:31 final size:31
Alignment explanation
Indices: 108713490--108713552 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
108713480 GACTAGCGAG
108713490 TTCAAAGCGATTATTCAATGATCAGTATGGT
1 TTCAAAGCGATTATTCAATGATCAGTATGGT
108713521 TTCAAAGCGATTATTCAATGATCAGTATGGT
1 TTCAAAGCGATTATTCAATGATCAGTATGGT
108713552 T
1 T
108713553 GATTAATACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.37
Consensus pattern (31 bp):
TTCAAAGCGATTATTCAATGATCAGTATGGT
Found at i:108716106 original size:3 final size:3
Alignment explanation
Indices: 108716098--108716129 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
108716088 TTAGTGTTCT
108716098 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
108716130 GGCACCGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:108718355 original size:20 final size:20
Alignment explanation
Indices: 108718332--108718371 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
108718322 TGCAATTTAC
*
108718332 TATTTTCACTAATTTAACAG
1 TATTTTCACAAATTTAACAG
108718352 TATTTTCACAAATTTAACAG
1 TATTTTCACAAATTTAACAG
108718372 CTGTTTCTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (20 bp):
TATTTTCACAAATTTAACAG
Found at i:108720635 original size:237 final size:236
Alignment explanation
Indices: 108720221--108720701 Score: 678
Period size: 237 Copynumber: 2.0 Consensus size: 236
108720211 ATCAGGTTAG
* *
108720221 AAACTTAAGCCATGTGACCCCAATACAATGCAAACACCATTCCCTACAGAAATCACTTCAAATAA
1 AAACTTAAGCCATGCGACCCCAATACAATGCAAACACCATTCCCTACAGAAATCACTTAAAATAA
* * * *
108720286 GTTCCAATTAACCACCTCTAATGACATATTCCAAGAGGGTGGTAATAGTTACACGTATTATACCC
66 GTTCCAATTAACCACCTCCAATGACATATTCCAAGAGGGTGCTAATAGTTACACGTATCAAACCC
* * *
108720351 AAACCAAATTCATAAAGGAATTGAACAAACCACGAATGCAAACAATAACCATAGCAACCTAAAGA
131 AAACCAAATTCATAAAAGAATTGAACAAACCACGAATGCAAACAATAACCAGAGCAACCCAAAGA
* *
108720416 TACAATACTACAAACTATATAACAACTAAGCTAAGAATACA
196 TAAAATACTACAAACTATATAACAACTAAACTAAGAATACA
* * * * * *
108720457 AAACTTAAGCCATGCGACTCCAATACCATTGGAAACACCATTGCCTACGGAAATTACTTAAAATA
1 AAACTTAAGCCATGCGACCCCAATA-CAATGCAAACACCATTCCCTACAGAAATCACTTAAAATA
* * *
108720522 AGTTCCGATTAACCGCCTCCAATGACATATTCGAAGAGGGTGCTAATAGTTAGC-CGTA-CAAAC
65 AGTTCCAATTAACCACCTCCAATGACATATTCCAAGAGGGTGCTAATAGTTA-CACGTATCAAAC
* **
108720585 CCAAACCAAGTTCATAAAAGAATTGAAACAAACCATTAATGCAAACAATAACCAGAGCAACCCAA
129 CCAAACCAAATTCATAAAAGAATTG-AACAAACCACGAATGCAAACAATAACCAGAGCAACCCAA
* * *
108720650 AGATAAAATGCTATAAACTATATAACAACTAAACTAAGAATATA
193 AGATAAAATACTACAAACTATATAACAACTAAACTAAGAATACA
*
108720694 AAAGTTAA
1 AAACTTAA
108720702 AACTTCAATA
Statistics
Matches: 215, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
236 49 0.23
237 165 0.77
238 1 0.00
ACGTcount: A:0.45, C:0.22, G:0.11, T:0.21
Consensus pattern (236 bp):
AAACTTAAGCCATGCGACCCCAATACAATGCAAACACCATTCCCTACAGAAATCACTTAAAATAA
GTTCCAATTAACCACCTCCAATGACATATTCCAAGAGGGTGCTAATAGTTACACGTATCAAACCC
AAACCAAATTCATAAAAGAATTGAACAAACCACGAATGCAAACAATAACCAGAGCAACCCAAAGA
TAAAATACTACAAACTATATAACAACTAAACTAAGAATACA
Found at i:108723224 original size:21 final size:20
Alignment explanation
Indices: 108723185--108723224 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
108723175 ATGTTGGGGA
*
108723185 TTTTGAAGGTGCTTTGAAGG
1 TTTTGAAGGTGATTTGAAGG
*
108723205 TTTTGAATGTGATGTTGAAG
1 TTTTGAAGGTGAT-TTGAAG
108723225 AGTCGGCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.03, G:0.33, T:0.42
Consensus pattern (20 bp):
TTTTGAAGGTGATTTGAAGG
Found at i:108724087 original size:16 final size:16
Alignment explanation
Indices: 108724066--108724101 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
108724056 TTTGGTTCGC
108724066 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
108724082 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
108724098 TGTA
1 TGTA
108724102 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:108724358 original size:18 final size:17
Alignment explanation
Indices: 108724337--108724371 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
108724327 TTATTATTAA
*
108724337 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
108724355 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
108724372 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:108724455 original size:120 final size:120
Alignment explanation
Indices: 108724315--108724722 Score: 662
Period size: 120 Copynumber: 3.4 Consensus size: 120
108724305 ATTTAATCAT
* *
108724315 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
* * * * * *
108724380 ATCAATATTTTTATCTGAATTTACTAAAATAATAATATATGATACTATAAAATATA
65 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
108724436 TTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
*
108724501 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATA
66 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
108724556 ATTTAACAT-A--ATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
* *
108724618 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
66 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
108724673 ATTTAAAATAATTATTATTAAATATAATTTAAT-AAAATATATAATTTAAT
1 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
108724723 CTAAAGTTTG
Statistics
Matches: 269, Mismatches: 15, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
117 112 0.42
118 1 0.00
119 18 0.07
120 135 0.50
121 3 0.01
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:108724543 original size:56 final size:56
Alignment explanation
Indices: 108724457--108724660 Score: 181
Period size: 56 Copynumber: 3.6 Consensus size: 56
108724447 TTATTATTAA
*
108724457 ATAT-AATTTAATAAAA--ATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
1 ATATGAATTTAATAAAATCATA-AT-ATATAATAAAATTCTTAATATTAAATATTCTT
** * * *
108724512 ATATGAATTTTCTAAAATCATAATATATAATACTATAAAAT-ATAAT-TTAACATAATTATT
1 ATATGAATTTAATAAAATCATAATATAT-A-A-TA-AAATTCTTAATATTAA-AT-ATTCTT
*
108724572 AAATAT-AATTTAATAAAA--ATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
1 --ATATGAATTTAATAAAATCATA-AT-ATATAATAAAATTCTTAATATTAAATATTCTT
108724629 ATATGAATTTAATAAAATCATAATATATAATA
1 ATATGAATTTAATAAAATCATAATATATAATA
108724661 CTATATAATA
Statistics
Matches: 118, Mismatches: 13, Indels: 35
0.71 0.08 0.21
Matches are distributed among these distances:
55 8 0.07
56 32 0.27
57 14 0.12
58 19 0.16
59 16 0.14
60 12 0.10
61 13 0.11
62 4 0.03
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (56 bp):
ATATGAATTTAATAAAATCATAATATATAATAAAATTCTTAATATTAAATATTCTT
Found at i:108724676 original size:38 final size:37
Alignment explanation
Indices: 108724592--108724697 Score: 98
Period size: 38 Copynumber: 2.9 Consensus size: 37
108724582 TAATAAAAAT
* * *
108724592 ATATAATTTAATAAAATTCTTAATATTAAATATTCTT
1 ATATAATTTAATAAAATTCATAATATTAAATATTATA
108724629 ATATGAATTTAATAAAA-TCATAATA-TATAATACTATATA
1 ATAT-AATTTAATAAAATTCATAATATTA-AATA-T-TATA
108724668 ATATAATTTAA-AATAATT-AT--TATTAAATAT
1 ATATAATTTAATAA-AATTCATAATATTAAATAT
108724698 AATTTAATAA
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
35 1 0.02
36 8 0.14
37 19 0.32
38 24 0.41
39 7 0.12
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (37 bp):
ATATAATTTAATAAAATTCATAATATTAAATATTATA
Found at i:108738047 original size:88 final size:88
Alignment explanation
Indices: 108737932--108738113 Score: 319
Period size: 88 Copynumber: 2.1 Consensus size: 88
108737922 ATAATAACTC
* *
108737932 AACATTGGTACCAATTTAATAGAAAATATTCTAAATTTGGATAAATCTAATAGCCAATATATTAT
1 AACATTGGTACCAATTCAATAGAAAATATTCTAAATTTGGACAAATCTAATAGCCAATATATTAT
108737997 CTTAATGAAGACAAATTAACGCA
66 CTTAATGAAGACAAATTAACGCA
* * *
108738020 AACATTGGTACCAATTCAATAGTAAATATTCTAAATTTGGACAAATCTAATAGCCGATATATTGT
1 AACATTGGTACCAATTCAATAGAAAATATTCTAAATTTGGACAAATCTAATAGCCAATATATTAT
108738085 CTTAATGAAGACAAATTAACGCA
66 CTTAATGAAGACAAATTAACGCA
108738108 AACATT
1 AACATT
108738114 CATGTAAGAG
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (88 bp):
AACATTGGTACCAATTCAATAGAAAATATTCTAAATTTGGACAAATCTAATAGCCAATATATTAT
CTTAATGAAGACAAATTAACGCA
Found at i:108743270 original size:17 final size:17
Alignment explanation
Indices: 108743248--108743280 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
108743238 TACACCATAA
108743248 TAAATTTTAAAAAAATC
1 TAAATTTTAAAAAAATC
*
108743265 TAAATTTTAAATAAAT
1 TAAATTTTAAAAAAAT
108743281 AAAATTAAGA
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:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATTTTAAAAAAATC
Found at i:108746925 original size:2 final size:2
Alignment explanation
Indices: 108746918--108746948 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
108746908 AGAGTTAGAT
108746918 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
108746949 TACTTAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:108751325 original size:29 final size:30
Alignment explanation
Indices: 108751267--108751326 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
108751257 AAGTTAATAT
*
108751267 AATGATAAAATTGTATTTTAACCCTTTAAA
1 AATGATAAAATTGTATTTTAACCCTCTAAA
* *
108751297 AATG-TAAAATT-TATTATTCATCCTCTAAA
1 AATGATAAAATTGTATT-TTAACCCTCTAAA
108751326 A
1 A
108751327 TAATTTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 4 0.15
29 18 0.69
30 4 0.15
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (30 bp):
AATGATAAAATTGTATTTTAACCCTCTAAA
Found at i:108754381 original size:15 final size:14
Alignment explanation
Indices: 108754344--108754384 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
108754334 ATAATTCTAA
*
108754344 ATTCTAAAGTTCAT
1 ATTCTAAAGTTTAT
108754358 ATT-TAAAGTTTAT
1 ATTCTAAAGTTTAT
108754371 AGTTCTAAAGTTTA
1 A-TTCTAAAGTTTA
108754385 CTTGTGTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 10 0.42
14 5 0.21
15 9 0.38
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (14 bp):
ATTCTAAAGTTTAT
Found at i:108764988 original size:15 final size:15
Alignment explanation
Indices: 108764968--108765048 Score: 60
Period size: 15 Copynumber: 5.3 Consensus size: 15
108764958 TTACTACAAA
108764968 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
108764983 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
108765000 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
*
108765017 ATA-TTAATATTGAAT
1 ATATTTATTATT-AAT
*
108765032 A-ATTT-TTAATAAT
1 ATATTTATTATTAAT
108765045 ATAT
1 ATAT
108765049 GAACAACATT
Statistics
Matches: 52, Mismatches: 7, Indels: 15
0.70 0.09 0.20
Matches are distributed among these distances:
13 4 0.08
14 13 0.25
15 17 0.33
16 1 0.02
17 7 0.13
18 1 0.02
19 9 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:108765009 original size:34 final size:32
Alignment explanation
Indices: 108764966--108765033 Score: 100
Period size: 34 Copynumber: 2.1 Consensus size: 32
108764956 TTTTACTACA
* *
108764966 AAATATTTATTATTAATATATTTATAATTGTAAT
1 AAATATTTATTATTAAAATATTAAT-ATTG-AAT
108765000 AAATATTTATTATTAAAATATTAATATTGAAT
1 AAATATTTATTATTAAAATATTAATATTGAAT
108765032 AA
1 AA
108765034 TTTTTAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 5 0.16
33 4 0.12
34 23 0.72
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (32 bp):
AAATATTTATTATTAAAATATTAATATTGAAT
Found at i:108765080 original size:15 final size:16
Alignment explanation
Indices: 108765060--108765090 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
108765050 AACAACATTA
108765060 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
108765075 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
108765091 AAAATAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:108765552 original size:15 final size:16
Alignment explanation
Indices: 108765532--108765564 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
108765522 TATATATTTT
108765532 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
108765547 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
108765564 T
1 T
108765565 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:108765649 original size:22 final size:22
Alignment explanation
Indices: 108765610--108765668 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
108765600 GTTTTAAGAA
*
108765610 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
108765631 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
108765653 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
108765669 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:108765685 original size:26 final size:24
Alignment explanation
Indices: 108765639--108765698 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
108765629 ATTTGTTTTA
*
108765639 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
108765663 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
108765689 TTTTTTATTT
1 ATATTTATTT
108765699 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:108777795 original size:15 final size:15
Alignment explanation
Indices: 108777775--108777806 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
108777765 TTCCTTGACA
108777775 AACAAGGGGCCCTTG
1 AACAAGGGGCCCTTG
108777790 AACAAGGGGCCCTTG
1 AACAAGGGGCCCTTG
108777805 AA
1 AA
108777807 ATATGTAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.25, G:0.31, T:0.12
Consensus pattern (15 bp):
AACAAGGGGCCCTTG
Found at i:108784825 original size:142 final size:139
Alignment explanation
Indices: 108784630--108784885 Score: 338
Period size: 142 Copynumber: 1.8 Consensus size: 139
108784620 CGTTTTAGCC
* *
108784630 GTTACTCGGAATTCCAGTGTAAATGTCGGAAATGAGTATACCAACAAGGATATATCCATATCCGA
1 GTTACACGGAATTCCAGTGTAAACGTCGGAAATGAGTATACCAACAAGGATATAT-C-TAT---A
* *
108784695 TAACGG-AAAA-AACAGTCAGAGTAACACAGACCATAGCTCCTAAACCCTAAACAAAGTTCAGCT
61 T-ACGGAAAAATAACAGTCAGAGTAACACAAACCATAGCTCATAAACCCTAAACAAAGTTCAGCT
108784758 TTCTCCGCCGTCTAT
125 TTCTCCGCCGTCTAT
* * *
108784773 GTTACACGGAA-TCCGGTGTAAACGTCGGAAATGAGTATACCAACACGTATATATCTATATACGG
1 GTTACACGGAATTCCAGTGTAAACGTCGGAAATGAGTATACCAACAAGGATATATCTATATACGG
* * * *
108784837 AAAAATAAGAGTCGGAGTAACATAAACCATAGCTCATATACCCTAAACA
66 AAAAATAACAGTCAGAGTAACACAAACCATAGCTCATAAACCCTAAACA
108784886 TTAAATACAA
Statistics
Matches: 100, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
136 4 0.04
137 6 0.06
138 37 0.37
140 3 0.03
141 1 0.01
142 39 0.39
143 10 0.10
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (139 bp):
GTTACACGGAATTCCAGTGTAAACGTCGGAAATGAGTATACCAACAAGGATATATCTATATACGG
AAAAATAACAGTCAGAGTAACACAAACCATAGCTCATAAACCCTAAACAAAGTTCAGCTTTCTCC
GCCGTCTAT
Found at i:108789573 original size:105 final size:105
Alignment explanation
Indices: 108789385--108789574 Score: 299
Period size: 105 Copynumber: 1.8 Consensus size: 105
108789375 CCGTCAGCAA
108789385 AGTTTGCCACACCAATTCAGATTGTCACCTACACCATCTATTGGTACATTATCGGATACACCTAT
1 AGTTTGCCACACCAATTCAGATTGTCACCTACACCATCTATTGGTACATTATCGGATACACCTAT
* *
108789450 GACGGGGCAGAAACGAGATGTATTTGAGAAGAGTATTGAG
66 GACGGGACAGAAAAGAGATGTATTTGAGAAGAGTATTGAG
* ** * * *
108789490 AGTTTGCCACAGCAATTTGGGTTGTCACCTACCCCATCTATTGGTACGTTATCGGATACACCTAT
1 AGTTTGCCACACCAATTCAGATTGTCACCTACACCATCTATTGGTACATTATCGGATACACCTAT
*
108789555 GACGGGACGGAAAAGAGATG
66 GACGGGACAGAAAAGAGATG
108789575 CTCAAGATGC
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 76 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (105 bp):
AGTTTGCCACACCAATTCAGATTGTCACCTACACCATCTATTGGTACATTATCGGATACACCTAT
GACGGGACAGAAAAGAGATGTATTTGAGAAGAGTATTGAG
Found at i:108800483 original size:23 final size:24
Alignment explanation
Indices: 108800436--108800483 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
108800426 GAGATTTGAT
*
108800436 TTTTTTTTTTTTAGAGTATAATTTG
1 TTTTTCTTTTTTAGAGTAT-ATTTG
*
108800461 TTTTTCTTTTTTAGGGTAT-TTTG
1 TTTTTCTTTTTTAGAGTATATTTG
108800484 GTAAGAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
25 17 0.81
ACGTcount: A:0.15, C:0.02, G:0.15, T:0.69
Consensus pattern (24 bp):
TTTTTCTTTTTTAGAGTATATTTG
Found at i:108827123 original size:22 final size:22
Alignment explanation
Indices: 108827097--108827145 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
108827087 ACCTGTAATT
108827097 TTGCACATGTATGACAGTTTTG
1 TTGCACATGTATGACAGTTTTG
108827119 TTGCACATGTATGACAGTTTTG
1 TTGCACATGTATGACAGTTTTG
108827141 TTGCA
1 TTGCA
108827146 AGGATTTGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.41
Consensus pattern (22 bp):
TTGCACATGTATGACAGTTTTG
Found at i:108828763 original size:115 final size:108
Alignment explanation
Indices: 108828601--108828826 Score: 287
Period size: 115 Copynumber: 2.0 Consensus size: 108
108828591 CCTTGGCGGT
* *
108828601 AAATTCATGGTTGGATCAAATTGTTGATTAGGATATATTGCTGGGATT-CTTTATATAAAATTTA
1 AAATGCATGGCTGGATCAAATTGTTGATTAGGATATATTGCTGGGATTAC-TTATATAAAATTTA
* * *
108828665 TTTATTTATTTATGAATTTTCTGACTCAAGCTCATATATTTTATATAAGG
65 -TT-TTT-TGTA--AATTTGCTGACTCAAGCTCATATATTCTATAT-AGG
108828715 AAATGCATGGCTGGATC-AATATGTTGAATTAGGATAT-TTAGCTGGGATTACTTATATAAAATT
1 AAATGCATGGCTGGATCAAAT-TGTTG-ATTAGGATATATT-GCTGGGATTACTTATATAAAATT
*
108828778 TATTTTTTGTAAATTTGCTGACTCAAGTTCATATATTCTATATAGG
63 TATTTTTTGTAAATTTGCTGACTCAAGCTCATATATTCTATATAGG
108828824 AAA
1 AAA
108828827 ATAGCGAGTG
Statistics
Matches: 102, Mismatches: 6, Indels: 13
0.84 0.05 0.11
Matches are distributed among these distances:
109 6 0.06
110 29 0.28
112 3 0.03
113 6 0.06
114 24 0.24
115 33 0.32
116 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (108 bp):
AAATGCATGGCTGGATCAAATTGTTGATTAGGATATATTGCTGGGATTACTTATATAAAATTTAT
TTTTTGTAAATTTGCTGACTCAAGCTCATATATTCTATATAGG
Found at i:108837542 original size:19 final size:19
Alignment explanation
Indices: 108837518--108837554 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
108837508 TCACTCTGAC
*
108837518 ATACTCTTAATGATGATAT
1 ATACTCTTAACGATGATAT
108837537 ATACTCTTAACGATGATA
1 ATACTCTTAACGATGATA
108837555 AAGATGATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
ATACTCTTAACGATGATAT
Found at i:108839186 original size:17 final size:17
Alignment explanation
Indices: 108839164--108839197 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
108839154 ATCCACTAAT
*
108839164 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
108839181 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
108839198 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:108843825 original size:17 final size:17
Alignment explanation
Indices: 108843803--108843836 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
108843793 ATCCACTAAT
*
108843803 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
108843820 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
108843837 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:108846097 original size:2 final size:2
Alignment explanation
Indices: 108846085--108846130 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
108846075 TAGAAGATGC
*
108846085 AG AG AG CG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
108846127 AG AG
1 AG AG
108846131 GACCTGGTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.02, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:108847529 original size:39 final size:37
Alignment explanation
Indices: 108847472--108847546 Score: 114
Period size: 39 Copynumber: 2.0 Consensus size: 37
108847462 GAGATTTCTC
108847472 AAATTTGGTCACTCCCTGAAAGAAATTTATGTTATTT
1 AAATTTGGTCACTCCCTGAAAGAAATTTATGTTATTT
* *
108847509 AAATTTAGAGTCACTTCCTGAAATAAATTTATGTTATT
1 AAATTT-G-GTCACTCCCTGAAAGAAATTTATGTTATT
108847547 CGAATTCGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 6 0.18
38 1 0.03
39 27 0.79
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (37 bp):
AAATTTGGTCACTCCCTGAAAGAAATTTATGTTATTT
Found at i:108848813 original size:31 final size:31
Alignment explanation
Indices: 108848775--108848834 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
108848765 CTAATGGCCG
* *
108848775 AAAAAGAAAAA-TTCTAATATTTGGGTGACCA
1 AAAAAGAAAAAGTT-AAATAGTTGGGTGACCA
108848806 AAAAAGAAAAAGTTAAATAGTTGGGTGAC
1 AAAAAGAAAAAGTTAAATAGTTGGGTGAC
108848835 TACCAGTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.50, C:0.07, G:0.20, T:0.23
Consensus pattern (31 bp):
AAAAAGAAAAAGTTAAATAGTTGGGTGACCA
Found at i:108849273 original size:11 final size:11
Alignment explanation
Indices: 108849257--108849290 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
108849247 AGTGAGATTG
108849257 GATACTGTAGC
1 GATACTGTAGC
108849268 GATACTGTAGC
1 GATACTGTAGC
108849279 GATACTGTAGC
1 GATACTGTAGC
108849290 G
1 G
108849291 TGAGACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (11 bp):
GATACTGTAGC
Found at i:108858865 original size:18 final size:18
Alignment explanation
Indices: 108858842--108858879 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
108858832 AACCAAAAAA
108858842 GAAGTTTACTAATAACTG
1 GAAGTTTACTAATAACTG
108858860 GAAGTTTACTAATAACTG
1 GAAGTTTACTAATAACTG
108858878 GA
1 GA
108858880 TGACTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (18 bp):
GAAGTTTACTAATAACTG
Found at i:108864687 original size:29 final size:27
Alignment explanation
Indices: 108864639--108864695 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 27
108864629 GCTTGAATTC
108864639 AATTTAAATAATATAAAATAT-TTTTA
1 AATTTAAATAATATAAAATATATTTTA
108864665 AATTTAAATTTAATTATAAAATATATTTTA
1 AATTTAAA--TAA-TATAAAATATATTTTA
108864695 A
1 A
108864696 TGTTTTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 8 0.30
28 3 0.11
29 10 0.37
30 6 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
AATTTAAATAATATAAAATATATTTTA
Found at i:108867610 original size:20 final size:20
Alignment explanation
Indices: 108867581--108867634 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
108867571 TTTAAACACG
*
108867581 AGAA-TTTTGAAACACAATA
1 AGAATTTTTGAAACACAAGA
* *
108867600 ATAATTTTTGAAA-ACACGA
1 AGAATTTTTGAAACACAAGA
*
108867619 AGATTTTTTGAAACAC
1 AGAATTTTTGAAACAC
108867635 GGAATTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (20 bp):
AGAATTTTTGAAACACAAGA
Found at i:108867626 original size:19 final size:18
Alignment explanation
Indices: 108867604--108867723 Score: 92
Period size: 18 Copynumber: 6.8 Consensus size: 18
108867594 ACAATAATAA
108867604 TTTTTGAAAACACGAAGAT
1 TTTTTGAAAACACGAA-AT
*
108867623 TTTTTG-AAACACGGAAT
1 TTTTTGAAAACACGAAAT
108867640 TTTTTGAAAACACGGAAA-
1 TTTTTGAAAACAC-GAAAT
* * *
108867658 TTTTCG-ATACATGAGAATT
1 TTTTTGAAAACACGA-AA-T
*
108867677 TTTTTG---ACACGAAAA
1 TTTTTGAAAACACGAAAT
* *
108867692 ATTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAT
108867710 TTTTTG-AAACACGA
1 TTTTTGAAAACACGA
108867724 TTTTTTTAAG
Statistics
Matches: 83, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
15 5 0.06
16 4 0.05
17 27 0.33
18 33 0.40
19 14 0.17
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAT
Found at i:108867641 original size:17 final size:17
Alignment explanation
Indices: 108867569--108867723 Score: 107
Period size: 17 Copynumber: 8.8 Consensus size: 17
108867559 ACTTTTTTTG
*
108867569 TTTTT-AAACACGAGAA
1 TTTTTGAAACACGAAAA
*
108867585 -TTTTGAAACACAATAATAA
1 TTTTTGAAACAC--GAA-AA
*
108867604 TTTTTGAAAACACGAAGAT
1 TTTTTG-AAACACGAA-AA
* *
108867623 TTTTTGAAACACGGAAT
1 TTTTTGAAACACGAAAA
*
108867640 TTTTTGAAAACACGGAAA
1 TTTTTG-AAACACGAAAA
* * * *
108867658 TTTTCGATACATGAGAA
1 TTTTTGAAACACGAAAA
***
108867675 TTTTTTTGACACGAAAA
1 TTTTTGAAACACGAAAA
*
108867692 ATTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
108867710 TTTTTGAAACACGA
1 TTTTTGAAACACGA
108867724 TTTTTTTAAG
Statistics
Matches: 108, Mismatches: 23, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
15 4 0.04
16 6 0.06
17 38 0.35
18 38 0.35
19 11 0.10
20 5 0.05
21 6 0.06
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.32
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:108867722 original size:35 final size:34
Alignment explanation
Indices: 108867569--108867723 Score: 100
Period size: 35 Copynumber: 4.4 Consensus size: 34
108867559 ACTTTTTTTG
* *
108867569 TTTTT-AAACACG-AGAATTTTGAAACACAATAATAA
1 TTTTTGAAACACGAAAAATTTTGAAACAC--GAA-AA
** * *
108867604 TTTTTGAAAACACGAAGATTTTTTGAAACACGGAAT
1 TTTTTG-AAACACGAA-AAATTTTGAAACACGAAAA
* * * *
108867640 TTTTTGAAAACACG-GAAATTTTCGATACATGAGAA
1 TTTTTG-AAACACGAAAAATTTT-GAAACACGAAAA
***
108867675 TTTTTTTGACACGAAAAATTTTGAAAACACGAAAA
1 TTTTTGAAACACGAAAAATTTTG-AAACACGAAAA
108867710 TTTTTGAAACACGA
1 TTTTTGAAACACGA
108867724 TTTTTTTAAG
Statistics
Matches: 89, Mismatches: 24, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
34 11 0.12
35 43 0.48
36 15 0.17
37 8 0.09
38 1 0.01
39 11 0.12
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.32
Consensus pattern (34 bp):
TTTTTGAAACACGAAAAATTTTGAAACACGAAAA
Found at i:108873414 original size:147 final size:145
Alignment explanation
Indices: 108873147--108873491 Score: 462
Period size: 147 Copynumber: 2.3 Consensus size: 145
108873137 TAAGCCTTTT
* * *
108873147 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTG-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG
108873212 TAATTTTAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG-
65 TAATTTTAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GGT
108873276 ACACGCTGAGGTAATTTC
129 ACACGCTGAGGT-ATTTC
* ** *
108873294 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG
* **
108873359 T-ATTTTCAATTTCTGTT-TTCAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGG
65 TAATTTT-AATTTCTGTTGTT-AAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGG
*
108873422 TTCACATGCTGAGGTATTTC
128 -T-ACACGCTGAGGTATTTC
*
108873442 AATTTCTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AATTTCTGTTTT---CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
108873492 TTCAGATTAC
Statistics
Matches: 174, Mismatches: 15, Indels: 15
0.85 0.07 0.07
Matches are distributed among these distances:
146 18 0.10
147 97 0.56
148 17 0.10
149 11 0.06
150 27 0.16
151 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (145 bp):
AATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT
AATTTTAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGTAC
ACGCTGAGGTATTTC
Found at i:108873515 original size:75 final size:73
Alignment explanation
Indices: 108873161--108873496 Score: 453
Period size: 75 Copynumber: 4.5 Consensus size: 73
108873151 TTTGTTTTTC
* *
108873161 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTTCT
108873226 GTTGTTAAAA
65 GTT-TTAAAA
**
108873236 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTTCT
*
108873301 GTTTT--CA
65 GTTTTAAAA
* * ** * *
108873308 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTCAATTTCT
108873373 GTTTTCAAAA
65 GTTTT-AAAA
* *
108873383 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTCAATTT
108873447 CTGTTTTAAAA
63 CTGTTTTAAAA
*
108873458 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
108873497 ATTACACACT
Statistics
Matches: 235, Mismatches: 18, Indels: 15
0.88 0.07 0.06
Matches are distributed among these distances:
71 1 0.00
72 65 0.28
74 3 0.01
75 138 0.59
76 17 0.07
77 11 0.05
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTCTG
TTTTAAAA
Found at i:108873955 original size:88 final size:86
Alignment explanation
Indices: 108873718--108874039 Score: 298
Period size: 88 Copynumber: 3.8 Consensus size: 86
108873708 TGTTTTAATT
** * * * *
108873718 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATTAAGC-
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG-TACACGCTGAGGTAATTTCAATT--TCT
* *
108873782 CTTTTGATT-TCTATTTTTCAAAAAAA
63 GTTTTCATTAT-TATTTTT--AAAAAA
** * * *
108873808 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTTACAC-C-GATGTATTTTCCATTTCTGT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG-TACACGCTGAGGTAATTTCAATTTCTGT
*
108873871 TTTCATTATTATGTTTTTGAAAGAA
65 TTTCATTATTA--TTTTT-AAAAAA
108873896 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAATTTCTGTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGTACACGCTGAGGTAATTTCAATTTCTGTT
108873960 GTT-A--A--A-----AAAAAA
66 -TTCATTATTATTTTTAAAAAA
*
108873972 TCAACTCATATCGCGAGAAATGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAATTTCTGTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGTACACGCTGAGGTAATTTCAATTTCTGTT
108874036 TTCA
66 TTCA
108874040 AAATTCAACT
Statistics
Matches: 208, Mismatches: 16, Indels: 30
0.82 0.06 0.12
Matches are distributed among these distances:
75 2 0.01
76 69 0.33
84 1 0.00
86 6 0.03
87 10 0.05
88 72 0.35
89 8 0.04
90 40 0.19
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (86 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGTACACGCTGAGGTAATTTCAATTTCTGTT
TTCATTATTATTTTTAAAAAA
Found at i:108874089 original size:72 final size:72
Alignment explanation
Indices: 108873896--108874475 Score: 892
Period size: 72 Copynumber: 7.9 Consensus size: 72
108873886 TTTGAAAGAA
*
108873896 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT-
* *
108873961 TTAAAAAAAAA
65 TT---CAAAAT
* *
108873972 TCAACTCATATCGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
1 TCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
108874037 TCAAAAT
66 TCAAAAT
108874044 TCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
1 TCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
*
108874109 TCAAAAA
66 TCAAAAT
* *
108874116 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTT
1 TCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
108874181 TCAAAAT
66 TCAAAAT
*
108874188 TCAACTTATATCGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
1 TCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
108874253 TCAAAAT
66 TCAAAAT
*
108874260 TCAACTTATATCGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
1 TCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
108874325 TCAAAAT
66 TCAAAAT
* * *
108874332 TCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTT
1 TCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
*
108874397 TCAAAAAAAAA
66 TC----AAAAT
** * *
108874408 TCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTG
1 TCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCTG
108874472 TTTT
63 TTTT
108874476 TTAAAAAAAA
Statistics
Matches: 475, Mismatches: 22, Indels: 12
0.93 0.04 0.02
Matches are distributed among these distances:
72 346 0.73
75 3 0.01
76 98 0.21
78 28 0.06
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (72 bp):
TCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
TCAAAAT
Found at i:108874719 original size:127 final size:126
Alignment explanation
Indices: 108874551--108874778 Score: 323
Period size: 127 Copynumber: 1.8 Consensus size: 126
108874541 TTTTTTCAAT
*
108874551 TCATATTGCGAGAGGTGAGTTAAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT-TTGTCA
1 TCATATTGCAAGAGGTGAGTTAAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTGTT-TCA
*
108874615 AGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGC
65 A-AATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGC
* * * * * * *
108874678 TCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
1 TCATATTGCAAGAGGTGAGTTAAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTGTTTCAA
** *
108874743 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTT
66 AATCAACTCATATTGCGAGAGGTGAGTTGAACCTTT
108874779 ACTCACGTGC
Statistics
Matches: 88, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
126 32 0.36
127 54 0.61
128 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (126 bp):
TCATATTGCAAGAGGTGAGTTAAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTGTTTCAA
AATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGC
Found at i:108875752 original size:22 final size:22
Alignment explanation
Indices: 108875711--108875752 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
108875701 GAGCAGAGAT
* * *
108875711 AAACAAATAGAGAAATAACAAA
1 AAACAAATACAAAAAAAACAAA
108875733 AAACAAATACAAAAAAAACA
1 AAACAAATACAAAAAAAACA
108875753 TTTGTAATCG
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:0.76, C:0.12, G:0.05, T:0.07
Consensus pattern (22 bp):
AAACAAATACAAAAAAAACAAA
Found at i:108876734 original size:17 final size:17
Alignment explanation
Indices: 108876693--108876736 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
108876683 AAACTCTTTT
108876693 ATTTTTATTTGTTTTTAA
1 ATTTTTATTTG-TTTTAA
108876711 ATTTTTATTTG-TTTAA
1 ATTTTTATTTGTTTTAA
108876727 ATTATTTATT
1 ATT-TTTATT
108876737 GTAAACTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.32
17 6 0.24
18 11 0.44
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (17 bp):
ATTTTTATTTGTTTTAA
Found at i:108876738 original size:16 final size:16
Alignment explanation
Indices: 108876697--108876738 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
108876687 TCTTTTATTT
*
108876697 TTATTTGTT-TTTAAA
1 TTATTTATTGTTTAAA
108876712 TT-TTTATTTGTTTAAA
1 TTATTTA-TTGTTTAAA
108876728 TTATTTATTGT
1 TTATTTATTGT
108876739 AAACTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 3 0.13
15 4 0.17
16 12 0.52
17 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (16 bp):
TTATTTATTGTTTAAA
Found at i:108877705 original size:17 final size:17
Alignment explanation
Indices: 108877685--108877820 Score: 87
Period size: 17 Copynumber: 7.8 Consensus size: 17
108877675 TTAAAAAAAA
108877685 TCGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
*** *
108877702 TCGTGTCAAAAAAATTC
1 TCGTGTTTCAAAAATTT
* * *
108877719 TCATGTATCGAAAATTT
1 TCGTGTTTCAAAAATTT
* *
108877736 CCGTGTTTTCAAAAAATT
1 TCGTG-TTTCAAAAATTT
* * *
108877754 CCGTGTTTCAAAAGTCT
1 TCGTGTTTCAAAAATTT
108877771 TCGTGTTTTCAAAAATTATT
1 TCGTG-TTTCAAAAA-T-TT
* *
108877791 ATTGTGTTTC-AAAATTC
1 -TCGTGTTTCAAAAATTT
108877808 TCGTGTTT-AAAAA
1 TCGTGTTTCAAAAA
108877821 CAAAAAAAGT
Statistics
Matches: 89, Mismatches: 24, Indels: 13
0.71 0.19 0.10
Matches are distributed among these distances:
16 11 0.12
17 41 0.46
18 23 0.26
19 5 0.06
20 5 0.06
21 4 0.04
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (17 bp):
TCGTGTTTCAAAAATTT
Found at i:108877750 original size:18 final size:18
Alignment explanation
Indices: 108877729--108877787 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
108877719 TCATGTATCG
108877729 AAAATTTCCGTGTTTTCA
1 AAAATTTCCGTGTTTTCA
*
108877747 AAAAATTCCGTG-TTTCA
1 AAAATTTCCGTGTTTTCA
*
108877764 AAAGTCTT-CGTGTTTTCA
1 AAAAT-TTCCGTGTTTTCA
108877782 AAAATT
1 AAAATT
108877788 ATTATTGTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 13 0.37
18 22 0.63
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (18 bp):
AAAATTTCCGTGTTTTCA
Found at i:108878469 original size:40 final size:41
Alignment explanation
Indices: 108878399--108878475 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 41
108878389 AAATATTAAA
* * * * *
108878399 ATATTATATCGATATTGGTTAATACGTATTGGTATAAATCG
1 ATATTATATCGAAATTGATTAAAACATATTGCTATAAATCG
108878440 ATATTA-ATCGAAATTGATTAAAACATATTGCTATAA
1 ATATTATATCGAAATTGATTAAAACATATTGCTATAA
108878476 CCGATACCGA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 25 0.81
41 6 0.19
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (41 bp):
ATATTATATCGAAATTGATTAAAACATATTGCTATAAATCG
Found at i:108879672 original size:3 final size:3
Alignment explanation
Indices: 108879664--108879698 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
108879654 CATTTAACCC
* *
108879664 TAT TAT TAT TAT TAT TGT TAT TGT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
108879699 ACAACAACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:108882279 original size:13 final size:12
Alignment explanation
Indices: 108882249--108882287 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
108882239 ATTAATTAAG
108882249 ATTTA-AATAAT
1 ATTTATAATAAT
*
108882260 TTTTATAATATAT
1 ATTTATAATA-AT
108882273 ATTTATAATAAT
1 ATTTATAATAAT
108882285 ATT
1 ATT
108882288 CGTCCCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 4 0.17
12 9 0.38
13 11 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
ATTTATAATAAT
Found at i:108884478 original size:53 final size:53
Alignment explanation
Indices: 108884397--108884542 Score: 213
Period size: 53 Copynumber: 2.7 Consensus size: 53
108884387 CTTACACGGT
* *
108884397 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
108884452 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
**
108884505 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTA
108884543 AATGGGCACA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:108888245 original size:30 final size:30
Alignment explanation
Indices: 108888211--108888380 Score: 304
Period size: 30 Copynumber: 5.7 Consensus size: 30
108888201 CCTTCTTGGT
*
108888211 GGTGGAGGTGGTCGTTTCCTTGGTGGCGGA
1 GGTGGAGGTGGTCGTCTCCTTGGTGGCGGA
108888241 GGTGGAGGTGGTCGTCTCCTTGGTGGCGGA
1 GGTGGAGGTGGTCGTCTCCTTGGTGGCGGA
*
108888271 GGTGGAGGTGGTCGTCTCTTTGGTGGCGGA
1 GGTGGAGGTGGTCGTCTCCTTGGTGGCGGA
*
108888301 GGTGGAGGTGGTCATCTCCTTGGTGGCGGA
1 GGTGGAGGTGGTCGTCTCCTTGGTGGCGGA
*
108888331 GGTGGAGGTGGTTGTCTCCTTGGTGGCGGA
1 GGTGGAGGTGGTCGTCTCCTTGGTGGCGGA
108888361 GGTGGAGGTGGTCGTCTCCT
1 GGTGGAGGTGGTCGTCTCCT
108888381 AGGCCTTGGT
Statistics
Matches: 133, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 133 1.00
ACGTcount: A:0.07, C:0.15, G:0.49, T:0.29
Consensus pattern (30 bp):
GGTGGAGGTGGTCGTCTCCTTGGTGGCGGA
Found at i:108888341 original size:90 final size:92
Alignment explanation
Indices: 108888211--108888416 Score: 317
Period size: 90 Copynumber: 2.2 Consensus size: 92
108888201 CCTTCTTGGT
* *
108888211 GGTGGAGGTGGTCGTTTCCTTGGTGGCGGAGGTGGAGGTGGTCGTCTCCTTGGTGGCGGAGGTGG
1 GGTGGAGGTGGTCATCTCCTTGGTGGCGGAGGTGGAGGTGGTCGTCTCCTTGGTGGCGGAGGTGG
*
108888276 AGGTGGTCGTCT-CT-TTGGTGGCGGA
66 AGGTGGTCGTCTCCTCTTGGTGACGGA
*
108888301 GGTGGAGGTGGTCATCTCCTTGGTGGCGGAGGTGGAGGTGGTTGTCTCCTTGGTGGCGGAGGTGG
1 GGTGGAGGTGGTCATCTCCTTGGTGGCGGAGGTGGAGGTGGTCGTCTCCTTGGTGGCGGAGGTGG
108888366 AGGTGGTCGTCTCCTAGGCCTTGGTGACGGA
66 AGGTGGTCGTCTCCT----CTTGGTGACGGA
*
108888397 GGTGGAGGTGGTGATCTCCT
1 GGTGGAGGTGGTCATCTCCT
108888417 AGGCCTTGGT
Statistics
Matches: 105, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
90 74 0.70
91 2 0.02
96 29 0.28
ACGTcount: A:0.08, C:0.16, G:0.48, T:0.28
Consensus pattern (92 bp):
GGTGGAGGTGGTCATCTCCTTGGTGGCGGAGGTGGAGGTGGTCGTCTCCTTGGTGGCGGAGGTGG
AGGTGGTCGTCTCCTCTTGGTGACGGA
Found at i:108888388 original size:36 final size:32
Alignment explanation
Indices: 108888211--108888444 Score: 274
Period size: 30 Copynumber: 7.4 Consensus size: 32
108888201 CCTTCTTGGT
108888211 GGTGGAGGTGGTCGT-T-TCCTTGGTGGCGGA
1 GGTGGAGGTGGTCGTCTCTCCTTGGTGGCGGA
108888241 GGTGGAGGTGGTCG--TCTCCTTGGTGGCGGA
1 GGTGGAGGTGGTCGTCTCTCCTTGGTGGCGGA
108888271 GGTGGAGGTGGTCGTCTCT--TTGGTGGCGGA
1 GGTGGAGGTGGTCGTCTCTCCTTGGTGGCGGA
*
108888301 GGTGGAGGTGGTC--ATCTCCTTGGTGGCGGA
1 GGTGGAGGTGGTCGTCTCTCCTTGGTGGCGGA
*
108888331 GGTGGAGGTGGT--TGTCTCCTTGGTGGCGGA
1 GGTGGAGGTGGTCGTCTCTCCTTGGTGGCGGA
*
108888361 GGTGGAGGTGGTCGTCTCCTAGGCCTTGGTGACGGA
1 GGTGGAGGTGGTCGTCT-CT---CCTTGGTGGCGGA
*
108888397 GGTGGAGGTGGT-GATCTCCTAGGCCTTGGTGACGGA
1 GGTGGAGGTGGTCG-TCT-CT---CCTTGGTGGCGGA
108888433 GGTGGAGGTGGT
1 GGTGGAGGTGGT
108888445 GATGATGGAG
Statistics
Matches: 187, Mismatches: 4, Indels: 20
0.89 0.02 0.09
Matches are distributed among these distances:
28 3 0.02
29 1 0.01
30 117 0.63
32 5 0.03
33 2 0.01
35 1 0.01
36 58 0.31
ACGTcount: A:0.09, C:0.15, G:0.49, T:0.27
Consensus pattern (32 bp):
GGTGGAGGTGGTCGTCTCTCCTTGGTGGCGGA
Found at i:108888398 original size:30 final size:32
Alignment explanation
Indices: 108888364--108888437 Score: 89
Period size: 36 Copynumber: 2.2 Consensus size: 32
108888354 TGGCGGAGGT
108888364 GGAGGTGGT-CG-TCTCCTAGGCCTTGGTGAC
1 GGAGGTGGTGCGATCTCCTAGGCCTTGGTGAC
*
108888394 GGAGGTGGAGGTGGTGATCTCCTAGGCCTTGGTGAC
1 GGAGGT---GGT-GCGATCTCCTAGGCCTTGGTGAC
108888430 GGAGGTGG
1 GGAGGTGG
108888438 AGGTGGTGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
30 6 0.16
33 5 0.14
35 1 0.03
36 25 0.68
ACGTcount: A:0.12, C:0.18, G:0.46, T:0.24
Consensus pattern (32 bp):
GGAGGTGGTGCGATCTCCTAGGCCTTGGTGAC
Found at i:108890676 original size:3 final size:3
Alignment explanation
Indices: 108890668--108890694 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
108890658 GCCCATTCAT
108890668 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
108890695 GGGTTAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:108897831 original size:17 final size:18
Alignment explanation
Indices: 108897804--108897841 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
108897794 TTTGATTTTG
108897804 ATTTATTATAAATTATAA
1 ATTTATTATAAATTATAA
* *
108897822 ATTT-TTATAATTTTTAA
1 ATTTATTATAAATTATAA
108897839 ATT
1 ATT
108897842 ATTTGTTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTATTATAAATTATAA
Found at i:108899155 original size:18 final size:18
Alignment explanation
Indices: 108899128--108899184 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 18
108899118 TACGACCGTT
*
108899128 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
108899146 TACGGTACTATTCACATA
1 TACGGTACTATTCACGTA
* *
108899164 TACAGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
108899182 TAC
1 TAC
108899185 AGTAGTTGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:108899185 original size:18 final size:18
Alignment explanation
Indices: 108899134--108899188 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
108899124 CGTTTACGGC
*
108899134 ACTATTCACGTATACGGT
1 ACTATTCACGTATACAGT
*
108899152 ACTATTCACATATACAGT
1 ACTATTCACGTATACAGT
*
108899170 ACTGTTCACGTATACAGT
1 ACTATTCACGTATACAGT
108899188 A
1 A
108899189 GTTGGGATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.33
Consensus pattern (18 bp):
ACTATTCACGTATACAGT
Found at i:108903922 original size:26 final size:26
Alignment explanation
Indices: 108903887--108903936 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
108903877 GAAATTTTTT
108903887 TTTTAAAGATTATACATTCGTAATGG
1 TTTTAAAGATTATACATTCGTAATGG
108903913 TTTTAAAGATTATACATTCGTAAT
1 TTTTAAAGATTATACATTCGTAAT
108903937 AGAGCGAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (26 bp):
TTTTAAAGATTATACATTCGTAATGG
Found at i:108905646 original size:190 final size:196
Alignment explanation
Indices: 108905240--108905974 Score: 772
Period size: 210 Copynumber: 3.7 Consensus size: 196
108905230 TTTCTTGTCC
* * *
108905240 AGTCGATATTGTTGTCTTTTGAATGCTTGCCGGCTCTTCAGATTTGAATAATGTCGATTTGTGCT
1 AGTCGATATTGTTGTCTTTTGAATGCTTGCCGGCTCTTCAGATTCGAACAATATCGATTTGTGCT
* * * *
108905305 CACGAAGCTGCGCTTAGAAAAGTAGTAGCTTATTTTTAGTTCTAAATTCAGCTTTTGAATTACTA
66 CACGAAGCTGCGCTTAGAAAAATTGTAGTTTATTTTTAGTTCTAAATTCAGCTTTTGAATTACTG
* * *
108905370 AT-C-TACGTTCTAATTCCTCTAAATTTTTTTGAATTTTTTCCTTTTTTTCAATGATCCGTCACC
131 ATGCGTACGTAC-AATT-CTCTAAATTTCTCTGAATTTTTTCCTTTTTTTCAATGATCCGTCACC
108905433 GCA
194 GCA
* *
108905436 AGTCGATATTGTTCTCTTTTGAATGCTTGCCGGCTCTTCAGATTCGAACAATATCGA-CT-T-CT
1 AGTCGATATTGTTGTCTTTTGAATGCTTGCCGGCTCTTCAGATTCGAACAATATCGATTTGTGCT
* *
108905498 CACGAAGGTTCGCTTAGAAAAATTTGTAGTTTATTTTTAGTTCTAAATTCAGCTTTTGAATTACT
66 CACGAAGCTGCGCTTAGAAAAA-TTGTAGTTTATTTTTAGTTCTAAATTCAGCTTTTGAATTACT
* * * * *
108905563 GATGCGTACGTAC-GTT-T-T-GATTTCTCTG-TTTTTTTTCTTCTTTTTTAATGATCCGTCACC
130 GATGCGTACGTACAATTCTCTAAATTTCTCTGAATTTTTTCCTT-TTTTTCAATGATCCGTCACC
108905623 GCA
194 GCA
* * * * *
108905626 AGTCCATATTGTTGTCTTTTGAATACTTACCGGCTCTTCAGATTCGAAGAATATCGATTTGTGTT
1 AGTCGATATTGTTGTCTTTTGAATGCTTGCCGGCTCTTCAGATTCGAACAATATCGATTTGTGCT
* ** * * *
108905691 CACGAAGCTGCGCTTAGAAATATTGTAGTTTATTTTTTCTTGTACATTCAGCTTTTGCATTACTG
66 CACGAAGCTGCGCTTAGAAAAATTGTAGTTTATTTTTAGTTCTAAATTCAGCTTTTGAATTACTG
* * *** * * * * *
108905756 ATGTGTACGTTCTAATTTCTCTTCCTTTTTTTTTTTTTAAATATTTTTTCTTTTTTCTTTTTTAA
131 ATGCGTACGTAC-AA--T-TC-T-C--TAAATTTCTCT-GA-ATTTTTTC---CTT-TTTTTCAA
*
108905821 TGATCCGTCACTGCA
182 TGATCCGTCACCGCA
* * *
108905836 AGTCGATATTGTTGTCTTTTGAATGCTTACCGGCTCTTCAGATTCCAACAATACCGATTTGTGCT
1 AGTCGATATTGTTGTCTTTTGAATGCTTGCCGGCTCTTCAGATTCGAACAATATCGATTTGTGCT
* * * * * * *
108905901 CACGAAACTGCGCCTCGAAAAGTTATAGTTTA-TTTTAGTTGTAAATTCAGCTTTTAAATTACTG
66 CACGAAGCTGCGCTTAGAAAAATTGTAGTTTATTTTTAGTTCTAAATTCAGCTTTTGAATTACTG
108905965 ATGCGTACGT
131 ATGCGTACGT
108905975 TGTAATTTCT
Statistics
Matches: 450, Mismatches: 64, Indels: 37
0.82 0.12 0.07
Matches are distributed among these distances:
189 9 0.02
190 81 0.18
191 2 0.00
192 50 0.11
193 41 0.09
194 45 0.10
195 2 0.00
196 60 0.13
197 1 0.00
199 1 0.00
203 1 0.00
204 5 0.01
207 6 0.01
209 36 0.08
210 110 0.24
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.44
Consensus pattern (196 bp):
AGTCGATATTGTTGTCTTTTGAATGCTTGCCGGCTCTTCAGATTCGAACAATATCGATTTGTGCT
CACGAAGCTGCGCTTAGAAAAATTGTAGTTTATTTTTAGTTCTAAATTCAGCTTTTGAATTACTG
ATGCGTACGTACAATTCTCTAAATTTCTCTGAATTTTTTCCTTTTTTTCAATGATCCGTCACCGC
A
Found at i:108912457 original size:22 final size:22
Alignment explanation
Indices: 108912435--108912477 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
108912425 TGGAAAAATA
*
108912435 AAATAATAA-TTAAAAATTTAT
1 AAATAAAAATTTAAAAATTTAT
*
108912456 AAATAAAAATTTATAAATTTAT
1 AAATAAAAATTTAAAAATTTAT
108912478 TTAAGATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATAAAAATTTAAAAATTTAT
Found at i:108912462 original size:14 final size:14
Alignment explanation
Indices: 108912440--108912473 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
108912430 AAATAAAATA
*
108912440 ATAATTAAAAATTT
1 ATAAATAAAAATTT
108912454 ATAAATAAAAATTT
1 ATAAATAAAAATTT
108912468 ATAAAT
1 ATAAAT
108912474 TTATTTAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAAATAAAAATTT
Found at i:108917933 original size:3 final size:3
Alignment explanation
Indices: 108917925--108917950 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
108917915 ATAAGAATTA
108917925 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
108917951 ACCTCAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:108922524 original size:21 final size:21
Alignment explanation
Indices: 108922498--108922538 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
108922488 AGACGAGCAA
* *
108922498 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
108922519 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
108922539 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:108929073 original size:43 final size:43
Alignment explanation
Indices: 108929012--108929097 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
108929002 CCATAAAAAG
108929012 TTGGTTTCTTCTCCTAGTTAAACTATGCTATCTTTTCTCGATC
1 TTGGTTTCTTCTCCTAGTTAAACTATGCTATCTTTTCTCGATC
108929055 TTGGTTTCTTCTCCTAGTTAAACTATGCTATCTTTTCTCGATC
1 TTGGTTTCTTCTCCTAGTTAAACTATGCTATCTTTTCTCGATC
108929098 AAACTCTGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.16, C:0.23, G:0.12, T:0.49
Consensus pattern (43 bp):
TTGGTTTCTTCTCCTAGTTAAACTATGCTATCTTTTCTCGATC
Found at i:108930718 original size:22 final size:24
Alignment explanation
Indices: 108930676--108930719 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
108930666 TAACTAAGTT
108930676 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
108930700 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
108930720 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:108931616 original size:15 final size:16
Alignment explanation
Indices: 108931598--108931630 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
108931588 ATTACAATTG
108931598 TACAAATATA-ATTTT
1 TACAAATATATATTTT
*
108931613 TACACATATATATTTT
1 TACAAATATATATTTT
108931629 TA
1 TA
108931631 TTACCATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (16 bp):
TACAAATATATATTTT
Found at i:108934516 original size:29 final size:30
Alignment explanation
Indices: 108934469--108934526 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
108934459 TTAGGTTTAA
**
108934469 TGTGCAATTTTATCCATG-AACTTTGATTT
1 TGTGCAATTTTATAAATGAAACTTTGATTT
* *
108934498 TGTGCAGTTTTATAAATGAAATTTTGATT
1 TGTGCAATTTTATAAATGAAACTTTGATT
108934527 AGATTCAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.48
Consensus pattern (30 bp):
TGTGCAATTTTATAAATGAAACTTTGATTT
Found at i:108934838 original size:31 final size:31
Alignment explanation
Indices: 108934803--108934880 Score: 147
Period size: 31 Copynumber: 2.5 Consensus size: 31
108934793 AAGTACATAA
*
108934803 TATTTATTATTCATTAATGATAACAAAAAAG
1 TATTTATTATTAATTAATGATAACAAAAAAG
108934834 TATTTATTATTAATTAATGATAACAAAAAAG
1 TATTTATTATTAATTAATGATAACAAAAAAG
108934865 TATTTATTATTAATTA
1 TATTTATTATTAATTA
108934881 CAAAGCGTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (31 bp):
TATTTATTATTAATTAATGATAACAAAAAAG
Found at i:108937960 original size:69 final size:69
Alignment explanation
Indices: 108937858--108938072 Score: 268
Period size: 78 Copynumber: 3.0 Consensus size: 69
108937848 AAGGAGTCCT
* * *
108937858 CCACCACCACCACCACGTCCAAAAACACCTCCGCCAATTTCACATCCACCTTTGAGGGCACCTCC
1 CCACCACCACCACCACGTCCAAACACACCTCCGCCAGTTTCACTTCCACCTTTGAGGGCACCTCC
108937923 ACCA
66 ACCA
* * *
108937927 CCGCCACCACCACCACGTCTAAACACACCTCCGCCAGTTTCACTTCCACCTTTGAGGACGCCTCC
1 CCACCACCACCACCACGTCCAAACACACCTCCGCCAGTTTCACTTCCACCTTTGAGG--G-C-AC
108937992 ACTACCATCACCA
62 -CT--C--CACCA
* * *
108938005 TCACCACCACCACCACGTCCAAACATACCTCCGCCAGTCTCACTTCCACCTTTGAGGGCACCTCC
1 CCACCACCACCACCACGTCCAAACACACCTCCGCCAGTTTCACTTCCACCTTTGAGGGCACCTCC
108938070 ACC
66 ACC
108938073 TTTCTCACCA
Statistics
Matches: 125, Mismatches: 12, Indels: 18
0.81 0.08 0.12
Matches are distributed among these distances:
69 56 0.45
71 2 0.02
72 1 0.01
73 3 0.02
74 3 0.02
75 1 0.01
76 2 0.02
78 57 0.46
ACGTcount: A:0.26, C:0.48, G:0.10, T:0.17
Consensus pattern (69 bp):
CCACCACCACCACCACGTCCAAACACACCTCCGCCAGTTTCACTTCCACCTTTGAGGGCACCTCC
ACCA
Found at i:108938104 original size:36 final size:36
Alignment explanation
Indices: 108938063--108938178 Score: 151
Period size: 36 Copynumber: 3.2 Consensus size: 36
108938053 CCTTTGAGGG
*
108938063 CACCTCCACCTTTCTCACCACCAATGAACGAACCAT
1 CACCTCCACCATTCTCACCACCAATGAACGAACCAT
** * * * *
108938099 CACCTCCACCCCTGTCACCTCCAATGAACCAACCTT
1 CACCTCCACCATTCTCACCACCAATGAACGAACCAT
* *
108938135 CATCTCCACCATTCTCACCACCAATGAATGAACCAT
1 CACCTCCACCATTCTCACCACCAATGAACGAACCAT
108938171 CACCTCCA
1 CACCTCCA
108938179 ATGAACCAAC
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.29, C:0.46, G:0.05, T:0.20
Consensus pattern (36 bp):
CACCTCCACCATTCTCACCACCAATGAACGAACCAT
Found at i:108938180 original size:57 final size:57
Alignment explanation
Indices: 108938113--108938235 Score: 201
Period size: 57 Copynumber: 2.2 Consensus size: 57
108938103 TCCACCCCTG
* *
108938113 TCACCTCCAATGAACCAACCTTCATCTCCACCATTCTCACCACCAATGAATGAACCA
1 TCACCTCCAATGAACCAACCTTCACCTCCACCATTCTCACCACCAATGAACGAACCA
* *
108938170 TCACCTCCAATGAACCAACCTTCACCTCCACCTTTTTCACCACCAATGAACGAACCA
1 TCACCTCCAATGAACCAACCTTCACCTCCACCATTCTCACCACCAATGAACGAACCA
*
108938227 TCACATCCA
1 TCACCTCCA
108938236 CCCCTGTCAC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.33, C:0.41, G:0.05, T:0.21
Consensus pattern (57 bp):
TCACCTCCAATGAACCAACCTTCACCTCCACCATTCTCACCACCAATGAACGAACCA
Found at i:108938189 original size:21 final size:21
Alignment explanation
Indices: 108938149--108938199 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
108938139 TCCACCATTC
* **
108938149 TCACCACCAATGAATGAACCA
1 TCACCTCCAATGAACCAACCA
*
108938170 TCACCTCCAATGAACCAACCT
1 TCACCTCCAATGAACCAACCA
108938191 TCACCTCCA
1 TCACCTCCA
108938200 CCTTTTTCAC
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:0.35, C:0.41, G:0.06, T:0.18
Consensus pattern (21 bp):
TCACCTCCAATGAACCAACCA
Found at i:108938200 original size:129 final size:129
Alignment explanation
Indices: 108938063--108938305 Score: 443
Period size: 129 Copynumber: 1.9 Consensus size: 129
108938053 CCTTTGAGGG
*
108938063 CACCTCCACCTTTCTCACCACCAATGAACGAACCATCACCTCCACCCCTGTCACCTCCAATGAAC
1 CACCTCCACCTTTCTCACCACCAATGAACGAACCATCACATCCACCCCTGTCACCTCCAATGAAC
*
108938128 CAACCTTCATCTCCACCATT-CTCACCACCAATGAATGAACCATCACCTCCAATGAACCAACCTT
66 CAACCTTCACCTCCACC-TTACTCACCACCAATGAATGAACCATCACCTCCAATGAACCAACCTT
*
108938192 CACCTCCACCTTTTTCACCACCAATGAACGAACCATCACATCCACCCCTGTCACCTCCAATGAAC
1 CACCTCCACCTTTCTCACCACCAATGAACGAACCATCACATCCACCCCTGTCACCTCCAATGAAC
108938257 CAACCTTCACCTCCACCTTACTCACCACCAATGAATGAACCATCACCTC
66 CAACCTTCACCTCCACCTTACTCACCACCAATGAATGAACCATCACCTC
108938306 AACCTTTCTC
Statistics
Matches: 110, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
128 2 0.02
129 108 0.98
ACGTcount: A:0.30, C:0.44, G:0.05, T:0.20
Consensus pattern (129 bp):
CACCTCCACCTTTCTCACCACCAATGAACGAACCATCACATCCACCCCTGTCACCTCCAATGAAC
CAACCTTCACCTCCACCTTACTCACCACCAATGAATGAACCATCACCTCCAATGAACCAACCTT
Found at i:108938210 original size:36 final size:36
Alignment explanation
Indices: 108938170--108938448 Score: 333
Period size: 36 Copynumber: 7.8 Consensus size: 36
108938160 GAATGAACCA
*
108938170 TCACCTCCAATGAACCAACCTTCACCTCCACCTTTT
1 TCACCTCCAATGAACCAACCTTCACCTCCACCTTTC
* * * * ** *
108938206 TCACCACCAATGAACGAACCATCACATCCACCCCTG
1 TCACCTCCAATGAACCAACCTTCACCTCCACCTTTC
*
108938242 TCACCTCCAATGAACCAACCTTCACCTCCACCTTAC
1 TCACCTCCAATGAACCAACCTTCACCTCCACCTTTC
* ** * *
108938278 TCACCACCAATGAATGAACCATCACCTCAACCTTTC
1 TCACCTCCAATGAACCAACCTTCACCTCCACCTTTC
* * *
108938314 TCACCTCCAATGGACCAACCTTTACCTCCACATTTC
1 TCACCTCCAATGAACCAACCTTCACCTCCACCTTTC
* *
108938350 TCACCTCCAATGGACCAACCTTCACCTCCATCTTTC
1 TCACCTCCAATGAACCAACCTTCACCTCCACCTTTC
* * * * * *
108938386 TCACCACCAAAGAACGAACCATCACCTCCACCCTTG
1 TCACCTCCAATGAACCAACCTTCACCTCCACCTTTC
108938422 TCACCTCCAATGAACCAACCTTCACCT
1 TCACCTCCAATGAACCAACCTTCACCT
108938449 TCAGCTCTAT
Statistics
Matches: 199, Mismatches: 44, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 199 1.00
ACGTcount: A:0.29, C:0.44, G:0.05, T:0.22
Consensus pattern (36 bp):
TCACCTCCAATGAACCAACCTTCACCTCCACCTTTC
Found at i:108938236 original size:93 final size:93
Alignment explanation
Indices: 108938077--108938271 Score: 230
Period size: 93 Copynumber: 2.1 Consensus size: 93
108938067 TCCACCTTTC
* * * *
108938077 TCACCACCAATGAACGAACCATCACCTCCACCCCTGTCACCTCCAATGAACCAACCTTCATCTCC
1 TCACCTCCAATGAACCAACCATCACCTCCACCCCTGTCACCACCAATGAACCAACCATCATCTCC
* **
108938142 ACCATTCTCACCACCAATGAATGAACCA
66 ACCACTCTCACCACCAATGAACCAACCA
* ** * *
108938170 TCACCTCCAATGAACCAACCTTCACCTCCACCTTTTTCACCACCAATGAACGAACCATCA-CATC
1 TCACCTCCAATGAACCAACCATCACCTCCACCCCTGTCACCACCAATGAACCAACCATCATC-TC
* * * *
108938234 CACCCCTGTCACCTCCAATGAACCAACCT
65 CACCACTCTCACCACCAATGAACCAACCA
108938263 TCACCTCCA
1 TCACCTCCA
108938272 CCTTACTCAC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
92 1 0.01
93 84 0.99
ACGTcount: A:0.31, C:0.44, G:0.06, T:0.19
Consensus pattern (93 bp):
TCACCTCCAATGAACCAACCATCACCTCCACCCCTGTCACCACCAATGAACCAACCATCATCTCC
ACCACTCTCACCACCAATGAACCAACCA
Found at i:108938540 original size:96 final size:89
Alignment explanation
Indices: 108938444--108938711 Score: 324
Period size: 81 Copynumber: 3.0 Consensus size: 89
108938434 AACCAACCTT
* * *
108938444 CACCTTCAGCTCTATCACCAAGGAGGACACCACCCCCACCGCCTCCGCCTTCAGCTCCATCACCA
1 CACCTTCAGCTCCATCACCAAGAAGGACACCACCCCCACCGCCTCCACCTTCAGCTCCATCACCA
*
108938509 AGGAGGACACCACCCTTACCGCC-TC
66 AGGAGGACACCACCC--ACCGCCGAC
108938534 CACCTTCAGCTCCATCACCAAGAAGGACACCACCACCACCACCACCGCCTCCACCTTCAGCTCCA
1 CACCTTCAGCTCCATCACCAAGAAGG--A-CACCA-C-CC-CCACCGCCTCCACCTTCAGCTCCA
*
108938599 TCACCAAGGAGGACACCA-CCGCCGCC-AC
60 TCACCAAGGAGGACACCACCCACCGCCGAC
*
108938627 CACCTTCAGCTCCATCACCAAAAAGGACACCA---CCA---CCTCCACCTTCAGCTCCATCACCA
1 CACCTTCAGCTCCATCACCAAGAAGGACACCACCCCCACCGCCTCCACCTTCAGCTCCATCACCA
*
108938686 AGGAGGACACCA-CCACCTCC-AC
66 AGGAGGACACCACCCACCGCCGAC
108938708 CACC
1 CACC
108938712 AAGGACACAT
Statistics
Matches: 164, Mismatches: 8, Indels: 21
0.85 0.04 0.11
Matches are distributed among these distances:
81 48 0.29
84 3 0.02
90 29 0.18
91 1 0.01
92 1 0.01
93 36 0.22
94 1 0.01
95 4 0.02
96 41 0.25
ACGTcount: A:0.27, C:0.49, G:0.12, T:0.12
Consensus pattern (89 bp):
CACCTTCAGCTCCATCACCAAGAAGGACACCACCCCCACCGCCTCCACCTTCAGCTCCATCACCA
AGGAGGACACCACCCACCGCCGAC
Found at i:108938581 original size:51 final size:45
Alignment explanation
Indices: 108938444--108938699 Score: 314
Period size: 45 Copynumber: 5.8 Consensus size: 45
108938434 AACCAACCTT
*
108938444 CACCTTCAGCTCTATCACCAAGGAGGACACCACCCCCACCGCCTC
1 CACCTTCAGCTCCATCACCAAGGAGGACACCACCCCCACCGCCTC
* **
108938489 CGCCTTCAGCTCCATCACCAAGGAGGACACCACCCTTACCGCCTC
1 CACCTTCAGCTCCATCACCAAGGAGGACACCACCCCCACCGCCTC
*
108938534 CACCTTCAGCTCCATCACCAAGAAGGACACCACCACCACCACCACCGCCTC
1 CACCTTCAGCTCCATCACCAAGGAGG--A-CACCA-C-CC-CCACCGCCTC
* *
108938585 CACCTTCAGCTCCATCACCAAGGAGGACACCA---CCGCCGCCAC
1 CACCTTCAGCTCCATCACCAAGGAGGACACCACCCCCACCGCCTC
**
108938627 CACCTTCAGCTCCATCACCAAAAAGGACACCA---CCA---CCTC
1 CACCTTCAGCTCCATCACCAAGGAGGACACCACCCCCACCGCCTC
108938666 CACCTTCAGCTCCATCACCAAGGAGGACACCACC
1 CACCTTCAGCTCCATCACCAAGGAGGACACCACC
108938700 ACCTCCACCA
Statistics
Matches: 186, Mismatches: 17, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
39 33 0.18
42 40 0.22
45 65 0.35
47 1 0.01
48 10 0.05
49 2 0.01
50 2 0.01
51 33 0.18
ACGTcount: A:0.27, C:0.48, G:0.13, T:0.12
Consensus pattern (45 bp):
CACCTTCAGCTCCATCACCAAGGAGGACACCACCCCCACCGCCTC
Found at i:108938586 original size:39 final size:41
Alignment explanation
Indices: 108938457--108938711 Score: 174
Period size: 42 Copynumber: 5.8 Consensus size: 41
108938447 CTTCAGCTCT
* * *
108938457 ATCACCAAGGAGGACACCACCCCCACCGCCTCCGCCTTCAGCTCC
1 ATCACCAAGGAGGACACCA---CCACCGCCACCACCTGCA-CTCC
* *
108938502 ATCACCAAGGAGGACACCACCCTTACCGCCTCCACCTTCAGCTCC
1 ATCACCAAGGAGGACACCA-CC--ACCGCCACCACCTGCA-CTCC
* * *
108938547 ATCACCAAGAAGGACACCACCACCACCACCACCGCCTCCACCTTCAGCTCC
1 ATCACCAAGGAGG--------A-CACCACCACCGCCACCACCTGCA-CTCC
* *
108938598 ATCACCAAGGAGGACACCACCGCCGCCACCACCTTCAGCTCC
1 ATCACCAAGGAGGACACCACCACCGCCACCACCTGCA-CTCC
** * *
108938640 ATCACCAAAAAGGACACCACCA---CCTCCACCTTCAGCTCC
1 ATCACCAAGGAGGACACCACCACCGCCACCACCTGCA-CTCC
*
108938679 ATCACCAAGGAGGACACCACCACCTCCACCACC
1 ATCACCAAGGAGGACACCACCACCGCCACCACC
108938712 AAGGACACAT
Statistics
Matches: 184, Mismatches: 12, Indels: 31
0.81 0.05 0.14
Matches are distributed among these distances:
39 36 0.20
42 52 0.28
43 4 0.02
45 51 0.28
51 33 0.18
53 3 0.02
54 5 0.03
ACGTcount: A:0.28, C:0.49, G:0.13, T:0.11
Consensus pattern (41 bp):
ATCACCAAGGAGGACACCACCACCGCCACCACCTGCACTCC
Found at i:108938617 original size:42 final size:42
Alignment explanation
Indices: 108938570--108938711 Score: 209
Period size: 42 Copynumber: 3.5 Consensus size: 42
108938560 ACACCACCAC
*
108938570 CACCACCACCGCCTCCACCTTCAGCTCCATCACCAAGGAGGA
1 CACCACCACCGCCACCACCTTCAGCTCCATCACCAAGGAGGA
* **
108938612 CACCACCGCCGCCACCACCTTCAGCTCCATCACCAAAAAGGA
1 CACCACCACCGCCACCACCTTCAGCTCCATCACCAAGGAGGA
*
108938654 CACCACCA---CCTCCACCTTCAGCTCCATCACCAAGGAGGA
1 CACCACCACCGCCACCACCTTCAGCTCCATCACCAAGGAGGA
*
108938693 CACCACCACCTCCACCACC
1 CACCACCACCGCCACCACC
108938712 AAGGACACAT
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 36 0.41
42 52 0.59
ACGTcount: A:0.28, C:0.50, G:0.11, T:0.11
Consensus pattern (42 bp):
CACCACCACCGCCACCACCTTCAGCTCCATCACCAAGGAGGA
Found at i:108939330 original size:30 final size:29
Alignment explanation
Indices: 108939290--108939358 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
108939280 ATTAATAATT
** *
108939290 TATAAGAATTGGATTAAATCAAAATTTCATG
1 TATAA-AATTGGACAAAATC-AAAGTTCATG
*
108939321 TATAAAATTGTACAAAATCAAAGTTCATG
1 TATAAAATTGGACAAAATCAAAGTTCATG
*
108939350 TATATAATT
1 TATAAAATT
108939359 ACACGTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 17 0.52
30 11 0.33
31 5 0.15
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.36
Consensus pattern (29 bp):
TATAAAATTGGACAAAATCAAAGTTCATG
Found at i:108941618 original size:20 final size:20
Alignment explanation
Indices: 108941566--108941618 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
108941556 AAAATATTGA
* *
108941566 TTTATCGATATTTATAATAC
1 TTTATCAATATTTATAAGAC
* *
108941586 TTTA-CAAAAATTTATAAGAT
1 TTTATC-AATATTTATAAGAC
108941606 TTTATCAATATTT
1 TTTATCAATATTT
108941619 TCAAAATTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.49
Consensus pattern (20 bp):
TTTATCAATATTTATAAGAC
Found at i:108941722 original size:20 final size:19
Alignment explanation
Indices: 108941693--108941745 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
108941683 TATTTAACAG
* *
108941693 TTTATTAAAATTTCTAAGGA
1 TTTATCAAAATTT-TAACGA
108941713 TTTATCAAAATATTTAACGA
1 TTTATCAAAAT-TTTAACGA
* *
108941733 ATTATCAATATTT
1 TTTATCAAAATTT
108941746 ATGAGACTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.45
Consensus pattern (19 bp):
TTTATCAAAATTTTAACGA
Found at i:108941893 original size:20 final size:19
Alignment explanation
Indices: 108941836--108941891 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
108941826 CAAAAGTTCA
*
108941836 AAAATATCTAATGATTTACC
1 AAAATTTCTAAT-ATTTACC
* * *
108941856 AACATTTATAAGAATTTACC
1 AAAATTTCTAA-TATTTACC
108941876 AAAATTTCTAATATTT
1 AAAATTTCTAATATTT
108941892 TATCAATATT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.39
Consensus pattern (19 bp):
AAAATTTCTAATATTTACC
Found at i:108949223 original size:9 final size:9
Alignment explanation
Indices: 108949201--108949256 Score: 58
Period size: 9 Copynumber: 5.8 Consensus size: 9
108949191 AATACCTTTA
*
108949201 AATTTTTTGG
1 AATTTTTT-T
*
108949211 AATTTTATT
1 AATTTTTTT
108949220 AATTTTTTT
1 AATTTTTTT
108949229 AATATTTTTAT
1 AAT-TTTTT-T
108949240 AACTTTTTTT
1 AA-TTTTTTT
108949250 AATTTTT
1 AATTTTT
108949257 CGGTAATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 16 0.40
10 15 0.38
11 8 0.20
12 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.68
Consensus pattern (9 bp):
AATTTTTTT
Found at i:108949235 original size:20 final size:21
Alignment explanation
Indices: 108949213--108949256 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
108949203 TTTTTTGGAA
108949213 TTTTATTAA-TTTTTTTAATAT
1 TTTTA-TAACTTTTTTTAATAT
108949234 TTTTATAACTTTTTTTAAT-T
1 TTTTATAACTTTTTTTAATAT
108949254 TTT
1 TTT
108949257 CGGTAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTATAACTTTTTTTAATAT
Found at i:108953379 original size:231 final size:231
Alignment explanation
Indices: 108952789--108953483 Score: 761
Period size: 225 Copynumber: 3.0 Consensus size: 231
108952779 GGCTCTTGCA
* * * * * *
108952789 TTTTACTATGTTCAATGGTTTCAGTCACAGT-CGCAACTGCATCAATTCCAACCTTATTCTTCC-
1 TTTTACTATGTTCAAGGGTTCCAGTCACAGTAC-CAACTGCATCAATCCCATCCCT-GTC-TCCT
* * * * *
108952852 TCTTGTGTTTATCTTCCCCAA-CCTTTTCTGCTTCCCCATTGTTCCCCAAATTCACCACCTTGCT
63 TCTTATGTTTATCTTTCCCAACCCTTTT-TGCTTCCCCATTGTTCTCCAAGTTCATCACCTTGCT
*
108952916 ACTTTCTTTTTCTGCATTCTCTTTTCCACCTAAACAAGTTTCCATTGAAATCTCTTCAACTACAT
127 ACTTTCTTGTTCTGCATTCTCTTTTCCACCTAAACAAGTTTCCATTGAAATCTCTTCAACTACAT
* * *
108952981 CTTT-TTTT-T-T-C---TTACGCGCCTT-TGGAGATTCCT
192 CTTTATTTTCTATGCTTTTTATGAGCCTTCT-CAGATTCCT
* * *
108953014 TTTTACTATGTTCAAGGGTTCCGGTCACAGTACCAACTGCATTAATCCCATCCTTGTCGTCCTTC
1 TTTTACTATGTTCAAGGGTTCCAGTCACAGTACCAACTGCATCAATCCCATCCCTGTC-TCCTTC
* * * * *
108953079 TTGTGTTTATCTTTCCCGACCCCTTTTGCTTCCCCTTTGTTCTCCAAGTTCATCGCCTTGCTACT
65 TTATGTTTATCTTTCCCAACCCTTTTTGCTTCCCCATTGTTCTCCAAGTTCATCACCTTGCTACT
** * * * * *
108953144 TTCTTGTTCTGTGTTCTTTTTTCCACCTAAACAATTTTCTACTGAAATCTCTTTAACCT-CATCT
130 TTCTTGTTCTGCATTCTCTTTTCCACCTAAACAAGTTTCCATTGAAATCTCTTCAA-CTACATCT
108953208 TTACTTTTCTCATGCTTTTTATGAGCCTTCTCAGATTCCT
194 TTA-TTTTCT-ATGCTTTTTATGAGCCTTCTCAGATTCCT
** * * ** * *
108953248 TTTTACTATGTTTGAGGGTTTCAGTCACAGTAGCAACTGCATCGGTCTCGTCCCTGT-T-CTTCT
1 TTTTACTATGTTCAAGGGTTCCAGTCACAGTACCAACTGCATCAATCCCATCCCTGTCTCCTTCT
* ** *
108953311 TATGTTTGTCTTTCTTAACCCTTTTTGCTTCCCCATTGTTCTCCAAGTTCATCACCTTGCGACTT
66 TATGTTTATCTTTCCCAACCCTTTTTGCTTCCCCATTGTTCTCCAAGTTCATCACCTTGCTACTT
* * *
108953376 TCTTGTTCTGCATTCTCTTTTCCACCCAAACAAGTTTCCATTGGAATCTCTTCAACTGCATCTTT
131 TCTTGTTCTGCATTCTCTTTTCCACCTAAACAAGTTTCCATTGAAATCTCTTCAACTACATCTTT
** *
108953441 ATTTGTCTTATGCTTTTTATGAGTGTTCTTAGATTCCT
196 ATTT-TC-TATGCTTTTTATGAGCCTTCTCAGATTCCT
108953479 TTTTA
1 TTTTA
108953484 TCTGTATCAA
Statistics
Matches: 394, Mismatches: 59, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
224 5 0.01
225 155 0.39
226 8 0.02
227 4 0.01
228 1 0.00
230 6 0.02
231 149 0.38
232 2 0.01
234 63 0.16
235 1 0.00
ACGTcount: A:0.17, C:0.28, G:0.11, T:0.44
Consensus pattern (231 bp):
TTTTACTATGTTCAAGGGTTCCAGTCACAGTACCAACTGCATCAATCCCATCCCTGTCTCCTTCT
TATGTTTATCTTTCCCAACCCTTTTTGCTTCCCCATTGTTCTCCAAGTTCATCACCTTGCTACTT
TCTTGTTCTGCATTCTCTTTTCCACCTAAACAAGTTTCCATTGAAATCTCTTCAACTACATCTTT
ATTTTCTATGCTTTTTATGAGCCTTCTCAGATTCCT
Found at i:108960335 original size:18 final size:18
Alignment explanation
Indices: 108960312--108960348 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
108960302 ATGATTGTTA
108960312 AATTATTT-AAAATTATTT
1 AATTATTTGAAAATT-TTT
108960330 AATTATTTGAAAATTTTT
1 AATTATTTGAAAATTTTT
108960348 A
1 A
108960349 TTTTAATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
AATTATTTGAAAATTTTT
Found at i:108964706 original size:2 final size:2
Alignment explanation
Indices: 108964701--108964735 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
108964691 ATCATATTCT
108964701 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
108964736 TTTGCTTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:108977311 original size:2 final size:2
Alignment explanation
Indices: 108977298--108977351 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
108977288 AACTCAGGTA
*
108977298 TC TC TG TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
108977340 TC TC TC AC TC TC
1 TC TC TC TC TC TC
108977352 ACACACACAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.02, C:0.48, G:0.02, T:0.48
Consensus pattern (2 bp):
TC
Found at i:108981919 original size:5 final size:6
Alignment explanation
Indices: 108981901--108981926 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
108981891 TAATATCGAT
108981901 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
108981927 GAGATAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:108989479 original size:19 final size:19
Alignment explanation
Indices: 108989447--108989484 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
108989437 ATTATAGGCC
*
108989447 CCATTTTCAACAATTTTCT
1 CCATTATCAACAATTTTCT
*
108989466 CCATTATCATCAATTTTCT
1 CCATTATCAACAATTTTCT
108989485 ACTTGTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.47
Consensus pattern (19 bp):
CCATTATCAACAATTTTCT
Found at i:108994586 original size:17 final size:17
Alignment explanation
Indices: 108994564--108994597 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
108994554 ATCCACTAAT
*
108994564 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
108994581 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
108994598 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:108999224 original size:17 final size:17
Alignment explanation
Indices: 108999202--108999235 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
108999192 ATCCACTAAT
*
108999202 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
108999219 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
108999236 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:108999734 original size:29 final size:29
Alignment explanation
Indices: 108999701--108999757 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
108999691 TAATCAGACT
108999701 GTTTTGTTCATGATTGGGTAGTGCTGCCG
1 GTTTTGTTCATGATTGGGTAGTGCTGCCG
108999730 GTTTTGTTCATGATTGGGTAGTGCTGCC
1 GTTTTGTTCATGATTGGGTAGTGCTGCC
108999758 ACTTGCCAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.11, C:0.14, G:0.33, T:0.42
Consensus pattern (29 bp):
GTTTTGTTCATGATTGGGTAGTGCTGCCG
Found at i:109004865 original size:33 final size:33
Alignment explanation
Indices: 109004823--109004889 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
109004813 TTGCGTTTTT
109004823 TTTTTTTAGATATGAATTGTCATGTTAGGACAA
1 TTTTTTTAGATATGAATTGTCATGTTAGGACAA
109004856 TTTTTTTAGATATGAATTGTCATGTTAGGACAA
1 TTTTTTTAGATATGAATTGTCATGTTAGGACAA
109004889 T
1 T
109004890 AAATGTGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (33 bp):
TTTTTTTAGATATGAATTGTCATGTTAGGACAA
Found at i:109006600 original size:4 final size:4
Alignment explanation
Indices: 109006591--109006625 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
109006581 GACATATAAG
109006591 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
109006626 GATGCATACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:109010601 original size:13 final size:14
Alignment explanation
Indices: 109010572--109010605 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
109010562 GTATCAAATT
109010572 ATATCAAAAATTAAA
1 ATAT-AAAAATTAAA
109010587 ATATAAAAATT-AA
1 ATATAAAAATTAAA
109010600 ATATAA
1 ATATAA
109010606 TATAATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 7 0.37
15 4 0.21
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (14 bp):
ATATAAAAATTAAA
Found at i:109019069 original size:93 final size:92
Alignment explanation
Indices: 109018972--109019268 Score: 362
Period size: 104 Copynumber: 3.1 Consensus size: 92
109018962 TTTCAAAAAA
* * *
109018972 TTTTTTTTGCTCTTTAAAAATACGAGTTTTAAAAAAAAAATTTGGGTGCTGACCTGTCAGTGGCC
1 TTTTTTTTGCTCTCTAAAAATACGAGTTTTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCC
109019037 GGCACCCAGTACCAAAAAAAATTCAAATT
66 GGCACCCAGTA-CAAAAAAAATTCAAA-T
* **
109019066 TTTTTCAAAAAAAAATTTGCTCTCTAAAAATACGAGTTTTAAAAAAAAAATTTTGGGTGTTGGTT
1 TTTTT----------TTTGCTCTCTAAAAATACGAGTTTTAAAAAAAAAA-TTTGGGTGCTGGCC
*
109019131 TGTCAATGGCCGGCACCCAGTACAAAAAAAATTTAAA-
55 TGTCAATGGCCGGCACCCAGTACAAAAAAAATTCAAAT
* *
109019168 TTTTTTTTGCTCTCTAAAAATACGAGTTTTTTAAAAAAAAATTTTTGGTGCTGGCCTGTCAATGG
1 TTTTTTTTGCTCTCTAAAAATACGAG--TTTTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGG
*
109019233 CCGGCACTCAGTACAAAAAAAATTCAAAT
64 CCGGCACCCAGTACAAAAAAAATTCAAAT
109019262 TTTTTTT
1 TTTTTTT
109019269 CAAAATTTTT
Statistics
Matches: 175, Mismatches: 14, Indels: 28
0.81 0.06 0.13
Matches are distributed among these distances:
92 21 0.12
93 45 0.26
94 25 0.14
102 5 0.03
104 48 0.27
105 31 0.18
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (92 bp):
TTTTTTTTGCTCTCTAAAAATACGAGTTTTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCC
GGCACCCAGTACAAAAAAAATTCAAAT
Found at i:109019106 original size:104 final size:106
Alignment explanation
Indices: 109018916--109019174 Score: 362
Period size: 104 Copynumber: 2.5 Consensus size: 106
109018906 CTGACCTATC
* ** ***
109018916 ACCTATCAATGGCCAACACCCAGTACCAAAAAAAAATTCAAATTTTTTTCAAAAAATTTTTTTTG
1 ACCTGTCAATGGCCGGCACCCAGTACC-AAAAAAAATTCAAATTTTTTTCAAAAAA-TAAATTTG
*
109018981 CTCTTTAAAAATACGAGTTTTAAAAAAAAAA-TTTGGGTGCTG
64 CTCTCTAAAAATACGAGTTTTAAAAAAAAAATTTTGGGTGCTG
*
109019023 ACCTGTCAGTGGCCGGCACCCAGTACCAAAAAAAATTCAAATTTTTTTCAAAAAA-AAATTTGCT
1 ACCTGTCAATGGCCGGCACCCAGTACCAAAAAAAATTCAAATTTTTTTCAAAAAATAAATTTGCT
*
109019087 CTCTAAAAATACGAGTTTTAAAAAAAAAATTTTGGGTGTTG
66 CTCTAAAAATACGAGTTTTAAAAAAAAAATTTTGGGTGCTG
*** *
109019128 GTTTGTCAATGGCCGGCACCCAGTA-CAAAAAAAATTTAAATTTTTTT
1 ACCTGTCAATGGCCGGCACCCAGTACCAAAAAAAATTCAAATTTTTTT
109019175 TGCTCTCTAA
Statistics
Matches: 137, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
104 55 0.40
105 31 0.23
106 28 0.20
107 23 0.17
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (106 bp):
ACCTGTCAATGGCCGGCACCCAGTACCAAAAAAAATTCAAATTTTTTTCAAAAAATAAATTTGCT
CTCTAAAAATACGAGTTTTAAAAAAAAAATTTTGGGTGCTG
Found at i:109019251 original size:92 final size:92
Alignment explanation
Indices: 109019081--109019268 Score: 304
Period size: 93 Copynumber: 2.0 Consensus size: 92
109019071 CAAAAAAAAA
* **
109019081 TTTGCTCTCTAAAAATACGAGTTTTAAAAAAAAAATTTTGGGTGTTGGTTTGTCAATGGCCGGCA
1 TTTGCTCTCTAAAAATACGAGTTTTAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCA
*
109019146 CCCAGTACAAAAAAAATTTAAATTTTT
66 CCCAGTACAAAAAAAATTCAAATTTTT
* *
109019173 TTTGCTCTCTAAAAATACGAGTTTTTTAAAAAAAAATTTTTGGTGCTGGCCTGTCAATGGCCGGC
1 TTTGCTCTCTAAAAATACGAG-TTTTAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGC
*
109019238 ACTCAGTACAAAAAAAATTCAAATTTTT
65 ACCCAGTACAAAAAAAATTCAAATTTTT
109019266 TTT
1 TTT
109019269 CAAAATTTTT
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
92 21 0.24
93 67 0.76
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (92 bp):
TTTGCTCTCTAAAAATACGAGTTTTAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCA
CCCAGTACAAAAAAAATTCAAATTTTT
Found at i:109023744 original size:12 final size:12
Alignment explanation
Indices: 109023727--109023752 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
109023717 TAGAGAGCAA
109023727 AAAAAAAATTTG
1 AAAAAAAATTTG
109023739 AAAAAAAATTTG
1 AAAAAAAATTTG
109023751 AA
1 AA
109023753 TTTTTTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (12 bp):
AAAAAAAATTTG
Found at i:109023791 original size:105 final size:109
Alignment explanation
Indices: 109023570--109023823 Score: 372
Period size: 105 Copynumber: 2.3 Consensus size: 109
109023560 ATTGTGTCAG
* ** **
109023570 GCCAGTACCCAAATTTTTTTTAAAAAAAACTCGTATTTTTAGAGAGCAAAAAAAATTTTTTTGAA
1 GCCAGCACCCAAATTTTTTTT--TTAAAACTCGTATTTTTAGAGAGCAAAAAAAA-TAATTTGAA
* *
109023635 AAAAAATTTGAATTTTGTTTTTGGTACTGGGTGCCGGCCATTGATAG
63 AAAAAATTTGAATTTTGTTTTTGGTACTGGGTGCCGGCCATTGACAA
*
109023682 GCCAGCA-CTAAA-TTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAA-AATTTGAAAAA
1 GCCAGCACCCAAATTTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAATAATTTGAAAAA
*
109023744 AAATTTGAATTTT-TTTTTGGTATTGGGTGCCGGCCATTGACAA
66 AAATTTGAATTTTGTTTTTGGTACTGGGTGCCGGCCATTGACAA
109023787 GCCAGCACCCAAATTTTTTTTTTAAAACTCGTATTTT
1 GCCAGCACCCAAATTTTTTTTTTAAAACTCGTATTTT
109023824 GTATACTAAT
Statistics
Matches: 130, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
105 34 0.26
106 26 0.20
107 23 0.18
108 30 0.23
110 7 0.05
111 4 0.03
112 6 0.05
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.37
Consensus pattern (109 bp):
GCCAGCACCCAAATTTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAATAATTTGAAAAA
AAATTTGAATTTTGTTTTTGGTACTGGGTGCCGGCCATTGACAA
Found at i:109030173 original size:20 final size:20
Alignment explanation
Indices: 109030137--109030174 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
109030127 AAGTATTATG
*
109030137 TGAAAATAATAAGTTGATAT
1 TGAAAATAATAAATTGATAT
109030157 TGAATAATAA-AAATTGAT
1 TGAA-AATAATAAATTGAT
109030175 TTAAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (20 bp):
TGAAAATAATAAATTGATAT
Done.