Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 62 of 175
Found at i:18245660 original size:22 final size:23
Alignment explanation
Indices: 18245630--18245675 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
18245620 AAGGTGTTCG
* *
18245630 GGGTGGTGA-TTTAGGGGGTTAA
1 GGGTGGTGACCTTAAGGGGTTAA
*
18245652 GGGTTGTGACCTTAAGGGGTTAA
1 GGGTGGTGACCTTAAGGGGTTAA
18245675 G
1 G
18245676 TGAGATGCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.20, C:0.04, G:0.46, T:0.30
Consensus pattern (23 bp):
GGGTGGTGACCTTAAGGGGTTAA
Found at i:18268746 original size:11 final size:10
Alignment explanation
Indices: 18268718--18268760 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
18268708 CCAATTAAGC
18268718 AAACATAAAAGA
1 AAAC-TAAAA-A
18268730 AAACTAAAAA
1 AAACTAAAAA
*
18268740 AACACTAAAGA
1 AA-ACTAAAAA
18268751 AAACTAAAAA
1 AAACTAAAAA
18268761 TCTAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 10 0.36
11 14 0.50
12 4 0.14
ACGTcount: A:0.74, C:0.12, G:0.05, T:0.09
Consensus pattern (10 bp):
AAACTAAAAA
Found at i:18268758 original size:10 final size:10
Alignment explanation
Indices: 18268725--18268758 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
18268715 AGCAAACATA
18268725 AAAGAAAACT
1 AAAGAAAACT
*
18268735 AAAAAAACACT
1 AAAGAAA-ACT
18268746 AAAGAAAACT
1 AAAGAAAACT
18268756 AAA
1 AAA
18268759 AATCTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.74, C:0.12, G:0.06, T:0.09
Consensus pattern (10 bp):
AAAGAAAACT
Found at i:18273622 original size:13 final size:13
Alignment explanation
Indices: 18273604--18273628 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18273594 CATTTCCAAG
18273604 TCATTTTCATTTT
1 TCATTTTCATTTT
18273617 TCATTTTCATTT
1 TCATTTTCATTT
18273629 AGAAAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:18286612 original size:221 final size:221
Alignment explanation
Indices: 18286217--18286655 Score: 657
Period size: 221 Copynumber: 2.0 Consensus size: 221
18286207 AGAAACAATA
* * * * * *
18286217 TATAACCTTTTAAAAAAATCCAAGTTGTATGGAGTTGGAAGCTTTGCTTTAGGTTTGTGTTATGG
1 TATAACCTTTTAAAAAAATCCAAATTATATGAAGCTGAAAGCTTTGCTTTAGGTTTATGTTATGG
*
18286282 TTTTTTATGCTATGGGATTTTGTACTTGATCTCTTATCTGCATGCATTTTGCTCAGAATTTGGAA
66 TTTTTTATGCTATGGGATTGTGTACTTGATCTCTTATCTGCATGCATTTTGCTCAGAATTTGGAA
* * * * *
18286347 AAGTACTTAGTACTGACAGTTCGCTAATTCCTTATTTTTGCTTTTAGGTACGTTCACTGAGTGGA
131 AAGTACTTAGTACTGACAGTTCGCTAATTCCATATGTGTGCTTTTAAGTACGTTCACTGAATGGA
*
18286412 GTGA-TCAAAGATATTGGAAACCCCTT
196 GTGAGT-AAAGAGATTGGAAACCCCTT
* * *
18286438 TATAACCTTTTAAAAAAATGCAAATTATATGAAGCTGAAAGCTTTGCTTTTGTTTTATGTTATGG
1 TATAACCTTTTAAAAAAATCCAAATTATATGAAGCTGAAAGCTTTGCTTTAGGTTTATGTTATGG
* *
18286503 TTTTTTATGCTATGGGATTGTGTATTTGATCTCTTATTTGCATGCATTTTGCTCCA-AATTTGGA
66 TTTTTTATGCTATGGGATTGTGTACTTGATCTCTTATCTGCATGCATTTTGCT-CAGAATTTGGA
* * *
18286567 ATAGTACTTAGTACTGACCGTTTGCTAATTCCATATGTGTGCTTTTAAGTACGTTCACTGAATGG
130 AAAGTACTTAGTACTGACAGTTCGCTAATTCCATATGTGTGCTTTTAAGTACGTTCACTGAATGG
18286632 AGTGAGTAAAGAGATTGGAAACCC
195 AGTGAGTAAAGAGATTGGAAACCC
18286656 TTCTTGGAAG
Statistics
Matches: 195, Mismatches: 21, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
221 192 0.98
222 3 0.02
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (221 bp):
TATAACCTTTTAAAAAAATCCAAATTATATGAAGCTGAAAGCTTTGCTTTAGGTTTATGTTATGG
TTTTTTATGCTATGGGATTGTGTACTTGATCTCTTATCTGCATGCATTTTGCTCAGAATTTGGAA
AAGTACTTAGTACTGACAGTTCGCTAATTCCATATGTGTGCTTTTAAGTACGTTCACTGAATGGA
GTGAGTAAAGAGATTGGAAACCCCTT
Found at i:18290127 original size:13 final size:13
Alignment explanation
Indices: 18290109--18290136 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18290099 TTGTAGTACA
18290109 ATGTTGACACTTC
1 ATGTTGACACTTC
18290122 ATGTTGACACTTC
1 ATGTTGACACTTC
18290135 AT
1 AT
18290137 ATGATTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.39
Consensus pattern (13 bp):
ATGTTGACACTTC
Found at i:18295880 original size:13 final size:13
Alignment explanation
Indices: 18295862--18295906 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
18295852 TTTATCTGAC
18295862 CCTTGAAACTCTT
1 CCTTGAAACTCTT
** * *
18295875 CCTTGAGTCTGTC
1 CCTTGAAACTCTT
18295888 CCTTGAAACTCTT
1 CCTTGAAACTCTT
18295901 CCTTGA
1 CCTTGA
18295907 GTCTGTCCCA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.18, C:0.31, G:0.13, T:0.38
Consensus pattern (13 bp):
CCTTGAAACTCTT
Found at i:18295892 original size:26 final size:26
Alignment explanation
Indices: 18295856--18295915 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
18295846 TTTGGTTTTA
*
18295856 TCTGACCCTTGAAACTCTTCCTTGAG
1 TCTGTCCCTTGAAACTCTTCCTTGAG
18295882 TCTGTCCCTTGAAACTCTTCCTTGAG
1 TCTGTCCCTTGAAACTCTTCCTTGAG
18295908 TCTGTCCC
1 TCTGTCCC
18295916 AGACCTGCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.15, C:0.33, G:0.15, T:0.37
Consensus pattern (26 bp):
TCTGTCCCTTGAAACTCTTCCTTGAG
Found at i:18297571 original size:2 final size:2
Alignment explanation
Indices: 18297564--18297590 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18297554 CTATCCAGTC
18297564 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
18297591 ATGTATGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18298169 original size:21 final size:21
Alignment explanation
Indices: 18298144--18298189 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
18298134 TGTTTGAATA
*
18298144 ATATATGCTAAACAAAAAATT
1 ATATATGATAAACAAAAAATT
* *
18298165 ATATATGATACACAATAAATT
1 ATATATGATAAACAAAAAATT
18298186 -TATA
1 ATATA
18298190 AATTAATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (21 bp):
ATATATGATAAACAAAAAATT
Found at i:18307680 original size:22 final size:22
Alignment explanation
Indices: 18307654--18307700 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
18307644 AGTATATTTT
18307654 AATCGTAGTTGCATGAGTAACG
1 AATCGTAGTTGCATGAGTAACG
*
18307676 AATCGTAGTTGCTTGAGTAACG
1 AATCGTAGTTGCATGAGTAACG
18307698 AAT
1 AAT
18307701 GTGGCACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (22 bp):
AATCGTAGTTGCATGAGTAACG
Found at i:18310447 original size:26 final size:26
Alignment explanation
Indices: 18310418--18310469 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
18310408 TTTAATTGCC
*
18310418 TTAATTATAGTTTCTTATTCTATAAA
1 TTAATTATAGTTTCTTAGTCTATAAA
*
18310444 TTAATTTTAGTTTCTTAGTCTATAAA
1 TTAATTATAGTTTCTTAGTCTATAAA
18310470 AATAGAACCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.54
Consensus pattern (26 bp):
TTAATTATAGTTTCTTAGTCTATAAA
Found at i:18319396 original size:16 final size:18
Alignment explanation
Indices: 18319364--18319397 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
18319354 AATAAAATAA
18319364 TTATAATTATAATTATTT
1 TTATAATTATAATTATTT
18319382 TTAT-ATTAT-ATTATTT
1 TTATAATTATAATTATTT
18319398 ATTTTACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 5 0.31
18 4 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATAATTATAATTATTT
Found at i:18319771 original size:17 final size:18
Alignment explanation
Indices: 18319727--18319771 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
18319717 ATTAATTATT
18319727 ATCATATTTA-AAATAAA
1 ATCATATTTATAAATAAA
*
18319744 ATCATATTTATATAT-AA
1 ATCATATTTATAAATAAA
18319761 ATCATATTTAT
1 ATCATATTTAT
18319772 TTAATTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 23 0.88
18 3 0.12
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (18 bp):
ATCATATTTATAAATAAA
Found at i:18319845 original size:29 final size:28
Alignment explanation
Indices: 18319796--18319851 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 28
18319786 TTGGATTTTT
18319796 ATAATTTTTAATTTATCTAATTATATTCA
1 ATAATTTTTAATTTA-CTAATTATATTCA
*
18319825 ATAATTTTATAGATTTA-TAATTTTATT
1 ATAATTTT-TA-ATTTACTAATTATATT
18319852 AATTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 17 0.71
30 2 0.08
31 5 0.21
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (28 bp):
ATAATTTTTAATTTACTAATTATATTCA
Found at i:18322933 original size:14 final size:14
Alignment explanation
Indices: 18322914--18322942 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18322904 TTTTCGTTTT
18322914 CATTTTGGAGAAAA
1 CATTTTGGAGAAAA
18322928 CATTTTGGAGAAAA
1 CATTTTGGAGAAAA
18322942 C
1 C
18322943 CATGATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (14 bp):
CATTTTGGAGAAAA
Found at i:18323141 original size:16 final size:16
Alignment explanation
Indices: 18323116--18323149 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18323106 TTTTCGACTA
*
18323116 TTAATTATAAACTCAT
1 TTAATCATAAACTCAT
*
18323132 TTAATCATAAAGTCAT
1 TTAATCATAAACTCAT
18323148 TT
1 TT
18323150 CACTATGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (16 bp):
TTAATCATAAACTCAT
Found at i:18325015 original size:19 final size:19
Alignment explanation
Indices: 18324977--18325016 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18324967 AAAATATCAT
*
18324977 ATTAATTTTAGTTGATTTG
1 ATTAATTTTAGTTGACTTG
* *
18324996 ATTAATTTTATTTTACTTG
1 ATTAATTTTAGTTGACTTG
18325015 AT
1 AT
18325017 CAAAATTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAGTTGACTTG
Found at i:18326689 original size:206 final size:206
Alignment explanation
Indices: 18326330--18326748 Score: 811
Period size: 206 Copynumber: 2.0 Consensus size: 206
18326320 GGTATCGATA
18326330 TTTTCTTTTAGTTGTATCAATACCACATGAAAAATTGATACCAAACTTTCATTCTATTTCTCACC
1 TTTTCTTTTAGTTGTATCAATACCACATGAAAAATTGATACCAAACTTTCATTCTATTTCTCACC
18326395 AAAATTCCCAAACGTAAAAAACTATCGGTACCTTTCGCAAGGTTTCGATAAATTTACCTTGAGTA
66 AAAATTCCCAAACGTAAAAAACTATCGGTACCTTTCGCAAGGTTTCGATAAATTTACCTTGAGTA
*
18326460 TTGATACTCGGGATAATGTATTGATACCAATTCTATATTCTGACTCCCTACAATTTTGAAGTTAC
131 TTGATACTCGGGATAAGGTATTGATACCAATTCTATATTCTGACTCCCTACAATTTTGAAGTTAC
18326525 AAAGATATCTT
196 AAAGATATCTT
*
18326536 TTTTCTTTTAGTTGTATCAATACCATATGAAAAATTGATACCAAACTTTCATTCTATTTCTCACC
1 TTTTCTTTTAGTTGTATCAATACCACATGAAAAATTGATACCAAACTTTCATTCTATTTCTCACC
18326601 AAAATTCCCAAACGTAAAAAACTATCGGTACCTTTCGCAAGGTTTCGATAAATTTACCTTGAGTA
66 AAAATTCCCAAACGTAAAAAACTATCGGTACCTTTCGCAAGGTTTCGATAAATTTACCTTGAGTA
*
18326666 TTGATACTCGGGATAAGGTATTGATACCAATTCTATATTCTGACTCCCTACACTTTTGAAGTTAC
131 TTGATACTCGGGATAAGGTATTGATACCAATTCTATATTCTGACTCCCTACAATTTTGAAGTTAC
18326731 AAAGATATCTT
196 AAAGATATCTT
18326742 TTTTCTT
1 TTTTCTT
18326749 AAAACCAAAT
Statistics
Matches: 210, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
206 210 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.37
Consensus pattern (206 bp):
TTTTCTTTTAGTTGTATCAATACCACATGAAAAATTGATACCAAACTTTCATTCTATTTCTCACC
AAAATTCCCAAACGTAAAAAACTATCGGTACCTTTCGCAAGGTTTCGATAAATTTACCTTGAGTA
TTGATACTCGGGATAAGGTATTGATACCAATTCTATATTCTGACTCCCTACAATTTTGAAGTTAC
AAAGATATCTT
Found at i:18333417 original size:19 final size:19
Alignment explanation
Indices: 18333395--18333433 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18333385 ATATCTTTTA
18333395 TTATA-ATATATAATAATAG
1 TTATATATA-ATAATAATAG
*
18333414 TTATATATAATAATAGTAG
1 TTATATATAATAATAATAG
18333433 T
1 T
18333434 ACATTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (19 bp):
TTATATATAATAATAATAG
Found at i:18333421 original size:16 final size:16
Alignment explanation
Indices: 18333400--18333430 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18333390 TTTTATTATA
18333400 ATATATAATAATAGTT
1 ATATATAATAATAGTT
18333416 ATATATAATAATAGT
1 ATATATAATAATAGT
18333431 AGTACATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (16 bp):
ATATATAATAATAGTT
Found at i:18333570 original size:5 final size:5
Alignment explanation
Indices: 18333562--18333589 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
18333552 ATATAATTTT
18333562 ATATC ATATC ATATC ATATC ATATC ATA
1 ATATC ATATC ATATC ATATC ATATC ATA
18333590 GATTTATAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATC
Found at i:18333886 original size:18 final size:17
Alignment explanation
Indices: 18333854--18333887 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
18333844 ATTTTATAGA
18333854 TTTTAATAATTATTATT
1 TTTTAATAATTATTATT
*
18333871 TTTTATATATTTATTAT
1 TTTTA-ATAATTATTAT
18333888 ACATATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTAATAATTATTATT
Found at i:18335845 original size:16 final size:16
Alignment explanation
Indices: 18335824--18335891 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
18335814 TTTGGTTCGC
18335824 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
18335840 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
18335856 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
18335872 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
18335888 TGTA
1 TGTA
18335892 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:18336214 original size:157 final size:157
Alignment explanation
Indices: 18336014--18336330 Score: 555
Period size: 157 Copynumber: 2.0 Consensus size: 157
18336004 TAGAATACCC
*
18336014 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * *
18336079 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAATA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAA-A
18336144 ATATATAATTTAATAAAATTCTT-ATAA
130 ATATATAATTTAATAAAATTCTTAATAA
* *
18336171 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
18336236 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
18336301 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
18336328 TTA
1 TTA
18336331 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
156 24 0.16
157 128 0.84
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:18336301 original size:16 final size:16
Alignment explanation
Indices: 18336264--18336305 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
18336254 TTAATCATAT
*
18336264 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
18336280 TT-AAATATATTATAA
1 TTAAAATATATTATAA
18336295 TTAAAATATAT
1 TTAAAATATAT
18336306 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:18336312 original size:14 final size:15
Alignment explanation
Indices: 18336273--18336314 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18336263 TTTAAACATA
*
18336273 ATTATTATTAAATAT
1 ATTATAATTAAATAT
18336288 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
18336302 A-TATAATTTAATA
1 ATTATAATTAAATA
18336315 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:18336401 original size:120 final size:121
Alignment explanation
Indices: 18336267--18336559 Score: 502
Period size: 120 Copynumber: 2.4 Consensus size: 121
18336257 ATCATATTTA
18336267 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
18336332 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-GT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATGTG
18336387 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
18336452 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATGTG
* * *
18336508 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
18336560 TAAAATAATT
Statistics
Matches: 165, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
119 3 0.02
120 160 0.97
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATGTG
Found at i:18336432 original size:14 final size:15
Alignment explanation
Indices: 18336393--18336434 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18336383 AAGTAACATA
*
18336393 ATTATTATTAAATAT
1 ATTATAATTAAATAT
18336408 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
18336422 A-TATAATTTAATA
1 ATTATAATTAAATA
18336435 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:18338252 original size:35 final size:35
Alignment explanation
Indices: 18338193--18338259 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
18338183 GCTAATTTTT
18338193 AAGTAACTTCAGATCAAAACTAAAATCCAAAAATC
1 AAGTAACTTCAGATCAAAACTAAAATCCAAAAATC
* * *
18338228 AAGTGACTTTAGATCAAAATTAAAATCCAAAA
1 AAGTAACTTCAGATCAAAACTAAAATCCAAAA
18338260 CAATGCTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.54, C:0.16, G:0.07, T:0.22
Consensus pattern (35 bp):
AAGTAACTTCAGATCAAAACTAAAATCCAAAAATC
Found at i:18345366 original size:42 final size:42
Alignment explanation
Indices: 18345307--18345391 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
18345297 ATGAAGTTAA
18345307 ATGATTGATATGAGAAAAAAGTCTTGTTTGAACCTCGTGAAT
1 ATGATTGATATGAGAAAAAAGTCTTGTTTGAACCTCGTGAAT
18345349 ATGATTGATATGAGAAAAAAGTCTTGTTTGAACCTCGTGAAT
1 ATGATTGATATGAGAAAAAAGTCTTGTTTGAACCTCGTGAAT
18345391 A
1 A
18345392 CTTAGGATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.33
Consensus pattern (42 bp):
ATGATTGATATGAGAAAAAAGTCTTGTTTGAACCTCGTGAAT
Found at i:18349143 original size:13 final size:13
Alignment explanation
Indices: 18349125--18349168 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
18349115 CTAGATTTCT
18349125 TAAATATTATCAC
1 TAAATATTATCAC
18349138 TAAATA--ATC-C
1 TAAATATTATCAC
18349148 TAAATATTATCAC
1 TAAATATTATCAC
18349161 TAAATATT
1 TAAATATT
18349169 TCAAAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.25
11 3 0.11
12 3 0.11
13 15 0.54
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAATATTATCAC
Found at i:18349175 original size:23 final size:23
Alignment explanation
Indices: 18349126--18349175 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
18349116 TAGATTTCTT
*
18349126 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATCCA
* *
18349149 AAATATTATCACTAAATATTTCA
1 AAATATTATCACTAAATAATCCA
18349172 AAAT
1 AAAT
18349176 TTAAAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:18356495 original size:23 final size:23
Alignment explanation
Indices: 18356469--18356520 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
18356459 AATATTATCA
18356469 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
**
18356492 CTAAATATTATCTGTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
18356515 CAAAAT
1 CTAAAT
18356521 TTAAAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:18356511 original size:13 final size:13
Alignment explanation
Indices: 18356433--18356488 Score: 82
Period size: 13 Copynumber: 4.5 Consensus size: 13
18356423 TAGATTTTTT
18356433 CTAAATATTATCA
1 CTAAATATTATCA
*
18356446 CTAAAGA--ATC-
1 CTAAATATTATCA
18356456 CTAAATATTATCA
1 CTAAATATTATCA
18356469 CTAAATATTATCA
1 CTAAATATTATCA
18356482 CTAAATA
1 CTAAATA
18356489 ATTCTAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
10 6 0.16
11 3 0.08
12 3 0.08
13 26 0.68
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:18356511 original size:36 final size:36
Alignment explanation
Indices: 18356433--18356503 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
18356423 TAGATTTTTT
18356433 CTAAATATTATCACTAAAGAATCCTAAATATTATCA
1 CTAAATATTATCACTAAAGAATCCTAAATATTATCA
* *
18356469 CTAAATATTATCACTAAATAATTCTAAATATTATC
1 CTAAATATTATCACTAAAGAATCCTAAATATTATC
18356504 TGTAAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.46, C:0.15, G:0.01, T:0.37
Consensus pattern (36 bp):
CTAAATATTATCACTAAAGAATCCTAAATATTATCA
Found at i:18357421 original size:18 final size:17
Alignment explanation
Indices: 18357388--18357422 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
18357378 AAATTAAAAT
*
18357388 AAAATAAAAACTTTTAA
1 AAAATAAAAAATTTTAA
18357405 AAAATAAAAAATATTTAA
1 AAAATAAAAAAT-TTTAA
18357423 TAGTTCCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATAAAAAATTTTAA
Found at i:18359669 original size:20 final size:20
Alignment explanation
Indices: 18359644--18359683 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
18359634 TAAGGTCTAA
18359644 AATACTTTATTAAAAGAATC
1 AATACTTTATTAAAAGAATC
18359664 AATACTTTATTAAAAGAATC
1 AATACTTTATTAAAAGAATC
18359684 TTTCAATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (20 bp):
AATACTTTATTAAAAGAATC
Found at i:18361333 original size:18 final size:19
Alignment explanation
Indices: 18361298--18361334 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18361288 TAAAGTAGAA
18361298 GAGAAAGTAAATAATTTAG
1 GAGAAAGTAAATAATTTAG
*
18361317 GAGAAATTAAA-AATTTAG
1 GAGAAAGTAAATAATTTAG
18361335 ATTTAAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.54, C:0.00, G:0.19, T:0.27
Consensus pattern (19 bp):
GAGAAAGTAAATAATTTAG
Found at i:18361914 original size:60 final size:53
Alignment explanation
Indices: 18361796--18361942 Score: 168
Period size: 54 Copynumber: 2.6 Consensus size: 53
18361786 TTTATAAGCT
*
18361796 ACTAGTTATAAATCTGATGAAGAAAAAACTTCAACAGATCAGGATATAAAAGTT
1 ACTAGTTAT-AATCTGATGAAGAAAAAACTTCAACAGATCAGGATATAAAAGTC
*
18361850 ACTAGTTATCAATCTGATGAAGAAAAAACTTCAACATATCAGGATGAAGATATAAAAGTC
1 ACTAGTTAT-AATCTGATGAAGAAAAAACTTCAACAGATC---A-G--GATATAAAAGTC
* * *
18361910 ACTAGTCATAATTTTGATGAAGAAAACACTTCA
1 ACTAGTTATAA-TCTGATGAAGAAAAAACTTCA
18361943 TCTGAAGATG
Statistics
Matches: 80, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
54 38 0.47
57 1 0.01
58 1 0.01
59 2 0.03
60 38 0.47
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.27
Consensus pattern (53 bp):
ACTAGTTATAATCTGATGAAGAAAAAACTTCAACAGATCAGGATATAAAAGTC
Found at i:18370214 original size:6 final size:6
Alignment explanation
Indices: 18370205--18370230 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18370195 GATTTTCTCC
18370205 AAAATG AAAATG AAAATG AAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AA
18370231 GAAACGAAAT
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:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:18370258 original size:63 final size:63
Alignment explanation
Indices: 18370182--18370348 Score: 231
Period size: 57 Copynumber: 2.8 Consensus size: 63
18370172 AGAGATAATT
*
18370182 TGGAAATGATTATGATTTTCTCCAAAATGAAAATGAAAATGAAAATGAAGAAACGAAATCATA
1 TGGAAATGATTATGATTTTCTCCAAAATGAAAATGAAAATGAAAATGAAGAAACGAAAACATA
* * * *
18370245 TGGAAATGGTTATGTTTTTCTCCAAAATGAAAATGAAAAT----A-G-AGAAATGAAAACATT
1 TGGAAATGATTATGATTTTCTCCAAAATGAAAATGAAAATGAAAATGAAGAAACGAAAACATA
*
18370302 TGGAAATGATTATGGTTTTCTCCAAAATG-AAATGAAAATGAAAATGA
1 TGGAAATGATTATGATTTTCTCCAAAATGAAAATGAAAATGAAAATGA
18370349 CTTGAAAATT
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
56 10 0.11
57 39 0.43
58 1 0.01
59 1 0.01
60 1 0.01
61 1 0.01
63 38 0.42
ACGTcount: A:0.47, C:0.07, G:0.17, T:0.28
Consensus pattern (63 bp):
TGGAAATGATTATGATTTTCTCCAAAATGAAAATGAAAATGAAAATGAAGAAACGAAAACATA
Found at i:18374443 original size:12 final size:12
Alignment explanation
Indices: 18374422--18374479 Score: 71
Period size: 12 Copynumber: 4.8 Consensus size: 12
18374412 CTTTTCTCTC
18374422 CTCTTGTTTCACA
1 CTCTT-TTTCACA
*
18374435 CTTTTTTTCACA
1 CTCTTTTTCACA
**
18374447 CTCCCTTTCACA
1 CTCTTTTTCACA
*
18374459 TTCTTTTTCACA
1 CTCTTTTTCACA
18374471 CTCTTTTTC
1 CTCTTTTTC
18374480 TATATCATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
12 33 0.89
13 4 0.11
ACGTcount: A:0.14, C:0.33, G:0.02, T:0.52
Consensus pattern (12 bp):
CTCTTTTTCACA
Found at i:18383386 original size:236 final size:237
Alignment explanation
Indices: 18382960--18383426 Score: 785
Period size: 236 Copynumber: 2.0 Consensus size: 237
18382950 AAAAGCAAGC
*
18382960 AACAACGATCACACTTGAGGACTGATTAGAGAACCAAAAGTGGTGACTGAGCTAATGAATGTCAC
1 AACAACGATCACACTTGAGGACTGATTAGAGAACCAAAAGTGGTGACTGAGCTAACGAATGTCAC
*
18383025 TAAACAAGAATCAATAGATGATAAGGATAATTCAAAAAAAGAGTGAGGAAGTTTCAAGCGATGGT
66 TAAACAAGAATCAATAGATGATAAGGATAATTCAAAAAAAGAGTGAGGAACTTTCAAGCGATGGT
** *
18383090 GATTCCTACATTTTTTATTTGGACGAAATAACAAAGGAAGAAGTTTCAGAAGACTCATTGAGAGA
131 GATTCCTACATTTTCGATTTGGACAAAATAACAAAGGAAGAAGTTTCAGAAGACTCATTGAGAGA
*
18383155 TCAATTGTAATAGATTTATCAATTAGACTGGAAAAACTAAGT
196 TCAATTGGAATAGATTTATCAATTAGACTGGAAAAACTAAGT
* * *
18383197 AACAACGATCACGCTTGAGGATTGATTAGAGAACCAAAAGTGGTGACTGAGCTAACGAATGTTAC
1 AACAACGATCACACTTGAGGACTGATTAGAGAACCAAAAGTGGTGACTGAGCTAACGAATGTCAC
* * * *
18383262 TAAACAAGAATCAATGGTTGATGAGGATAATT-TAAAAAAGAGTGAGGAACTTTCAAGCGATGGT
66 TAAACAAGAATCAATAGATGATAAGGATAATTCAAAAAAAGAGTGAGGAACTTTCAAGCGATGGT
*
18383326 GATTCTTACATTTTCGATTTAGGA-AAAATAACAAAGGAAGAAGTTTCAGAAGACTCATTGAGAG
131 GATTCCTACATTTTCGATTT-GGACAAAATAACAAAGGAAGAAGTTTCAGAAGACTCATTGAGAG
18383390 ATCAATTGGAATAGATTTATCAATTAGACTGGAAAAA
195 ATCAATTGGAATAGATTTATCAATTAGACTGGAAAAA
18383427 ACAGGGTGAA
Statistics
Matches: 215, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
236 122 0.57
237 93 0.43
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.25
Consensus pattern (237 bp):
AACAACGATCACACTTGAGGACTGATTAGAGAACCAAAAGTGGTGACTGAGCTAACGAATGTCAC
TAAACAAGAATCAATAGATGATAAGGATAATTCAAAAAAAGAGTGAGGAACTTTCAAGCGATGGT
GATTCCTACATTTTCGATTTGGACAAAATAACAAAGGAAGAAGTTTCAGAAGACTCATTGAGAGA
TCAATTGGAATAGATTTATCAATTAGACTGGAAAAACTAAGT
Found at i:18387242 original size:7 final size:7
Alignment explanation
Indices: 18387230--18387258 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
18387220 GCGCGTCCAA
18387230 AGTCAGC
1 AGTCAGC
18387237 AGTCAGC
1 AGTCAGC
18387244 AGTCAGC
1 AGTCAGC
18387251 AGTCAGC
1 AGTCAGC
18387258 A
1 A
18387259 ATACCATCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.31, C:0.28, G:0.28, T:0.14
Consensus pattern (7 bp):
AGTCAGC
Found at i:18391239 original size:12 final size:13
Alignment explanation
Indices: 18391220--18391259 Score: 55
Period size: 12 Copynumber: 3.0 Consensus size: 13
18391210 AGTTATCCCA
18391220 AGATTTCAATTTC
1 AGATTTCAATTTC
18391233 A-ATTTCAATTTC
1 AGATTTCAATTTC
18391245 AGATCTTCTAATTTC
1 AGAT-TTC-AATTTC
18391260 TCTGGCAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.50
13 3 0.12
14 3 0.12
15 6 0.25
ACGTcount: A:0.30, C:0.17, G:0.05, T:0.47
Consensus pattern (13 bp):
AGATTTCAATTTC
Found at i:18398769 original size:33 final size:33
Alignment explanation
Indices: 18398731--18398881 Score: 143
Period size: 33 Copynumber: 4.5 Consensus size: 33
18398721 AATGATACGG
18398731 TCAGCACTTAGCAACCACCAATGAATCGGGGAA
1 TCAGCACTTAGCAACCACCAATGAATCGGGGAA
*
18398764 TCAGCACTTAGCAACC-CC--T---TGGGGGAA
1 TCAGCACTTAGCAACCACCAATGAATCGGGGAA
* *
18398791 TCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAA
1 TCAGCACTTAGCAA-CCAC--CA-A--T-GAAT-CGG-GGAA
*
18398833 TCAGCACTTAGTAACCACCAATGAATCGGGGAA
1 TCAGCACTTAGCAACCACCAATGAATCGGGGAA
18398866 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
18398882 CCCTTCACAT
Statistics
Matches: 97, Mismatches: 6, Indels: 30
0.73 0.05 0.23
Matches are distributed among these distances:
27 21 0.22
28 2 0.02
29 1 0.01
30 1 0.01
31 1 0.01
32 2 0.02
33 35 0.36
34 3 0.03
35 3 0.03
36 2 0.02
38 1 0.01
39 2 0.02
40 1 0.01
41 5 0.05
42 17 0.18
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.19
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAATGAATCGGGGAA
Found at i:18398802 original size:98 final size:99
Alignment explanation
Indices: 18398687--18398883 Score: 299
Period size: 102 Copynumber: 2.0 Consensus size: 99
18398677 CCAGTGATTC
* *
18398687 GGGGAATCAACACTTAGCAACCCCTTTCACATTCAATGATAC-GG-TCAGCACTTAGCAACCACC
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTCAA-AATACGGGATCAGCACTTAGCAACCACC
18398750 AATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
65 AATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
* * *
18398785 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGTAACCA
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTCAAAATAC-G-GG-ATCAGCACTTAGCAACCA
18398850 CCAATGAATCGGGGAATCAGCACTTAGCAACCCC
63 CCAATGAATCGGGGAATCAGCACTTAGCAACCCC
18398884 CTTCACATTT
Statistics
Matches: 89, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
97 4 0.04
98 33 0.37
100 2 0.02
102 50 0.56
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (99 bp):
GGGGAATCAACACTTAGCAACCCCCTTCACATTCAAAATACGGGATCAGCACTTAGCAACCACCA
ATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:18398877 original size:75 final size:68
Alignment explanation
Indices: 18398760--18398954 Score: 273
Period size: 75 Copynumber: 2.8 Consensus size: 68
18398750 AATGAATCGG
* *
18398760 GGAATCAGCACTTAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
1 GGAATCAACACTTAACAACCCCTT-GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
18398825 CGGT
65 CGGT
* **
18398829 GGAATCAGCACTTAGTAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCACATTT
1 GGAATCAACACTTAACAACC-CC--T---T-GGGGAATCAGCACTTAGCAACCCCCTTCACATTT
18398894 AAAATACGGT
59 AAAATACGGT
18398904 GGAATCAACACTTAACAACCCCTTGGGGAATCAGCACTTAGCAACCCCCTT
1 GGAATCAACACTTAACAACCCCTTGGGGAATCAGCACTTAGCAACCCCCTT
18398955 TATATTCAAA
Statistics
Matches: 115, Mismatches: 5, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
68 27 0.23
69 20 0.17
70 2 0.02
72 2 0.02
74 2 0.02
75 62 0.54
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.21
Consensus pattern (68 bp):
GGAATCAACACTTAACAACCCCTTGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATAC
GGT
Found at i:18399089 original size:50 final size:49
Alignment explanation
Indices: 18398975--18399116 Score: 160
Period size: 50 Copynumber: 2.8 Consensus size: 49
18398965 GATATCGGTT
* * * * * *
18398975 CACATAGTAGCCTGCACATTGTACTACACACGTGATCGAAGC-TATCTGGTA
1 CACATAGTAGCCTACACATAGTACTACACATGCGA-C-CATCAT-TCTGGTA
*
18399026 CGCATAGTAGCCTACACATAGTACTACACATGCGACCTATCATTCTGGTA
1 CACATAGTAGCCTACACATAGTACTACACATGCGACC-ATCATTCTGGTA
* *
18399076 CACGTAGTAGCCTACACATAGTACTACACATGTGACCATCA
1 CACATAGTAGCCTACACATAGTACTACACATGCGACCATCA
18399117 CTTTCACTTT
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
49 4 0.05
50 44 0.56
51 31 0.39
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (49 bp):
CACATAGTAGCCTACACATAGTACTACACATGCGACCATCATTCTGGTA
Found at i:18401354 original size:8 final size:8
Alignment explanation
Indices: 18401341--18401373 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
18401331 TATACTAAAC
18401341 AATAAAAT
1 AATAAAAT
18401349 AATAAAAT
1 AATAAAAT
18401357 AATAAAAT
1 AATAAAAT
18401365 AATAAAAT
1 AATAAAAT
18401373 A
1 A
18401374 TTATTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:18402555 original size:26 final size:26
Alignment explanation
Indices: 18402519--18402575 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
18402509 TTGTTCAGGA
*
18402519 ATAACTACCTTGTACTAATTGGAGGC
1 ATAACTACCTTGTAATAATTGGAGGC
18402545 ATAACTACCTTGTAATAATTGGAGGC
1 ATAACTACCTTGTAATAATTGGAGGC
18402571 ATAAC
1 ATAAC
18402576 AAATTACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (26 bp):
ATAACTACCTTGTAATAATTGGAGGC
Found at i:18403412 original size:13 final size:13
Alignment explanation
Indices: 18403394--18403418 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18403384 GCTCAATCCA
18403394 ATATAAACCCAAT
1 ATATAAACCCAAT
18403407 ATATAAACCCAA
1 ATATAAACCCAA
18403419 CCCAATCGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (13 bp):
ATATAAACCCAAT
Found at i:18403684 original size:18 final size:19
Alignment explanation
Indices: 18403657--18403693 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
18403647 GCTTTTCCTT
18403657 TCATGCTTGTAGGT-ATTG
1 TCATGCTTGTAGGTCATTG
*
18403675 TCATGTTTGTAGGTCATTG
1 TCATGCTTGTAGGTCATTG
18403694 CTTCTTAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.16, C:0.11, G:0.27, T:0.46
Consensus pattern (19 bp):
TCATGCTTGTAGGTCATTG
Found at i:18408097 original size:25 final size:25
Alignment explanation
Indices: 18408068--18408123 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
18408058 CCAACCCACG
18408068 GCTCGTGAGAGCATACCGATTTACA
1 GCTCGTGAGAGCATACCGATTTACA
* *
18408093 GCTCGAGTGAGCATACCGATTTACA
1 GCTCGTGAGAGCATACCGATTTACA
18408118 GCTCGT
1 GCTCGT
18408124 ATTAGCATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (25 bp):
GCTCGTGAGAGCATACCGATTTACA
Found at i:18422163 original size:9 final size:9
Alignment explanation
Indices: 18422149--18422173 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
18422139 TTTTCGCATC
18422149 ATTTCTCTT
1 ATTTCTCTT
18422158 ATTTCTCTT
1 ATTTCTCTT
18422167 ATTTCTC
1 ATTTCTC
18422174 GACAGCAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTCTCTT
Found at i:18425552 original size:19 final size:19
Alignment explanation
Indices: 18425528--18425565 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18425518 TGTGTCGGTC
*
18425528 CATAAATATTAGTTATTTA
1 CATAAATATTAATTATTTA
18425547 CATAAATATTAATTATTTA
1 CATAAATATTAATTATTTA
18425566 ATATTTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (19 bp):
CATAAATATTAATTATTTA
Found at i:18430157 original size:18 final size:18
Alignment explanation
Indices: 18430134--18430171 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
18430124 TTAGAGTTAG
*
18430134 TTGCTATTGTTTTTGCTT
1 TTGCTATTGTTTTTGATT
18430152 TTGCTATTGTTTTTGATT
1 TTGCTATTGTTTTTGATT
18430170 TT
1 TT
18430172 AAGATTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.08, G:0.16, T:0.68
Consensus pattern (18 bp):
TTGCTATTGTTTTTGATT
Found at i:18431793 original size:18 final size:18
Alignment explanation
Indices: 18431770--18431812 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
18431760 CAACAATTGA
18431770 ACTTAACTAAATATCTTG
1 ACTTAACTAAATATCTTG
18431788 ACTTAACTAAATATCTTG
1 ACTTAACTAAATATCTTG
18431806 AC-TAACT
1 ACTTAACT
18431813 TTTACAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.37
Consensus pattern (18 bp):
ACTTAACTAAATATCTTG
Found at i:18440755 original size:44 final size:44
Alignment explanation
Indices: 18440688--18440782 Score: 183
Period size: 44 Copynumber: 2.2 Consensus size: 44
18440678 GCTTTCATTA
18440688 AGAT-TGGCTAGCTTCCATAAATGGGACTAGAGATGGGGGCGAT
1 AGATATGGCTAGCTTCCATAAATGGGACTAGAGATGGGGGCGAT
18440731 AGATATGGCTAGCTTCCATAAATGGGACTAGAGATGGGGGCGAT
1 AGATATGGCTAGCTTCCATAAATGGGACTAGAGATGGGGGCGAT
18440775 AGATATGG
1 AGATATGG
18440783 AGGAATTTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 4 0.08
44 47 0.92
ACGTcount: A:0.29, C:0.13, G:0.35, T:0.23
Consensus pattern (44 bp):
AGATATGGCTAGCTTCCATAAATGGGACTAGAGATGGGGGCGAT
Found at i:18446789 original size:12 final size:13
Alignment explanation
Indices: 18446758--18446790 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18446748 CAATAGCCAA
18446758 AAATTACAAACCC
1 AAATTACAAACCC
*
18446771 AAATTACAGACCC
1 AAATTACAAACCC
18446784 -AATTACA
1 AAATTACA
18446791 CCTAGTCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.52, C:0.27, G:0.03, T:0.18
Consensus pattern (13 bp):
AAATTACAAACCC
Found at i:18447794 original size:14 final size:15
Alignment explanation
Indices: 18447764--18447801 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
18447754 GGATCTTCGA
*
18447764 TTTAATTATTGTTTT
1 TTTAATTATTATTTT
18447779 TTTAATT-TTATTTT
1 TTTAATTATTATTTT
18447793 TTT-ATTATT
1 TTTAATTATT
18447802 TATTAATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 3 0.14
14 11 0.52
15 7 0.33
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTAATTATTATTTT
Found at i:18457029 original size:35 final size:35
Alignment explanation
Indices: 18456944--18457045 Score: 136
Period size: 34 Copynumber: 2.9 Consensus size: 35
18456934 CCAACAGTAT
*
18456944 TTGCGCCCAGTGCTAGTCAGATAAACCGACGAACG
1 TTGCGCCCAGCGCTAGTCAGATAAACCGACGAACG
* * * *
18456979 -TGTGCCCAGCACTAGTCAAATAAACTGACG-ACAG
1 TTGCGCCCAGCGCTAGTCAGATAAACCGACGAAC-G
18457013 TTGCGCCCAGCGCTAGTCAGATAAACCGACGAA
1 TTGCGCCCAGCGCTAGTCAGATAAACCGACGAA
18457046 TAATTAGTGA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
33 2 0.04
34 26 0.47
35 26 0.47
36 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.24, T:0.17
Consensus pattern (35 bp):
TTGCGCCCAGCGCTAGTCAGATAAACCGACGAACG
Found at i:18457096 original size:74 final size:74
Alignment explanation
Indices: 18456868--18457104 Score: 236
Period size: 74 Copynumber: 3.3 Consensus size: 74
18456858 CCGCGAAAGA
** ** *
18456868 ATTTGCACCCAGAACTAGTTGGATAAACCGACAAATAATTAGTGAGCCCATA-TCTAGTCGGATA
1 ATTTGCACCCAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAGCCCA-ACTCTAGTCGGATA
*
18456932 AACCAAC-AGT
65 AACTAACGA-T
* * * * * * **
18456942 ATTTGCGCCCAGTGCTAGTCAGATAAACCGACG---AA--CGTGTGCCCAGCACTAGTCAAATAA
1 ATTTGCACCCAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAGCCCAACTCTAGTCGGATAA
* *
18457002 ACTGACGAC
66 ACTAACGAT
* * *
18457011 AGTTGCGCCCAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAGCCCAACTCTAGTTGGATAA
1 ATTTGCACCCAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAGCCCAACTCTAGTCGGATAA
18457076 ACTAACGAT
66 ACTAACGAT
18457085 ATTTGCACCCAGCGCTAGTC
1 ATTTGCACCCAGCGCTAGTC
18457105 GAACAAATCT
Statistics
Matches: 128, Mismatches: 28, Indels: 14
0.75 0.16 0.08
Matches are distributed among these distances:
69 53 0.41
70 1 0.01
71 2 0.02
72 2 0.02
74 70 0.55
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (74 bp):
ATTTGCACCCAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAGCCCAACTCTAGTCGGATAA
ACTAACGAT
Found at i:18460322 original size:19 final size:19
Alignment explanation
Indices: 18460298--18460336 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
18460288 GGATCAATTA
18460298 ACTAGTTGCAACGTAACGT
1 ACTAGTTGCAACGTAACGT
18460317 ACTAGTTGCAACGTAACGT
1 ACTAGTTGCAACGTAACGT
18460336 A
1 A
18460337 GTAGGTCTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (19 bp):
ACTAGTTGCAACGTAACGT
Found at i:18481053 original size:50 final size:50
Alignment explanation
Indices: 18480966--18481097 Score: 156
Period size: 50 Copynumber: 2.6 Consensus size: 50
18480956 CAATGCTATA
* * ** * * * *
18480966 TCCCAGATATGGTCTTACATGGGAGTTCTCGTATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
18481016 TCCGAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
18481066 TCCCAGACATGGTCTTACATGGGACTTCTCAT
1 TCCCAGACATGGTCTTACAGGGGACCTCTCAT
18481098 AACATCAATA
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 68 1.00
ACGTcount: A:0.19, C:0.29, G:0.25, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:18486000 original size:51 final size:51
Alignment explanation
Indices: 18485922--18486100 Score: 247
Period size: 52 Copynumber: 3.5 Consensus size: 51
18485912 ACAGATACCT
* *
18485922 AGTGGCCTGCACATAGTACCACCCTTGT-AGCCAAAGCTACCTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTACCTTCTTCACAA
* *
18485973 AGTGGCCTTCACATGGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTA-CCTTCTTCACAA
* * *
18486025 AGTGGCCTTCACATAGTACCACACTTGTGATC-AAGCTATC-TCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTACCTTCTTCACAA
*
18486074 AGTGGCCGTCACATAGTACCACACTTG
1 AGTGGCCTTCACATAGTACCACACTTG
18486101 AGTCACTAGT
Statistics
Matches: 116, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
49 34 0.29
51 40 0.34
52 42 0.36
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTACCTTCTTCACAA
Found at i:18486088 original size:49 final size:51
Alignment explanation
Indices: 18485922--18486100 Score: 256
Period size: 51 Copynumber: 3.5 Consensus size: 51
18485912 ACAGATACCT
* * *
18485922 AGTGGCCTGCACATAGTACCACCCTTGT-AGCCAAAGCTACCTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAA
*
18485973 AGTGGCCTTCACATGGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAA
* *
18486025 AGTGGCCTTCACATAGTACCACACTTGTGATC-AAGCTATC-TCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAA
*
18486074 AGTGGCCGTCACATAGTACCACACTTG
1 AGTGGCCTTCACATAGTACCACACTTG
18486101 AGTCACTAGT
Statistics
Matches: 118, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
49 34 0.29
51 43 0.36
52 41 0.35
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAA
Found at i:18490211 original size:26 final size:26
Alignment explanation
Indices: 18490182--18490243 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
18490172 TACCTACAGT
18490182 AGTTTCAGAATATCATAACATATATC
1 AGTTTCAGAATATCATAACATATATC
* *
18490208 AGTTTCAGAATATCATAGCATGTATC
1 AGTTTCAGAATATCATAACATATATC
18490234 AGTTTCAGAA
1 AGTTTCAGAA
18490244 CACTTACAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.34
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACATATATC
Found at i:18492017 original size:16 final size:16
Alignment explanation
Indices: 18491996--18492026 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18491986 TTTTGATGAG
18491996 ACTAGACTCAATAAAA
1 ACTAGACTCAATAAAA
18492012 ACTAGACTCAATAAA
1 ACTAGACTCAATAAA
18492027 CCATTCTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.19, G:0.06, T:0.19
Consensus pattern (16 bp):
ACTAGACTCAATAAAA
Found at i:18495343 original size:13 final size:13
Alignment explanation
Indices: 18495325--18495355 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
18495315 ACCCACATAC
*
18495325 ATAAAATAATAAA
1 ATAAAATAAAAAA
18495338 ATAAAATAAAAAA
1 ATAAAATAAAAAA
18495351 ATAAA
1 ATAAA
18495356 TCTCCAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
ATAAAATAAAAAA
Found at i:18496749 original size:16 final size:16
Alignment explanation
Indices: 18496730--18496761 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18496720 TCATATATAC
*
18496730 ATTCTTTAATATTTTT
1 ATTCTATAATATTTTT
18496746 ATTCTATAATATTTTT
1 ATTCTATAATATTTTT
18496762 CTTTAATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTCTATAATATTTTT
Found at i:18498116 original size:23 final size:23
Alignment explanation
Indices: 18498088--18498140 Score: 92
Period size: 21 Copynumber: 2.4 Consensus size: 23
18498078 ACTAATATGA
18498088 TATTACATATATCATAATATATT
1 TATTACATATATCATAATATATT
18498111 TATTAC--ATATCATAATATATT
1 TATTACATATATCATAATATATT
18498132 TATTACATA
1 TATTACATA
18498141 AGATTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 21 0.75
23 7 0.25
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.47
Consensus pattern (23 bp):
TATTACATATATCATAATATATT
Found at i:18510426 original size:20 final size:20
Alignment explanation
Indices: 18510401--18510449 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
18510391 GAACCACTCA
*
18510401 ATTTACTTACTTTCCATTTC
1 ATTTACTTACTTTCCATTCC
18510421 ATTTACTTACTTTCCATTCC
1 ATTTACTTACTTTCCATTCC
18510441 ATTTACTTA
1 ATTTACTTA
18510450 GTATAAGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTACTTACTTTCCATTCC
Found at i:18512183 original size:5 final size:5
Alignment explanation
Indices: 18512173--18512200 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
18512163 AAGCTATTGC
18512173 TTAAT TTAAT TTAAT TTAAT TTAAT TTA
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTA
18512201 TCAAACTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTAAT
Found at i:18512314 original size:23 final size:22
Alignment explanation
Indices: 18512288--18512330 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
18512278 AAATGGTTTA
18512288 TTTA-CCATTTAAGTCCATTTACC
1 TTTATCCA-TTAAG-CCATTTACC
*
18512311 TTTATTCATTAAGCCATTTA
1 TTTATCCATTAAGCCATTTA
18512331 ATCACTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 7 0.39
23 9 0.50
24 2 0.11
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.47
Consensus pattern (22 bp):
TTTATCCATTAAGCCATTTACC
Found at i:18518350 original size:11 final size:11
Alignment explanation
Indices: 18518336--18518361 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18518326 ATTATTTATA
18518336 ATTTATAAAAT
1 ATTTATAAAAT
18518347 ATTTATAAAAT
1 ATTTATAAAAT
18518358 ATTT
1 ATTT
18518362 CCATAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTTATAAAAT
Found at i:18518475 original size:23 final size:23
Alignment explanation
Indices: 18518406--18518480 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
18518396 ATTTATCTTA
18518406 GGCTTGAGCTCAAATTGATTTTG
1 GGCTTGAGCTCAAATTGATTTTG
* * *
18518429 GGCTTGAAAGCT--TATTTATCTTG
1 GGCTTG--AGCTCAAATTGATTTTG
18518452 GGCTTGAGCTCAAATTGATTTTG
1 GGCTTGAGCTCAAATTGATTTTG
18518475 GGCTTG
1 GGCTTG
18518481 GAAGGTTTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
21 4 0.10
23 34 0.81
25 4 0.10
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (23 bp):
GGCTTGAGCTCAAATTGATTTTG
Found at i:18526573 original size:21 final size:21
Alignment explanation
Indices: 18526547--18526595 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
18526537 GAAGTTGATC
18526547 TGTTGTTTTCAATACTTAAGG
1 TGTTGTTTTCAATACTTAAGG
18526568 TGTTGTTTTCAATACTTAAGG
1 TGTTGTTTTCAATACTTAAGG
18526589 TGCTTGT
1 TG-TTGT
18526596 AATCAAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.49
Consensus pattern (21 bp):
TGTTGTTTTCAATACTTAAGG
Found at i:18526601 original size:22 final size:21
Alignment explanation
Indices: 18526555--18526601 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
18526545 TCTGTTGTTT
**
18526555 TCAATACTTAAGGTGTTGTTT
1 TCAATACTTAAGGTGTTGTAA
18526576 TCAATACTTAAGGTGCTTGTAA
1 TCAATACTTAAGGTG-TTGTAA
18526598 TCAA
1 TCAA
18526602 ACATTTTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (21 bp):
TCAATACTTAAGGTGTTGTAA
Found at i:18529113 original size:22 final size:20
Alignment explanation
Indices: 18529064--18529102 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
18529054 TTATATATAT
18529064 ATTTAAAACAATATTGATAA
1 ATTTAAAACAATATTGATAA
18529084 ATTTAAAAC-ATATTGATAA
1 ATTTAAAACAATATTGATAA
18529103 TAATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (20 bp):
ATTTAAAACAATATTGATAA
Found at i:18537660 original size:19 final size:21
Alignment explanation
Indices: 18537628--18537677 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
18537618 TATATATATT
18537628 TTTAAAACAATATTGAT-A-AA
1 TTTAAAA-AATATTGATAATAA
18537648 TTTAAAAAATATTGATAATAA
1 TTTAAAAAATATTGATAATAA
18537669 TTTAAAAAA
1 TTTAAAAAA
18537678 ATAATGTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.32
20 8 0.29
21 11 0.39
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (21 bp):
TTTAAAAAATATTGATAATAA
Found at i:18537678 original size:22 final size:20
Alignment explanation
Indices: 18537628--18537680 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
18537618 TATATATATT
*
18537628 TTTAAAACAATATTGATAAA
1 TTTAAAAAAATATTGATAAA
18537648 TTT-AAAAAATATTGATAATAA
1 TTTAAAAAAATATTGAT-A-AA
18537669 TTTAAAAAAATA
1 TTTAAAAAAATA
18537681 ATGTATTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 5 0.17
22 8 0.28
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (20 bp):
TTTAAAAAAATATTGATAAA
Found at i:18541816 original size:46 final size:46
Alignment explanation
Indices: 18541749--18541852 Score: 163
Period size: 46 Copynumber: 2.3 Consensus size: 46
18541739 ATTCTGATTC
* *
18541749 TGATTCGTATATTAAGTATGCCACTTTGTTAAACCAAAAATAAAGA
1 TGATTCGCATATTAAGTATGCCACTGTGTTAAACCAAAAATAAAGA
* *
18541795 TGATTCGCATGTTAAGTATGCCACTGTGTTAAACCAAAAATAAATA
1 TGATTCGCATATTAAGTATGCCACTGTGTTAAACCAAAAATAAAGA
*
18541841 TGATTCACATAT
1 TGATTCGCATAT
18541853 AAAGACTGCA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.33
Consensus pattern (46 bp):
TGATTCGCATATTAAGTATGCCACTGTGTTAAACCAAAAATAAAGA
Found at i:18544501 original size:16 final size:15
Alignment explanation
Indices: 18544482--18544511 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18544472 TTAATTTCAT
18544482 TTGCATTTAGATTAAC
1 TTGCATTTAG-TTAAC
18544498 TTGCATTTAGTTAA
1 TTGCATTTAGTTAA
18544512 TTAATTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (15 bp):
TTGCATTTAGTTAAC
Found at i:18545835 original size:28 final size:28
Alignment explanation
Indices: 18545791--18545907 Score: 128
Period size: 28 Copynumber: 4.2 Consensus size: 28
18545781 CTATTCAGTG
* *
18545791 ACAGTA-CAGTGTAGGCCTTAGCCTAAT
1 ACAGTATCAGTGTGGGCCTTAGCCCAAT
*
18545818 ACAGTATTAGTGTGGGCCTTAGCCCAAT
1 ACAGTATCAGTGTGGGCCTTAGCCCAAT
* * * * *
18545846 ATATTAACAGTGTGCGCCTTAGCCCAAA
1 ACAGTATCAGTGTGGGCCTTAGCCCAAT
* * *
18545874 ATAGAATCAGTGTGGGTCTTAGCCCAAT
1 ACAGTATCAGTGTGGGCCTTAGCCCAAT
18545902 ACAGTA
1 ACAGTA
18545908 ACAATGTAGT
Statistics
Matches: 72, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
27 6 0.08
28 66 0.92
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (28 bp):
ACAGTATCAGTGTGGGCCTTAGCCCAAT
Found at i:18545910 original size:56 final size:56
Alignment explanation
Indices: 18545791--18545916 Score: 148
Period size: 56 Copynumber: 2.3 Consensus size: 56
18545781 CTATTCAGTG
* * * *
18545791 ACAGT-ACAGTGTAGGCCTTAGCCTAATACAGTATTAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTAGGCCTTAGCCCAAAACAGAATCAGTGTGGGCCTTAGCCCAAT
* * * *
18545846 ATATTAACAGTGT-GCGCCTTAGCCCAAAATAGAATCAGTGTGGGTCTTAGCCCAAT
1 ACAGTAACAGTGTAG-GCCTTAGCCCAAAACAGAATCAGTGTGGGCCTTAGCCCAAT
*
18545902 ACAGTAACAATGTAG
1 ACAGTAACAGTGTAG
18545917 TGCAATAATG
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
55 4 0.07
56 52 0.91
57 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (56 bp):
ACAGTAACAGTGTAGGCCTTAGCCCAAAACAGAATCAGTGTGGGCCTTAGCCCAAT
Found at i:18546311 original size:27 final size:27
Alignment explanation
Indices: 18546273--18546688 Score: 433
Period size: 27 Copynumber: 15.4 Consensus size: 27
18546263 GGCTATAACA
* * *
18546273 GTCATTTGACCCTGTGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
18546300 GTCATTTCACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
18546327 GTCATTTTACCCTATAGAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
18546354 ATCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
18546381 TTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
18546408 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
18546435 GTTA-TTTACCCTATGGTGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
18546461 GTCATTTTATCCTATGGGAGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
18546488 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
18546515 GTGATTTTACCCGATGGGGCTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
18546542 GTTATTTTACCCTATGGAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
18546569 ATCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
18546596 GTCATTTTACCCTATGAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * ** *
18546623 ATCATTTT-CATCTATTAGGGGTAAAAT-A
1 GTCATTTTAC-CCTA-TGGGGGT-ATTTCG
* * *
18546651 GTCATTTTACCCTTTAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
18546678 GTCATTTTACC
1 GTCATTTTACC
18546689 TATTTTGGGG
Statistics
Matches: 324, Mismatches: 59, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
26 26 0.08
27 280 0.86
28 15 0.05
29 3 0.01
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:18549531 original size:26 final size:25
Alignment explanation
Indices: 18549480--18549561 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 25
18549470 TTACAGTTTC
* * **
18549480 CGTGATTAATGTCTCAACAAACTAT
1 CGTGATTAATGTCCCAGCGGACTAT
* * *
18549505 CTGTGATTAGTGTCTCAGCGGATTAT
1 C-GTGATTAATGTCCCAGCGGACTAT
*
18549531 CCT-ATTAATGTCCCAGCGGACTAT
1 CGTGATTAATGTCCCAGCGGACTAT
18549555 CCGTGAT
1 -CGTGAT
18549562 GCCAGAGTGT
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
24 18 0.41
25 4 0.09
26 22 0.50
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (25 bp):
CGTGATTAATGTCCCAGCGGACTAT
Found at i:18549542 original size:24 final size:24
Alignment explanation
Indices: 18549510--18549556 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
18549500 ACTATCTGTG
* * *
18549510 ATTAGTGTCTCAGCGGATTATCCT
1 ATTAATGTCCCAGCGGACTATCCT
18549534 ATTAATGTCCCAGCGGACTATCC
1 ATTAATGTCCCAGCGGACTATCC
18549557 GTGATGCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (24 bp):
ATTAATGTCCCAGCGGACTATCCT
Found at i:18560254 original size:26 final size:26
Alignment explanation
Indices: 18560179--18560255 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
18560169 ACACCAATAT
* *
18560179 CGCAGCAAAGCTGCCAGTAATAATAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
* * *
18560205 CGCAGCAAGGCTACCAGTATCAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
*
18560231 CGCAACAAAGCTGCCAGTAACAGTA
1 CGCAGCAAAGCTGCCAGTAACAGTA
18560256 TATGTGGCAT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.39, C:0.26, G:0.21, T:0.14
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:18560455 original size:27 final size:27
Alignment explanation
Indices: 18560406--18560524 Score: 125
Period size: 27 Copynumber: 4.4 Consensus size: 27
18560396 TCATGCATAA
* *
18560406 CAGTCATTTTACCCTAT-GGGGGTATTT
1 CAGTCATTTTACACT-TCGAGGGTATTT
* **
18560433 CGGTCATTTTACACTTTAAGGGTATTT
1 CAGTCATTTTACACTTCGAGGGTATTT
*
18560460 CAGTCATTTTATC-CTTCGGGGGTATTT
1 CAGTCATTTTA-CACTTCGAGGGTATTT
**
18560487 TGGTCATTTTACACTTCGAGGGTATTT
1 CAGTCATTTTACACTTCGAGGGTATTT
*
18560514 CAATCATTTTA
1 CAGTCATTTTA
18560525 AGCCCATTAC
Statistics
Matches: 75, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
26 2 0.03
27 72 0.96
28 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (27 bp):
CAGTCATTTTACACTTCGAGGGTATTT
Found at i:18560492 original size:54 final size:54
Alignment explanation
Indices: 18560406--18560524 Score: 177
Period size: 54 Copynumber: 2.2 Consensus size: 54
18560396 TCATGCATAA
*
18560406 CAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACACTTTAAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACACTTCAAGGGTATTT
* * *
18560460 CAGTCATTTTATCCT-TCGGGGGTATTTTGGTCATTTTACACTTCGAGGGTATTT
1 CAGTCATTTTACCCTAT-GGGGGTATTTCGGTCATTTTACACTTCAAGGGTATTT
*
18560514 CAATCATTTTA
1 CAGTCATTTTA
18560525 AGCCCATTAC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 1 0.02
54 58 0.98
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (54 bp):
CAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACACTTCAAGGGTATTT
Found at i:18577820 original size:139 final size:138
Alignment explanation
Indices: 18577317--18577872 Score: 778
Period size: 139 Copynumber: 4.1 Consensus size: 138
18577307 AGAGAACATA
* * *
18577317 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTAT
1 AATATAATTAATATATTAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTAT
* * * * * *
18577382 TAACATAAAAAATTATATTAATTAATTTTGATCAAAATATAAAAG-ACATGGAAATTAATATTCT
66 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGAAC-TAGAAATTAATATTCT
18577446 TTTGGAAAG
130 TTTGGAAAG
*
18577455 AATATAATTAATATATGAATTTG--------AAAATATTAATTGTATATATTTTATCGAATTTAT
1 AATATAATTAATATATTAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTAT
* * *
18577512 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGATA-TAAAAATTAACATT-A
66 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGA-ACTAGAAATTAATATTCT
*
18577575 TTTGGAAAT
130 TTTGGAAAG
* *
18577584 AATATAATTAATATATTAATTTGATTCATACAAAATATTAATTTTATATATTTTATTGAATTTAT
1 AATATAATTAATATATTAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTAT
*
18577649 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGAACTGGAAATTAATATTCTT
66 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGAACTAGAAATTAATATTCTT
18577714 TTGGAAA-
131 TTGGAAAG
*
18577721 AATATAATTAATATATATAAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAAATTT
1 AATATAATTAATATAT-T-AATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTT
* * *
18577786 ATTAATATAAACAGTTATATCAATTACTTTCGGTCCAAATATAAAAG-ACATAGAAATTAATATT
64 ATTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGAAC-TAGAAATTAATATT
*
18577850 CTTGTGGAAAG
128 CTTTTGGAAAG
18577861 AATATAATTAAT
1 AATATAATTAAT
18577873 TTTTCTAACT
Statistics
Matches: 375, Mismatches: 27, Indels: 30
0.87 0.06 0.07
Matches are distributed among these distances:
129 30 0.08
130 83 0.22
132 1 0.00
136 1 0.00
137 105 0.28
138 34 0.09
139 109 0.29
140 12 0.03
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.41
Consensus pattern (138 bp):
AATATAATTAATATATTAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTAT
TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGAACTAGAAATTAATATTCTT
TTGGAAAG
Found at i:18577831 original size:267 final size:260
Alignment explanation
Indices: 18577317--18577820 Score: 706
Period size: 267 Copynumber: 1.9 Consensus size: 260
18577307 AGAGAACATA
18577317 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTAT
*
18577382 TAACATAAAAAATTATATTAATTAATTTTGATCAAAATATAAAAGACATGGAAATTAATATTCTT
66 TAACATAAAAAATTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTT
* *
18577447 TTGGAAAGAATATAATTAATATATGAATTTGAAAATATTAATTGTATATATTTTATCGAATTTAT
131 TTGGAAAGAATATAATTAATATATAAATTTGAAAATATTAATTGTATATATTTTATCAAATTTAT
*
18577512 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGATATAAAAATTAACATTATT
196 TAATATAAACAGTTATATCAATTAATTTCGGTC-------AAAAGATATAAAAATTAACATTATT
18577577 TGGAAAT
254 TGGAAAT
* * ** *
18577584 AATATAATTAATATATTAATTTGATTCATACAAAATATTAATTTTATATATTTTATTGAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTAT
* * * *
18577649 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGA-ACTGGAAATTAATATTCT
66 TAACATAAAAAATTATATTAATTAATTTCGATCAAAATATAAAAGACA-TGGAAATTAATATTCT
18577713 TTTGGAAA-AATATAATTAATATATATAAATTTGATTCATACAAAATATTAATTGTATATATTTT
130 TTTGGAAAGAATATAATT-A-ATATATAAATTTG--------AAAATATTAATTGTATATATTTT
*
18577777 ATCAAATTTATTAATATAAACAGTTATATCAATTACTTTCGGTC
185 ATCAAATTTATTAATATAAACAGTTATATCAATTAATTTCGGTC
18577821 CAAATATAAA
Statistics
Matches: 212, Mismatches: 14, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
266 10 0.05
267 126 0.59
268 12 0.06
276 64 0.30
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.42
Consensus pattern (260 bp):
AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTAT
TAACATAAAAAATTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTT
TTGGAAAGAATATAATTAATATATAAATTTGAAAATATTAATTGTATATATTTTATCAAATTTAT
TAATATAAACAGTTATATCAATTAATTTCGGTCAAAAGATATAAAAATTAACATTATTTGGAAAT
Found at i:18580126 original size:53 final size:53
Alignment explanation
Indices: 18580069--18580176 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
18580059 TTAGGCATCC
* * *
18580069 ATAACACCAAACATGTTCTTAATTAGCCATTTCAATAGCTAATCATTAGCCAT
1 ATAACACCAAACATGTTATTAATTAGCCATTTCAATAACTAACCATTAGCCAT
18580122 ATAACACCAAACATGTTATTAATTAGCCATTTCAATAACTAACCATTAGCCAT
1 ATAACACCAAACATGTTATTAATTAGCCATTTCAATAACTAACCATTAGCCAT
18580175 AT
1 AT
18580177 CATATAAACA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.31
Consensus pattern (53 bp):
ATAACACCAAACATGTTATTAATTAGCCATTTCAATAACTAACCATTAGCCAT
Found at i:18580468 original size:12 final size:12
Alignment explanation
Indices: 18580438--18580476 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
18580428 TTCCGCTTCT
* *
18580438 TTACTTATTCAC
1 TTACTTGTTTAC
18580450 TTACTTGTTTAC
1 TTACTTGTTTAC
18580462 TTACTTGTTTAC
1 TTACTTGTTTAC
18580474 TTA
1 TTA
18580477 AATAACTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.21, C:0.18, G:0.05, T:0.56
Consensus pattern (12 bp):
TTACTTGTTTAC
Found at i:18580805 original size:50 final size:50
Alignment explanation
Indices: 18580746--18580858 Score: 127
Period size: 50 Copynumber: 2.3 Consensus size: 50
18580736 TATCCCAAAT
** * * * *
18580746 ATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATACCATGTCCTAGAC
1 ATGGTCTTACATGAGACCTCTCATATCGATGCCAACACCATGTCCCAGAC
** * * *
18580796 ATGGTCTTACGGGGGACCTCTCATCTCGATGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGAGACCTCTCATATCGATGCCAACACCATGTCCCAGAC
18580846 ATGGTCTTACATG
1 ATGGTCTTACATG
18580859 GGATCTCATT
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGAGACCTCTCATATCGATGCCAACACCATGTCCCAGAC
Found at i:18583596 original size:23 final size:22
Alignment explanation
Indices: 18583570--18583641 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 22
18583560 GTATGGAATT
18583570 TTCTATGATGCTTTTGTGGCGTA
1 TTCTATGA-GCTTTTGTGGCGTA
*
18583593 TTCTATGAAG-TCTTTGTGGCATA
1 TTCTATG-AGCT-TTTGTGGCGTA
* * *
18583616 TTATGTGGAGCCTTTGTGGCGTA
1 TTCTAT-GAGCTTTTGTGGCGTA
18583639 TTC
1 TTC
18583642 CGTAATGCCC
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
22 1 0.03
23 36 0.92
24 2 0.05
ACGTcount: A:0.15, C:0.14, G:0.26, T:0.44
Consensus pattern (22 bp):
TTCTATGAGCTTTTGTGGCGTA
Found at i:18585360 original size:15 final size:16
Alignment explanation
Indices: 18585340--18585384 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
18585330 ATGAGTTGTT
18585340 ATATTTAAAATTA-AA
1 ATATTTAAAATTATAA
*
18585355 ATATTTATAATTTATAA
1 ATATTTA-AAATTATAA
18585372 A-ATTTAAAATTAT
1 ATATTTAAAATTAT
18585385 TTGAATTCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 13 0.50
16 10 0.38
17 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTTAAAATTATAA
Found at i:18585382 original size:16 final size:16
Alignment explanation
Indices: 18585340--18585382 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
18585330 ATGAGTTGTT
18585340 ATATTTAAAA-TTAAA
1 ATATTTAAAATTTAAA
*
18585355 ATATTTATAATTTATAA
1 ATATTTAAAATTTA-AA
18585372 A-ATTTAAAATT
1 ATATTTAAAATT
18585383 ATTTGAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 9 0.38
16 12 0.50
17 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTTAAAATTTAAA
Found at i:18585391 original size:25 final size:24
Alignment explanation
Indices: 18585345--18585391 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
18585335 TTGTTATATT
*
18585345 TAAAATTAAAATATTTATAATTTA
1 TAAAATTAAAATATTTAGAATTTA
18585369 TAAAATTTAAAATTATTT-GAATT
1 TAAAA-TTAAAA-TATTTAGAATT
18585392 CGTCAGAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 10 0.50
26 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
TAAAATTAAAATATTTAGAATTTA
Found at i:18588002 original size:12 final size:11
Alignment explanation
Indices: 18587979--18588011 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
18587969 ATACATTATC
18587979 AAAAAA-TTTT
1 AAAAAACTTTT
18587989 AAAAACACTTTT
1 AAAAA-ACTTTT
18588001 AAAAAACTTTT
1 AAAAAACTTTT
18588012 TTTAAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.24
11 7 0.33
12 9 0.43
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAAAACTTTT
Found at i:18593112 original size:81 final size:81
Alignment explanation
Indices: 18593020--18593181 Score: 297
Period size: 81 Copynumber: 2.0 Consensus size: 81
18593010 TTTTCTTCAG
*
18593020 TTTGTCGTATCAAATCAACATCGAATAATTTTTTCCACTAAGCTCAGTCTAGTACAAAGGAGTTC
1 TTTGTCGTATCAAATCAACACCGAATAATTTTTTCCACTAAGCTCAGTCTAGTACAAAGGAGTTC
18593085 AACACTTTTGACCATA
66 AACACTTTTGACCATA
*
18593101 TTTGTCGTATCAAATCAACACCGAATAATTTTTTCCACTAAGCTCAGTCTAGTACAATGGAGTTC
1 TTTGTCGTATCAAATCAACACCGAATAATTTTTTCCACTAAGCTCAGTCTAGTACAAAGGAGTTC
*
18593166 GACACTTTTGACCATA
66 AACACTTTTGACCATA
18593182 CAAAGCTTTA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (81 bp):
TTTGTCGTATCAAATCAACACCGAATAATTTTTTCCACTAAGCTCAGTCTAGTACAAAGGAGTTC
AACACTTTTGACCATA
Found at i:18597842 original size:16 final size:15
Alignment explanation
Indices: 18597817--18597846 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18597807 TCTCACTCAA
18597817 TTTTCTTTCACTTTG
1 TTTTCTTTCACTTTG
18597832 TTTTCCTTTCACTTT
1 TTTT-CTTTCACTTT
18597847 TCCTCCACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.07, C:0.23, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTCTTTCACTTTG
Found at i:18604102 original size:26 final size:26
Alignment explanation
Indices: 18604062--18604156 Score: 127
Period size: 26 Copynumber: 3.7 Consensus size: 26
18604052 TTTACATCAT
18604062 TGCTCACACGAGCTGTGAAATGGGCC
1 TGCTCACACGAGCTGTGAAATGGGCC
* *
18604088 TGCCCACACGAGCTGTGACATGGGCC
1 TGCTCACACGAGCTGTGAAATGGGCC
* * * *
18604114 TTCTGACACGAGTTGTGAAATGGGTC
1 TGCTCACACGAGCTGTGAAATGGGCC
*
18604140 TGCTCACACGAGTTGTG
1 TGCTCACACGAGCTGTG
18604157 GGTTAGAACG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 59 1.00
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.23
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATGGGCC
Found at i:18606211 original size:28 final size:30
Alignment explanation
Indices: 18606140--18606212 Score: 100
Period size: 29 Copynumber: 2.5 Consensus size: 30
18606130 GTCATGAGAT
*
18606140 TGGCACTAAGTGTGCGGGTTTAAATTGTACA
1 TGGCACTAAGTGTGCGAGTTTAAA-TGTACA
18606171 --GCACTAAGTGTGCGAGTTTAAA-GTA-A
1 TGGCACTAAGTGTGCGAGTTTAAATGTACA
18606197 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18606213 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
26 1 0.03
27 3 0.08
28 14 0.36
29 21 0.54
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (30 bp):
TGGCACTAAGTGTGCGAGTTTAAATGTACA
Found at i:18606435 original size:174 final size:173
Alignment explanation
Indices: 18606171--18606497 Score: 591
Period size: 174 Copynumber: 1.9 Consensus size: 173
18606161 AAATTGTACA
*
18606171 GCACTAAGTGTGCGAGTTTAAAGTAATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGT
1 GCACTAAGTGTGCGAGTTTAAAGTAATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
* *
18606236 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGAT
66 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAAT
18606301 TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
18606344 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGT-AATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
18606409 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
65 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
18606474 TTTTGGACAGCGGAAAAGGTAAGT
130 TTTTGGACAGCGGAAAAGGTAAGT
18606498 ACCTTGAGTT
Statistics
Matches: 147, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
173 23 0.16
174 124 0.84
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (173 bp):
GCACTAAGTGTGCGAGTTTAAAGTAATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAAT
TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:18617823 original size:102 final size:102
Alignment explanation
Indices: 18617647--18617844 Score: 290
Period size: 102 Copynumber: 1.9 Consensus size: 102
18617637 TGAGAACTCA
* ** *
18617647 TGTGTAGTACTATGTGCAGGCTACTACATGCACTGGATGGTAATGGTCACATGTGCAGTACTAAG
1 TGTGTAATACTATGTGCAGGCTACTACATGCACCAGATGGTAATGGTCACATGTGCAGCACTAAG
*
18617712 TGCAGGCTACTATGTGTACCAGATAGTTTTGGTCACG
66 TGCAGGCTACTATGTGTACCAGATAGCTTTGGTCACG
* * *
18617749 TGTGTAATACTATGTGCAGGCTAGTA-AGTGTACCAGATGGTAATGGTCACATGTGTAGCACTAA
1 TGTGTAATACTATGTGCAGGCTACTACA-TGCACCAGATGGTAATGGTCACATGTGCAGCACTAA
* *
18617813 GTGTAGGCTACTATGTGTACCGGATAGCTTTG
65 GTGCAGGCTACTATGTGTACCAGATAGCTTTG
18617845 ATCATAAGGG
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 1 0.01
102 84 0.99
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (102 bp):
TGTGTAATACTATGTGCAGGCTACTACATGCACCAGATGGTAATGGTCACATGTGCAGCACTAAG
TGCAGGCTACTATGTGTACCAGATAGCTTTGGTCACG
Found at i:18617831 original size:51 final size:51
Alignment explanation
Indices: 18617645--18617833 Score: 225
Period size: 51 Copynumber: 3.7 Consensus size: 51
18617635 CATGAGAACT
* ** * **
18617645 CATGTGTAGTACTATGTGCAGGCTACTACATGCACTGGATGGTAATGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTAATGGTCA
* * **
18617696 CATGTGCAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTTTGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTAATGGTCA
* * * * *
18617747 CGTGTGTAATACTATGTGCAGGCTAGTAAGTGTACCAGATGGTAATGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTAATGGTCA
* *
18617798 CATGTGTAGCACTAAGTGTAGGCTACTATGTGTACC
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
18617834 GGATAGCTTT
Statistics
Matches: 112, Mismatches: 26, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 112 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (51 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTAATGGTCA
Found at i:18619427 original size:46 final size:46
Alignment explanation
Indices: 18619372--18619463 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
18619362 GAGTAAGCAT
*
18619372 TTAAGCTTAGTAAGTTTGTATAATTTAAAACATAACTTACCATTTA
1 TTAAGCTTAGTAAGTTTGTATAATTTAAAACATAACGTACCATTTA
18619418 TTAAGCTTAGTAAGTTTGTATAATTTAAAACATAACGTACCATTTA
1 TTAAGCTTAGTAAGTTTGTATAATTTAAAACATAACGTACCATTTA
18619464 ATCACATAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (46 bp):
TTAAGCTTAGTAAGTTTGTATAATTTAAAACATAACGTACCATTTA
Found at i:18619853 original size:25 final size:25
Alignment explanation
Indices: 18619816--18619905 Score: 101
Period size: 25 Copynumber: 3.6 Consensus size: 25
18619806 ATATACATGC
* *
18619816 ATGCTCATACGAGCTGTGAATTGGT
1 ATGCTCACACGAGCTGTAAATTGGT
*
18619841 ATGCTCACTCGAGCAT-TAAATTGGT
1 ATGCTCACACGAGC-TGTAAATTGGT
* * *
18619866 ATGCTCTCACGAGTTGTAAATCGGT
1 ATGCTCACACGAGCTGTAAATTGGT
*
18619891 ATGCTCTCACGAGCT
1 ATGCTCACACGAGCT
18619906 TCTCGATGGT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
24 1 0.02
25 53 0.96
26 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTAAATTGGT
Found at i:18624815 original size:30 final size:30
Alignment explanation
Indices: 18624779--18624839 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
18624769 GAGGTACCTA
18624779 TAATAATTAGATGACCTTTCTGAGCAAACT
1 TAATAATTAGATGACCTTTCTGAGCAAACT
* *
18624809 TAATAATTGGATGACCTTTTTGAGCAAACT
1 TAATAATTAGATGACCTTTCTGAGCAAACT
18624839 T
1 T
18624840 GTAGAACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (30 bp):
TAATAATTAGATGACCTTTCTGAGCAAACT
Found at i:18628053 original size:29 final size:29
Alignment explanation
Indices: 18627993--18628090 Score: 94
Period size: 29 Copynumber: 3.4 Consensus size: 29
18627983 TCATTGACTA
* * *
18627993 ATGAAAAGGGATAACTTTGACTATCC-AAT
1 ATGAAAAGGGATAGCTTTGGCTA-CCGATT
*
18628022 ATGAAAAGGGATAGCTATGGCTACCGATT
1 ATGAAAAGGGATAGCTTTGGCTACCGATT
* * *
18628051 ATGAAAAGAGATAGTTTTGG-TGATCGATT
1 ATGAAAAGGGATAGCTTTGGCT-ACCGATT
18628080 ATG-AAAGGGAT
1 ATGAAAAGGGAT
18628091 GGTGATGACC
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 10 0.17
29 48 0.83
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.28
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTTGGCTACCGATT
Found at i:18628130 original size:29 final size:29
Alignment explanation
Indices: 18628079--18628149 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
18628069 GGTGATCGAT
** *
18628079 TATG-AAAGGGATGGTGATGACCATCAAC
1 TATGAAAAGGGATGGTGACAACCACCAAC
*
18628107 TATGAAAAGGGATGGTGACAACCACCAAT
1 TATGAAAAGGGATGGTGACAACCACCAAC
*
18628136 TAATAAAAAGGGAT
1 T-ATGAAAAGGGAT
18628150 TGTTTCGACC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 4 0.11
29 21 0.58
30 11 0.31
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACAACCACCAAC
Found at i:18634293 original size:20 final size:21
Alignment explanation
Indices: 18634247--18634294 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
18634237 TACCATAAGC
*
18634247 AAATAAAA-AAAACTTAGAAA
1 AAATAAAATAAAACTTAAAAA
*
18634267 ACA-AAAATAAAAC-TAAAAA
1 AAATAAAATAAAACTTAAAAA
18634286 AAATAAAAT
1 AAATAAAAT
18634295 GCAATAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.15
Consensus pattern (21 bp):
AAATAAAATAAAACTTAAAAA
Found at i:18640983 original size:20 final size:20
Alignment explanation
Indices: 18640938--18641003 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
18640928 TAAAACTTTG
* *
18640938 AAATAATTTTAAAATCAAGTGC
1 AAATAATTTTCAAA-CAAGT-A
*
18640960 AAATAATTTT-AACCAAGTTA
1 AAATAATTTTCAAACAAG-TA
*
18640980 AAATGATTTTCAAACAAGTA
1 AAATAATTTTCAAACAAGTA
18641000 AAAT
1 AAAT
18641004 TTGCACCAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
20 19 0.50
21 9 0.24
22 10 0.26
ACGTcount: A:0.52, C:0.09, G:0.08, T:0.32
Consensus pattern (20 bp):
AAATAATTTTCAAACAAGTA
Found at i:18648460 original size:27 final size:27
Alignment explanation
Indices: 18648223--18648656 Score: 381
Period size: 27 Copynumber: 16.1 Consensus size: 27
18648213 GGGTATAACA
18648223 GTCATTTTACCCTAT-GGGGGTATTTCT
1 GTCATTTTACCCT-TCGGGGGTATTTCT
* **
18648250 GTCATTTTA-CCTATTGGGGGTATTTAA
1 GTCATTTTACCCT-TCGGGGGTATTTCT
* *
18648277 GCCATTTTACCCTTCAGGGGTATTTC-
1 GTCATTTTACCCTTCGGGGGTATTTCT
*
18648303 GATCATTTTACCCCTCGGGGGTATTT-T
1 G-TCATTTTACCCTTCGGGGGTATTTCT
* *
18648330 GGTCATTTTACCCTTAGGGGCTATTTCT
1 -GTCATTTTACCCTTCGGGGGTATTTCT
* *
18648358 GTCATTTTAACCTAT-AGGGGTATTTC-
1 GTCATTTTACCCT-TCGGGGGTATTTCT
* *
18648384 GATCATTTTACCCTTCGAGGGTATTTCG
1 G-TCATTTTACCCTTCGGGGGTATTTCT
* *
18648412 GTCATTTTATCCTTCGAGGGTATTTCT
1 GTCATTTTACCCTTCGGGGGTATTTCT
* *
18648439 GTCATTTTACCCTACGGAGGTATTT-T
1 GTCATTTTACCCTTCGGGGGTATTTCT
* * *
18648465 GATCATTTTACCCCTCAGAGGTATTTC-
1 G-TCATTTTACCCTTCGGGGGTATTTCT
* * * *
18648492 GATCGTTTTACTCTTCAGAGGTATTT-T
1 G-TCATTTTACCCTTCGGGGGTATTTCT
* * *
18648519 GATCATTTTACCCCTC-AGGGTATTTCG
1 G-TCATTTTACCCTTCGGGGGTATTTCT
* *
18648546 GTCATTTTACCTTTCGGGGGTATGTT-A
1 GTCATTTTACCCTTCGGGGGTAT-TTCT
18648573 GTCATTTTACCCTTCGGGGGTATTT-T
1 GTCATTTTACCCTTCGGGGGTATTTCT
* *
18648599 GGTCACTTTACCCTTCGGGGGTATTTCA
1 -GTCATTTTACCCTTCGGGGGTATTTCT
* * *
18648627 GTCAATTTACCTTTC-GGGGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTCT
18648653 GTCA
1 GTCA
18648657 CTTGCCCATG
Statistics
Matches: 342, Mismatches: 47, Indels: 37
0.80 0.11 0.09
Matches are distributed among these distances:
26 45 0.13
27 288 0.84
28 9 0.03
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTTCGGGGGTATTTCT
Found at i:18650861 original size:45 final size:46
Alignment explanation
Indices: 18650811--18650901 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
18650801 TTCTTCACAG
**
18650811 AATTAAA-TTCCTACTATAAAATTTTTGAAAAATACAACCACTATA
1 AATTAAATTTCCTACTATAAAATTTTCAAAAAATACAACCACTATA
* * *
18650856 AATTAAATTTCCTACTTTGAAATTTTCAAAAAATACAATCACTATA
1 AATTAAATTTCCTACTATAAAATTTTCAAAAAATACAACCACTATA
18650902 GACATATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 7 0.17
46 33 0.82
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.35
Consensus pattern (46 bp):
AATTAAATTTCCTACTATAAAATTTTCAAAAAATACAACCACTATA
Found at i:18657202 original size:88 final size:90
Alignment explanation
Indices: 18657032--18657221 Score: 278
Period size: 88 Copynumber: 2.1 Consensus size: 90
18657022 TTGATTTTAG
* *
18657032 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATAT--CTATTAAATTAT
* *
18657097 ATTTAATATTAATTATTTTAAATTGTA
64 ATGTAATATTAATTATTTTAAATTATA
*
18657124 TAAATTCATATGAGAA-AATTTATTATCAAGAATTTTATGAAATTATATAT-TATTAAATTATAT
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATCTATTAAATTATAT
18657187 GTAATAATT-ATTATTTTAAATTATA
66 GTAAT-ATTAATTATTTTAAATTATA
*
18657212 CAAATTCATA
1 TAAATTCATA
18657222 AAATATAATT
Statistics
Matches: 91, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
88 41 0.45
89 3 0.03
91 32 0.35
92 15 0.16
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (90 bp):
TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATCTATTAAATTATAT
GTAATATTAATTATTTTAAATTATA
Done.