Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 101 of 193
Found at i:32557054 original size:28 final size:27
Alignment explanation
Indices: 32556975--32557114 Score: 93
Period size: 31 Copynumber: 4.8 Consensus size: 27
32556965 ATTGAACCTA
* * *
32556975 AAAAAAAGCTTAAGTACCAAATTAGGGA
1 AAAAAAAGTTTAGGTACCAAATT-GGGC
*
32557003 AAAAAGCCAAGTTTAGTTACCAAATTGGGTC
1 AAAAA---AAGTTTAGGTACCAAATTGGG-C
* **
32557034 AAAAAAAGTTTAGGTATCAAATTAAG-
1 AAAAAAAGTTTAGGTACCAAATTGGGC
32557060 AAAAAGTGTGAAGTTTAGGTACCAAATTGGGCC
1 AAAAA-----AAGTTTAGGTACCAAATTGGG-C
* *
32557093 AAAAAAAGTTTAGATGCCAAAT
1 AAAAAAAGTTTAGGTACCAAAT
32557115 CAAAAAAAAA
Statistics
Matches: 88, Mismatches: 13, Indels: 22
0.72 0.11 0.18
Matches are distributed among these distances:
26 5 0.06
28 37 0.42
30 3 0.03
31 38 0.43
33 5 0.06
ACGTcount: A:0.46, C:0.11, G:0.19, T:0.24
Consensus pattern (27 bp):
AAAAAAAGTTTAGGTACCAAATTGGGC
Found at i:32557114 original size:59 final size:59
Alignment explanation
Indices: 32557011--32557123 Score: 163
Period size: 59 Copynumber: 1.9 Consensus size: 59
32557001 GAAAAAAGCC
* * * * * *
32557011 AAGTTTAGTTACCAAATTGGGTCAAAAAAAGTTTAGGTATCAAATTAAGAAAAAGTGTG
1 AAGTTTAGGTACCAAATTGGGCCAAAAAAAGTTTAGATACCAAATCAAAAAAAAGTGTG
*
32557070 AAGTTTAGGTACCAAATTGGGCCAAAAAAAGTTTAGATGCCAAATCAAAAAAAA
1 AAGTTTAGGTACCAAATTGGGCCAAAAAAAGTTTAGATACCAAATCAAAAAAAA
32557124 AAGGTCAAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 47 1.00
ACGTcount: A:0.47, C:0.10, G:0.19, T:0.25
Consensus pattern (59 bp):
AAGTTTAGGTACCAAATTGGGCCAAAAAAAGTTTAGATACCAAATCAAAAAAAAGTGTG
Found at i:32563389 original size:43 final size:42
Alignment explanation
Indices: 32563339--32563433 Score: 163
Period size: 43 Copynumber: 2.2 Consensus size: 42
32563329 ACTTAAATCG
32563339 GCCTATATTTGCAAAAAATTAACTCAAATCCATTTTAAAACCC
1 GCCTATATTTGCAAAAAATTAACTCAAATCCATTTT-AAACCC
* *
32563382 GTCTATATTTGTAAAAAATTAACTCAAATCCATTTTAAACCC
1 GCCTATATTTGCAAAAAATTAACTCAAATCCATTTTAAACCC
32563424 GCCTATATTT
1 GCCTATATTT
32563434 TTTTTTAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 15 0.31
43 34 0.69
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (42 bp):
GCCTATATTTGCAAAAAATTAACTCAAATCCATTTTAAACCC
Found at i:32564415 original size:29 final size:29
Alignment explanation
Indices: 32564382--32564462 Score: 153
Period size: 29 Copynumber: 2.8 Consensus size: 29
32564372 TTTGTCTTAG
*
32564382 GTTACATTTTAGTCACTTATGTTTGAAAT
1 GTTACGTTTTAGTCACTTATGTTTGAAAT
32564411 GTTACGTTTTAGTCACTTATGTTTGAAAT
1 GTTACGTTTTAGTCACTTATGTTTGAAAT
32564440 GTTACGTTTTAGTCACTTATGTT
1 GTTACGTTTTAGTCACTTATGTT
32564463 AGTATTTTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.23, C:0.11, G:0.16, T:0.49
Consensus pattern (29 bp):
GTTACGTTTTAGTCACTTATGTTTGAAAT
Found at i:32572339 original size:26 final size:27
Alignment explanation
Indices: 32572305--32572356 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
32572295 TTAATTCTCA
*
32572305 TGAACTTTTTAT-ATATTTTTAAATTT
1 TGAACTTTTTATAATATATTTAAATTT
* *
32572331 TGAATTTTTTTTAATATATTTAAATT
1 TGAACTTTTTATAATATATTTAAATT
32572357 ATTTGTGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (27 bp):
TGAACTTTTTATAATATATTTAAATTT
Found at i:32578103 original size:101 final size:102
Alignment explanation
Indices: 32577975--32578249 Score: 399
Period size: 102 Copynumber: 2.7 Consensus size: 102
32577965 CGGTTTTTTT
* * * * * *
32577975 TTTTTTTAAGAATATATTAGTCCTTTTGATGTGAAATTAAATGACAA-CCAAACACTCCATCCTG
1 TTTTTTT-AGAATGTATTAGCCCTTTTGACGTGAAATGAAATGACAACCCAAGCACTCCATCCCG
32578039 GTTACTCAGCCCAACATACTCCCAATCATTTTTCTCTC
65 GTTACTCAGCCCAACATACTCCCAATCATTTTTCTCTC
* * **
32578077 TTTTTTTAGAATGTAATAGCCCTTTTGACGTGAAATGAAATGACAATCCAAGCACTCCATCCCAA
1 TTTTTTTAGAATGTATTAGCCCTTTTGACGTGAAATGAAATGACAACCCAAGCACTCCATCCCGG
* *
32578142 TTACTCAGTCCAACATACTCCCAATCATTTTTTTCTC
66 TTACTCAGCCCAACATACTCCCAATCATTTTTCTCTC
* * *
32578179 TTTTTTTAGAATGTATTAGCCCTTTTGACGCGAAATGAAATTATAACCCAAGCACTCCATCCCGG
1 TTTTTTTAGAATGTATTAGCCCTTTTGACGTGAAATGAAATGACAACCCAAGCACTCCATCCCGG
32578244 TTACTC
66 TTACTC
32578250 GATCCAATAC
Statistics
Matches: 154, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
101 34 0.22
102 120 0.78
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.35
Consensus pattern (102 bp):
TTTTTTTAGAATGTATTAGCCCTTTTGACGTGAAATGAAATGACAACCCAAGCACTCCATCCCGG
TTACTCAGCCCAACATACTCCCAATCATTTTTCTCTC
Found at i:32579074 original size:10 final size:10
Alignment explanation
Indices: 32579061--32579092 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
32579051 TAAAACTAAA
32579061 AAATAAAAAT
1 AAATAAAAAT
32579071 AAAT-AAAAT
1 AAATAAAAAT
32579080 AAATAAAAAT
1 AAATAAAAAT
32579090 AAA
1 AAA
32579093 ATTAGATTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:32579078 original size:15 final size:15
Alignment explanation
Indices: 32579060--32579094 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
32579050 CTAAAACTAA
32579060 AAAATAAA-AATAAAT
1 AAAATAAATAA-AAAT
32579075 AAAATAAATAAAAAT
1 AAAATAAATAAAAAT
32579090 AAAAT
1 AAAAT
32579095 TAGATTGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 17 0.89
16 2 0.11
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAATAAATAAAAAT
Found at i:32582907 original size:2 final size:2
Alignment explanation
Indices: 32582900--32582931 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
32582890 CATACTCACA
32582900 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32582932 CCAAAAGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32584259 original size:6 final size:6
Alignment explanation
Indices: 32584247--32584300 Score: 65
Period size: 6 Copynumber: 8.7 Consensus size: 6
32584237 AATGCAAGAA
*
32584247 AAAAACT AAAACT AAAAAAT AAAAAT AAAAAT -AAAAT AAAAAAT AAAAAT
1 AAAAA-T AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT
32584297 AAAA
1 AAAA
32584301 TTGGGTTGCC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
5 5 0.12
6 23 0.55
7 14 0.33
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:32584263 original size:13 final size:13
Alignment explanation
Indices: 32584246--32584300 Score: 78
Period size: 13 Copynumber: 4.3 Consensus size: 13
32584236 AAATGCAAGA
*
32584246 AAAAAACTAAAACT
1 AAAAAA-TAAAAAT
32584260 AAAAAATAAAAAT
1 AAAAAATAAAAAT
32584273 -AAAAAT-AAAAT
1 AAAAAATAAAAAT
32584284 AAAAAATAAAAAT
1 AAAAAATAAAAAT
32584297 AAAA
1 AAAA
32584301 TTGGGTTGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
11 5 0.13
12 12 0.32
13 15 0.39
14 6 0.16
ACGTcount: A:0.82, C:0.04, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:32584288 original size:18 final size:18
Alignment explanation
Indices: 32584246--32584301 Score: 76
Period size: 18 Copynumber: 3.0 Consensus size: 18
32584236 AAATGCAAGA
* *
32584246 AAAAAACTAAAACTAAAAA
1 AAAAAA-TAAAAATAAAAT
32584265 ATAAAAATAAAAATAAAAT
1 A-AAAAATAAAAATAAAAT
32584284 AAAAAATAAAAATAAAAT
1 AAAAAATAAAAATAAAAT
32584302 TGGGTTGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 17 0.50
19 12 0.35
20 5 0.15
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAAAATAAAAATAAAAT
Found at i:32584291 original size:24 final size:26
Alignment explanation
Indices: 32584247--32584300 Score: 94
Period size: 24 Copynumber: 2.2 Consensus size: 26
32584237 AATGCAAGAA
32584247 AAAAACTAAAACTAAAAAATAAAAAT
1 AAAAACTAAAACTAAAAAATAAAAAT
32584273 AAAAA-TAAAA-TAAAAAATAAAAAT
1 AAAAACTAAAACTAAAAAATAAAAAT
32584297 AAAA
1 AAAA
32584301 TTGGGTTGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 18 0.64
25 5 0.18
26 5 0.18
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (26 bp):
AAAAACTAAAACTAAAAAATAAAAAT
Found at i:32599069 original size:23 final size:22
Alignment explanation
Indices: 32599034--32599085 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
32599024 TTGACCAGCC
* *
32599034 TAATTACCTTAATTAACTATATT
1 TAATTAAC-TAATTAACTAGATT
*
32599057 TAGATTAACTAATTAATTAGATT
1 TA-ATTAACTAATTAACTAGATT
32599080 TAATTA
1 TAATTA
32599086 TTCTGTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 4 0.16
23 16 0.64
24 5 0.20
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (22 bp):
TAATTAACTAATTAACTAGATT
Found at i:32600560 original size:26 final size:26
Alignment explanation
Indices: 32600531--32600593 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
32600521 TAAATACCTC
* *
32600531 TTAAACGAATAAGTTAATAA-GTTAAT
1 TTAAA-GAAAAAGTTAAAAAGGTTAAT
*
32600557 TTAAATAAAAAGTTAAAAAGGTTAAT
1 TTAAAGAAAAAGTTAAAAAGGTTAAT
*
32600583 TTAAATAAAAA
1 TTAAAGAAAAA
32600594 TTATTAGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 11 0.33
26 22 0.67
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.32
Consensus pattern (26 bp):
TTAAAGAAAAAGTTAAAAAGGTTAAT
Found at i:32601104 original size:6 final size:6
Alignment explanation
Indices: 32601082--32601141 Score: 69
Period size: 6 Copynumber: 11.0 Consensus size: 6
32601072 TAAAATTTAT
*
32601082 TTTAAA -TTAAA -TTAAA TTTAAA TTTAAA TTT--A TTTGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
32601126 TTT--A TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
32601142 ATAAATAAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
4 8 0.17
5 10 0.21
6 30 0.62
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:32601121 original size:22 final size:22
Alignment explanation
Indices: 32601074--32601137 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
32601064 TTTTTTTTTA
*
32601074 AAATTT-ATTTTAAATTAAATT
1 AAATTTAAATTTAAATTAAATT
* *
32601095 AAATTTAAATTTAAATTTATTT
1 AAATTTAAATTTAAATTAAATT
* *
32601117 GAATTTAAATTT-ATTTAAATT
1 AAATTTAAATTTAAATTAAATT
32601138 TAAAATAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
21 12 0.34
22 23 0.66
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
AAATTTAAATTTAAATTAAATT
Found at i:32601138 original size:16 final size:16
Alignment explanation
Indices: 32601074--32601141 Score: 93
Period size: 16 Copynumber: 4.2 Consensus size: 16
32601064 TTTTTTTTTA
32601074 AAATTTATTTTAAA-TT
1 AAATTTA-TTTAAATTT
*
32601090 AAATTAAATTTAAATTT
1 AAATT-TATTTAAATTT
*
32601107 AAATTTATTTGAATTT
1 AAATTTATTTAAATTT
32601123 AAATTTATTTAAATTT
1 AAATTTATTTAAATTT
32601139 AAA
1 AAA
32601142 ATAAATAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
16 38 0.83
17 8 0.17
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (16 bp):
AAATTTATTTAAATTT
Found at i:32603070 original size:57 final size:57
Alignment explanation
Indices: 32603009--32603116 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
32602999 TTCGACTCCT
32603009 GAACTTCTC-AAAATTACATTTTTACCCCCGAACTTCCAAAAATCACATTTTGCCCAC
1 GAACTTC-CAAAAATTACATTTTTACCCCCGAACTTCCAAAAATCACATTTTGCCCAC
* ** *
32603066 GAACTTCCAAAAATTACATTTTTGCCCTTGAACTTCCAAAAATTACATTTT
1 GAACTTCCAAAAATTACATTTTTACCCCCGAACTTCCAAAAATCACATTTT
32603117 TACCCTTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
56 1 0.02
57 45 0.98
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (57 bp):
GAACTTCCAAAAATTACATTTTTACCCCCGAACTTCCAAAAATCACATTTTGCCCAC
Found at i:32603122 original size:29 final size:29
Alignment explanation
Indices: 32603008--32603151 Score: 150
Period size: 29 Copynumber: 5.0 Consensus size: 29
32602998 TTTCGACTCC
*
32603008 TGAACTTCTC-AAAATTACATTTTTACCCC
1 TGAACTTC-CAAAAATTACATTTTTACCCT
* * * *
32603037 CGAACTTCCAAAAATCACA-TTTTGCCCA
1 TGAACTTCCAAAAATTACATTTTTACCCT
* *
32603065 CGAACTTCCAAAAATTACATTTTTGCCCT
1 TGAACTTCCAAAAATTACATTTTTACCCT
32603094 TGAACTTCCAAAAATTACATTTTTACCCT
1 TGAACTTCCAAAAATTACATTTTTACCCT
* * *
32603123 TAAAACTTTCC-AAAATTGCATTTTAACCC
1 T-GAAC-TTCCAAAAATTACATTTTTACCC
32603152 CAAACTCTCC
Statistics
Matches: 100, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
28 26 0.26
29 51 0.51
30 19 0.19
31 4 0.04
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (29 bp):
TGAACTTCCAAAAATTACATTTTTACCCT
Found at i:32603602 original size:97 final size:97
Alignment explanation
Indices: 32603426--32603619 Score: 309
Period size: 97 Copynumber: 2.0 Consensus size: 97
32603416 AAAATATTTA
* *
32603426 AAATAGAGGCAATATTCCTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGAT
1 AAATAGAGGCAATATTCCTTTATCTCGGGTTTTGAAAATTCGTGCCTTAACTTACTAGGCGCGAT
32603491 CTTTCTTCAAACCGGGATAATCAAATACCCTT
66 CTTTCTTCAAACCGGGATAATCAAATACCCTT
* * * *
32603523 AAATCGAGGTAATATTCCTTTATCTCGGGTTTTGAAAATTCGTGCCTTAACTTATTAGGTGCGA-
1 AAATAGAGGCAATATTCCTTTATCTCGGGTTTTGAAAATTCGTGCCTTAACTTACTAGGCGCGAT
*
32603587 CTTTTCTTCAAACCGGGATAATCGAATACCCTT
66 C-TTTCTTCAAACCGGGATAATCAAATACCCTT
32603620 TTTCAAGGTT
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
96 1 0.01
97 88 0.99
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (97 bp):
AAATAGAGGCAATATTCCTTTATCTCGGGTTTTGAAAATTCGTGCCTTAACTTACTAGGCGCGAT
CTTTCTTCAAACCGGGATAATCAAATACCCTT
Found at i:32610281 original size:2 final size:2
Alignment explanation
Indices: 32610274--32610336 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
32610264 AAATGAAAAC
32610274 AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32610315 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
32610337 TAATTCAAGT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:32612676 original size:15 final size:15
Alignment explanation
Indices: 32612652--32612681 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32612642 AAATTAATTC
*
32612652 TAAAATATAAAAAAA
1 TAAAAGATAAAAAAA
32612667 TAAAAGATAAAAAAA
1 TAAAAGATAAAAAAA
32612682 ATTCATTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (15 bp):
TAAAAGATAAAAAAA
Found at i:32615320 original size:2 final size:2
Alignment explanation
Indices: 32615313--32615339 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32615303 GGGTTATGTG
32615313 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 T
32615340 TCATTTATTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32615664 original size:8 final size:8
Alignment explanation
Indices: 32615651--32615678 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
32615641 TCTTCTCTCT
32615651 TTTTTTTC
1 TTTTTTTC
32615659 TTTTTTTC
1 TTTTTTTC
32615667 TTTTTTTC
1 TTTTTTTC
32615675 TTTT
1 TTTT
32615679 AGCAAACTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTTC
Found at i:32615979 original size:21 final size:21
Alignment explanation
Indices: 32615957--32615995 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
32615947 AAATTTTGCT
*
32615957 CTCTTTT-TCCCTAT-TTCTA
1 CTCTTTTCTTCCTATCTTCTA
32615976 CTCTTTTCTTCCTATCTTCT
1 CTCTTTTCTTCCTATCTTCT
32615996 CATTTGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.08, C:0.33, G:0.00, T:0.59
Consensus pattern (21 bp):
CTCTTTTCTTCCTATCTTCTA
Found at i:32621611 original size:36 final size:35
Alignment explanation
Indices: 32621533--32621615 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 35
32621523 ATTTTAAGTA
*
32621533 ATAAATATTAGTTATTTATAAAATTTAATTAAAATAT
1 ATAAATATT--TTATTTATAAAATTTAAATAAAATAT
*
32621570 ATAAATTATTTTATTT-TAAATATTTAAATATAATCAT
1 ATAAA-TATTTTATTTATAAA-ATTTAAATAAAAT-AT
32621607 -TAAATATTT
1 ATAAATATTT
32621616 GTAATTAGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
35 9 0.22
36 21 0.51
37 7 0.17
38 4 0.10
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (35 bp):
ATAAATATTTTATTTATAAAATTTAAATAAAATAT
Found at i:32623612 original size:16 final size:15
Alignment explanation
Indices: 32623587--32623620 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
32623577 TGTCCGGGTT
32623587 TAAAAATAATTATAA
1 TAAAAATAATTATAA
*
32623602 TAAAAATTAATTTTAA
1 TAAAAA-TAATTATAA
32623618 TAA
1 TAA
32623621 TATTAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAAAATAATTATAA
Found at i:32623782 original size:2 final size:2
Alignment explanation
Indices: 32623775--32623804 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32623765 GACAAAATGA
32623775 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32623805 GATTAATAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32626245 original size:21 final size:22
Alignment explanation
Indices: 32626210--32626255 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
32626200 AAATGGGTTT
32626210 AATAGGAATTAAATAG-AATAAG
1 AATAGGAATTAAATAGTAAT-AG
*
32626232 AATA-GAATTTAATAGTAATAG
1 AATAGGAATTAAATAGTAATAG
32626253 AAT
1 AAT
32626256 TTTCTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.15, T:0.28
Consensus pattern (22 bp):
AATAGGAATTAAATAGTAATAG
Found at i:32627337 original size:56 final size:56
Alignment explanation
Indices: 32627251--32627360 Score: 211
Period size: 56 Copynumber: 2.0 Consensus size: 56
32627241 TAGTGGAGAT
*
32627251 AGTCACATGTAATGACAGATCACAACCATATTATTAAAAGCTTGAGGTAAGAACAG
1 AGTCACATGTAATGACAAATCACAACCATATTATTAAAAGCTTGAGGTAAGAACAG
32627307 AGTCACATGTAATGACAAATCACAACCATATTATTAAAAGCTTGAGGTAAGAAC
1 AGTCACATGTAATGACAAATCACAACCATATTATTAAAAGCTTGAGGTAAGAAC
32627361 GGGTTTCGTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (56 bp):
AGTCACATGTAATGACAAATCACAACCATATTATTAAAAGCTTGAGGTAAGAACAG
Found at i:32628725 original size:24 final size:24
Alignment explanation
Indices: 32628697--32628759 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
32628687 AGAAATAATC
32628697 TTTCAGTTAAACT-TAATTTATTTG
1 TTTCAGTTAAACTCT-ATTTATTTG
* *
32628721 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTATTTATTTG
* *
32628745 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
32628760 TATTAGTCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 32 0.97
25 1 0.03
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTATTTATTTG
Found at i:32638028 original size:16 final size:18
Alignment explanation
Indices: 32637991--32638032 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
32637981 TAGCAATGTA
32637991 TTTCTT-TTCTTTTCTCT
1 TTTCTTCTTCTTTTCTCT
32638008 TTTCTTCTTC-TTTCT-T
1 TTTCTTCTTCTTTTCTCT
32638024 TTTCTTCTT
1 TTTCTTCTT
32638033 TTTGTGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.42
17 11 0.46
18 3 0.12
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTCTTCTTTTCTCT
Found at i:32638618 original size:17 final size:18
Alignment explanation
Indices: 32638597--32638638 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
32638587 TATAAGAATG
32638597 GAAATGCAACT-AC-AAT
1 GAAATGCAACTAACAAAT
32638613 GTAAATGC-ACTAACAAAT
1 G-AAATGCAACTAACAAAT
32638631 GAAATGCA
1 GAAATGCA
32638639 GTGACAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 4 0.18
17 14 0.64
18 4 0.18
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (18 bp):
GAAATGCAACTAACAAAT
Found at i:32651328 original size:21 final size:21
Alignment explanation
Indices: 32651268--32651336 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
32651258 AGAGTTTTTA
*
32651268 GTATCGGTAGAAGTGA-AACTT
1 GTATCGGTAGAAGT-ATCACTT
*
32651289 GTATCGGTAGAAGTGTCACTT
1 GTATCGGTAGAAGTATCACTT
*
32651310 GTATCGGTAGAACTATCACTT
1 GTATCGGTAGAAGTATCACTT
32651331 GTATCG
1 GTATCG
32651337 ATAAAAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (21 bp):
GTATCGGTAGAAGTATCACTT
Found at i:32656983 original size:2 final size:2
Alignment explanation
Indices: 32656976--32657018 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
32656966 TAATAAATTT
32656976 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32657018 T
1 T
32657019 TCATGTTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32663397 original size:28 final size:28
Alignment explanation
Indices: 32663322--32663397 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 28
32663312 TCAATTTTGA
32663322 TTAAAAATAATAAAATAGA-TATTAAATT
1 TTAAAAATAATAAAATA-ATTATTAAATT
* **
32663350 TTGAAAAATTATAATTTAATTATTAAATT
1 TT-AAAAATAATAAAATAATTATTAAATT
*
32663379 TTAAAAATAATAAACTAAT
1 TTAAAAATAATAAAATAAT
32663398 CATTGTTATC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 17 0.43
29 23 0.57
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (28 bp):
TTAAAAATAATAAAATAATTATTAAATT
Found at i:32666762 original size:22 final size:23
Alignment explanation
Indices: 32666737--32666795 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
32666727 CATTTCTCAC
32666737 TCTTCTCTTC-TCTTCTCT-ATTT
1 TCTTCTCTTCAT-TTCTCTGATTT
*
32666759 TCTTCGCTTCATTTCTCTGATTT
1 TCTTCTCTTCATTTCTCTGATTT
*
32666782 TCTCTCTGTTCATT
1 TCT-TCTCTTCATT
32666796 CTTTCATTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 15 0.48
23 8 0.26
24 8 0.26
ACGTcount: A:0.07, C:0.29, G:0.05, T:0.59
Consensus pattern (23 bp):
TCTTCTCTTCATTTCTCTGATTT
Found at i:32675169 original size:59 final size:59
Alignment explanation
Indices: 32675097--32675211 Score: 203
Period size: 59 Copynumber: 1.9 Consensus size: 59
32675087 GAAATTAACC
*
32675097 AGTCAAAATCCTAAGTTATAACCTAATTTGTATGCTAAAATACAAATTTACATTAACAT
1 AGTCAAAATCCTAAGTTATAACCTAATTTGCATGCTAAAATACAAATTTACATTAACAT
* *
32675156 AGTCAAAATCCTAAGTTATATCCTAATTTGCATGCTAAAATACATATTTACATTAA
1 AGTCAAAATCCTAAGTTATAACCTAATTTGCATGCTAAAATACAAATTTACATTAA
32675212 ACTCAAGGCG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.35
Consensus pattern (59 bp):
AGTCAAAATCCTAAGTTATAACCTAATTTGCATGCTAAAATACAAATTTACATTAACAT
Found at i:32680251 original size:28 final size:28
Alignment explanation
Indices: 32680200--32680254 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
32680190 TATCCACTTC
* *
32680200 TCCTAAATTGGTACTTATCATTTTTTTG
1 TCCTAAATTGGTACTAAACATTTTTTTG
32680228 TCCTAAATTGGTACCTAAAC-TTTTTTT
1 TCCTAAATTGGTA-CTAAACATTTTTTT
32680255 CATCAACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (28 bp):
TCCTAAATTGGTACTAAACATTTTTTTG
Found at i:32680308 original size:3 final size:3
Alignment explanation
Indices: 32680297--32680337 Score: 73
Period size: 3 Copynumber: 13.3 Consensus size: 3
32680287 TTTTTTTTTC
32680297 CTT CTTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
32680338 CTCCCTCAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:32685372 original size:17 final size:18
Alignment explanation
Indices: 32685336--32685375 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
32685326 AATTCAAAAA
*
32685336 TAAAAATCAAACAAACTT
1 TAAAAATCAAAAAAACTT
*
32685354 TAAAAAT-AAAAAAATTT
1 TAAAAATCAAAAAAACTT
32685371 TAAAA
1 TAAAA
32685376 GTTCAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAAAATCAAAAAAACTT
Found at i:32685690 original size:20 final size:20
Alignment explanation
Indices: 32685667--32685711 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
32685657 CCCATTAAAT
*
32685667 TTTTATCTATAAGATTATTA
1 TTTTATCTATAAAATTATTA
* *
32685687 TTTTATTTATAAAATTGTTA
1 TTTTATCTATAAAATTATTA
32685707 TTTTA
1 TTTTA
32685712 ATAAATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTTATCTATAAAATTATTA
Found at i:32689449 original size:22 final size:20
Alignment explanation
Indices: 32689428--32689466 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32689418 ATTAACATTA
32689428 AATAATATTTATAATTTTATT
1 AATAA-ATTTATAATTTTATT
* *
32689449 ATTAAATTTTTAATTTTA
1 AATAAATTTATAATTTTA
32689467 ATTATTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
AATAAATTTATAATTTTATT
Found at i:32689462 original size:20 final size:21
Alignment explanation
Indices: 32689434--32689488 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
32689424 ATTAAATAAT
32689434 ATTTATAATTTT-ATTATTAA
1 ATTTATAATTTTAATTATTAA
* *
32689454 ATTTTTAATTTTAATTATT-T
1 ATTTATAATTTTAATTATTAA
*
32689474 ATTTAT-TTTTTAATT
1 ATTTATAATTTTAATT
32689489 CTTTTTAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 8 0.27
20 16 0.53
21 6 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTATAATTTTAATTATTAA
Found at i:32689546 original size:22 final size:21
Alignment explanation
Indices: 32689515--32689555 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
32689505 TCCATATTAA
32689515 ATTTTATAATTCAATTATGTG
1 ATTTTATAATTCAATTATGTG
32689536 ATTTATATAATTCAATTATG
1 ATTT-TATAATTCAATTATG
32689556 AATTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (21 bp):
ATTTTATAATTCAATTATGTG
Found at i:32691621 original size:18 final size:18
Alignment explanation
Indices: 32691598--32691654 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 18
32691588 CTTTACACCG
32691598 CATTGTGGATGAACCACT
1 CATTGTGGATGAACCACT
*
32691616 CATTGTTGTGGTTGAACCACT
1 CA---TTGTGGATGAACCACT
* *
32691637 CATTTTGGATAAACCACT
1 CATTGTGGATGAACCACT
32691655 AGTAATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 15 0.47
21 17 0.53
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (18 bp):
CATTGTGGATGAACCACT
Found at i:32691626 original size:21 final size:21
Alignment explanation
Indices: 32691600--32691640 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
32691590 TTACACCGCA
32691600 TTGTGGATGAACCACTCATTG
1 TTGTGGATGAACCACTCATTG
*
32691621 TTGTGGTTGAACCACTCATT
1 TTGTGGATGAACCACTCATT
32691641 TTGGATAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (21 bp):
TTGTGGATGAACCACTCATTG
Found at i:32691864 original size:46 final size:45
Alignment explanation
Indices: 32691775--32691890 Score: 135
Period size: 46 Copynumber: 2.6 Consensus size: 45
32691765 ATGGTGCGGT
** * *
32691775 TAAACCACTCATTGTTGTAGATAAAAGTTGCTAATACATTATGGA
1 TAAACCACTCAACGTTGTAGATAAAAGCTGCTAATACAGTATGGA
* *
32691820 TAAACCACTCAAACGTTGCAGATAAAAGCTGCTCAA-ACGGTATGGA
1 TAAACCACTC-AACGTTGTAGATAAAAGCTGCT-AATACAGTATGGA
* *
32691866 TAAACCGCTCAACGGTGTAGATAAA
1 TAAACCACTCAACGTTGTAGATAAA
32691891 CTGTTCAACT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
45 23 0.38
46 35 0.58
47 2 0.03
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (45 bp):
TAAACCACTCAACGTTGTAGATAAAAGCTGCTAATACAGTATGGA
Found at i:32691881 original size:21 final size:22
Alignment explanation
Indices: 32691818--32691891 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 22
32691808 ATACATTATG
* * **
32691818 GATAAACCACTCAAACGTTGCA
1 GATAAACCGCTCAAACGGTATA
* *
32691840 GATAAAAGCTGCTCAAACGGTATG
1 GAT-AAA-CCGCTCAAACGGTATA
*
32691864 GATAAACCGCTC-AACGGTGTA
1 GATAAACCGCTCAAACGGTATA
32691885 GATAAAC
1 GATAAAC
32691892 TGTTCAACTT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
21 14 0.34
22 8 0.20
23 6 0.15
24 13 0.32
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (22 bp):
GATAAACCGCTCAAACGGTATA
Found at i:32724123 original size:85 final size:85
Alignment explanation
Indices: 32723980--32724158 Score: 322
Period size: 85 Copynumber: 2.1 Consensus size: 85
32723970 ACTGCAATTT
* * *
32723980 CACTCTCGTGCTTAAAGCAGTTAGATCCAAGAATAAATGGATAAGCAGTGTAAAGTAAAAATTAA
1 CACTCTCGTGCTTAAAGCAGTTAGATCCAAGAATAAACGGATAAGCAATGTAAAGTAAAAATCAA
32724045 AATGATCTAATATTAAAAGA
66 AATGATCTAATATTAAAAGA
*
32724065 CACTCTCGTGCTTAAAGCAGTTAGATCTAAGAATAAACGGATAAGCAATGTAAAGTAAAAATCAA
1 CACTCTCGTGCTTAAAGCAGTTAGATCCAAGAATAAACGGATAAGCAATGTAAAGTAAAAATCAA
32724130 AATGATCTAATATTAAAAGA
66 AATGATCTAATATTAAAAGA
32724150 CACTCTCGT
1 CACTCTCGT
32724159 ATTCATTTAA
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 90 1.00
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.26
Consensus pattern (85 bp):
CACTCTCGTGCTTAAAGCAGTTAGATCCAAGAATAAACGGATAAGCAATGTAAAGTAAAAATCAA
AATGATCTAATATTAAAAGA
Found at i:32727365 original size:21 final size:21
Alignment explanation
Indices: 32727313--32727368 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 21
32727303 TATACTAAGA
* *
32727313 TAAAATTTAATTAAGCTTAAT
1 TAAACTTTAATCAAGCTTAAT
*
32727334 TAAATACTTTAATCATGCTTAAT
1 T-AA-ACTTTAATCAAGCTTAAT
32727357 TAAACTTTAATC
1 TAAACTTTAATC
32727369 CTTAATTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 10 0.33
22 4 0.13
23 16 0.53
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (21 bp):
TAAACTTTAATCAAGCTTAAT
Found at i:32727374 original size:18 final size:20
Alignment explanation
Indices: 32727328--32727378 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 20
32727318 TTTAATTAAG
32727328 CTTAATTAAATACTTTAATCA
1 CTTAATT-AATACTTTAATCA
32727349 TGCTTAATTAA-ACTTTAATC-
1 --CTTAATTAATACTTTAATCA
32727369 CTTAATTAAT
1 CTTAATTAAT
32727379 TAAATCTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 9 0.33
21 9 0.33
22 2 0.07
23 7 0.26
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (20 bp):
CTTAATTAATACTTTAATCA
Found at i:32728975 original size:29 final size:30
Alignment explanation
Indices: 32728922--32728983 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
32728912 TGGAACATCA
32728922 ACATGAGATAACACAACACAAAATAAAATC
1 ACATGAGATAACACAACACAAAATAAAATC
* * *
32728952 ACAT-AGATAACACAATACAGAATAATATC
1 ACATGAGATAACACAACACAAAATAAAATC
32728981 ACA
1 ACA
32728984 CAAGATGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.58, C:0.19, G:0.06, T:0.16
Consensus pattern (30 bp):
ACATGAGATAACACAACACAAAATAAAATC
Found at i:32730838 original size:21 final size:21
Alignment explanation
Indices: 32730796--32730834 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32730786 CTCGAAAAAC
32730796 AATTACAAAAGTTTCAAAATA
1 AATTACAAAAGTTTCAAAATA
*
32730817 AATTTCAAAA-TTTCAAAA
1 AATTACAAAAGTTTCAAAA
32730835 ATAATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.31
Consensus pattern (21 bp):
AATTACAAAAGTTTCAAAATA
Found at i:32732834 original size:41 final size:41
Alignment explanation
Indices: 32732655--32732840 Score: 157
Period size: 41 Copynumber: 4.6 Consensus size: 41
32732645 AAAATGCCAC
* *
32732655 AAAGGT-AGAGCAATAGCGGCACTTATGGGAAAGCGCCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTAAGGGAAAGCGCCGCT
* * **** *
32732695 AAA-GTTAGAGCAATAGCGACGCTT-TCCCATAAGCGCCACT
1 AAAGGTCAGAGCAATAGCGGCGCTTAAGGGA-AAGCGCCGCT
* * ** *
32732735 AAATGTCAGAGCAATAGAGTTGC-TAATGGGCAAGCGCCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTAA-GGGAAAGCGCCGCT
* *
32732776 AAAGGTCA-AGGAAATAGCGGCGCTTAAGGGAAAACGCCGCT
1 AAAGGTCAGA-GCAATAGCGGCGCTTAAGGGAAAGCGCCGCT
*
32732817 AAAGGTCAGAGCAATAGCGCCGCT
1 AAAGGTCAGAGCAATAGCGGCGCT
32732841 AAAGATCAGA
Statistics
Matches: 113, Mismatches: 25, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
39 4 0.04
40 33 0.29
41 72 0.64
42 4 0.04
ACGTcount: A:0.33, C:0.22, G:0.28, T:0.16
Consensus pattern (41 bp):
AAAGGTCAGAGCAATAGCGGCGCTTAAGGGAAAGCGCCGCT
Found at i:32732842 original size:24 final size:24
Alignment explanation
Indices: 32732810--32732859 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
32732800 TAAGGGAAAA
* * *
32732810 CGCCGCTAAAGGTCAGAGCAATAG
1 CGCCGCTAAAGATCAGAACAACAG
32732834 CGCCGCTAAAGATCAGAACAACAG
1 CGCCGCTAAAGATCAGAACAACAG
32732858 CG
1 CG
32732860 GGGCTTATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.36, C:0.28, G:0.26, T:0.10
Consensus pattern (24 bp):
CGCCGCTAAAGATCAGAACAACAG
Found at i:32732879 original size:65 final size:65
Alignment explanation
Indices: 32732767--32732899 Score: 169
Period size: 65 Copynumber: 2.0 Consensus size: 65
32732757 CTAATGGGCA
* * * * *
32732767 AGCGCCGCTAAAGGTCAAGGAAATAGCGGCGCTTAAGGGAAAACGCCGCTAAAGGTCAGAGCAAT
1 AGCGCCGCTAAAGATCAAGAAAACAGCGGCGCTTAAGGGAAAACGCCGCTAAAGATCAGAACAAT
* * * *
32732832 AGCGCCGCTAAAGATC-AGAACAACAGCGGGGCTTATGGTAAAGCGCCGCTAAAGATCAGAACAA
1 AGCGCCGCTAAAGATCAAGAA-AACAGCGGCGCTTAAGGGAAAACGCCGCTAAAGATCAGAACAA
32732896 T
65 T
32732897 AGC
1 AGC
32732900 AGCGCTTATG
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
64 3 0.05
65 55 0.95
ACGTcount: A:0.36, C:0.23, G:0.29, T:0.13
Consensus pattern (65 bp):
AGCGCCGCTAAAGATCAAGAAAACAGCGGCGCTTAAGGGAAAACGCCGCTAAAGATCAGAACAAT
Found at i:32732889 original size:41 final size:41
Alignment explanation
Indices: 32732832--32733096 Score: 316
Period size: 41 Copynumber: 6.3 Consensus size: 41
32732822 TCAGAGCAAT
*
32732832 AGCGCCGCTAAAGATCAGAACAACAGCGGGGCTTATGGTAA
1 AGCGCCGCTAAAGATCAGAACAACAGCGGGGCTTATGGGAA
32732873 AGCGCCGCTAAAGATCAGAACAATAGCAGCGCTTATGGGCTTATGGGAA
1 AGCGCCGCTAAAGATCAGAAC-A-A-CAGCG-----GGGCTTATGGGAA
* *
32732922 AGCGCCGTTAAAGATCAGAACAACAGCGGGGCTTATGGTAA
1 AGCGCCGCTAAAGATCAGAACAACAGCGGGGCTTATGGGAA
** *
32732963 AGCGCCGCTAAAGATCAGAGTAACAGCGGCGCTTATGGGAA
1 AGCGCCGCTAAAGATCAGAACAACAGCGGGGCTTATGGGAA
* * *
32733004 AGCACCGCTAAAGATCAGAACAATAG-GGGTGCTTATGGAAA
1 AGCGCCGCTAAAGATCAGAACAACAGCGGG-GCTTATGGGAA
* * ***
32733045 AGCGCCGCTAAAGATCAGAACAATAACAACGCTTATGGGAA
1 AGCGCCGCTAAAGATCAGAACAACAGCGGGGCTTATGGGAA
32733086 AGCGCCGCTAA
1 AGCGCCGCTAA
32733097 TTTATTTAAA
Statistics
Matches: 194, Mismatches: 20, Indels: 20
0.83 0.09 0.09
Matches are distributed among these distances:
40 2 0.01
41 146 0.75
42 1 0.01
43 1 0.01
44 5 0.03
46 5 0.03
47 1 0.01
48 1 0.01
49 32 0.16
ACGTcount: A:0.35, C:0.21, G:0.28, T:0.16
Consensus pattern (41 bp):
AGCGCCGCTAAAGATCAGAACAACAGCGGGGCTTATGGGAA
Found at i:32736989 original size:42 final size:43
Alignment explanation
Indices: 32736866--32737008 Score: 193
Period size: 43 Copynumber: 3.3 Consensus size: 43
32736856 ATCTGTTATT
*
32736866 TTTAGTGGCGTTTGT-GATAAAAGCGTCGCTAAAGACCATGTTC
1 TTTAGTGGCGTTTGTGGA-AAAAGCGCCGCTAAAGACCATGTTC
* *
32736909 TTTAGTGGCGCTTGTGGGAAAAA-CGCCGTTAAAGACCATGTTC
1 TTTAGTGGCGTTTGT-GGAAAAAGCGCCGCTAAAGACCATGTTC
* * *
32736952 TTTAGCGGCGTTTGTGGAAAAAGTGCCGCTAAA-ACCATATTC
1 TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGACCATGTTC
32736994 TTTAGTGGCGTTTGT
1 TTTAGTGGCGTTTGT
32737009 CCTTATAAAC
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
42 29 0.33
43 53 0.60
44 4 0.05
45 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGACCATGTTC
Found at i:32738810 original size:45 final size:45
Alignment explanation
Indices: 32738761--32738902 Score: 133
Period size: 45 Copynumber: 3.2 Consensus size: 45
32738751 ACTAAGAAAC
*
32738761 ATGATATGAATGATAAGATGATTATTATTTGATTGAGCATGTTAT
1 ATGATATGAATGATAAGATGATTATTATTTGATTGAACATGTTAT
** * * * ** * * *
32738806 ATGATATGAACAACAAGATTATTAGTATCCGAAT-ATCTATGCTAT
1 ATGATATGAATGATAAGATGATTATTATTTGATTGAAC-ATGTTAT
* * * *
32738851 AAGTTATGAATGATAAGATGATTATTATTTGGTTGAACCTGTTAT
1 ATGATATGAATGATAAGATGATTATTATTTGATTGAACATGTTAT
32738896 ATGATAT
1 ATGATAT
32738903 AAACGATACG
Statistics
Matches: 69, Mismatches: 26, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
44 2 0.03
45 65 0.94
46 2 0.03
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (45 bp):
ATGATATGAATGATAAGATGATTATTATTTGATTGAACATGTTAT
Found at i:32744937 original size:5 final size:6
Alignment explanation
Indices: 32744920--32744949 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
32744910 TACTAATTGT
32744920 AGAAAA AGAAAA AGAAAA AG-AAA AGAAAA A
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA A
32744950 TTCGGCCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:32744943 original size:11 final size:12
Alignment explanation
Indices: 32744920--32744949 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
32744910 TACTAATTGT
32744920 AGAAAAAGAAAA
1 AGAAAAAGAAAA
32744932 AGAAAAAG-AAA
1 AGAAAAAGAAAA
32744943 AGAAAAA
1 AGAAAAA
32744950 TTCGGCCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAAAA
Found at i:32746545 original size:29 final size:28
Alignment explanation
Indices: 32746491--32746546 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
32746481 CTGGTGTGGT
**
32746491 CTTTTCTAAAAAAAATACTTTTAATGTG
1 CTTTTCTAAAAAAAATACTTAAAATGTG
* *
32746519 CTTTTCTTAAGAAAATTACTTAAAATGT
1 CTTTTC-TAAAAAAAATACTTAAAATGT
32746547 AGGTTGAGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (28 bp):
CTTTTCTAAAAAAAATACTTAAAATGTG
Found at i:32747088 original size:10 final size:10
Alignment explanation
Indices: 32747073--32747102 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
32747063 AATTTAAAAA
32747073 AAAATATTTT
1 AAAATATTTT
32747083 AAAATATTTT
1 AAAATATTTT
32747093 AAAAT-TTTT
1 AAAATATTTT
32747102 A
1 A
32747103 TTTAGAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.25
10 15 0.75
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
AAAATATTTT
Found at i:32747178 original size:9 final size:9
Alignment explanation
Indices: 32747164--32747194 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
32747154 TACCAACTAT
32747164 TTATTCGAA
1 TTATTCGAA
*
32747173 TTATTCGAG
1 TTATTCGAA
32747182 TTATTCGAA
1 TTATTCGAA
32747191 TTAT
1 TTAT
32747195 AAAATTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATTCGAA
Found at i:32752378 original size:18 final size:17
Alignment explanation
Indices: 32752331--32752385 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
32752321 CAACCCAATC
*
32752331 TATTTTTAAGT-TTATAA
1 TATTTTT-AGTATTATAT
32752348 TA-TTTTA-TATTATAT
1 TATTTTTAGTATTATAT
*
32752363 TATTTTTATGTATTATGT
1 TATTTTTA-GTATTATAT
32752381 TATTT
1 TATTT
32752386 AAAACACATT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
14 1 0.03
15 8 0.25
16 9 0.28
17 2 0.06
18 12 0.38
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.65
Consensus pattern (17 bp):
TATTTTTAGTATTATAT
Found at i:32757814 original size:216 final size:216
Alignment explanation
Indices: 32757440--32757873 Score: 814
Period size: 216 Copynumber: 2.0 Consensus size: 216
32757430 TTCTATTGAA
*
32757440 TCCGCCATTGTCACGTTGCTTTAAGTTTCACTTGCCTCTATTGATGTATAGGGCCTCTTCTTCAT
1 TCCGCCATTGTCACGTTGCTTTAAGTTTCACTTGCCTCTATTGACGTATAGGGCCTCTTCTTCAT
32757505 TTTTCAACGACTCCTCTCATTTGTTTAGCTAATGATTCTTGACTAGCTAACAAATTTTCGAACTC
66 TTTTCAACGACTCCTCTCATTTGTTTAGCTAATGATTCTTGACTAGCTAACAAATTTTCGAACTC
*
32757570 TACAAGCGATAGATAAGTTTCACATCCTTGTATAGCAGTAACTAAGCTCCTGAACTCTGGTTTTA
131 TACAAGCGATAGATAAGTTTCACATCCTTGTATAACAGTAACTAAGCTCCTGAACTCTGGTTTTA
32757635 GACCATGGACAATGATTCGTT
196 GACCATGGACAATGATTCGTT
*
32757656 TCCGCCATTGTCACGTTGCTTTAAGTTTCACTTGCCTCTATTGGCGTATAGGGCCTCTTCTTCAT
1 TCCGCCATTGTCACGTTGCTTTAAGTTTCACTTGCCTCTATTGACGTATAGGGCCTCTTCTTCAT
*
32757721 TTTTCAACGACTCCTCTCATTTGTTTAGTTAATGATTCTTGACTAGCTAACAAATTTTCGAACTC
66 TTTTCAACGACTCCTCTCATTTGTTTAGCTAATGATTCTTGACTAGCTAACAAATTTTCGAACTC
* *
32757786 TACAAGCGATGGATAAGTTTGACATCCTTGTATAACAGTAACTAAGCTCCTGAACTCTGGTTTTA
131 TACAAGCGATAGATAAGTTTCACATCCTTGTATAACAGTAACTAAGCTCCTGAACTCTGGTTTTA
32757851 GACCATGGACAATGATTCGTT
196 GACCATGGACAATGATTCGTT
32757872 TC
1 TC
32757874 ATCCTAGTAT
Statistics
Matches: 212, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
216 212 1.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (216 bp):
TCCGCCATTGTCACGTTGCTTTAAGTTTCACTTGCCTCTATTGACGTATAGGGCCTCTTCTTCAT
TTTTCAACGACTCCTCTCATTTGTTTAGCTAATGATTCTTGACTAGCTAACAAATTTTCGAACTC
TACAAGCGATAGATAAGTTTCACATCCTTGTATAACAGTAACTAAGCTCCTGAACTCTGGTTTTA
GACCATGGACAATGATTCGTT
Found at i:32758385 original size:36 final size:36
Alignment explanation
Indices: 32758342--32758411 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
32758332 AGTGAAAGTA
*
32758342 TGTGAAAAATACACCAGGTAAACTCCCAAGAAAAAG
1 TGTGAAAAATACACCAAGTAAACTCCCAAGAAAAAG
32758378 TGTGAAAAATACACCAAGTAAACTCCCAAGAAAA
1 TGTGAAAAATACACCAAGTAAACTCCCAAGAAAA
32758412 TTGGTGGATT
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:0.51, C:0.20, G:0.14, T:0.14
Consensus pattern (36 bp):
TGTGAAAAATACACCAAGTAAACTCCCAAGAAAAAG
Found at i:32760676 original size:18 final size:18
Alignment explanation
Indices: 32760653--32760694 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
32760643 TGATATCGAA
32760653 ATTGATGATAGTGACGAT
1 ATTGATGATAGTGACGAT
** *
32760671 ATTGATTCTAGTGACGCT
1 ATTGATGATAGTGACGAT
32760689 ATTGAT
1 ATTGAT
32760695 CGTGACCTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (18 bp):
ATTGATGATAGTGACGAT
Found at i:32763939 original size:24 final size:24
Alignment explanation
Indices: 32763912--32763978 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
32763902 AGTTTGACTC
*
32763912 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAATAGAGTTTAATTG
* *
32763936 AAACAAACAAATAAAGTTTAATTG
1 AAACAAATAAATAGAGTTTAATTG
* *
32763960 AAATAATTAAATAGAGTTT
1 AAACAAATAAATAGAGTTT
32763979 CTGAAAGATT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.55, C:0.06, G:0.10, T:0.28
Consensus pattern (24 bp):
AAACAAATAAATAGAGTTTAATTG
Found at i:32767963 original size:17 final size:17
Alignment explanation
Indices: 32767941--32767973 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
32767931 ATTTTATATT
32767941 TAATTTTCATATTTTCC
1 TAATTTTCATATTTTCC
32767958 TAATTTTCATATTTTC
1 TAATTTTCATATTTTC
32767974 AACTCATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATTTTCATATTTTCC
Found at i:32773313 original size:409 final size:409
Alignment explanation
Indices: 32772553--32773370 Score: 1586
Period size: 409 Copynumber: 2.0 Consensus size: 409
32772543 TAGCAATTGG
32772553 GTAAGTCCCAAAAAGAGTGATTTCACAGTCGTGACCAACGATAGGAACGAGTTAATCCCTACTCA
1 GTAAGTCCCAAAAAGAGTGATTTCACAGTCGTGACCAACGATAGGAACGAGTTAATCCCTACTCA
*
32772618 CATCACAACTGAGTGGTGAGTATGCATGGATTATCGACGACTGAATGCGGCCACAAAGAAAGATC
66 CATCACAACTGAGTGGTGAGTATGCATGGATCATCGACGACTGAATGCGGCCACAAAGAAAGATC
32772683 ATTTTCCACTACCTTTCATCAATCAGATGCTAGATAGGCTAGCTAGTAAAGCCTATATTGCTTCC
131 ATTTTCCACTACCTTTCATCAATCAGATGCTAGATAGGCTAGCTAGTAAAGCCTATATTGCTTCC
32772748 TGGATGGCTACTTTGGATACACCAAATAGCCATTGCGCTAGAGGATCAAGCAAAGACAACGTTCA
196 TGGATGGCTACTTTGGATACACCAAATAGCCATTGCGCTAGAGGATCAAGCAAAGACAACGTTCA
32772813 CATGTCCTTTCAGAACATTTTCTTTCTGACGAATGTCGTTTGGGTTATGTAATGCACAAATAACA
261 CATGTCCTTTCAGAACATTTTCTTTCTGACGAATGTCGTTTGGGTTATGTAATGCACAAATAACA
32772878 TTCCAGAGGTGCATGATGGCATTCTTCTCAAATATGATTGAGGACTCACTCGAGGTATTCATGGA
326 TTCCAGAGGTGCATGATGGCATTCTTCTCAAATATGATTGAGGACTCACTCGAGGTATTCATGGA
32772943 TGATTTTTCGGTCTATGGAC
391 TGA-TTTTCGGTCTATGGAC
32772963 GTAAGTCCCAAAAAGAGTGATTTCACAGTCGTGACCAACGATAGGAACGAGTTAATCCCTACTCA
1 GTAAGTCCCAAAAAGAGTGATTTCACAGTCGTGACCAACGATAGGAACGAGTTAATCCCTACTCA
32773028 CATCACAACTGAGTGGTGAGTATGCATGGATCATCGACGACTGAATGCGG-CACAAAGAAAGATC
66 CATCACAACTGAGTGGTGAGTATGCATGGATCATCGACGACTGAATGCGGCCACAAAGAAAGATC
32773092 ATTTTCCACTACC-TTCATCAATCAGATGCTAGATAGGCTAGCTAGTAAAGCCTATATTGCTTCC
131 ATTTTCCACTACCTTTCATCAATCAGATGCTAGATAGGCTAGCTAGTAAAGCCTATATTGCTTCC
32773156 TGGATGGCTACTTTGGATACAACCAAATAGCCATTGCGCTAGAGGATCAAGCAAAGACAACGTTC
196 TGGATGGCTACTTTGGATAC-ACCAAATAGCCATTGCGCTAGAGGATCAAGCAAAGACAACGTTC
*
32773221 ACATGTCCTTTCGGAACATTTTCTTTCTGACGAATGTCGTTTGGGTTATGTAATGCACAAATAAC
260 ACATGTCCTTTCAGAACATTTTCTTTCTGACGAATGTCGTTTGGGTTATGTAATGCACAAATAAC
32773286 ATTCCAGAGGTGCATGATGGCATTCTTCTCAAATATGATTGAGGACTCACTCGAGGTATTCATGG
325 ATTCCAGAGGTGCATGATGGCATTCTTCTCAAATATGATTGAGGACTCACTCGAGGTATTCATGG
32773351 ATGATTTTCGGTCTATGGAC
390 ATGATTTTCGGTCTATGGAC
32773371 AGAGTTTTGA
Statistics
Matches: 405, Mismatches: 2, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
408 87 0.21
409 204 0.50
410 114 0.28
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (409 bp):
GTAAGTCCCAAAAAGAGTGATTTCACAGTCGTGACCAACGATAGGAACGAGTTAATCCCTACTCA
CATCACAACTGAGTGGTGAGTATGCATGGATCATCGACGACTGAATGCGGCCACAAAGAAAGATC
ATTTTCCACTACCTTTCATCAATCAGATGCTAGATAGGCTAGCTAGTAAAGCCTATATTGCTTCC
TGGATGGCTACTTTGGATACACCAAATAGCCATTGCGCTAGAGGATCAAGCAAAGACAACGTTCA
CATGTCCTTTCAGAACATTTTCTTTCTGACGAATGTCGTTTGGGTTATGTAATGCACAAATAACA
TTCCAGAGGTGCATGATGGCATTCTTCTCAAATATGATTGAGGACTCACTCGAGGTATTCATGGA
TGATTTTCGGTCTATGGAC
Found at i:32786373 original size:463 final size:462
Alignment explanation
Indices: 32785482--32786404 Score: 1675
Period size: 463 Copynumber: 2.0 Consensus size: 462
32785472 AGGCTAAATT
* *
32785482 AACAATTTACAAGGTTGGGCGTAAATTAGAAAATGTCCTCTCTTTGCATAATTTTAATAGTTCAA
1 AACAATTTACAAGGTTGGGCGTAAATTAGAAAATGTCCACTCTTTGCATAATTTTAATAATTCAA
*
32785547 AAAATAATTGTGCTAAAGTGGATGATGATTCTGCAAACTCTCCCAGTAATGATCTTTTAATGAAG
66 AAAATAATTGTGCTAAAGTGGATGATGATTCTGCAAACTCTCCCAATAATGATCTTTTAATGAAG
*
32785612 AAGGTTGATATTAATAATGGGTTGAAAATCTCATTTAGTCCCTATTTGGCTACGACATCGCATTT
131 AAGGTTGATATTAATAATGGATTGAAAATCTCATTTAGTCCCTATTTGGCTACGACATCGCATTT
*
32785677 TAATCCTACCTTTAGGGATCGATTGAAACCATAGTATCAATTAGTGCTGGAATTTTGGATCTTGG
196 TAATCCTACCTTTAGGGATCGATTGAAACCACAGTATCAATTAGTGCTGGAATTTTGGATCTTGG
32785742 AAAGCATTCTACTGTTACCTTCAAATAAAATTCTTACCCAATTATTAATAAACAATTAGATGGAG
261 AAAGCATTCTACTGTTACCTTCAAATAAAATTCTTACCCAATTATTAATAAACAATTAGATGGAG
* *
32785807 TTAGGCTTGGTGATTCTAGTAAAAGCATTCTAGTTCCTAAAGGGCAGAATCTTGGGGCAAAAGGG
326 TTAGACTTGGTGATTCTAGTAAAAGCATTCTAGTTCCTAAAGGGCAGAATCTTGGGGCAAAAGAG
*
32785872 GGATATGTCTGAAGAGGAAGAAACCTTAATAAAACCATTAAGGATCGAGGTGGTCAATTCAAACT
391 GGATATGTCCGAAGAGGAAGAAACCTTAATAAAACCATTAAGGATCGAGGTGGTCAATTCAAACT
32785937 AAAGGAA
456 AAAGGAA
*
32785944 AACAATTTACAAGGTTGGGCTTAAATTAGAAAATGTCCACTCTTTGCATAATTTTAATAATTCAA
1 AACAATTTACAAGGTTGGGCGTAAATTAGAAAATGTCCACTCTTTGCATAATTTTAATAATTCAA
* *
32786009 AAAATAATTGTGCTACAGTGGATGATGATTCTGCAAATTCTCCCAATAATGATCTTTTAATGAAG
66 AAAATAATTGTGCTAAAGTGGATGATGATTCTGCAAACTCTCCCAATAATGATCTTTTAATGAAG
*
32786074 AAGGTTGATATTAATAATGGATTGAAAATCTCATTTAGTCCCTATTTGGCTACGACGTCGCATTT
131 AAGGTTGATATTAATAATGGATTGAAAATCTCATTTAGTCCCTATTTGGCTACGACATCGCATTT
* *
32786139 TAATCCTACCTTTAAGGGATCGATTGAAACCACAGTTTCACTTAGTGCTGGAATTTTGGATCTTG
196 TAATCCTACCTTT-AGGGATCGATTGAAACCACAGTATCAATTAGTGCTGGAATTTTGGATCTTG
* *
32786204 GAAAGCATTCTACTGTTACCTTCAAATAAAATTCTTACCTAATTATTAATAAGCAATTAGATGGA
260 GAAAGCATTCTACTGTTACCTTCAAATAAAATTCTTACCCAATTATTAATAAACAATTAGATGGA
*
32786269 GTTAGACTTGGTGATTCTAGTAAAAGCATTCTAGTTCCTAAAGGGCAGAATCTTGGGGTAAAAGA
325 GTTAGACTTGGTGATTCTAGTAAAAGCATTCTAGTTCCTAAAGGGCAGAATCTTGGGGCAAAAGA
*
32786334 GGGATATGTCCGAAGAGGAAGAAACCTTAATAAAACCATTAAGGATCGAGGTGGTCAGTTCAAAC
390 GGGATATGTCCGAAGAGGAAGAAACCTTAATAAAACCATTAAGGATCGAGGTGGTCAATTCAAAC
32786399 TAAAGG
455 TAAAGG
32786405 GAAATAATCG
Statistics
Matches: 442, Mismatches: 18, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
462 200 0.45
463 242 0.55
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.32
Consensus pattern (462 bp):
AACAATTTACAAGGTTGGGCGTAAATTAGAAAATGTCCACTCTTTGCATAATTTTAATAATTCAA
AAAATAATTGTGCTAAAGTGGATGATGATTCTGCAAACTCTCCCAATAATGATCTTTTAATGAAG
AAGGTTGATATTAATAATGGATTGAAAATCTCATTTAGTCCCTATTTGGCTACGACATCGCATTT
TAATCCTACCTTTAGGGATCGATTGAAACCACAGTATCAATTAGTGCTGGAATTTTGGATCTTGG
AAAGCATTCTACTGTTACCTTCAAATAAAATTCTTACCCAATTATTAATAAACAATTAGATGGAG
TTAGACTTGGTGATTCTAGTAAAAGCATTCTAGTTCCTAAAGGGCAGAATCTTGGGGCAAAAGAG
GGATATGTCCGAAGAGGAAGAAACCTTAATAAAACCATTAAGGATCGAGGTGGTCAATTCAAACT
AAAGGAA
Found at i:32787309 original size:22 final size:22
Alignment explanation
Indices: 32787278--32787329 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
32787268 CAGAATAATA
32787278 TCACACAAGGTGTGGAACACCG
1 TCACACAAGGTGTGGAACACCG
* *
32787300 TCACAGAAGGTGTGGCACACCG
1 TCACACAAGGTGTGGAACACCG
32787322 TCACACAA
1 TCACACAA
32787330 TAAATATGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.33, C:0.29, G:0.25, T:0.13
Consensus pattern (22 bp):
TCACACAAGGTGTGGAACACCG
Found at i:32787784 original size:26 final size:26
Alignment explanation
Indices: 32787741--32787790 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 26
32787731 AATTAGGACG
32787741 TCGAAAAATGTCAAGTCAA-GATTAT
1 TCGAAAAATGTCAAGTCAACGATTAT
32787766 TCGAAAAA-GTCAACGGTCAACGATT
1 TCGAAAAATGTCAA--GTCAACGATT
32787791 CAGGTTCGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 5 0.23
25 8 0.36
26 5 0.23
27 4 0.18
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (26 bp):
TCGAAAAATGTCAAGTCAACGATTAT
Found at i:32787803 original size:26 final size:25
Alignment explanation
Indices: 32787774--32787829 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
32787764 ATTCGAAAAA
32787774 GTCAAC-GGTCAACGATTCAGGTTCGG
1 GTCAACGGGTC-A-GATTCAGGTTCGG
**
32787800 GTCAACGGGTCAGATTTTGGTTCGG
1 GTCAACGGGTCAGATTCAGGTTCGG
32787825 GTCAA
1 GTCAA
32787830 TGGTTAATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 16 0.59
26 7 0.26
27 4 0.15
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (25 bp):
GTCAACGGGTCAGATTCAGGTTCGG
Found at i:32787849 original size:25 final size:25
Alignment explanation
Indices: 32787821--32787876 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
32787811 AGATTTTGGT
* *
32787821 TCGGGTCAATGGTTAATGAATCGGG
1 TCGGGTCAATGATTAACGAATCGGG
*
32787846 TCGGGTCAATGATTCACGAATCGGG
1 TCGGGTCAATGATTAACGAATCGGG
32787871 TCGGGT
1 TCGGGT
32787877 ATTGGTCTAT
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:0.21, C:0.16, G:0.36, T:0.27
Consensus pattern (25 bp):
TCGGGTCAATGATTAACGAATCGGG
Found at i:32788542 original size:19 final size:19
Alignment explanation
Indices: 32788518--32788560 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
32788508 ACCCACTTCA
* *
32788518 TAATTTATCCTTAAAATCT
1 TAATTTAGCCATAAAATCT
*
32788537 TAATTTAGCCATAAAATTT
1 TAATTTAGCCATAAAATCT
32788556 TAATT
1 TAATT
32788561 CAGAGTTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.47
Consensus pattern (19 bp):
TAATTTAGCCATAAAATCT
Found at i:32798078 original size:20 final size:20
Alignment explanation
Indices: 32798035--32798080 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
32798025 TCGTTAAGAT
* **
32798035 TTAATTAAACCTTTTTAGGC
1 TTAATTAAACCTATTTAGAA
*
32798055 TTAATTAAACCTATTTATAA
1 TTAATTAAACCTATTTAGAA
32798075 TTAATT
1 TTAATT
32798081 TAACTCATGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (20 bp):
TTAATTAAACCTATTTAGAA
Found at i:32798868 original size:26 final size:26
Alignment explanation
Indices: 32798839--32798891 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
32798829 AAGATCTATG
32798839 TATGACTTCTGTCGATCAGACGCTGC
1 TATGACTTCTGTCGATCAGACGCTGC
*
32798865 TATGACTTCTGTCGGTCAGACGCTGC
1 TATGACTTCTGTCGATCAGACGCTGC
32798891 T
1 T
32798892 GCTTTATACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.17, C:0.26, G:0.25, T:0.32
Consensus pattern (26 bp):
TATGACTTCTGTCGATCAGACGCTGC
Found at i:32802569 original size:21 final size:22
Alignment explanation
Indices: 32802533--32802573 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
32802523 CTGCTAAAAT
32802533 TGTCATCCACCAATTGTAAGTG
1 TGTCATCCACCAATTGTAAGTG
*
32802555 TGTCGTCCA-CAATTGTAAG
1 TGTCATCCACCAATTGTAAG
32802574 CCTCGTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (22 bp):
TGTCATCCACCAATTGTAAGTG
Found at i:32807861 original size:195 final size:194
Alignment explanation
Indices: 32807453--32807896 Score: 538
Period size: 195 Copynumber: 2.3 Consensus size: 194
32807443 AACTGACGTG
* *
32807453 ATGGCTGAGGTACCGCATATGTTGCGAGTCCTCAATAGCTCGTGTGAGCAGCATCGTGAGTCGGA
1 ATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGATAGCTCGTGTGAGCAGCATCGTGACTCGGA
* *
32807518 AAAAGAGAAAAGGATCCAGGAATGGATTACAAGCCCTACGATGGCTGAGATTTATGCATAAGTGC
66 AAAAGAGAAAAGGATCCA-GAATAGATTACAAGCCCTACGATGGCTGAGATCTATGCATAAGTGC
* * *
32807583 ATATTCTCGACAGCTCGTGTAAGCAGCATCGTTAGGGAACAGTTATATGCACAGATATCATAACG
130 ATACTCTCGACAACTCGTGTAAGCAGCATCGTTAGGGAACAGTTATATGCACAGATATCATAACA
* *
32807648 ATGGCTGAGGTGCCGCATATGTTGCGAGTCCTCGATAGCTCGTGTGAGTAGCATCGTGACTC-GA
1 ATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGATAGCTCGTGTGAGCAGCATCGTGACTCGGA
* * * * * * * *
32807712 GAAAGAGATATGGATCCTA-AATAGATTATAGGCCCTACGATGGCTGGGA-CTATGCCTTA-TGC
66 AAAAGAGAAAAGGATCC-AGAATAGATTACAAGCCCTACGATGGCTGAGATCTATGCATAAGTGC
* * * *
32807774 ATACTCTCGACAACTCGTGTGAGCAGCATCGTTAGGGAACAGTT-TATAGTATAGATAGGCATCG
130 ATACTCTCGACAACTCGTGTAAGCAGCATCGTTAGGGAACAGTTATAT-GCACAGAT----ATCA
*
32807838 TACCA
190 TAACA
* * * * * *
32807843 ATGGTTGGGGTACCGCATACGTTGCGAGTCCTCGACAGCCCGTTTGAGCAGCAT
1 ATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGATAGCTCGTGTGAGCAGCAT
32807897 TGAGTACTGG
Statistics
Matches: 213, Mismatches: 30, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
190 3 0.01
191 50 0.23
192 7 0.03
193 26 0.12
194 16 0.08
195 111 0.52
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (194 bp):
ATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGATAGCTCGTGTGAGCAGCATCGTGACTCGGA
AAAAGAGAAAAGGATCCAGAATAGATTACAAGCCCTACGATGGCTGAGATCTATGCATAAGTGCA
TACTCTCGACAACTCGTGTAAGCAGCATCGTTAGGGAACAGTTATATGCACAGATATCATAACA
Found at i:32812900 original size:195 final size:194
Alignment explanation
Indices: 32812494--32812940 Score: 553
Period size: 195 Copynumber: 2.3 Consensus size: 194
32812484 GAAACCGACG
** * * * *
32812494 CGATGGTTGAGGTATTGCATATGTTGCGAGTCCTCAACAGCTCGTGTGAGAAGCATCGTGAATTG
1 CGATGGTTGAGGTACCGCATATGTTACGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGAATCG
**
32812559 AGAAAAGAGAAAAGGATCCAGGAATGGATTATAGGCCCTACAATGGCTGAGGTTTATGCATAAGT
66 AGAAAAGAGAAAAGGATCCA-GAATGGATTATAGGCCCTACAATGGCTGAGGACTATGCATAAGT
* * * *
32812624 GCATATTCTCGACAGCTCATGTGAGCAGCATCGTTAAGGAACAGTTATATGCACAGATATCATAA
130 ACATACTCTCGACAACTCATGTGAGCAGCATCGTTAAGGAACAGTTATATGCACAGATAGCATAA
* * *
32812689 CGATGGCTGAGGTACCGCATATGTTACGAGTCCTCGATAGCTCGTGTGAGCAGCATCGTGACTCG
1 CGATGGTTGAGGTACCGCATATGTTACGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGAATCG
* * * * *
32812754 AG-AAAGAGATATGGATCCTA-AATGGATTATAGGCCTTACAATGGCTG-GGACTATGCCTTA-T
66 AGAAAAGAGAAAAGGATCC-AGAATGGATTATAGGCCCTACAATGGCTGAGGACTATGCATAAGT
* * * *
32812815 ACATACTCTCGACAACTCGTGTGAGCAGCATCGTTAGGGAACAGTT-TATAGTATAGATAGGCAC
130 ACATACTCTCGACAACTCATGTGAGCAGCATCGTTAAGGAACAGTTATAT-GCACAGATA-GCA-
*
32812879 CGTAC
192 --TAA
* *
32812884 CGATGGTTGGGGTACCGCATACGTTACGAGTCCTCGACAGCTCGTGTGAGCAGCATC
1 CGATGGTTGAGGTACCGCATATGTTACGAGTCCTCGACAGCTCGTGTGAGCAGCATC
32812941 AAGTATTGGT
Statistics
Matches: 217, Mismatches: 29, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
190 3 0.01
191 49 0.23
192 11 0.05
193 26 0.12
194 14 0.06
195 114 0.53
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (194 bp):
CGATGGTTGAGGTACCGCATATGTTACGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGAATCG
AGAAAAGAGAAAAGGATCCAGAATGGATTATAGGCCCTACAATGGCTGAGGACTATGCATAAGTA
CATACTCTCGACAACTCATGTGAGCAGCATCGTTAAGGAACAGTTATATGCACAGATAGCATAA
Found at i:32814195 original size:4 final size:4
Alignment explanation
Indices: 32814186--32814222 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
32814176 GAATTTAATT
* *
32814186 ATTG ATTG ATTG ATTA ATTG ATGG ATTG ATTG ATTG A
1 ATTG ATTG ATTG ATTG ATTG ATTG ATTG ATTG ATTG A
32814223 AAGGTTGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (4 bp):
ATTG
Found at i:32832521 original size:29 final size:28
Alignment explanation
Indices: 32832480--32832534 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
32832470 CGTTAACATA
32832480 AGATACACAACACAAAAAAAAATCACGC
1 AGATACACAACACAAAAAAAAATCACGC
* *
32832508 AGATAACACAACACAAAATAATATCAC
1 AGAT-ACACAACACAAAAAAAAATCAC
32832535 ACAAGGTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.60, C:0.24, G:0.05, T:0.11
Consensus pattern (28 bp):
AGATACACAACACAAAAAAAAATCACGC
Found at i:32833027 original size:19 final size:19
Alignment explanation
Indices: 32833003--32833068 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
32832993 AAAGTCAACA
32833003 GTTAACGGTTCAAGTTCGG
1 GTTAACGGTTCAAGTTCGG
*
32833022 GTTAACGGGTC-AGATTCGG
1 GTTAACGGTTCAAG-TTCGG
* * *
32833041 GTTTA-GATTCAAGTTCAG
1 GTTAACGGTTCAAGTTCGG
*
32833059 GTCAACGGTT
1 GTTAACGGTT
32833069 TACAAATCGA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
18 12 0.33
19 24 0.67
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (19 bp):
GTTAACGGTTCAAGTTCGG
Found at i:32833215 original size:14 final size:14
Alignment explanation
Indices: 32833187--32833219 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
32833177 GGTCTTAGGT
32833187 TTGGG-TCACAAAC
1 TTGGGCTCACAAAC
*
32833200 TTGGGCTCACACAC
1 TTGGGCTCACAAAC
32833214 TTGGGC
1 TTGGGC
32833220 CTTTGGTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.24
Consensus pattern (14 bp):
TTGGGCTCACAAAC
Found at i:32838560 original size:20 final size:18
Alignment explanation
Indices: 32838532--32838626 Score: 75
Period size: 20 Copynumber: 5.0 Consensus size: 18
32838522 ATTAGATATC
32838532 CATTAAAAATATTGGTAT
1 CATTAAAAATATTGGTAT
* *
32838550 CATGGTAAAAATTTTGATATT
1 CAT--TAAAAATATTGGTA-T
32838571 GCATTAAAAATATTGGTAT
1 -CATTAAAAATATTGGTAT
* * *
32838590 CTATTAGAATTTTTGGTATT
1 C-ATTAAAAATATTGGTA-T
*
32838610 AATTAAAAATA-TGGTAT
1 CATTAAAAATATTGGTAT
32838627 TGCGTTATAA
Statistics
Matches: 60, Mismatches: 11, Indels: 13
0.71 0.13 0.15
Matches are distributed among these distances:
17 1 0.02
18 9 0.15
19 21 0.35
20 25 0.42
21 1 0.02
22 3 0.05
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.42
Consensus pattern (18 bp):
CATTAAAAATATTGGTAT
Found at i:32839063 original size:15 final size:15
Alignment explanation
Indices: 32839043--32839077 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
32839033 ATTTATTGAA
32839043 ATATTTATAAATTTT
1 ATATTTATAAATTTT
32839058 ATATTT-TAAATTTT
1 ATATTTATAAATTTT
32839072 -TATTTA
1 ATATTTA
32839078 ATTTTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 8 0.42
15 6 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATATTTATAAATTTT
Found at i:32839869 original size:51 final size:51
Alignment explanation
Indices: 32839759--32839868 Score: 132
Period size: 52 Copynumber: 2.1 Consensus size: 51
32839749 ATAAAAATAT
* * ** * *
32839759 AATTTTTAAATGATTAAATCAAAATTTTATCATTTTTAGGGGGTCAAATTAT
1 AATTTTT-AAGGATTAAATCAAAATTTTATCATTTTGAGGGGGGAAAAGTAC
32839811 AATTTTTAAGGATTAAATC-AAATTTTATCATTTTGAGGGAGGGGAAAAGTAC
1 AATTTTTAAGGATTAAATCAAAATTTTATCATTTTGA-GG-GGGGAAAAGTAC
32839863 AATTTT
1 AATTTT
32839869 ACTTTTACTA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
50 16 0.32
51 13 0.26
52 21 0.42
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (51 bp):
AATTTTTAAGGATTAAATCAAAATTTTATCATTTTGAGGGGGGAAAAGTAC
Found at i:32841536 original size:20 final size:21
Alignment explanation
Indices: 32841511--32841549 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32841501 TTTTCATAAT
*
32841511 AGTTAT-TTTTATTTATTTTA
1 AGTTATATTTTAATTATTTTA
32841531 AGTTATATTTTAATTATTT
1 AGTTATATTTTAATTATTT
32841550 ATATTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (21 bp):
AGTTATATTTTAATTATTTTA
Found at i:32842585 original size:18 final size:17
Alignment explanation
Indices: 32842562--32842609 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 17
32842552 GAAAAAAATA
32842562 TATATTTATATGTTATAT
1 TATATTTATAT-TTATAT
*
32842580 TTTATTATTATCATTTATAT
1 TATA-T-TTAT-ATTTATAT
32842600 TATATTTATA
1 TATATTTATA
32842610 GATAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
17 1 0.04
18 7 0.28
19 2 0.08
20 13 0.52
21 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TATATTTATATTTATAT
Found at i:32842631 original size:24 final size:27
Alignment explanation
Indices: 32842604--32842658 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
32842594 TTATATTATA
32842604 TTTATAGAT-A-AT-TTTATCTATCAT
1 TTTATAGATAATATATTTATCTATCAT
*
32842628 TTTATATATAAATATATTTATCTATCAT
1 TTTATAGAT-AATATATTTATCTATCAT
32842656 TTT
1 TTT
32842659 TTAAATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 8 0.31
26 1 0.04
27 2 0.08
28 15 0.58
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (27 bp):
TTTATAGATAATATATTTATCTATCAT
Found at i:32850663 original size:6 final size:6
Alignment explanation
Indices: 32850652--32850679 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
32850642 GGAACACATC
32850652 TCACCA TCACCA TCACCA TCACCA TCAC
1 TCACCA TCACCA TCACCA TCACCA TCAC
32850680 ATATCTCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (6 bp):
TCACCA
Found at i:32855602 original size:13 final size:13
Alignment explanation
Indices: 32855568--32855609 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
32855558 TAGAGGATTC
32855568 TTTTTAAAA-TAT
1 TTTTTAAAATTAT
*
32855580 TTTTTGAAATTAT
1 TTTTTAAAATTAT
32855593 TTTTTAAAATTTAT
1 TTTTTAAAA-TTAT
32855607 TTT
1 TTT
32855610 CAGTGAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 8 0.31
13 11 0.42
14 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (13 bp):
TTTTTAAAATTAT
Found at i:32855671 original size:21 final size:20
Alignment explanation
Indices: 32855646--32855700 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 20
32855636 ATTTGTTACA
32855646 AAATAATTAAAATTTATTTT
1 AAATAATTAAAATTTATTTT
*
32855666 --ATAA-TAAAATATATTTT
1 AAATAATTAAAATTTATTTT
*
32855683 AAAATAATTAATATTTAT
1 -AAATAATTAAAATTTAT
32855701 ATAAACTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
17 12 0.43
18 4 0.14
20 4 0.14
21 8 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATAATTAAAATTTATTTT
Found at i:32868132 original size:30 final size:30
Alignment explanation
Indices: 32868096--32868393 Score: 315
Period size: 30 Copynumber: 9.9 Consensus size: 30
32868086 ATGATTTTGG
*
32868096 GAAGTTTAGGGGTCAAAATGTAATTTTAGA
1 GAAGTTTAGGGGTTAAAATGTAATTTTAGA
*
32868126 GAAGTTTAGGGGTTAAAATGTAAATTT-GA
1 GAAGTTTAGGGGTTAAAATGTAATTTTAGA
32868155 GAAAGTTTAGAGGGTTAAAATGTAATTTTAGA
1 G-AAGTTTAG-GGGTTAAAATGTAATTTTAGA
* *
32868187 -AGAGTTTAAGGGTTAAAATGTAATTTTGGA
1 GA-AGTTTAGGGGTTAAAATGTAATTTTAGA
* *
32868217 -AAGTTTAAGGTTTAAAATTGTAATTTT-GA
1 GAAGTTTAGGGGTTAAAA-TGTAATTTTAGA
*
32868246 GAAGTTT-GAGGGTCAAAATGTAATTTTA-A
1 GAAGTTTAG-GGGTTAAAATGTAATTTTAGA
* * * *
32868275 AAGAGTTTAAGGGTTAAAATATAATTTTGGA
1 GA-AGTTTAGGGGTTAAAATGTAATTTTAGA
* *
32868306 AAAGTTTAGGGTTTAAAATGTAATTTTAGA
1 GAAGTTTAGGGGTTAAAATGTAATTTTAGA
* * *
32868336 AAAGTTAAGGGGTCAAAATGTAATTTTA-A
1 GAAGTTTAGGGGTTAAAATGTAATTTTAGA
*
32868365 GAAGTTT-GAGGGTTAAAATATAGATTTTA
1 GAAGTTTAG-GGGTTAAAATGTA-ATTTTA
32868394 AATAAATAGG
Statistics
Matches: 230, Mismatches: 25, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
28 1 0.00
29 48 0.21
30 153 0.67
31 26 0.11
32 2 0.01
ACGTcount: A:0.39, C:0.01, G:0.23, T:0.36
Consensus pattern (30 bp):
GAAGTTTAGGGGTTAAAATGTAATTTTAGA
Found at i:32868285 original size:89 final size:88
Alignment explanation
Indices: 32868098--32868392 Score: 378
Period size: 89 Copynumber: 3.3 Consensus size: 88
32868088 GATTTTGGGA
* * * * * *
32868098 AGTTTAGGGGTCAAAATGTAATTTTAGAGAAGTTTAGGGGTTAAAATGTAAATTTGAGAAAGTTT
1 AGTTTAAGGGTTAAAATATAATTTTGGA-AAGTTTAGGGTTTAAAATGTAATTTTGAG-AAGTTT
* *
32868163 AGAGGGTTAAAATGTAATTTTAGAAG
64 -GAGGGTCAAAATGTAATTTTAAAAG
* *
32868189 AGTTTAAGGGTTAAAATGTAATTTTGGAAAGTTTAAGGTTTAAAATTGTAATTTTGAGAAGTTTG
1 AGTTTAAGGGTTAAAATATAATTTTGGAAAGTTTAGGGTTTAAAA-TGTAATTTTGAGAAGTTTG
32868254 AGGGTCAAAATGTAATTTTAAAAG
65 AGGGTCAAAATGTAATTTTAAAAG
*
32868278 AGTTTAAGGGTTAAAATATAATTTTGGAAAAGTTTAGGGTTTAAAATGTAATTTTAGAAAAG-TT
1 AGTTTAAGGGTTAAAATATAATTTTGG-AAAGTTTAGGGTTTAAAATGTAATTTT-GAGAAGTTT
* *
32868342 AAGGGGTCAAAATGTAATTTTAAGA-
64 GA-GGGTCAAAATGTAATTTTAAAAG
*
32868367 AGTTTGAGGGTTAAAATATAGATTTT
1 AGTTTAAGGGTTAAAATATA-ATTTT
32868393 AAATAAATAG
Statistics
Matches: 185, Mismatches: 14, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
89 80 0.43
90 69 0.37
91 36 0.19
ACGTcount: A:0.39, C:0.01, G:0.23, T:0.37
Consensus pattern (88 bp):
AGTTTAAGGGTTAAAATATAATTTTGGAAAGTTTAGGGTTTAAAATGTAATTTTGAGAAGTTTGA
GGGTCAAAATGTAATTTTAAAAG
Found at i:32870257 original size:49 final size:49
Alignment explanation
Indices: 32870163--32870287 Score: 198
Period size: 49 Copynumber: 2.6 Consensus size: 49
32870153 TGGTCTACTG
* ***
32870163 CTCTGTATCTCATCAGGAAGAT-AACCACTTCATTGGTTTAATCCACTT
1 CTCTGTATCTCATCAGGAAGGTGAATTTCTTCATTGGTTTAATCCACTT
*
32870211 CTCTGTATCTCATCGGGAAGGTGAATTTCTTCATTGGTTTAATCCACTT
1 CTCTGTATCTCATCAGGAAGGTGAATTTCTTCATTGGTTTAATCCACTT
32870260 CTCTGTATCTCATCAGGAAGGTGAATTT
1 CTCTGTATCTCATCAGGAAGGTGAATTT
32870288 TGTCCACTTC
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
48 20 0.29
49 50 0.71
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.38
Consensus pattern (49 bp):
CTCTGTATCTCATCAGGAAGGTGAATTTCTTCATTGGTTTAATCCACTT
Found at i:32870758 original size:85 final size:85
Alignment explanation
Indices: 32870602--32870764 Score: 209
Period size: 85 Copynumber: 1.9 Consensus size: 85
32870592 TTGCTTCATT
** * * * * *
32870602 GATTTGGTTTACTTCTCTATATCTCATTAGAAAGATGACCGCTTCATTGATTTAATCTACTTCTT
1 GATTTGGTCCACTTCTCTATATCTCATCAGAAAGATGACCGCTTCATTGATTTAAGCCACTTATC
*
32870667 TGTATCTCATCAGGAAGGCG
66 TATATCTCATCAGGAAGGCG
* * * * *
32870687 GATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTGCTTTGAGCCACTTATC
1 GATTTGGTCCACTTCTCTATATCTCATCAGAAAGATGACCGCTTCATTGATTTAAGCCACTTATC
32870752 TATATCTCATCAG
66 TATATCTCATCAG
32870765 AAAGATGGGG
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
85 65 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (85 bp):
GATTTGGTCCACTTCTCTATATCTCATCAGAAAGATGACCGCTTCATTGATTTAAGCCACTTATC
TATATCTCATCAGGAAGGCG
Found at i:32870956 original size:85 final size:85
Alignment explanation
Indices: 32870813--32870977 Score: 222
Period size: 85 Copynumber: 1.9 Consensus size: 85
32870803 GCTTAATTTT
* * * * *
32870813 TTTGGTCTACTTCTCCGTATCTCATTAGGAAGATGATCGCTTCCTTGATTTAATCCACTTCTATA
1 TTTGGTCCACTTCTCCGTATCTCATCAAGAAGATGATCGCTTCATTGATTTAACCCACTTCTATA
32870878 TATCTCATCAGGAAGGCGGA
66 TATCTCATCAGGAAGGCGGA
** * * * * *
32870898 TTTGGTCCACTTCTTTGTATCTCATCAAGAAGGTGATCGCTTTATTGCTTTAACCCACTTCTCTG
1 TTTGGTCCACTTCTCCGTATCTCATCAAGAAGATGATCGCTTCATTGATTTAACCCACTTCTATA
32870963 TATCTCATCAGGAAG
66 TATCTCATCAGGAAG
32870978 ATGGGGTTTG
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (85 bp):
TTTGGTCCACTTCTCCGTATCTCATCAAGAAGATGATCGCTTCATTGATTTAACCCACTTCTATA
TATCTCATCAGGAAGGCGGA
Found at i:32871090 original size:208 final size:209
Alignment explanation
Indices: 32870480--32871202 Score: 1011
Period size: 208 Copynumber: 3.5 Consensus size: 209
32870470 TCTATATCTC
* * * * *
32870480 ATTTGGTCCATTTCTCTGTATCTCATCAAGAAGGTGACCGTTTTATTGCTTTGACTCACTTCTTT
1 ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTTATTGCTTTGACCCACTTCTCT
* * * *
32870545 GTATCTCATCAAGAAGAT-GAGATTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGG
66 GTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTAATTTGG
* * * * * *
32870609 TTTACTTCTCTATATCTCATTAGAAAGATGACCGCTTCATTGATTTAATCTACTTCTTTGTATCT
131 TCTACTTCTCTGTATCTCATTAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTATATATCT
32870674 CATCAGGAAGGCGG
196 CATCAGGAAGGCGG
* * *
32870688 ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTGCTTTGAGCCACTTATCT
1 ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTTATTGCTTTGACCCACTTCTCT
* * * **
32870753 ATATCTCATCAGAAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTAATTTTTTTGG
66 GTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTAATTTGG
* * *
32870818 TCTACTTCTCCGTATCTCATTAGGAAGATGATCGCTTCCTTGATTTAATCCACTTCTATATATCT
131 TCTACTTCTCTGTATCTCATTAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTATATATCT
32870883 CATCAGGAAGGCGG
196 CATCAGGAAGGCGG
* * * *
32870897 ATTTGGTCCACTTCTTTGTATCTCATCAAGAAGGTGATCGCTTTATTGCTTTAACCCACTTCTCT
1 ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTTATTGCTTTGACCCACTTCTCT
*
32870962 GTATCTCATCAGGAAGAT-GGGGTTTGAAGTTTCACTTACATTGAGCTTTGCTTCATTAATTTGG
66 GTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTAATTTGG
* ** * * *
32871026 TCTACTTCTTTGTATCTCAAAAGGAAGATGACCGTTTCATTGACTTAATCCACTTCTCTATATCT
131 TCTACTTCTCTGTATCTCATTAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTATATATCT
32871091 CATCAGGAAGGCGG
196 CATCAGGAAGGCGG
* * ** *
32871105 ATTTGGTCCACTTCT-TCGTATCTCATTAGGAAGATGGTCACTTTATTGCTTTGACCCACTTCTC
1 ATTTGGTCCACTTCTCT-GTATCTCATCAAGAAGATGACCGCTTTATTGCTTTGACCCACTTCTC
* * *
32871169 TGTATCTTATTAGGAAGATGGGGGTTTAAAGTTT
65 TGTATCTCATCAGGAAGATGGGGGTTTGAAGTTT
32871203 TTACTTCTCC
Statistics
Matches: 456, Mismatches: 56, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
207 1 0.00
208 257 0.56
209 198 0.43
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (209 bp):
ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTTATTGCTTTGACCCACTTCTCT
GTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTAATTTGG
TCTACTTCTCTGTATCTCATTAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTATATATCT
CATCAGGAAGGCGG
Found at i:32871092 original size:417 final size:404
Alignment explanation
Indices: 32870239--32871202 Score: 1284
Period size: 417 Copynumber: 2.4 Consensus size: 404
32870229 AGGTGAATTT
* * * * *
32870239 CTTCATTGGTTTAATCCACTTCTCTGTATCTCATCAGGAAGGTGAATTTTGTCCACTTCTCTATA
1 CTTCATTGATTTAATCCACTTCTCTGTATCTCATCAGGAAGGCGGATTTGGTCCACTTCTCTGTA
* * * *
32870304 TCTCATCAAGAAGAAGATCACTTTATTACTTTGACCCACTTCTCTATATCTCATCA-AGAATATG
66 TCTCATCAGGAAGATGATCACTTTATTGCTTTGACCCACTTCTCTATATCTCATCAGA-AAGATG
* * *
32870368 AGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTTATTGATTTGGTCTACTTCTCTAAATCTCA
130 GGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTAATTGATTTGGTCTACTTCTCCAAATCTCA
* *
32870433 TCAAGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTATATCTCATTTGGTCCATTTCTCTG
195 TCAAGAAGATGACCGCTTCATTGATTTAATCCACTTCTATATATCTCATTTGGTCCACTTCTCTG
* * * *
32870498 TATCTCATCAAGAAGGTGACCGTTTTATTGCTTTGACTCACTTCTTTGTATCTCATCAAGAAGAT
260 TATCTCATCAAGAAGGTGACCGCTTTATTGCTTTAACCCACTTCTCTGTATCTCATCAAGAAGAT
* *
32870563 GAGATTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGTTTACTTCTCTATATCTCA
325 GAGATTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTAATTTGGTCTACTTCTCTATATCTCA
**
32870628 TTAGAAAGATGACCG
390 AAAGAAAGATGACCG
* *
32870643 CTTCATTGATTTAATCTACTTCTTTGTATCTCATCAGGAAGGCGGATTTGGTCCACTTCTCTGTA
1 CTTCATTGATTTAATCCACTTCTCTGTATCTCATCAGGAAGGCGGATTTGGTCCACTTCTCTGTA
* * * *
32870708 TCTCATCAGGAAGATGACCGCTTTATTGCTTTGAGCCACTTATCTATATCTCATCAGAAAGATGG
66 TCTCATCAGGAAGATGATCACTTTATTGCTTTGACCCACTTCTCTATATCTCATCAGAAAGATGG
** **
32870773 GGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTAATTTTTTTGGTCTACTTCTCCGTATCTCAT
131 GGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTAATTGATTTGGTCTACTTCTCCAAATCTCAT
* * * *
32870838 TAGGAAGATGATCGCTTCCTTGATTTAATCCACTTCTATATATCTCATCAGGAAGGCGGATTTGG
196 CAAGAAGATGACCGCTTCATTGATTTAATCCACTTCTATATA--TC-T--------C--ATTTGG
* *
32870903 TCCACTTCTTTGTATCTCATCAAGAAGGTGATCGCTTTATTGCTTTAACCCACTTCTCTGTATCT
248 TCCACTTCTCTGTATCTCATCAAGAAGGTGACCGCTTTATTGCTTTAACCCACTTCTCTGTATCT
* * * *
32870968 CATCAGGAAGATGGGGTTTGAAGTTTCACTTACATTGAGCTTTGCTTCATTAATTTGGTCTACTT
313 CATCAAGAAGATGAGATTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTAATTTGGTCTACTT
* * *
32871033 CTTTGTATCTCAAAAGGAAGATGACCG
378 CTCTATATCTCAAAAGAAAGATGACCG
* * *
32871060 TTTCATTGACTTAATCCACTTCTCTATATCTCATCAGGAAGGCGGATTTGGTCCACTTCT-TCGT
1 CTTCATTGATTTAATCCACTTCTCTGTATCTCATCAGGAAGGCGGATTTGGTCCACTTCTCT-GT
* * * * * *
32871124 ATCTCATTAGGAAGATGGTCACTTTATTGCTTTGACCCACTTCTCTGTATCTTATTAGGAAGATG
65 ATCTCATCAGGAAGATGATCACTTTATTGCTTTGACCCACTTCTCTATATCTCATCAGAAAGATG
*
32871189 GGGGTTTAAAGTTT
130 GGGGTTTGAAGTTT
32871203 TTACTTCTCC
Statistics
Matches: 484, Mismatches: 61, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
404 208 0.43
405 1 0.00
406 2 0.00
407 1 0.00
415 1 0.00
416 1 0.00
417 270 0.56
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (404 bp):
CTTCATTGATTTAATCCACTTCTCTGTATCTCATCAGGAAGGCGGATTTGGTCCACTTCTCTGTA
TCTCATCAGGAAGATGATCACTTTATTGCTTTGACCCACTTCTCTATATCTCATCAGAAAGATGG
GGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTAATTGATTTGGTCTACTTCTCCAAATCTCAT
CAAGAAGATGACCGCTTCATTGATTTAATCCACTTCTATATATCTCATTTGGTCCACTTCTCTGT
ATCTCATCAAGAAGGTGACCGCTTTATTGCTTTAACCCACTTCTCTGTATCTCATCAAGAAGATG
AGATTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTAATTTGGTCTACTTCTCTATATCTCAA
AAGAAAGATGACCG
Found at i:32879393 original size:29 final size:29
Alignment explanation
Indices: 32879346--32879629 Score: 95
Period size: 29 Copynumber: 9.7 Consensus size: 29
32879336 AAAAGAAAAA
*
32879346 AGGGTCAAAATG-AAGTTTTTGAGGATTTT
1 AGGGTTAAAATGTAA-TTTTTGAGGATTTT
* *
32879375 AGGGTTAAAATGTGA-TTTTG-GGAAAGTTTA
1 AGGGTTAAAATGTAATTTTTGAGG--A-TTTT
* ** *
32879405 AGGGTTAAAATGTAATTTTGGAAAAGTTT
1 AGGGTTAAAATGTAATTTTTGAGGATTTT
* * **
32879434 AAGGTTAAAATGTAA-ATTT-AGGAAGTTCG
1 AGGGTTAAAATGTAATTTTTGAGG-A-TTTT
* * * *
32879463 AGGGTCAAAATGTAATTTTGGAAGAGTTT
1 AGGGTTAAAATGTAATTTTTGAGGATTTT
* *
32879492 -GAGGTTCAAAATGTAA-ATTT-AGGAAAGTTT
1 AG-GGTT-AAAATGTAATTTTTGAGG--ATTTT
* * *
32879522 AGGGTCAAAATGTAA-TTTTGAAAGAGTTTA
1 AGGGTTAAAATGTAATTTTTG-AGGA-TTTT
* ** *
32879552 AGAGG-TAAAATGTAATTTTGGAAAAGTTT
1 AG-GGTTAAAATGTAATTTTTGAGGATTTT
* * ** *
32879581 AGGGTTCATAATGTAA-TTTGGAAAAGTTT
1 AGGGTT-AAAATGTAATTTTTGAGGATTTT
32879610 AGGGGTTAAAATGTAATTTT
1 A-GGGTTAAAATGTAATTTT
32879630 AGGAAAGTTT
Statistics
Matches: 190, Mismatches: 41, Indels: 47
0.68 0.15 0.17
Matches are distributed among these distances:
27 3 0.02
28 13 0.07
29 88 0.46
30 71 0.37
31 15 0.08
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (29 bp):
AGGGTTAAAATGTAATTTTTGAGGATTTT
Found at i:32879411 original size:30 final size:30
Alignment explanation
Indices: 32879375--32879651 Score: 284
Period size: 30 Copynumber: 9.4 Consensus size: 30
32879365 TGAGGATTTT
*
32879375 AGGGTTAAAATGTGATTTTGGGAAAGTTTA
1 AGGGTTAAAATGTAATTTTGGGAAAGTTTA
*
32879405 AGGGTTAAAATGTAATTTTGGAAAAGTTTA
1 AGGGTTAAAATGTAATTTTGGGAAAGTTTA
* * **
32879435 A-GGTTAAAATGTAAATTTAGG-AAGTTCG
1 AGGGTTAAAATGTAATTTTGGGAAAGTTTA
* *
32879463 AGGGTCAAAATGTAATTTT-GGAAGAGTTTG
1 AGGGTTAAAATGTAATTTTGGGAA-AGTTTA
* *
32879493 A-GGTTCAAAATGTAAATTTAGGAAAGTTT-
1 AGGGTT-AAAATGTAATTTTGGGAAAGTTTA
* *
32879522 AGGGTCAAAATGTAATTTT-GAAAGAGTTTA
1 AGGGTTAAAATGTAATTTTGGGAA-AGTTTA
*
32879552 AGAGG-TAAAATGTAATTTTGGAAAAGTTT-
1 AG-GGTTAAAATGTAATTTTGGGAAAGTTTA
* *
32879581 AGGGTTCATAATGTAA-TTTGGAAAAGTTTA
1 AGGGTT-AAAATGTAATTTTGGGAAAGTTTA
* *
32879611 GGGGTTAAAATGTAATTTTAGGAAAGTTTA
1 AGGGTTAAAATGTAATTTTGGGAAAGTTTA
*
32879641 GGGGTTAAAAT
1 AGGGTTAAAAT
32879652 ATAGTTTTTA
Statistics
Matches: 212, Mismatches: 21, Indels: 28
0.81 0.08 0.11
Matches are distributed among these distances:
28 13 0.06
29 78 0.37
30 111 0.52
31 10 0.05
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.35
Consensus pattern (30 bp):
AGGGTTAAAATGTAATTTTGGGAAAGTTTA
Found at i:32879440 original size:59 final size:58
Alignment explanation
Indices: 32879372--32879651 Score: 334
Period size: 59 Copynumber: 4.7 Consensus size: 58
32879362 TTTTGAGGAT
* * *
32879372 TTTAGGGTTAAAATGTGATTTTGGGAAAGTTTAAGGGTTAAAATGTAATTTTGGAAAAG
1 TTTAAGGTTAAAATGTAATTTTAGGAAAGTTT-AGGGTTAAAATGTAATTTTGGAAAAG
* * * *
32879431 TTTAAGGTTAAAATGTAAATTTAGG-AAGTTCGAGGGTCAAAATGTAATTTTGGAAGAG
1 TTTAAGGTTAAAATGTAATTTTAGGAAAGTT-TAGGGTTAAAATGTAATTTTGGAAAAG
* * *
32879489 TTTGAGGTTCAAAATGTAAATTTAGGAAAGTTTAGGGTCAAAATGTAATTTT-GAAAGAG
1 TTTAAGGTT-AAAATGTAATTTTAGGAAAGTTTAGGGTTAAAATGTAATTTTGGAAA-AG
* *
32879548 TTTAAGAGGTAAAATGTAATTTT-GGAAAAGTTTAGGGTTCATAATGTAA-TTTGGAAAAG
1 TTTAAG-GTTAAAATGTAATTTTAGG-AAAGTTTAGGGTT-AAAATGTAATTTTGGAAAAG
*
32879607 TTTAGGGGTTAAAATGTAATTTTAGGAAAGTTTAGGGGTTAAAAT
1 TTTA-AGGTTAAAATGTAATTTTAGGAAAGTTTA-GGGTTAAAAT
32879652 ATAGTTTTTA
Statistics
Matches: 192, Mismatches: 18, Indels: 22
0.83 0.08 0.09
Matches are distributed among these distances:
58 42 0.22
59 123 0.64
60 27 0.14
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (58 bp):
TTTAAGGTTAAAATGTAATTTTAGGAAAGTTTAGGGTTAAAATGTAATTTTGGAAAAG
Found at i:32882112 original size:23 final size:23
Alignment explanation
Indices: 32882041--32882224 Score: 199
Period size: 23 Copynumber: 7.9 Consensus size: 23
32882031 ATCTTAATTC
32882041 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
32882064 TTTAATCATAAAAATCATATTAATA
1 TTTAAGC--ACAAATCACATTAATA
* *
32882089 TTTAAACACAAA-CGAAATTAATA
1 TTTAAGCACAAATC-ACATTAATA
* * *
32882112 TTTGAGCACAAACCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
32882135 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
32882158 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
32882181 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * * *
32882204 TTTGAGAACAATTCATATTAA
1 TTTAAGCACAAATCACATTAA
32882225 GCATAAATCA
Statistics
Matches: 135, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
22 1 0.01
23 113 0.84
24 1 0.01
25 20 0.15
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:32882155 original size:46 final size:46
Alignment explanation
Indices: 32882041--32882224 Score: 253
Period size: 46 Copynumber: 4.0 Consensus size: 46
32882031 ATCTTAATTC
* * *
32882041 TTTAAGCACAAATCACATTAATATTTAATCATAAAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTGAGC--ACAAATCATATTAATA
* * *
32882089 TTTAAACACAAA-CGAAATTAATATTTGAGCACAAACCATATTAATA
1 TTTAAGCACAAATC-ACATTAATATTTGAGCACAAATCATATTAATA
*
32882135 TTTAAGCATAAATCACATTAATATTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTGAGCACAAATCATATTAATA
* *
32882181 TTTAAGCACAAATCACATTAATATTTGAGAACAATTCATATTAA
1 TTTAAGCACAAATCACATTAATATTTGAGCACAAATCATATTAA
32882225 GCATAAATCA
Statistics
Matches: 121, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
46 95 0.79
47 2 0.02
48 24 0.20
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (46 bp):
TTTAAGCACAAATCACATTAATATTTGAGCACAAATCATATTAATA
Found at i:32882178 original size:69 final size:70
Alignment explanation
Indices: 32882041--32882206 Score: 228
Period size: 69 Copynumber: 2.4 Consensus size: 70
32882031 ATCTTAATTC
* *
32882041 TTTAAGCACAAATCACATTAATATTTAATCATAAAAATCATATTAATATTTAAACACAAACGAAA
1 TTTAAGCACAAATCACATTAATATTTAAGCAT-AAAATCACATTAATATTTAAACACAAACGAAA
32882106 TTAATA
65 TTAATA
* * * * * *
32882112 TTTGAGCACAAACCATATTAATATTTAAGCAT-AAATCACATTAATATTTGAGCACAAATC-ATA
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAAATCACATTAATATTTAAACACAAA-CGAAA
32882175 TTAATA
65 TTAATA
32882181 TTTAAGCACAAATCACATTAATATTT
1 TTTAAGCACAAATCACATTAATATTT
32882207 GAGAACAATT
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
69 54 0.65
70 1 0.01
71 28 0.34
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.34
Consensus pattern (70 bp):
TTTAAGCACAAATCACATTAATATTTAAGCATAAAATCACATTAATATTTAAACACAAACGAAAT
TAATA
Found at i:32882241 original size:16 final size:16
Alignment explanation
Indices: 32882220--32882253 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
32882210 AACAATTCAT
*
32882220 ATTAAGCATAAATCAC
1 ATTAAGCACAAATCAC
32882236 ATTAAGCACAAATCAC
1 ATTAAGCACAAATCAC
32882252 AT
1 AT
32882254 GTTTCACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.21, G:0.06, T:0.24
Consensus pattern (16 bp):
ATTAAGCACAAATCAC
Found at i:32894502 original size:12 final size:12
Alignment explanation
Indices: 32894487--32894511 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32894477 TTTCTATATT
32894487 ATAGATTATAGG
1 ATAGATTATAGG
32894499 ATAGATTATAGG
1 ATAGATTATAGG
32894511 A
1 A
32894512 AAACGGGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (12 bp):
ATAGATTATAGG
Found at i:32895297 original size:12 final size:12
Alignment explanation
Indices: 32895280--32895306 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
32895270 CACCAGAGGC
32895280 TATAACAATATT
1 TATAACAATATT
32895292 TATAACAATATT
1 TATAACAATATT
32895304 TAT
1 TAT
32895307 GTTATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
TATAACAATATT
Found at i:32901644 original size:30 final size:30
Alignment explanation
Indices: 32901604--32901660 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
32901594 TTTTTGACCC
* *
32901604 AATTTGGTACCTAAAATTTACACTTTTCCT
1 AATTTAGTACCTAAAATTGACACTTTTCCT
*
32901634 AATTTAGTACCTAAACTTGACACTTTT
1 AATTTAGTACCTAAAATTGACACTTTT
32901661 TTTTAAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (30 bp):
AATTTAGTACCTAAAATTGACACTTTTCCT
Found at i:32901733 original size:89 final size:89
Alignment explanation
Indices: 32901546--32901736 Score: 224
Period size: 89 Copynumber: 2.1 Consensus size: 89
32901536 ATTAATATAT
* * * * *
32901546 ATTTGGTACTTGAACTTGACACTTTTTTCTAATTTGGTATCTAAATATTTTTTGACCCAATTTGG
1 ATTTGGTACCTAAACTTGACACTTTTTTCTAAGTTAGTATCTAAATATTTTTGGACCCAATTTGG
*
32901611 TACCTAAAATTTACACTTTTCCTA
66 TACATAAAATTTACACTTTTCCTA
* * * *
32901635 ATTTAGTACCTAAACTTGACACTTTTTTTTAAGTTAGTA-CATAAAT-TTTTTGGGCCCCATTTG
1 ATTTGGTACCTAAACTTGACACTTTTTTCTAAGTTAGTATC-TAAATATTTTTGGACCCAATTTG
* * * *
32901698 GTACATGAACTTTACTCTTTTTTCTA
65 GTACATAAAATTTACAC-TTTTCCTA
32901724 ATTTGGTACCTAA
1 ATTTGGTACCTAA
32901737 TCTTTTTTAA
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
88 28 0.33
89 57 0.67
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.46
Consensus pattern (89 bp):
ATTTGGTACCTAAACTTGACACTTTTTTCTAAGTTAGTATCTAAATATTTTTGGACCCAATTTGG
TACATAAAATTTACACTTTTCCTA
Found at i:32902044 original size:27 final size:27
Alignment explanation
Indices: 32901949--32902044 Score: 79
Period size: 31 Copynumber: 3.4 Consensus size: 27
32901939 GCCAATTCAG
* *
32901949 GTACCAAATTGGGTCCAAAAAAGTTTAG
1 GTACCAAATTGAGT-CAAAAAAGTTTAA
* *
32901977 GTACCAAATTAAG--AAAAAGTGTTACGTTCAA
1 GTACCAAATTGAGTCAAAAA-----A-GTTTAA
32902008 GTACCAAATTGAGTCAAAAAAGTTTAA
1 GTACCAAATTGAGTCAAAAAAGTTTAA
32902035 GTACCAAATT
1 GTACCAAATT
32902045 AATAAAAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
25 5 0.09
27 15 0.28
28 12 0.22
30 1 0.02
31 16 0.30
33 5 0.09
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.26
Consensus pattern (27 bp):
GTACCAAATTGAGTCAAAAAAGTTTAA
Found at i:32902053 original size:27 final size:27
Alignment explanation
Indices: 32901965--32902054 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
32901955 AATTGGGTCC
* *
32901965 AAAAAAGTTTAGGTACCAAATTAAGAA
1 AAAAAAGTTTAAGTACCAAATTAATAA
* * * * *
32901992 AAAGTGTTACGTTCAAGTACCAAATTGAGT-C
1 AAA----AAAGTTTAAGTACCAAATT-AATAA
32902023 AAAAAAGTTTAAGTACCAAATTAATAA
1 AAAAAAGTTTAAGTACCAAATTAATAA
32902050 AAAAA
1 AAAAA
32902055 TGTCAAATTC
Statistics
Matches: 45, Mismatches: 12, Indels: 12
0.65 0.17 0.17
Matches are distributed among these distances:
26 2 0.04
27 24 0.53
31 18 0.40
32 1 0.02
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.24
Consensus pattern (27 bp):
AAAAAAGTTTAAGTACCAAATTAATAA
Found at i:32902071 original size:59 final size:59
Alignment explanation
Indices: 32901918--32902075 Score: 185
Period size: 59 Copynumber: 2.6 Consensus size: 59
32901908 AACCTTAGGC
* * *
32901918 ACCAAATTAGAAAAAGAAAATG-CCAATTCAGGTACCAAATTGGGTCCAAAAAAGTTTAGGT
1 ACCAAATT--AAAAA-AAAATGTCAAATTCAGGTACCAAATTGAGTCCAAAAAAGTTTAAGT
* * * ** *
32901979 ACCAAATTAAGAAAAAGTGTTACGTTCAAGTACCAAATTGAGT-CAAAAAAGTTTAAGT
1 ACCAAATTAAAAAAAAATGTCAAATTCAGGTACCAAATTGAGTCCAAAAAAGTTTAAGT
32902037 ACCAAATTAATAAAAAAATGTCAAATTCAGGTACCAAAT
1 ACCAAATTAA-AAAAAAATGTCAAATTCAGGTACCAAAT
32902076 ATTATATTAA
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
58 29 0.36
59 43 0.54
61 8 0.10
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.23
Consensus pattern (59 bp):
ACCAAATTAAAAAAAAATGTCAAATTCAGGTACCAAATTGAGTCCAAAAAAGTTTAAGT
Found at i:32914662 original size:13 final size:14
Alignment explanation
Indices: 32914644--32914673 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
32914634 TATTGTGACC
32914644 GTTGTT-GAATGTG
1 GTTGTTGGAATGTG
32914657 GTTGTTGGAATGTG
1 GTTGTTGGAATGTG
32914671 GTT
1 GTT
32914674 TAGGCTTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.47
Consensus pattern (14 bp):
GTTGTTGGAATGTG
Found at i:32917813 original size:39 final size:39
Alignment explanation
Indices: 32917731--32917941 Score: 236
Period size: 39 Copynumber: 5.4 Consensus size: 39
32917721 TGTTACAGGC
32917731 AGTGACACTGTAAACACTGGCAATGCTATACT-AAACTGAT
1 AGTGACACTGTAAACACT-GCAATGCTATACTGAAACTG-T
** * *
32917771 AGTGACACTGTAAACACTATAATGCTATACTGAACCAGT
1 AGTGACACTGTAAACACTGCAATGCTATACTGAAACTGT
*
32917810 AGTGACACTGTAAACACTGCAGTGCTATACT-AAACTGCT
1 AGTGACACTGTAAACACTGCAATGCTATACTGAAACTG-T
* *
32917849 AGTGACACTGTAAACACTACAAT-ATAATACTG-AACTG-
1 AGTGACACTGTAAACACTGCAATGCT-ATACTGAAACTGT
* *
32917886 ACGGTGACACTGTAAACACCGCAATGCTATACTG-AGCTGGT
1 A--GTGACACTGTAAACACTGCAATGCTATACTGAAACT-GT
32917927 AGTGACACTGTAAAC
1 AGTGACACTGTAAAC
32917942 CCTACCAGGT
Statistics
Matches: 146, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
37 1 0.01
38 5 0.03
39 115 0.79
40 24 0.16
41 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.24
Consensus pattern (39 bp):
AGTGACACTGTAAACACTGCAATGCTATACTGAAACTGT
Done.