Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 114 of 335
Found at i:35071847 original size:3 final size:3
Alignment explanation
Indices: 35071832--35071890 Score: 61
Period size: 3 Copynumber: 20.7 Consensus size: 3
35071822 TTCGGGAACA
* * * *
35071832 AAG AAG GAG AAG AAG AAA AAG AA- AAG AAG GAG AAG AAG GA- AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
35071878 -AG AAG AAG AAG AA
1 AAG AAG AAG AAG AA
35071891 TGAGGAGCCG
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
2 5 0.11
3 40 0.89
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:35071865 original size:17 final size:17
Alignment explanation
Indices: 35071839--35071887 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
35071829 ACAAAGAAGG
* *
35071839 AGAAGAAGAAAAAGAAA
1 AGAAGGAGAAGAAGAAA
*
35071856 AGAAGGAGAAGAAGGAA
1 AGAAGGAGAAGAAGAAA
35071873 AGAA-GAGAAGAAGAA
1 AGAAGGAGAAGAAGAA
35071888 GAATGAGGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 10 0.36
17 18 0.64
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (17 bp):
AGAAGGAGAAGAAGAAA
Found at i:35072623 original size:150 final size:149
Alignment explanation
Indices: 35072452--35072970 Score: 767
Period size: 150 Copynumber: 3.5 Consensus size: 149
35072442 TGCTGATGAG
* * * *
35072452 TTTTTTGCTAAAATAATATAAAAAATAAAATATGAAAATATTATATTTTAAAAAATAAAATACGA
1 TTTTTAGCTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGA
* * *
35072517 AAATAAAAAAATATGAACAAAGTGTCAAAGTCAAGGTTATTTATTAAATTAATATAAAAAACACT
66 AAATAAAAAAATAAGAACAAAGTG-CAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACT
35072582 TAAATAATACATTTGAAACA
130 TAAATAATACATTTGAAACA
* *
35072602 TTTTTAGCTAAAGTAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACAA
1 TTTTTAGCTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGA
* * * *
35072667 AAAT-AAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAA-AAATATAAAAAATACT
66 AAATAAAAAAATAAGAACAAAGTGC-AAAATCAGGGTTATTTATTAAATTAATATAAAAAACACT
*
35072730 TAAATAATACATTTGAAATA
130 TAAATAATACATTTGAAACA
* * *
35072750 TTATGTA-CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATAG
1 TT-TTTAGCTAAAATAATATAAA-AAATAAAATACGAAAATAATATATTTTAAAAAATAATATAC
* * *
35072814 GAAAATAAAAAAATAAGAAGAAAATGCCAAAATCAGGGTTGTTTATTAAATTAATAT-AAAAACA
64 GAAAATAAAAAAATAAGAACAAAGTG-CAAAATCAGGGTTATTTATTAAATTAATATAAAAAACA
35072878 CTTAAATAATACATTTGAAACA
128 CTTAAATAATACATTTGAAACA
*
35072900 TTTTTTGCTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACG
1 TTTTTAGCTAAAATAATAT-AAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACG
35072965 AAAATA
65 AAAATA
35072971 TTTTACTTAT
Statistics
Matches: 332, Mismatches: 29, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
148 50 0.15
149 86 0.26
150 187 0.56
151 9 0.03
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.30
Consensus pattern (149 bp):
TTTTTAGCTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGA
AAATAAAAAAATAAGAACAAAGTGCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTT
AAATAATACATTTGAAACA
Found at i:35072845 original size:21 final size:21
Alignment explanation
Indices: 35072800--35072838 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
35072790 AATATATTTT
35072800 AAAAAATAAGATAGGAAAATA
1 AAAAAATAAGATAGGAAAATA
35072821 AAAAAATAAGA-A-GAAAAT
1 AAAAAATAAGATAGGAAAAT
35072839 GCCAAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 11 0.61
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (21 bp):
AAAAAATAAGATAGGAAAATA
Found at i:35074077 original size:18 final size:17
Alignment explanation
Indices: 35074054--35074089 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
35074044 AATAAATATA
*
35074054 TATATTTTTATTTTTAAT
1 TATATTTATA-TTTTAAT
35074072 TATATTTATATTTTAAT
1 TATATTTATATTTTAAT
35074089 T
1 T
35074090 TTAATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATATTTATATTTTAAT
Found at i:35074081 original size:24 final size:23
Alignment explanation
Indices: 35074049--35074122 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
35074039 TATATAATAA
*
35074049 ATATATATATTTTTATTTTTAATT
1 ATATATATA-TTTTAATTTTAATT
*
35074073 ATATTTATATTTTAATTTTAATT
1 ATATATATATTTTAATTTTAATT
* * * *
35074096 TTA-ATATA-ATCAATTTTTATT
1 ATATATATATTTTAATTTTAATT
35074117 ATATAT
1 ATATAT
35074123 TTTCAATTTG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 12 0.29
22 6 0.15
23 15 0.37
24 8 0.20
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (23 bp):
ATATATATATTTTAATTTTAATT
Found at i:35074128 original size:20 final size:19
Alignment explanation
Indices: 35074056--35074131 Score: 57
Period size: 20 Copynumber: 3.9 Consensus size: 19
35074046 TAAATATATA
* * *
35074056 TATTTTTATTTTTAA-TTA
1 TATTTATATTTTCAATTTT
35074074 TATTTATATTTT-AATTTT
1 TATTTATATTTTCAATTTT
* **
35074092 AATTTTAATATAATCAATTTT
1 TA-TTT-ATATTTTCAATTTT
35074113 TATTATATATTTTCAATTT
1 TATT-TATATTTTCAATTT
35074132 GTGTATTGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
17 2 0.04
18 14 0.31
19 3 0.07
20 18 0.40
21 8 0.18
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTATATTTTCAATTTT
Found at i:35074183 original size:39 final size:40
Alignment explanation
Indices: 35074117--35074196 Score: 108
Period size: 39 Copynumber: 2.0 Consensus size: 40
35074107 AATTTTTATT
35074117 ATATATTTTCAATTTGTGTATTGTTTTAATAATTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAATAATTGTTTTA
* * * * *
35074157 ATATATTTT-TATTTGTTTCTTTTTTTAATATTTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAATAATTGTTTTA
35074196 A
1 A
35074197 ATGTATTTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
39 26 0.74
40 9 0.26
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.65
Consensus pattern (40 bp):
ATATATTTTCAATTTGTGTATTGTTTTAATAATTGTTTTA
Found at i:35075325 original size:72 final size:72
Alignment explanation
Indices: 35075200--35075338 Score: 199
Period size: 72 Copynumber: 1.9 Consensus size: 72
35075190 CGAGCTATCG
* * *
35075200 CATTCACATTCGACTGATACTTCTTATCATCCGGATTTGGCGAGCAATGACTATTTCCCGGGCTC
1 CATTCACATTCGACTGATACTTCTTATCATCCGGATTTGCCGAGAAATAACTATTTCCCGGGCTC
35075265 GTCATCA
66 GTCATCA
** * *
35075272 CATTCACATTCGGTTGATACTTCTTATCATCCGGATTTTCCG-GAAAATAACTATTTTCCGGGCT
1 CATTCACATTCGACTGATACTTCTTATCATCCGGATTTGCCGAG-AAATAACTATTTCCCGGGCT
35075336 CGT
65 CGT
35075339 TAGAGGGCGG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
71 1 0.02
72 58 0.98
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (72 bp):
CATTCACATTCGACTGATACTTCTTATCATCCGGATTTGCCGAGAAATAACTATTTCCCGGGCTC
GTCATCA
Found at i:35075895 original size:17 final size:17
Alignment explanation
Indices: 35075875--35075913 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
35075865 AATACATTAC
35075875 AACATTAATCT-AATTGG
1 AACATTAAT-TAAATTGG
35075892 AACATTAATTAAATTGG
1 AACATTAATTAAATTGG
35075909 AACAT
1 AACAT
35075914 ACTATTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (17 bp):
AACATTAATTAAATTGG
Found at i:35079132 original size:15 final size:16
Alignment explanation
Indices: 35079111--35079146 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
35079101 ACGCAGTGAG
35079111 ATCTTGAGCTCTATGT
1 ATCTTGAGCTCTATGT
35079127 -TCTTGAGCTCTATGT
1 ATCTTGAGCTCTATGT
35079142 ATCTT
1 ATCTT
35079147 CCTCTGGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (16 bp):
ATCTTGAGCTCTATGT
Found at i:35080150 original size:42 final size:39
Alignment explanation
Indices: 35080081--35080159 Score: 104
Period size: 39 Copynumber: 1.9 Consensus size: 39
35080071 AGGGTTTACT
* * *
35080081 AACAATAATAATAACTAACAACAAAAAATAATAAAAATC
1 AACAATAATAATAACCAAAAACAAAAAACAATAAAAATC
35080120 AACAATAATAATAACAGCAAAAACACAAAAACAATAAAAA
1 AACAATAATAATAAC--CAAAAACA-AAAAACAATAAAAA
35080160 ATCCATTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 15 0.44
41 6 0.18
42 13 0.38
ACGTcount: A:0.71, C:0.14, G:0.01, T:0.14
Consensus pattern (39 bp):
AACAATAATAATAACCAAAAACAAAAAACAATAAAAATC
Found at i:35080211 original size:20 final size:20
Alignment explanation
Indices: 35080186--35080249 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
35080176 AAATTATACC
35080186 TTCTTTTTTCTTTTCTTTCT
1 TTCTTTTTTCTTTTCTTTCT
* * *
35080206 TTCTTTTTCCTTCTCCTTC-
1 TTCTTTTTTCTTTTCTTTCT
* *
35080225 TTCTTCTTCTCTTCTCCTTTCT
1 TTCTT-TTTTCTT-TTCTTTCT
35080247 TTC
1 TTC
35080250 CCTTTATTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 5 0.15
20 21 0.64
21 4 0.12
22 3 0.09
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (20 bp):
TTCTTTTTTCTTTTCTTTCT
Found at i:35081786 original size:38 final size:38
Alignment explanation
Indices: 35081744--35081824 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 38
35081734 ACTCTTTCAT
* * *
35081744 ATTTTCTCTTCTTTTATCATTCCAATTTAGAAAAG-TTA
1 ATTTTCTCTCCTCTTATCATCCCAATTTA-AAAAGATTA
*
35081782 ATTTTCTCTCCTCTTATTATCCCAATTTAAAAAGATTA
1 ATTTTCTCTCCTCTTATCATCCCAATTTAAAAAGATTA
35081820 ATTTT
1 ATTTT
35081825 AAGCATTAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 5 0.13
38 33 0.87
ACGTcount: A:0.30, C:0.17, G:0.04, T:0.49
Consensus pattern (38 bp):
ATTTTCTCTCCTCTTATCATCCCAATTTAAAAAGATTA
Found at i:35082151 original size:17 final size:17
Alignment explanation
Indices: 35082129--35082163 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
35082119 CCCCAATCAT
35082129 TTTTTTATTATTAATATAA
1 TTTTTTA-T-TTAATATAA
35082148 TTTTTTATTTAATATA
1 TTTTTTATTTAATATA
35082164 TATAACATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTTATTTAATATAA
Found at i:35082166 original size:21 final size:19
Alignment explanation
Indices: 35082129--35082168 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
35082119 CCCCAATCAT
*
35082129 TTTTTTATTATTAATATAA
1 TTTTTTATTAATAATATAA
35082148 TTTTTTATTTAATATATATAA
1 TTTTTTA-TTAATA-ATATAA
35082169 CATAAGCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTTATTAATAATATAA
Found at i:35095273 original size:32 final size:32
Alignment explanation
Indices: 35095237--35095305 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
35095227 TGAAAAATCA
*
35095237 AATTTAAAAGGAAAT-TTTCAAATTATATATTT
1 AATTTAAAA-GAAATAATTCAAATTATATATTT
*** *
35095269 AATTTTGTAGAAATAATTCAATTTATATATTT
1 AATTTAAAAGAAATAATTCAAATTATATATTT
35095301 AATTT
1 AATTT
35095306 CAATATCTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 5 0.16
32 26 0.84
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (32 bp):
AATTTAAAAGAAATAATTCAAATTATATATTT
Found at i:35098915 original size:23 final size:24
Alignment explanation
Indices: 35098877--35098925 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
35098867 AATTTTAAAA
* *
35098877 TCTAAAAATTAGAAAGATTAAATT
1 TCTAAAAATTAAAAAGATCAAATT
*
35098901 TCTAAAAA-TAAAAAGGTCAAATT
1 TCTAAAAATTAAAAAGATCAAATT
35098924 TC
1 TC
35098926 AAACGCACGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (24 bp):
TCTAAAAATTAAAAAGATCAAATT
Found at i:35103570 original size:13 final size:13
Alignment explanation
Indices: 35103552--35103596 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
35103542 ATATTAAAAT
35103552 ATATTAATATAAA
1 ATATTAATATAAA
* *
35103565 ATATTATTTTAAAA
1 ATATTAATAT-AAA
*
35103579 ATATTAGTATAAA
1 ATATTAATATAAA
35103592 ATATT
1 ATATT
35103597 TATTTTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (13 bp):
ATATTAATATAAA
Found at i:35103589 original size:27 final size:29
Alignment explanation
Indices: 35103545--35103602 Score: 93
Period size: 27 Copynumber: 2.1 Consensus size: 29
35103535 TACTAATATA
35103545 TTAAAATATATTAATATAAAATA-TTATT
1 TTAAAATATATTAATATAAAATATTTATT
*
35103573 TTAAAA-ATATTAGTATAAAATATTTATT
1 TTAAAATATATTAATATAAAATATTTATT
35103601 TT
1 TT
35103603 TTATATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 15 0.54
28 13 0.46
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
TTAAAATATATTAATATAAAATATTTATT
Found at i:35104804 original size:18 final size:19
Alignment explanation
Indices: 35104765--35104805 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
35104755 AAAAACTATA
35104765 ATATTTTTTTATGAATAAAT
1 ATATTTTTTTATGAAT-AAT
35104785 ATATTATTTTTAT-AAT-AT
1 ATATT-TTTTTATGAATAAT
35104803 ATA
1 ATA
35104806 GTACGGACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.25
20 8 0.40
21 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATATTTTTTTATGAATAAT
Found at i:35106557 original size:16 final size:16
Alignment explanation
Indices: 35106536--35106591 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
35106526 GTTTGGTTCA
*
35106536 CTGTAATAGAATAGGG
1 CTGTAATAGAATAGAG
*
35106552 CTGTAATTGAATAGAG
1 CTGTAATAGAATAGAG
*
35106568 CTGTAATGGAATAGAG
1 CTGTAATAGAATAGAG
35106584 CTGTAATA
1 CTGTAATA
35106592 AGTAATTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.29
Consensus pattern (16 bp):
CTGTAATAGAATAGAG
Found at i:35106625 original size:46 final size:44
Alignment explanation
Indices: 35106572--35106665 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
35106562 ATAGAGCTGT
*
35106572 AATGGAATAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAAT-AGT-ATTCAACTGTTTGGTTGAATGG
*** *
35106618 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGGATGG
1 AATGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATGG
35106662 AATG
1 AATG
35106666 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 22 0.51
45 3 0.07
46 18 0.42
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATGG
Found at i:35106859 original size:17 final size:17
Alignment explanation
Indices: 35106837--35106869 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
35106827 AATTATTATT
35106837 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
35106854 AAATATAATTTAATAA
1 AAATATAATTTAATAA
35106870 CATTCATTAT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:35107402 original size:18 final size:18
Alignment explanation
Indices: 35107379--35107413 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35107369 ACGTGGTAGT
*
35107379 CCAACTAGATTTTAAGTG
1 CCAACTAGATCTTAAGTG
35107397 CCAACTAGATCTTAAGT
1 CCAACTAGATCTTAAGT
35107414 ATATCTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (18 bp):
CCAACTAGATCTTAAGTG
Found at i:35107472 original size:40 final size:40
Alignment explanation
Indices: 35107421--35107665 Score: 364
Period size: 40 Copynumber: 6.1 Consensus size: 40
35107411 AGTATATCTG
* * *
35107421 TTAATACATACTTCATCCGGGTAAATTATACAATTTTCTG
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
*
35107461 TTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTA
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
* * *
35107501 TTAATACATACTTCATCCGGATAAATTATACAGTTTTCTG
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
*
35107541 TTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTA
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
* *
35107581 TTAATACATACTTTACCCAGGTAAATTATACAGTTTTCTA
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
** * *
35107621 TTAATATGTACTTCATCCGGATAAATTATACAGTTTTCTA
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
35107661 TTAAT
1 TTAAT
35107666 GTGCTTGTGA
Statistics
Matches: 186, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 186 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (40 bp):
TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
Found at i:35107633 original size:120 final size:120
Alignment explanation
Indices: 35107417--35107665 Score: 426
Period size: 120 Copynumber: 2.1 Consensus size: 120
35107407 CTTAAGTATA
* * *
35107417 TCTGTTAATACATACTTCATCCGGGTAAATTATACAATTTTCTGTTAATACATACTTTACCCGGG
1 TCTGTTAATACATACTTCACCCGGGTAAATTATACAATTTTCTATTAATACATACTTTACCCAGG
35107482 TAAATTATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
66 TAAATTATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
* *
35107537 TCTGTTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTATTAATACATACTTTACCCAGG
1 TCTGTTAATACATACTTCACCCGGGTAAATTATACAATTTTCTATTAATACATACTTTACCCAGG
**
35107602 TAAATTATACAGTTTTCTATTAATATGTACTTCATCCGGATAAATTATACAGTTT
66 TAAATTATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
*
35107657 TCTATTAAT
1 TCTGTTAAT
35107666 GTGCTTGTGA
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.41
Consensus pattern (120 bp):
TCTGTTAATACATACTTCACCCGGGTAAATTATACAATTTTCTATTAATACATACTTTACCCAGG
TAAATTATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
Found at i:35111722 original size:46 final size:44
Alignment explanation
Indices: 35111663--35111777 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
35111653 ACAGGACAGA
* *
35111663 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
35111709 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
35111753 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
35111778 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:35111758 original size:44 final size:45
Alignment explanation
Indices: 35111663--35111796 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
35111653 ACAGGACAGA
* *
35111663 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
35111709 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
35111753 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
35111797 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:35117868 original size:46 final size:44
Alignment explanation
Indices: 35117809--35117923 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
35117799 ACAGGACAGA
* *
35117809 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
35117855 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
35117899 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
35117924 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:35117904 original size:44 final size:45
Alignment explanation
Indices: 35117809--35117942 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
35117799 ACAGGACAGA
* *
35117809 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
35117855 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
35117899 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
35117943 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:35124090 original size:9 final size:9
Alignment explanation
Indices: 35124076--35124270 Score: 81
Period size: 9 Copynumber: 20.7 Consensus size: 9
35124066 CTGATTTTAT
35124076 TAAAAATTA
1 TAAAAATTA
35124085 TAAAAAAATTA
1 T--AAAAATTA
35124096 TAAAAA--A
1 TAAAAATTA
* *
35124103 TTAAAATCAA
1 TAAAAAT-TA
**
35124113 TAAAAGCTA
1 TAAAAATTA
*
35124122 TAAATATTA
1 TAAAAATTA
**
35124131 TTAAATTTTTAA
1 -TAAA-AATT-A
*
35124143 TAAAAATCA
1 TAAAAATTA
35124152 TAAAAATTA
1 TAAAAATTA
* *
35124161 GAAAAAAATA
1 -TAAAAATTA
* *
35124171 GAAAAAATA
1 TAAAAATTA
*
35124180 TAAAAATCA
1 TAAAAATTA
* *
35124189 TTAAAAAGTG
1 -TAAAAATTA
*
35124199 TAAAAATTTG
1 TAAAAA-TTA
*
35124209 TAAAATTTTA
1 TAAAA-ATTA
35124219 TAAAAATCGTA
1 TAAAAAT--TA
*
35124230 AAAAAATTA
1 TAAAAATTA
*
35124239 TAAAATTTA
1 TAAAAATTA
*
35124248 TAGAAA-TA
1 TAAAAATTA
35124256 TAAAAATTA
1 TAAAAATTA
35124265 TAAAAA
1 TAAAAA
35124271 ATTTATAAAG
Statistics
Matches: 139, Mismatches: 32, Indels: 30
0.69 0.16 0.15
Matches are distributed among these distances:
7 6 0.04
8 7 0.05
9 64 0.46
10 37 0.27
11 24 0.17
12 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:35124090 original size:10 final size:10
Alignment explanation
Indices: 35124072--35124105 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
35124062 GCTTCTGATT
*
35124072 TTATTAAAAA
1 TTATAAAAAA
35124082 TTATAAAAAAA
1 TTAT-AAAAAA
35124093 TTATAAAAAA
1 TTATAAAAAA
35124103 TTA
1 TTA
35124106 AAATCAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:35124093 original size:11 final size:11
Alignment explanation
Indices: 35124077--35124102 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
35124067 TGATTTTATT
35124077 AAAAATTATAA
1 AAAAATTATAA
35124088 AAAAATTATAA
1 AAAAATTATAA
35124099 AAAA
1 AAAA
35124103 TTAAAATCAA
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:35124166 original size:76 final size:76
Alignment explanation
Indices: 35124076--35124233 Score: 189
Period size: 76 Copynumber: 2.1 Consensus size: 76
35124066 CTGATTTTAT
* * * *
35124076 TAAAAATTATAAAAAAATTATAAAAAAT-T-AAAATCAAT-AAAAGCTATAAATATTAT-TAAAT
1 TAAAAATTAGAAAAAAA-TAGAAAAAATATAAAAATCAATAAAAAG-TATAAAAATT-TGTAAAA
35124137 TTTTAATAAAAATCA
63 TTTT-ATAAAAATCA
* *
35124152 TAAAAATTAGAAAAAAATAGAAAAAATATAAAAATCATTAAAAAGTGTAAAAATTTGTAAAATTT
1 TAAAAATTAGAAAAAAATAGAAAAAATATAAAAATCAATAAAAAGTATAAAAATTTGTAAAATTT
*
35124217 TATAAAAATCG
66 TATAAAAATCA
35124228 TAAAAA
1 TAAAAA
35124234 AATTATAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
75 9 0.13
76 33 0.46
77 24 0.34
78 5 0.07
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (76 bp):
TAAAAATTAGAAAAAAATAGAAAAAATATAAAAATCAATAAAAAGTATAAAAATTTGTAAAATTT
TATAAAAATCA
Found at i:35124194 original size:19 final size:19
Alignment explanation
Indices: 35124142--35124205 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
35124132 TAAATTTTTA
*
35124142 ATAAAAATCA-TAAAAATT
1 ATAAAAATCATTAAAAAAT
* * *
35124160 AGAAAAA-AATAGAAAAAAT
1 ATAAAAATCAT-TAAAAAAT
*
35124179 ATAAAAATCATTAAAAAGT
1 ATAAAAATCATTAAAAAAT
*
35124198 GTAAAAAT
1 ATAAAAAT
35124206 TTGTAAAATT
Statistics
Matches: 34, Mismatches: 9, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
17 1 0.03
18 6 0.18
19 25 0.74
20 2 0.06
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (19 bp):
ATAAAAATCATTAAAAAAT
Found at i:35124222 original size:29 final size:27
Alignment explanation
Indices: 35124190--35124279 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 27
35124180 TAAAAATCAT
*
35124190 TAAAAAGTGTAAAAATTTGTAAAATTTTA
1 TAAAAA-TGTAAAAATTTATAAAA-TTTA
*
35124219 TAAAAATCGTAAAAAAATTATAAAATTTA
1 TAAAAAT-GT-AAAAATTTATAAAATTTA
* * *
35124248 TAGAAATATAAAAATTATAAAAAATTTA
1 TAAAAATGTAAAAATT-TATAAAATTTA
35124276 TAAA
1 TAAA
35124280 GTCATGAGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
27 6 0.12
28 15 0.29
29 18 0.35
30 12 0.24
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (27 bp):
TAAAAATGTAAAAATTTATAAAATTTA
Found at i:35124276 original size:11 final size:10
Alignment explanation
Indices: 35124144--35124279 Score: 56
Period size: 10 Copynumber: 14.2 Consensus size: 10
35124134 AATTTTTAAT
*
35124144 AAAAATCAT-
1 AAAAATTATA
*
35124153 AAAAATTAGA
1 AAAAATTATA
* *
35124163 AAAAAATAGA
1 AAAAATTATA
35124173 AAAAA-TAT-
1 AAAAATTATA
* *
35124181 AAAAATCATT
1 AAAAATTATA
* *
35124191 AAAAAGTGTA
1 AAAAATTATA
* *
35124201 AAAATTTGTA
1 AAAAATTATA
**
35124211 AAATTTTAT-
1 AAAAATTATA
35124220 AAAAATCGTA-A
1 AAAAAT--TATA
35124231 AAAAATTAT-
1 AAAAATTATA
*
35124240 AAAATTTAT-
1 AAAAATTATA
*
35124249 AGAAA-TAT-
1 AAAAATTATA
35124257 AAAAATTATA
1 AAAAATTATA
35124267 AAAAATTTATA
1 AAAAA-TTATA
35124278 AA
1 AA
35124280 GTCATGAGAA
Statistics
Matches: 98, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
8 12 0.12
9 31 0.32
10 40 0.41
11 15 0.15
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (10 bp):
AAAAATTATA
Found at i:35124521 original size:27 final size:27
Alignment explanation
Indices: 35124467--35124520 Score: 85
Period size: 26 Copynumber: 2.0 Consensus size: 27
35124457 AACTAGGGTC
35124467 ATTAAATTTTTTTATGATTTTTATAAA
1 ATTAAATTTTTTTATGATTTTTATAAA
35124494 ATTAAA-TTTTTTACT-ATTTTTATAAA
1 ATTAAATTTTTTTA-TGATTTTTATAAA
35124520 A
1 A
35124521 AATTTATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (27 bp):
ATTAAATTTTTTTATGATTTTTATAAA
Found at i:35124543 original size:18 final size:18
Alignment explanation
Indices: 35124512--35124556 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
35124502 TTTTACTATT
*
35124512 TTTATAA-AAAATTTATAA
1 TTTATAATAAATTTTA-AA
*
35124530 TTTTTAATAAATTTTAAA
1 TTTATAATAAATTTTAAA
35124548 TTTATAATA
1 TTTATAATA
35124557 TTTTTATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATAATAAATTTTAAA
Found at i:35124562 original size:47 final size:46
Alignment explanation
Indices: 35124477--35124582 Score: 117
Period size: 47 Copynumber: 2.3 Consensus size: 46
35124467 ATTAAATTTT
* * *
35124477 TTTATGATTTTT-ATAAAATTAAATTTTTTACTATTTTTATAAAAAA
1 TTTATAATTTTTAATAAAATTAAATTTTATAATATTTTTAT-AAAAA
* *
35124523 TTTATAATTTTTAATAAATTTTAAA-TTTATAATATTTTTATTAAAA
1 TTTATAATTTTTAATAAA-ATTAAATTTTATAATATTTTTATAAAAA
*
35124569 TTTATTATATTTTA
1 TTTATAAT-TTTTA
35124583 CAATTTTGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
46 22 0.43
47 24 0.47
48 5 0.10
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.58
Consensus pattern (46 bp):
TTTATAATTTTTAATAAAATTAAATTTTATAATATTTTTATAAAAA
Found at i:35124567 original size:27 final size:25
Alignment explanation
Indices: 35124520--35124572 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
35124510 TTTTTATAAA
*
35124520 AAATTTATAATTTTTAATAAATTTT
1 AAATTTATAATTTTTAATAAAATTT
*
35124545 AAATTTATAATATTTTTATTAAAATTT
1 AAATTTAT-A-ATTTTTAATAAAATTT
35124572 A
1 A
35124573 TTATATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 1 0.04
27 15 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
AAATTTATAATTTTTAATAAAATTT
Found at i:35124771 original size:85 final size:84
Alignment explanation
Indices: 35124610--35124778 Score: 187
Period size: 85 Copynumber: 2.0 Consensus size: 84
35124600 TTAATAAGAG
* * * * *
35124610 CAGGGGCTTAATTGCTTTTTTGAAAATTTTAAGGATATTTTTGATGCATTTTGAAAGTTCAATTA
1 CAGGGGCTTAATTGCTTTTTTGAAAAGTTTAAGGACATTTTTGATGCATTCTAAAAGTTCAAGTA
*
35124675 CCCAATTGAGTG-AAAAAA
66 CCCAATCGAGTGCAAAAAA
* * * *
35124693 CAGGGGCTTAATTGCTTTTTTTGAAGAAGTTTGAGGGCCTTTTTGATTCATTCTAAAAGTTCAAG
1 CAGGGGCTTAATTGC-TTTTTTGAA-AAGTTTAAGGACATTTTTGATGCATTCTAAAAGTTCAAG
****
35124758 TGTTTAATCGAGTGCAAAAAA
64 TACCCAATCGAGTGCAAAAAA
35124779 AAAAGAGAGA
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
83 15 0.22
84 9 0.13
85 39 0.57
86 6 0.09
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (84 bp):
CAGGGGCTTAATTGCTTTTTTGAAAAGTTTAAGGACATTTTTGATGCATTCTAAAAGTTCAAGTA
CCCAATCGAGTGCAAAAAA
Found at i:35128771 original size:16 final size:16
Alignment explanation
Indices: 35128750--35128788 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
35128740 AAATAATGCT
35128750 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
35128766 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCC
35128782 ATTACAG
1 ATTACAG
35128789 TGAACCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:35129446 original size:23 final size:24
Alignment explanation
Indices: 35129416--35129465 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
35129406 TATTTCTTTT
* *
35129416 AAATATTTTAAAATTTACAATA-A
1 AAATATTTGAAAATTTAAAATATA
*
35129439 AAATATTTGAAATTTTAAAATATA
1 AAATATTTGAAAATTTAAAATATA
35129463 AAA
1 AAA
35129466 AAATATATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATATTTGAAAATTTAAAATATA
Found at i:35130767 original size:3 final size:3
Alignment explanation
Indices: 35130761--35130802 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
35130751 CAACAACAAC
35130761 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
35130803 TTAAGACAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:35134875 original size:18 final size:18
Alignment explanation
Indices: 35134854--35134918 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
35134844 ATTATTAAAC
35134854 TATTATAAAAAATAAAAA
1 TATTATAAAAAATAAAAA
*
35134872 TATTATTAAAAAAT-TAAA
1 TATTA-TAAAAAATAAAAA
*
35134890 TACTA-AAAAATATAAAAA
1 TATTATAAAAA-ATAAAAA
35134908 TA-TATAAAAAA
1 TATTATAAAAAA
35134919 ACTATTAAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
16 5 0.12
17 5 0.12
18 22 0.55
19 8 0.20
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
TATTATAAAAAATAAAAA
Found at i:35141717 original size:34 final size:35
Alignment explanation
Indices: 35141679--35141746 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
35141669 TAAAAGTTTT
35141679 TTATATAATATAAATTATAT-AAAAAATAA-AAAAC
1 TTATATAATATAAA-TATATCAAAAAATAAGAAAAC
*
35141713 TTATATAATATAAATATTTCAAAAAATAAGAAAA
1 TTATATAATATAAATATATCAAAAAATAAGAAAA
35141747 AAATAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 4 0.13
34 23 0.74
35 4 0.13
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (35 bp):
TTATATAATATAAATATATCAAAAAATAAGAAAAC
Found at i:35142216 original size:26 final size:26
Alignment explanation
Indices: 35142177--35142242 Score: 116
Period size: 26 Copynumber: 2.5 Consensus size: 26
35142167 ACCTCATAAA
35142177 CTACTGTT-TCATATCACTGTAGCAAT
1 CTACTGTTAT-ATATCACTGTAGCAAT
35142203 CTACTGTTATATATCACTGTAGCAAT
1 CTACTGTTATATATCACTGTAGCAAT
35142229 CTACTGTTATATAT
1 CTACTGTTATATAT
35142243 GAAGGGGACT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 38 0.97
27 1 0.03
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.41
Consensus pattern (26 bp):
CTACTGTTATATATCACTGTAGCAAT
Found at i:35147328 original size:111 final size:111
Alignment explanation
Indices: 35147187--35147405 Score: 438
Period size: 111 Copynumber: 2.0 Consensus size: 111
35147177 TGTAAATGCA
35147187 TTTACACATGGTGGACTCAGAACTTAGATATTGATATTGTTACTTCATCTTTCTTATTTTATATA
1 TTTACACATGGTGGACTCAGAACTTAGATATTGATATTGTTACTTCATCTTTCTTATTTTATATA
35147252 TTAAAAAAGATATTTAATCAATATTTTTTAAACCGGACCAATAATT
66 TTAAAAAAGATATTTAATCAATATTTTTTAAACCGGACCAATAATT
35147298 TTTACACATGGTGGACTCAGAACTTAGATATTGATATTGTTACTTCATCTTTCTTATTTTATATA
1 TTTACACATGGTGGACTCAGAACTTAGATATTGATATTGTTACTTCATCTTTCTTATTTTATATA
35147363 TTAAAAAAGATATTTAATCAATATTTTTTAAACCGGACCAATA
66 TTAAAAAAGATATTTAATCAATATTTTTTAAACCGGACCAATA
35147406 GTTTAACCAA
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 108 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (111 bp):
TTTACACATGGTGGACTCAGAACTTAGATATTGATATTGTTACTTCATCTTTCTTATTTTATATA
TTAAAAAAGATATTTAATCAATATTTTTTAAACCGGACCAATAATT
Found at i:35149725 original size:16 final size:17
Alignment explanation
Indices: 35149698--35149731 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
35149688 CCTACACTAC
*
35149698 AGAATCTTCATTTTAGA
1 AGAATCTTCATTTGAGA
35149715 AGAAT-TTCATTTGAGA
1 AGAATCTTCATTTGAGA
35149731 A
1 A
35149732 TCGGTGCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (17 bp):
AGAATCTTCATTTGAGA
Found at i:35152093 original size:23 final size:23
Alignment explanation
Indices: 35152067--35152138 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
35152057 TCACCATTGA
35152067 AACATGAATCATATATAGTTCTT
1 AACATGAATCATATATAGTTCTT
* * * *
35152090 AACATGAAATTATA-ACTAATAAC-A
1 AACATG-AATCATATA-TAGT-TCTT
35152114 AACATGAATCATATATAGTTCTT
1 AACATGAATCATATATAGTTCTT
35152137 AA
1 AA
35152139 GATGTAATAA
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
22 1 0.03
23 18 0.50
24 16 0.44
25 1 0.03
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.33
Consensus pattern (23 bp):
AACATGAATCATATATAGTTCTT
Found at i:35158608 original size:13 final size:13
Alignment explanation
Indices: 35158590--35158616 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35158580 GTTTTGAGTG
35158590 ACAAATAGATTTT
1 ACAAATAGATTTT
35158603 ACAAATAGATTTT
1 ACAAATAGATTTT
35158616 A
1 A
35158617 GATATGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (13 bp):
ACAAATAGATTTT
Found at i:35158687 original size:15 final size:14
Alignment explanation
Indices: 35158657--35158691 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
35158647 GTTTGCCAGT
*
35158657 AAAATATTTTCTGA
1 AAAATAATTTCTGA
*
35158671 AAAATAATTTCTGG
1 AAAATAATTTCTGA
35158685 AAAATAA
1 AAAATAA
35158692 CTTACTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (14 bp):
AAAATAATTTCTGA
Found at i:35158710 original size:19 final size:20
Alignment explanation
Indices: 35158678--35158723 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
35158668 TGAAAAATAA
35158678 TTTCTGGAAAATAACTTACT
1 TTTCTGGAAAATAACTTACT
*
35158698 TTTCTGG-AAATAATTTACT
1 TTTCTGGAAAATAACTTACT
35158717 TTTCTGG
1 TTTCTGG
35158724 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (20 bp):
TTTCTGGAAAATAACTTACT
Found at i:35161266 original size:25 final size:25
Alignment explanation
Indices: 35161237--35161284 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
35161227 TTATAATATG
* *
35161237 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
35161262 AAAATGAGCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
35161285 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:35161351 original size:20 final size:20
Alignment explanation
Indices: 35161328--35161386 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
35161318 TAAACATGGT
35161328 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
35161348 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
35161368 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
35161387 GGTATTCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:35161368 original size:11 final size:11
Alignment explanation
Indices: 35161332--35161386 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
35161322 CATGGTATGT
35161332 ATGATATGCAC
1 ATGATATGCAC
* *
35161343 ATGACATG--T
1 ATGATATGCAC
35161352 ATGATATGCAC
1 ATGATATGCAC
*
35161363 ATGATATG--T
1 ATGATATGCAC
35161372 ATGATATGCAC
1 ATGATATGCAC
35161383 ATGA
1 ATGA
35161387 GGTATTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:35161464 original size:24 final size:24
Alignment explanation
Indices: 35161437--35161604 Score: 266
Period size: 24 Copynumber: 7.0 Consensus size: 24
35161427 AAGGAAGTGC
35161437 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
35161461 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
35161485 AAAAGGGCTTCTGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
35161509 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
35161533 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
35161557 AAAAGGGCTTTTGCCCCAGTTTTT
1 AAAAGGGCTTATGCCCCAGTTATT
*
35161581 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
35161605 ATGATAAAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
24 123 0.92
25 10 0.08
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:35164892 original size:61 final size:60
Alignment explanation
Indices: 35164774--35164924 Score: 139
Period size: 59 Copynumber: 2.5 Consensus size: 60
35164764 TTGGTCTAAT
* * *
35164774 AACAAATTTAGCGCTCTAATGTTTAC-ACATTCTATCAATTTGATCTTAAATATAAAAACTTC
1 AACAAATTTAGCCCT-TAATGTTTACAAAATTCTATCAATTTGATCTTAAATA-AAAAA-ATC
* *
35164836 AACAAATTTAGCCCTTAATGTTTACAAAATT-TGTC-ATTTTAGT-TTAAATTAAAAAAATC
1 AACAAATTTAGCCCTTAATGTTTACAAAATTCTATCAATTTGA-TCTTAAA-TAAAAAAATC
* * * **
35164895 AATAAAATTAGCCCTCAACATTTACAAAAT
1 AACAAATTTAGCCCTTAATGTTTACAAAAT
35164925 GATAAACTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
59 27 0.36
60 15 0.20
61 16 0.21
62 18 0.24
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (60 bp):
AACAAATTTAGCCCTTAATGTTTACAAAATTCTATCAATTTGATCTTAAATAAAAAAATC
Found at i:35167576 original size:24 final size:23
Alignment explanation
Indices: 35167549--35167594 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
35167539 GTATCAGAAA
*
35167549 GCTCAAGAGAGCTTATATCGGGAT
1 GCTCAAGAGAGC-TATAACGGGAT
* *
35167573 GCTCATGTGAGCTATAACGGGA
1 GCTCAAGAGAGCTATAACGGGA
35167595 CACTCTTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (23 bp):
GCTCAAGAGAGCTATAACGGGAT
Found at i:35176172 original size:5 final size:5
Alignment explanation
Indices: 35176162--35176190 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
35176152 ATTAAACTAT
35176162 TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
35176191 TTTATTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:35178783 original size:17 final size:17
Alignment explanation
Indices: 35178761--35178795 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
35178751 TTGCTAAGTT
*
35178761 TTCCATATTACTGTTTC
1 TTCCATATTACTATTTC
35178778 TTCCATATTACTATTTC
1 TTCCATATTACTATTTC
35178795 T
1 T
35178796 CCCGTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.23, G:0.03, T:0.54
Consensus pattern (17 bp):
TTCCATATTACTATTTC
Found at i:35181387 original size:23 final size:23
Alignment explanation
Indices: 35181356--35181404 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
35181346 CAAGAGAACT
*
35181356 TATATCGGGATGCTCATATGAGC
1 TATAACGGGATGCTCATATGAGC
* *
35181379 TATAACGGGATGCTCTTGTGAGC
1 TATAACGGGATGCTCATATGAGC
35181402 TAT
1 TAT
35181405 GATGTGTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (23 bp):
TATAACGGGATGCTCATATGAGC
Found at i:35181876 original size:43 final size:43
Alignment explanation
Indices: 35181829--35182199 Score: 435
Period size: 43 Copynumber: 8.6 Consensus size: 43
35181819 TATGTAAAAA
* *
35181829 AAACGCCACTAAAGAACATGACCTTTAGCAGCGCTTTTTCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTCCAC
* * *
35181872 AAACGCCGCTAAAGAACATGACCTTCAGCGGCGCTTTTCCCAT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTCCAC
*
35181915 AAACGCCGCTAAAGAACATGACCTTTA-CTGGCGTTTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGC-GGCGCTTTTT-CCAC
* ** * *
35181959 AAACGCCACTAAAGAACATGTTCTTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTCCAC
* * * * *
35182002 AAACGCCGCTAAAGAACACGTCATTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTCCAC
* *
35182045 AAACGCCGCTAAAGAACACGACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTCCAC
* * *
35182088 AAACGCTGCTGAAGAACATGACCTTTAGCGACGCTTTTTCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTCCAC
* * * * * *
35182131 AAATGCCACTATA-AA-ATAAACCTTTAGCGACAC-TTTTCTCAC
1 AAACGCCGCTAAAGAACAT-GACCTTTAGCGGCGCTTTTTC-CAC
35182173 AAACGCCGCTAAAGAACATGACCTTTA
1 AAACGCCGCTAAAGAACATGACCTTTA
35182200 AAAAAATAAA
Statistics
Matches: 282, Mismatches: 39, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
41 7 0.02
42 29 0.10
43 209 0.74
44 37 0.13
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTCCAC
Found at i:35181973 original size:130 final size:128
Alignment explanation
Indices: 35181829--35182199 Score: 460
Period size: 130 Copynumber: 2.9 Consensus size: 128
35181819 TATGTAAAAA
35181829 AAACGCCACTAAAGAACATGACCTTTAGCAGCGCTTTTTCCACAAACGCCGCTAAAGAACATGAC
1 AAACGCCACTAAAGAACATGACCTTTAGC-GCGCTTTTTCCACAAACGCCGCTAAAGAACATGAC
* * * *
35181894 CTTCAGCGGCGCTTTTCCCATAAACGCCGCTAAAGAACATGACCTTTA-CTGGCGTTTTTTCCCA
65 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGC-GGCG-CTTTTACCA
35181958 C
128 C
** * * * *
35181959 AAACGCCACTAAAGAACATGTTCTTTAGTGGCGCTTTTCCCACAAACGCCGCTAAAGAACACGTC
1 AAACGCCACTAAAGAACATGACCTTTAG-CGCGCTTTTTCCACAAACGCCGCTAAAGAACATGAC
* * *
35182024 ATTTAGTGGCGCTTTTCCCACAAACGCCGCTAAAGAACACGACCTTTAGCGGCGCTTTTACCAC
65 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTACCAC
** * * * * *
35182088 AAACGCTGCTGAAGAACATGACCTTTAGCGACGCTTTTTCCACAAATGCCACTATA-AA-ATAAA
1 AAACGCCACTAAAGAACATGACCTTTAGCG-CGCTTTTTCCACAAACGCCGCTAAAGAACAT-GA
* * *
35182151 CCTTTAGCGACACTTTTCTCACAAACGCCGCTAAAGAACATGACCTTTA
64 CCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTA
35182200 AAAAAATAAA
Statistics
Matches: 205, Mismatches: 32, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
127 1 0.00
128 46 0.22
129 52 0.25
130 105 0.51
131 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (128 bp):
AAACGCCACTAAAGAACATGACCTTTAGCGCGCTTTTTCCACAAACGCCGCTAAAGAACATGACC
TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTACCAC
Found at i:35185980 original size:41 final size:40
Alignment explanation
Indices: 35185894--35186012 Score: 125
Period size: 41 Copynumber: 2.9 Consensus size: 40
35185884 GGTCTTTTGC
* *
35185894 GGCGTTTT-CACAAAAAAAGCCATTATAGCTCAAATTTTAAA
1 GGCGTTTTGCAC-AAAAACGCCACTATAGCTC-AATTTTAAA
* **
35185935 GGCGTTTTTG-ATAAAAACGCCACTATAGCTCAATTTTATGT
1 GGCG-TTTTGCACAAAAACGCCACTATAGCTCAATTTTA-AA
* *
35185976 GGCGTTTTGCCCAAAAACGCCACTATTGCTCAATTTT
1 GGCGTTTTGCACAAAAACGCCACTATAGCTCAATTTT
35186013 GATTTTTTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
40 12 0.18
41 49 0.74
42 5 0.08
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (40 bp):
GGCGTTTTGCACAAAAACGCCACTATAGCTCAATTTTAAA
Found at i:35186151 original size:16 final size:17
Alignment explanation
Indices: 35186125--35186159 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
35186115 TATTAAAATA
35186125 TTAAATATTTAATTTTT
1 TTAAATATTTAATTTTT
35186142 TTAAAT-TTTAATTTTT
1 TTAAATATTTAATTTTT
35186158 TT
1 TT
35186160 GAAGATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTAAATATTTAATTTTT
Found at i:35186817 original size:21 final size:21
Alignment explanation
Indices: 35186799--35186840 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
35186789 ATACTAAATT
*
35186799 CTAAATCCTAGTCCATAAACC
1 CTAAATCCTAGACCATAAACC
*
35186820 CTAAATCTTAGACCATAAACC
1 CTAAATCCTAGACCATAAACC
35186841 TACACCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.31, G:0.05, T:0.24
Consensus pattern (21 bp):
CTAAATCCTAGACCATAAACC
Found at i:35187200 original size:7 final size:7
Alignment explanation
Indices: 35187188--35187414 Score: 75
Period size: 7 Copynumber: 31.7 Consensus size: 7
35187178 CTAATTAATA
35187188 TAAACCC
1 TAAACCC
35187195 TAAACCCC
1 TAAA-CCC
**
35187203 TATCCCC
1 TAAACCC
*
35187210 TAACCCC
1 TAAACCC
**
35187217 TATCCCC
1 TAAACCC
35187224 ATAAACCC
1 -TAAACCC
* *
35187232 TAAATCA
1 TAAACCC
* *
35187239 TAAAACA
1 TAAACCC
*
35187246 TAAACCA
1 TAAACCC
35187253 TAAACCC
1 TAAACCC
35187260 -ATAACCC
1 TA-AACCC
**
35187267 TTAATGCC
1 -TAAACCC
*
35187275 TAACCCC
1 TAAACCC
*
35187282 TAAACCT
1 TAAACCC
35187289 TAAACCC
1 TAAACCC
* *
35187296 -CAACACT
1 TAAAC-CC
*
35187303 TAAACCA
1 TAAACCC
*
35187310 TAAACCA
1 TAAACCC
*
35187317 TAAACCA
1 TAAACCC
*
35187324 TAATCCC
1 TAAACCC
35187331 TAAACCC
1 TAAACCC
* *
35187338 ATAATCCA
1 -TAAACCC
*
35187346 TAAACCT
1 TAAACCC
*
35187353 TAAA--A
1 TAAACCC
35187358 TAGTAACTCC
1 TA--AAC-CC
* *
35187368 TAAAGCT
1 TAAACCC
*
35187375 TAAATCC
1 TAAACCC
*
35187382 TAAACCA
1 TAAACCC
*
35187389 TATACCC
1 TAAACCC
*
35187396 TAAACCA
1 TAAACCC
35187403 TAAACCC
1 TAAACCC
35187410 TAAAC
1 TAAAC
35187415 TATAATGATA
Statistics
Matches: 165, Mismatches: 42, Indels: 26
0.71 0.18 0.11
Matches are distributed among these distances:
5 2 0.01
6 4 0.02
7 133 0.81
8 23 0.14
9 1 0.01
10 2 0.01
ACGTcount: A:0.44, C:0.35, G:0.01, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:35187240 original size:14 final size:14
Alignment explanation
Indices: 35187225--35187419 Score: 94
Period size: 14 Copynumber: 13.7 Consensus size: 14
35187215 CCTATCCCCA
* * *
35187225 TAAACCCTAAATCA
1 TAAACCATAAACCC
* *
35187239 TAAAACATAAACCA
1 TAAACCATAAACCC
35187253 TAAACCCAT-AACCC
1 TAAA-CCATAAACCC
* *
35187267 TTAATGCC-TAACCCC
1 -TAA-ACCATAAACCC
*
35187282 TAAACCTTAAACCC
1 TAAACCATAAACCC
* * *
35187296 -CAACACTTAAACCA
1 TAAAC-CATAAACCC
*
35187310 TAAACCATAAACCA
1 TAAACCATAAACCC
* *
35187324 TAATCCCTAAACCC
1 TAAACCATAAACCC
* *
35187338 ATAATCCATAAACCT
1 -TAAACCATAAACCC
35187353 TAAA--ATAGTAACTCC
1 TAAACCATA--AAC-CC
* * *
35187368 TAAAGCTTAAATCC
1 TAAACCATAAACCC
*
35187382 TAAACCATATACCC
1 TAAACCATAAACCC
35187396 TAAACCATAAACCC
1 TAAACCATAAACCC
*
35187410 TAAACTATAA
1 TAAACCATAA
35187420 TGATAATTAA
Statistics
Matches: 140, Mismatches: 28, Indels: 26
0.72 0.14 0.13
Matches are distributed among these distances:
12 3 0.02
13 5 0.04
14 96 0.69
15 34 0.24
17 2 0.01
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:35187761 original size:40 final size:40
Alignment explanation
Indices: 35187717--35187902 Score: 169
Period size: 40 Copynumber: 4.7 Consensus size: 40
35187707 TTTTTTGCGA
* * * *
35187717 CGTTTTTGATAAAGCGTCACTAAAT-CTCGATCTATAGCAG
1 CGTTTTTCAAAAAGCGCCACT-AATGCTCGACCTATAGCAG
* * *
35187757 CGTTTTTCAAAAAGCGCCGCTAATGGTCGACCTATAGCGG
1 CGTTTTTCAAAAAGCGCCACTAATGCTCGACCTATAGCAG
* ** * *
35187797 CGTTTTTCAAAAAGCACTGCTAATGGTCGACCTATAG-TG
1 CGTTTTTCAAAAAGCGCCACTAATGCTCGACCTATAGCAG
* * * * *
35187836 ACGTTTTTTAAAAAGCGCCGCTAATGCTCAATCTATAGCGG
1 -CGTTTTTCAAAAAGCGCCACTAATGCTCGACCTATAGCAG
* *
35187877 CGTTTTTCAAAAAGCACCGCTAATGC
1 CGTTTTTCAAAAAGCGCCACTAATGC
35187903 CACTAAAGCT
Statistics
Matches: 124, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.03
40 119 0.96
41 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (40 bp):
CGTTTTTCAAAAAGCGCCACTAATGCTCGACCTATAGCAG
Found at i:35188015 original size:40 final size:40
Alignment explanation
Indices: 35187956--35188046 Score: 94
Period size: 40 Copynumber: 2.3 Consensus size: 40
35187946 TTGCGGCGTG
* **
35187956 TTTCAAAAAGCGCAACTAATAG-TCGACCTATAACGACATT
1 TTTCAAAAAGCACCGCTAAT-GCTCGACCTATAACGACATT
* * * * *
35187996 TTTTAAAAAGCACCGCTAATGCTCGATCTATAGCGGCGTT
1 TTTCAAAAAGCACCGCTAATGCTCGACCTATAACGACATT
35188036 TTTCAAAAAGC
1 TTTCAAAAAGC
35188047 GCCACTAAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.02
40 40 0.98
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.27
Consensus pattern (40 bp):
TTTCAAAAAGCACCGCTAATGCTCGACCTATAACGACATT
Found at i:35188042 original size:80 final size:77
Alignment explanation
Indices: 35187759--35188054 Score: 235
Period size: 80 Copynumber: 3.8 Consensus size: 77
35187749 TATAGCAGCG
* * * **
35187759 TTTTTCAAAAAGCGCCGCTAATGGTCGACCTATAGCGGCGTTTTTCAAAAAGCACTGCTAATGGT
1 TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCACCACTAAT-GT
*
35187824 CGACCTATAGTGAC
65 CGACCTATA-AGAC
* *
35187838 GTTTTTTAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCGTTTTTCAAAAAGCACCGCTAATG-
1 -TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCACCACTAATGT
*
35187902 CCA-CTA-AAG-C
65 CGACCTATAAGAC
**** * * ** * * * * * *
35187912 TCAACATAAAACG-GCGGCGTTGTGCTAAC-ATTTTTTGCGGCGTGTTTCAAAAAGCGCAACTAA
1 T-TTTTTAAAAAGCGCCGC-TAATGCT--CGATCTATAGCGGCGTTTTTCAAAAAGCACCACTAA
35187975 TAGTCGACCTATAACGAC
62 T-GTCGACCTATAA-GAC
* *
35187993 ATTTTTTAAAAAGCACCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCACTAA
1 -TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCACCACTAA
35188055 ATCTCAACAC
Statistics
Matches: 166, Mismatches: 37, Indels: 26
0.72 0.16 0.11
Matches are distributed among these distances:
73 5 0.03
74 12 0.07
75 29 0.17
76 3 0.02
77 5 0.03
78 5 0.03
79 4 0.02
80 87 0.52
81 12 0.07
82 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (77 bp):
TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCACCACTAATGTC
GACCTATAAGAC
Found at i:35188140 original size:40 final size:40
Alignment explanation
Indices: 35188096--35188242 Score: 177
Period size: 40 Copynumber: 3.7 Consensus size: 40
35188086 ATTTTTTTGT
**
35188096 GGCGTTTTTCAAAAAGTACTGCTAATGGTCAACCTATAGC
1 GGCGTTTTTCAAAAAGCGCTGCTAATGGTCAACCTATAGC
* *
35188136 GGCGTTTTTCAAAAAGCGTTGCTAATGGTCGACCTATAGC
1 GGCGTTTTTCAAAAAGCGCTGCTAATGGTCAACCTATAGC
* * * * ** * *
35188176 AGTGTTTTTTAAAAAGGGCCACTAATGCTCAATCTATAGC
1 GGCGTTTTTCAAAAAGCGCTGCTAATGGTCAACCTATAGC
*
35188216 GGTGTTTTTCAAAAAGCGCTGCTAATG
1 GGCGTTTTTCAAAAAGCGCTGCTAATG
35188243 CTGCTAAAGT
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 88 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (40 bp):
GGCGTTTTTCAAAAAGCGCTGCTAATGGTCAACCTATAGC
Found at i:35188173 original size:146 final size:146
Alignment explanation
Indices: 35187793--35188207 Score: 463
Period size: 146 Copynumber: 2.8 Consensus size: 146
35187783 TCGACCTATA
*
35187793 GCGGCGTTTTTCAAAAAGCACTGCTAATGGTCGACCTATAGTGACGTTTTTTAAAAAGCGCCGCT
1 GCGGCGTTTTTCAAAAAGCACTGCTAATGGTCGACCTATAGCGACGTTTTTTAAAAAGCGCCGCT
* *
35187858 AATGCTCAATCTATAGCGGCGTTTTTCAAAAAGCACCGCTAATGCCACTAAAGCTCAACATAAAA
66 AATGCTCGATCTATAGCGGCGTTTTTC-AAAA--A--GC----GCCACTAAAGCTCAACACAAAA
**
35187923 CGGCGGCGTTGTGCTAACATTTTTT
122 CAACGGCGTTGTGCTAACATTTTTT
* * ** * * * *
35187948 GCGGCGTGTTTCAAAAAGCGCAACTAATAGTCGACCTATAACGACATTTTTTAAAAAGCACCGCT
1 GCGGCGTTTTTCAAAAAGCACTGCTAATGGTCGACCTATAGCGACGTTTTTTAAAAAGCGCCGCT
* *
35188013 AATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCACTAAATCTCAACACAAAACAATGGCGT
66 AATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCACTAAAGCTCAACACAAAACAACGGCGT
*
35188078 TGTGCTTAA-TTTTTTT
131 TGTGC-TAACATTTTTT
* * * * * **
35188094 GTGGCGTTTTTCAAAAAGTACTGCTAATGGTCAACCTATAGCGGCGTTTTTCAAAAAGCGTTGCT
1 GCGGCGTTTTTCAAAAAGCACTGCTAATGGTCGACCTATAGCGACGTTTTTTAAAAAGCGCCGCT
* * * * * * *
35188159 AATGGTCGACCTATAGCAGTGTTTTTTAAAAAGGGCCACTAATGCTCAA
66 AATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCACTAAAGCTCAA
35188208 TCTATAGCGG
Statistics
Matches: 220, Mismatches: 39, Indels: 11
0.81 0.14 0.04
Matches are distributed among these distances:
146 128 0.58
147 3 0.01
150 2 0.01
152 1 0.00
154 4 0.02
155 82 0.37
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (146 bp):
GCGGCGTTTTTCAAAAAGCACTGCTAATGGTCGACCTATAGCGACGTTTTTTAAAAAGCGCCGCT
AATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCACTAAAGCTCAACACAAAACAACGGCGT
TGTGCTAACATTTTTT
Found at i:35188354 original size:40 final size:40
Alignment explanation
Indices: 35188294--35188397 Score: 145
Period size: 40 Copynumber: 2.6 Consensus size: 40
35188284 TTTTGCGGCA
* * *
35188294 TTTTTTAAAAAGCACAGCTAATGGTCGACCTATAGCGACG
1 TTTTTTAAAAAGCGCCGCTAATGCTCGACCTATAGCGACG
* *
35188334 TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCG
1 TTTTTTAAAAAGCGCCGCTAATGCTCGACCTATAGCGACG
* *
35188374 TTTTTCAAAAAGCGCCACTAATGC
1 TTTTTTAAAAAGCGCCGCTAATGC
35188398 CAATAAAGCT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (40 bp):
TTTTTTAAAAAGCGCCGCTAATGCTCGACCTATAGCGACG
Found at i:35188356 original size:194 final size:186
Alignment explanation
Indices: 35187956--35188401 Score: 477
Period size: 194 Copynumber: 2.4 Consensus size: 186
35187946 TTGCGGCGTG
** * * * *
35187956 TTTCAAAAAGCGCAACTAATAG-TCGACCTATAAC-GACATTTTTTAAAAAGCACCGCTAATGCT
1 TTTCAAAAAGCGCCGCTAAT-GCTCGACCTATAGCAG-CGTTTTTTAAAAAGCGCCACTAATGCT
* *
35188019 CGATCTATAGCGGCGTTTTTCAAAAAGCGCCACTAAATCTCAACACAAAACAATGGCGTTGTGCT
64 CAATCTATAGCGGCGTTTTTCAAAAAGCGCCACTAAATCTCAACACAAAACAACGGCGTTGTGCT
* ** * * * * *
35188084 TAATTTTTTTGTGGCGTTTTTCAAAAAGTACTGCTAATGGTCAACCTATAGCGGCGTT
129 AAAAATTTTTGCGGCATTTTTCAAAAAGCACAGCTAATGGTCAACCTATAGCGACGTT
** * * *
35188142 TTTCAAAAAGCGTTGCTAATGGTCGACCTATAGCAGTGTTTTTTAAAAAGGGCCACTAATGCTCA
1 TTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCAGCGTTTTTTAAAAAGCGCCACTAATGCTCA
* * ** *
35188207 ATCTATAGCGGTGTTTTTCAAAAAGCGCTGCTAATGCTGCTAAA-GTCAACACAAAACGGCGGTG
66 ATCTATAGCGGCGTTTTTCAAAAAGCGC--C--A-----CTAAATCTCAACACAAAACAACGGCG
* *
35188271 TTGTGCTAAAAATTTTTGCGGCATTTTTTAAAAAGCACAGCTAATGGTCGACCTATAGCGACGTT
122 TTGTGCTAAAAATTTTTGCGGCATTTTTCAAAAAGCACAGCTAATGGTCAACCTATAGCGACGTT
* * * *
35188336 TTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCACTAATGC-CA
1 TTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCAGCGTTTTTTAAAAAGCGCCACTAATGCTCA
35188400 AT
66 AT
35188402 AAAGCTCAAC
Statistics
Matches: 214, Mismatches: 35, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
185 1 0.00
186 78 0.36
187 1 0.00
188 1 0.00
190 1 0.00
193 4 0.02
194 123 0.57
195 5 0.02
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (186 bp):
TTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCAGCGTTTTTTAAAAAGCGCCACTAATGCTCA
ATCTATAGCGGCGTTTTTCAAAAAGCGCCACTAAATCTCAACACAAAACAACGGCGTTGTGCTAA
AAATTTTTGCGGCATTTTTCAAAAAGCACAGCTAATGGTCAACCTATAGCGACGTT
Found at i:35188489 original size:40 final size:40
Alignment explanation
Indices: 35188445--35188573 Score: 195
Period size: 40 Copynumber: 3.2 Consensus size: 40
35188435 ATTTTTTTGT
* *
35188445 GGCGTTTTTCAAAAAGCGCCGCTAATGGTCGACCTATAGC
1 GGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGC
* * *
35188485 GGCGTTTTTTAAAATGCGCCGCTAATGCTCTATCTATAGC
1 GGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGC
*
35188525 GGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAAC
1 GGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGC
*
35188565 GGTGTTTTT
1 GGCGTTTTT
35188574 TGTCCATACG
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.32
Consensus pattern (40 bp):
GGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGC
Found at i:35188491 original size:155 final size:154
Alignment explanation
Indices: 35188134--35188552 Score: 577
Period size: 155 Copynumber: 2.7 Consensus size: 154
35188124 TCAACCTATA
** * * * *
35188134 GCGGCGTTTTTCAAAAAGCGTTGCTAATGGTCGACCTATAGCAGTGTTTTTTAAAAAGGGCCACT
1 GCGGCGTTTTTCAAAAAGCGCAGCTAATGGTCGACCTATAGCGGCGTTTTTTAAAAAGCGCCGCT
* * ***
35188199 AATGCTCAATCTATAGCGGTGTTTTTCAAAAAGCGCTGCTAATGCTGCTAAAGTCAACACAAAAC
66 AATGCTCAATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCCAATAAAGTCAACACAAAAC
** *
35188264 GGCGGTGTTGTGCTAAAAATTTTT
131 AACGGAGTTGTGCTAAAAATTTTT
* * * *
35188288 GCGGCATTTTTTAAAAAGCACAGCTAATGGTCGACCTATAGCGACGTTTTTTAAAAAGCGCCGCT
1 GCGGCGTTTTTCAAAAAGCGCAGCTAATGGTCGACCTATAGCGGCGTTTTTTAAAAAGCGCCGCT
* *
35188353 AATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCACTAATGCCAATAAAGCTCAACACAAAA
66 AATGCTCAATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCCAATAAAG-TCAACACAAAA
* * **
35188418 CAATGGAGTTGTGCTTAATTTTTTT
130 CAACGGAGTTGTGCTAAAAATTTTT
* * *
35188443 GTGGCGTTTTTCAAAAAGCGCCGCTAATGGTCGACCTATAGCGGCGTTTTTTAAAATGCGCCGCT
1 GCGGCGTTTTTCAAAAAGCGCAGCTAATGGTCGACCTATAGCGGCGTTTTTTAAAAAGCGCCGCT
*
35188508 AATGCTCTATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGC
66 AATGCTCAATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGC
35188553 TCGATCTATA
Statistics
Matches: 231, Mismatches: 33, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
154 101 0.44
155 130 0.56
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (154 bp):
GCGGCGTTTTTCAAAAAGCGCAGCTAATGGTCGACCTATAGCGGCGTTTTTTAAAAAGCGCCGCT
AATGCTCAATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCCAATAAAGTCAACACAAAAC
AACGGAGTTGTGCTAAAAATTTTT
Found at i:35188950 original size:14 final size:14
Alignment explanation
Indices: 35188931--35188966 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
35188921 GTAATCGGTA
35188931 AAATTTTCTTAATG
1 AAATTTTCTTAATG
35188945 AAATTTTCTTAATG
1 AAATTTTCTTAATG
35188959 AAATTTTC
1 AAATTTTC
35188967 ATACGTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (14 bp):
AAATTTTCTTAATG
Found at i:35190114 original size:31 final size:31
Alignment explanation
Indices: 35190078--35190141 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
35190068 AATGACTATC
35190078 CAATGGGATAAAACTATCTTGATCAAGTTGA
1 CAATGGGATAAAACTATCTTGATCAAGTTGA
35190109 CAATGGGATAAAACTATCTTGATCAAGTTGA
1 CAATGGGATAAAACTATCTTGATCAAGTTGA
35190140 CA
1 CA
35190142 GACTTATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (31 bp):
CAATGGGATAAAACTATCTTGATCAAGTTGA
Found at i:35192027 original size:41 final size:40
Alignment explanation
Indices: 35191943--35192097 Score: 149
Period size: 41 Copynumber: 3.8 Consensus size: 40
35191933 TCGATATCTC
* *
35191943 GCACACTAAGTGCCAAAATATAGCCGAAGCTATTAT-AATCTT
1 GCACACTAAGTG-C-ATATATAGCCGAAGCTATTCTCAA-CTT
35191985 GCACACTAAGTGCAT-TGCATAGCCGAAGCT-TTCTCAACCTT
1 GCACACTAAGTGCATAT--ATAGCCGAAGCTATTCTCAA-CTT
*
35192026 GCACACTAAGTGCCATATATAGCTGAAGCTATTC-CAA-TT
1 GCACACTAAGTG-CATATATAGCCGAAGCTATTCTCAACTT
* *
35192065 CGCACACTAAGTGCTTTATATATCCGAAGCTAT
1 -GCACACTAAGTGC-ATATATAGCCGAAGCTAT
35192098 CTCGAAACGT
Statistics
Matches: 98, Mismatches: 7, Indels: 18
0.80 0.06 0.15
Matches are distributed among these distances:
39 4 0.04
40 31 0.32
41 44 0.45
42 18 0.18
43 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (40 bp):
GCACACTAAGTGCATATATAGCCGAAGCTATTCTCAACTT
Found at i:35192092 original size:81 final size:83
Alignment explanation
Indices: 35191943--35192122 Score: 215
Period size: 81 Copynumber: 2.2 Consensus size: 83
35191933 TCGATATCTC
* * *
35191943 GCACACTAAGTGCCAAAATATAGCCGAAGCTATTATAATCTTGCACACTAAGTGCATTGCATAGC
1 GCACACTAAGTGCCAAAATATAGCCGAAGCTATTACAATCTCGCACACTAAGTGCATTACATAGC
*
35192008 CGAAGCTTTCTCAACCTT
66 CGAAGCTATCTCAACCTT
* * * * * *
35192026 GCACACTAAGTGCC-ATATATAGCTGAAGCTATTCCAAT-TCGCACACTAAGTGCTTTATATATC
1 GCACACTAAGTGCCAAAATATAGCCGAAGCTATTACAATCTCGCACACTAAGTGCATTACATAGC
*
35192089 CGAAGCTATCTCGAAAC--
66 CGAAGCTATCTC-AACCTT
*
35192106 GTACACTAAGTGCCAAA
1 GCACACTAAGTGCCAAA
35192123 CATAGTTGAT
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
80 13 0.16
81 32 0.39
82 23 0.28
83 14 0.17
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (83 bp):
GCACACTAAGTGCCAAAATATAGCCGAAGCTATTACAATCTCGCACACTAAGTGCATTACATAGC
CGAAGCTATCTCAACCTT
Found at i:35192112 original size:40 final size:40
Alignment explanation
Indices: 35191942--35192120 Score: 136
Period size: 40 Copynumber: 4.4 Consensus size: 40
35191932 CTCGATATCT
* **
35191942 CGCACACTAAGTGCCAAAATATAGCCGAAGCTATTATAAT-
1 CGCACACTAAGTGCC-ATATATAGCCGAAGCTATTCCAATA
35191982 CTTGCACACTAAGTG-CAT-TGCATAGCCGAAGCT-TTCTCAACCT-
1 C--GCACACTAAGTGCCATAT--ATAGCCGAAGCTATTC-CAA--TA
* * *
35192025 TGCACACTAAGTGCCATATATAGCTGAAGCTATTCCAATT
1 CGCACACTAAGTGCCATATATAGCCGAAGCTATTCCAATA
** * *
35192065 CGCACACTAAGTGCTTTATATATCCGAAGCTATCTCGAA-A
1 CGCACACTAAGTGCCATATATAGCCGAAGCTAT-TCCAATA
*
35192105 CGTACACTAAGTGCCA
1 CGCACACTAAGTGCCA
35192121 AACATAGTTG
Statistics
Matches: 112, Mismatches: 15, Indels: 24
0.74 0.10 0.16
Matches are distributed among these distances:
39 2 0.02
40 45 0.40
41 45 0.40
42 18 0.16
43 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (40 bp):
CGCACACTAAGTGCCATATATAGCCGAAGCTATTCCAATA
Found at i:35197102 original size:13 final size:15
Alignment explanation
Indices: 35197084--35197115 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
35197074 TTTATTCATC
35197084 AATCTCTT-CCTC-G
1 AATCTCTTGCCTCTG
35197097 AATCTCTTGCCTCTG
1 AATCTCTTGCCTCTG
35197112 AATC
1 AATC
35197116 AGCCTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.19, C:0.34, G:0.09, T:0.38
Consensus pattern (15 bp):
AATCTCTTGCCTCTG
Found at i:35197756 original size:31 final size:31
Alignment explanation
Indices: 35197718--35197778 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
35197708 AAGAAAGCTT
35197718 GCTTAGCCTCTCCCCCTTGGCTACTAGATAG
1 GCTTAGCCTCTCCCCCTTGGCTACTAGATAG
35197749 GCTTAGCCTCTCCCCCTTGGCTACTAGATA
1 GCTTAGCCTCTCCCCCTTGGCTACTAGATA
35197779 CGAGTCTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.16, C:0.36, G:0.18, T:0.30
Consensus pattern (31 bp):
GCTTAGCCTCTCCCCCTTGGCTACTAGATAG
Found at i:35199453 original size:42 final size:42
Alignment explanation
Indices: 35199406--35199507 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 42
35199396 ATACTCAAAG
*
35199406 TCTCGCATACTAAGTGCCAAAGCATAGCCGAAGCTATTAT-AA
1 TCTCGCACACTAAGTGCCAAAGCATAGCCGAAGCT-TTATCAA
*** *
35199448 TCTCGCACACTAAGTGCC-TTTCATAGCCGAAGCTTTCTCAA
1 TCTCGCACACTAAGTGCCAAAGCATAGCCGAAGCTTTATCAA
*
35199489 CCTCGCACACTAAGTGCCA
1 TCTCGCACACTAAGTGCCA
35199508 TATATATAGC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 3 0.06
41 32 0.62
42 17 0.33
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (42 bp):
TCTCGCACACTAAGTGCCAAAGCATAGCCGAAGCTTTATCAA
Found at i:35199557 original size:83 final size:83
Alignment explanation
Indices: 35199407--35199596 Score: 212
Period size: 83 Copynumber: 2.3 Consensus size: 83
35199397 TACTCAAAGT
* * * *
35199407 CTCGCATACTAAGTGCCAA-AGCATAGCCGAAGCTATTATAATCTCGCACACTAAGTGCCTTTCA
1 CTCGCACACTAAGTGCCAATA-TATAGCCGAAGCTATTACAATCTCGCACACTAAATGCCTTTCA
*
35199471 TAGCCGAAGCTTTCTC-AA
65 TAGCCGAAGCTATCTCGAA
* * *
35199489 CCTCGCACACTAAGTGCCATATATATAGCTGAAGCTATTCCAAT-TCGTACACTAAATG-CTTTA
1 -CTCGCACACTAAGTGCCA-ATATATAGCCGAAGCTATTACAATCTCGCACACTAAATGCCTTT-
*
35199552 TATAGCCGAAGCTATCTCGAA
63 CATAGCCGAAGCTATCTCGAA
*
35199573 -ACGCACACTAAGTGCCAA-ATATAG
1 CTCGCACACTAAGTGCCAATATATAG
35199597 TCGATTTGTC
Statistics
Matches: 93, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
80 6 0.06
81 1 0.01
82 20 0.22
83 45 0.48
84 20 0.22
85 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (83 bp):
CTCGCACACTAAGTGCCAATATATAGCCGAAGCTATTACAATCTCGCACACTAAATGCCTTTCAT
AGCCGAAGCTATCTCGAA
Found at i:35199581 original size:40 final size:41
Alignment explanation
Indices: 35199429--35199588 Score: 150
Period size: 41 Copynumber: 3.9 Consensus size: 41
35199419 GTGCCAAAGC
* *
35199429 ATAGCCGAAGCTAT-TATAATCTCGCACACTAAGTGCCTTT-C
1 ATAGCCGAAGCTATCT-CAA-CTCGCACACTAAGTGCCTTTAT
* *
35199470 ATAGCCGAAGCTTTCTCAACCTCGCACACTAAGTGCCATATAT
1 ATAGCCGAAGCTATCTCAA-CTCGCACACTAAGTGCC-TTTAT
* * * *
35199513 ATAGCTGAAGCTAT-TCCAATTCGTACACTAAATG-CTTTAT
1 ATAGCCGAAGCTATCT-CAACTCGCACACTAAGTGCCTTTAT
*
35199553 ATAGCCGAAGCTATCTCGAA-ACGCACACTAAGTGCC
1 ATAGCCGAAGCTATCTC-AACTCGCACACTAAGTGCC
35199589 AAATATAGTC
Statistics
Matches: 97, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
40 29 0.30
41 37 0.38
42 16 0.16
43 15 0.15
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (41 bp):
ATAGCCGAAGCTATCTCAACTCGCACACTAAGTGCCTTTAT
Found at i:35207713 original size:30 final size:30
Alignment explanation
Indices: 35207677--35207740 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
35207667 CTTAATTAAA
*
35207677 AAAAG-TTACAATTTAGTCATTAAACTATTC
1 AAAAGTTTAC-ATTAAGTCATTAAACTATTC
* * *
35207707 AAAAGTTTTCATTAAGTCTTTGAACTATTC
1 AAAAGTTTACATTAAGTCATTAAACTATTC
35207737 AAAA
1 AAAA
35207741 AATATTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (30 bp):
AAAAGTTTACATTAAGTCATTAAACTATTC
Found at i:35210033 original size:37 final size:37
Alignment explanation
Indices: 35209979--35210155 Score: 309
Period size: 37 Copynumber: 4.8 Consensus size: 37
35209969 CGAATAGTCC
* *
35209979 CCACACGTAGTTATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
35210016 CCATACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
35210053 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
35210090 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
35210127 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
35210156 ATATATTTCC
Statistics
Matches: 135, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 135 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:35210332 original size:48 final size:48
Alignment explanation
Indices: 35210274--35210578 Score: 565
Period size: 48 Copynumber: 6.4 Consensus size: 48
35210264 CACATTTGGT
* *
35210274 CATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACATACCTCATACATATTTCACATTAGC
*
35210322 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACATACCTCATACATATTTCACATTAGC
35210370 CATTCGGCTTTACCACATATACATACCTCATACATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACATACCTCATACATATTTCACATTAGC
35210418 CATTCGGCTTTACCACATATACATACCTCATACATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACATACCTCATACATATTTCACATTAGC
35210466 CATTCGGCTTTACCACATATACATACCTCATACATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACATACCTCATACATATTTCACATTAGC
* *
35210514 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGC
1 CATTCGGCTTTACCACATATACATACCTCATACATATTTCACATTAGC
35210562 CATTCGGCTTTACCACA
1 CATTCGGCTTTACCACA
35210579 CACATATATA
Statistics
Matches: 253, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 253 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
CATTCGGCTTTACCACATATACATACCTCATACATATTTCACATTAGC
Found at i:35214832 original size:14 final size:15
Alignment explanation
Indices: 35214804--35214843 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
35214794 TAATTGAAGG
*
35214804 ATTTTTAGATATCAT
1 ATTTTTATATATCAT
35214819 ATTTTTATAT-TCAT
1 ATTTTTATATATCAT
*
35214833 ATTTTAATATA
1 ATTTTTATATA
35214844 AATATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (15 bp):
ATTTTTATATATCAT
Found at i:35214938 original size:23 final size:23
Alignment explanation
Indices: 35214911--35214955 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
35214901 TTTTCAATTT
35214911 TGATTTGAACTTAAAATATTTTC
1 TGATTTGAACTTAAAATATTTTC
* *
35214934 TGATTTGAATTTAAATTATTTT
1 TGATTTGAACTTAAAATATTTT
35214956 TAGAGTGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.53
Consensus pattern (23 bp):
TGATTTGAACTTAAAATATTTTC
Found at i:35218799 original size:129 final size:129
Alignment explanation
Indices: 35218569--35218826 Score: 489
Period size: 129 Copynumber: 2.0 Consensus size: 129
35218559 ATGGCTAGCT
*
35218569 GATCCCTACTATAGAAGTGACTATAGGCTGCCCTTTATTTGTGCAGCTAGATATATGGGAGTATG
1 GATCCCTACTATAGAACTGACTATAGGCTGCCCTTTATTTGTGCAGCTAGATATATGGGAGTATG
35218634 TCAGATCCATGACTATCCTATAGTATATATGATTAAAATGTAGATTCCTTCATCTAATTCAGCA
66 TCAGATCCATGACTATCCTATAGTATATATGATTAAAATGTAGATTCCTTCATCTAATTCAGCA
*
35218698 GATCCCTACTATAGAACTGACTATAGGCTGCCCTTTATTTGTGCAGTTAGATATATGGGAGTATG
1 GATCCCTACTATAGAACTGACTATAGGCTGCCCTTTATTTGTGCAGCTAGATATATGGGAGTATG
*
35218763 TCAGATCCATGACTATTCTATAGTATATATGATTAAAATGTAGATTCCTTCATCTAATTCAGCA
66 TCAGATCCATGACTATCCTATAGTATATATGATTAAAATGTAGATTCCTTCATCTAATTCAGCA
35218827 CCGGCTGAAG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 126 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (129 bp):
GATCCCTACTATAGAACTGACTATAGGCTGCCCTTTATTTGTGCAGCTAGATATATGGGAGTATG
TCAGATCCATGACTATCCTATAGTATATATGATTAAAATGTAGATTCCTTCATCTAATTCAGCA
Found at i:35220274 original size:6 final size:6
Alignment explanation
Indices: 35220259--35220289 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
35220249 TAAATCAATG
*
35220259 AACACT AACACC AACACC AACACC AACACC A
1 AACACC AACACC AACACC AACACC AACACC A
35220290 TGGAAGTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.52, C:0.45, G:0.00, T:0.03
Consensus pattern (6 bp):
AACACC
Found at i:35223351 original size:19 final size:21
Alignment explanation
Indices: 35223329--35223382 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
35223319 AATGTTAACA
35223329 TTTAAATAAATTTTTA-A-AG
1 TTTAAATAAATTTTTATATAG
* *
35223348 TTTAAATATTATTTTTATATAT
1 TTTAAATA-AATTTTTATATAG
35223370 TTTAAAT-AATTTT
1 TTTAAATAAATTTT
35223383 AATGATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 8 0.28
20 12 0.41
21 1 0.03
22 8 0.28
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTAAATAAATTTTTATATAG
Found at i:35231308 original size:10 final size:11
Alignment explanation
Indices: 35231280--35231305 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
35231270 TGCTTTTATT
35231280 AAAAATTAGAA
1 AAAAATTAGAA
35231291 AAAAATTAGAA
1 AAAAATTAGAA
35231302 AAAA
1 AAAA
35231306 TTAAAATCAA
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:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (11 bp):
AAAAATTAGAA
Found at i:35231376 original size:10 final size:10
Alignment explanation
Indices: 35231355--35231418 Score: 60
Period size: 10 Copynumber: 6.4 Consensus size: 10
35231345 TAAAAAATTT
35231355 AATTATTAAA
1 AATTATTAAA
35231365 AATTTATTAAA
1 AA-TTATTAAA
*
35231376 AATTATAAAA
1 AATTATTAAA
*
35231386 AAATATATAAA
1 AATTAT-TAAA
*
35231397 AA-TCTTAAA
1 AATTATTAAA
*
35231406 AAATA-TAAA
1 AATTATTAAA
35231415 AATT
1 AATT
35231419 GTAAAATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
9 13 0.29
10 17 0.38
11 15 0.33
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (10 bp):
AATTATTAAA
Found at i:35231545 original size:15 final size:14
Alignment explanation
Indices: 35231525--35231554 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
35231515 CATTTTATAA
35231525 TTTTTTTATAACTTT
1 TTTTTTTATAA-TTT
35231540 TTTTTTTATAATTT
1 TTTTTTTATAATTT
35231554 T
1 T
35231555 CGCCACATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTTATAATTT
Found at i:35231757 original size:29 final size:28
Alignment explanation
Indices: 35231683--35231759 Score: 68
Period size: 29 Copynumber: 2.7 Consensus size: 28
35231673 TAAAAAATTC
* *
35231683 TAATTTTTAGTAATTTTCAA-ATTTTTCA
1 TAATTTTT-TTAATTTTTAATATTTTTCA
** *
35231711 -AATTTTTATTAAAATTTAATATTTTTTA
1 TAATTTTT-TTAATTTTTAATATTTTTCA
35231739 TAATTTTTTCTAATTTTTAAT
1 TAATTTTTT-TAATTTTTAAT
35231760 GAGAGCAAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
27 15 0.38
28 8 0.21
29 16 0.41
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (28 bp):
TAATTTTTTTAATTTTTAATATTTTTCA
Found at i:35231939 original size:90 final size:90
Alignment explanation
Indices: 35231767--35231974 Score: 226
Period size: 90 Copynumber: 2.3 Consensus size: 90
35231757 AATGAGAGCA
* * * **
35231767 AGGGCTTAATTG-TTTTTTTGAAAAATTTGAAGGGTCTTTTTGATGTATTTTGAAAGTTCAAGTA
1 AGGGCTTAATTGTTTTTTTTTAAAAATTTGAAGGGCCTTTTGGATACATTTTGAAAGTTCAAGTA
* * ** *
35231831 CCCAATTGTGTGGGAAAAAAACA-G
66 CCCAATGGAGTGCAAAAAAAAAAGG
35231855 -GGGCTTAATTGATTTTTTTTTAAAGAAGTTTG-AGGGCCTTTTGGATACATTTTGAAAGTTCAA
1 AGGGCTTAATTG-TTTTTTTTTAAA-AA-TTTGAAGGGCCTTTTGGATACATTTTGAAAGTTCAA
* *
35231918 GTGCTCAATGGAGTGCAAAAAAAAAAGG
63 GTACCCAATGGAGTGCAAAAAAAAAAGG
35231946 AGGGCTTAATTGCTTCTTTTTTGTAAAAA
1 AGGGCTTAATTG-TT-TTTTTT-TAAAAA
35231975 AAAAATATTC
Statistics
Matches: 99, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
87 11 0.11
89 10 0.10
90 48 0.48
91 5 0.05
92 13 0.13
93 8 0.08
94 4 0.04
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.37
Consensus pattern (90 bp):
AGGGCTTAATTGTTTTTTTTTAAAAATTTGAAGGGCCTTTTGGATACATTTTGAAAGTTCAAGTA
CCCAATGGAGTGCAAAAAAAAAAGG
Found at i:35233535 original size:26 final size:26
Alignment explanation
Indices: 35233513--35233563 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
35233503 TTCATATATT
35233513 TGAAAACTTATTTTAAAAAATATTTA
1 TGAAAACTTATTTTAAAAAATATTTA
* *
35233539 TGAAAACTTTTTTTAAAGAATATTT
1 TGAAAACTTATTTTAAAAAATATTT
35233564 TTTAAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (26 bp):
TGAAAACTTATTTTAAAAAATATTTA
Found at i:35236083 original size:20 final size:21
Alignment explanation
Indices: 35236054--35236092 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
35236044 CATATGACCA
*
35236054 AGTTGTCTTCG-CTCCAAACG
1 AGTTGACTTCGACTCCAAACG
35236074 AGTTGACTTCGACTCCAAA
1 AGTTGACTTCGACTCCAAA
35236093 ACAGACGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (21 bp):
AGTTGACTTCGACTCCAAACG
Found at i:35240327 original size:64 final size:64
Alignment explanation
Indices: 35240248--35240385 Score: 240
Period size: 64 Copynumber: 2.2 Consensus size: 64
35240238 ACAAAGCAAA
* *
35240248 GGCAATAACATACGGGAAAATATCATGACCAAGTCAGTACATTGGGCATTAGTTTATAAGGAAC
1 GGCAATAACATACGGGAAAATATCACGACCAAGTCAGTAAATTGGGCATTAGTTTATAAGGAAC
*
35240312 GGCAATAACATACGGGAAAATATCACGACCAAGTCAGTAAATTGGGCATTTGTTTATAAGGAAC
1 GGCAATAACATACGGGAAAATATCACGACCAAGTCAGTAAATTGGGCATTAGTTTATAAGGAAC
*
35240376 GCCAATAACA
1 GGCAATAACA
35240386 GTATTTTGTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 70 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (64 bp):
GGCAATAACATACGGGAAAATATCACGACCAAGTCAGTAAATTGGGCATTAGTTTATAAGGAAC
Found at i:35245123 original size:42 final size:42
Alignment explanation
Indices: 35245062--35245188 Score: 161
Period size: 42 Copynumber: 3.0 Consensus size: 42
35245052 CTTCGTTTTC
** *
35245062 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
*
35245105 T-GATGCCATAGCCCAACTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
* *
35245146 TCGATGCCATAGCCTAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA
35245187 TC
1 TC
35245189 TCACTGATGC
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 10 0.13
42 63 0.84
43 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:35245248 original size:47 final size:46
Alignment explanation
Indices: 35245147--35245270 Score: 151
Period size: 47 Copynumber: 2.7 Consensus size: 46
35245137 ATTCATATAT
* * * * *
35245147 CGATGCCATAGCCTAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAATCACATATCACAC
* *
35245193 TGATGCCATATCCCAGATATGGTCTTATAC-AATAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAT--CACATATCACAC
*
35245240 CGATGCCATATCCCATATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
35245271 GAAATTACTT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 3 0.05
46 25 0.38
47 38 0.58
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAATCACATATCACAC
Found at i:35245331 original size:31 final size:31
Alignment explanation
Indices: 35245288--35245404 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
35245278 CTTGTCACTT
* *
35245288 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
* *
35245319 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
35245350 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
35245381 GTAGCAGAAGCTACCAC-TTTCACT
1 GTAGCAGAAGCTACCACTTTTCACT
35245405 TGTCATTTGT
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 7 0.09
31 75 0.91
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (31 bp):
GTAGCAGAAGCTACCACTTTTCACTGATCAG
Found at i:35245472 original size:50 final size:50
Alignment explanation
Indices: 35245381--35245556 Score: 266
Period size: 50 Copynumber: 3.5 Consensus size: 50
35245371 CACTGATCAG
* * * *
35245381 GTAGCAGAAGCTACCACTT-TCACTTGTCATTTGTCCCTGATCAGATAGGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
35245431 GTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
35245481 GTAGCCGAAGCTA-CTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATC-ACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
35245531 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
35245557 GTTGCCATGG
Statistics
Matches: 115, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
49 1 0.01
50 107 0.93
51 7 0.06
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:35249384 original size:26 final size:26
Alignment explanation
Indices: 35249355--35249406 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
35249345 GTATAAAACG
*
35249355 ATTTAAAAATAGATTATATATATAAA
1 ATTTAAAAATAGATAATATATATAAA
*
35249381 ATTTTAAAATAGATAATATATATAAA
1 ATTTAAAAATAGATAATATATATAAA
35249407 TATAAAAGTG
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:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (26 bp):
ATTTAAAAATAGATAATATATATAAA
Found at i:35249412 original size:24 final size:26
Alignment explanation
Indices: 35249360--35249413 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
35249350 AAACGATTTA
* *
35249360 AAAATAGATTATATATATAAAATTTT
1 AAAATAGATAATATATATAAAATTAT
35249386 AAAATAGATAATATATAT-AAA-TAT
1 AAAATAGATAATATATATAAAATTAT
35249410 AAAA
1 AAAA
35249414 GTGTAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 6 0.23
25 3 0.12
26 17 0.65
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (26 bp):
AAAATAGATAATATATATAAAATTAT
Found at i:35249413 original size:32 final size:32
Alignment explanation
Indices: 35249369--35249432 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
35249359 AAAAATAGAT
* * * *
35249369 TATATATATAAAATTTTAAAATAGATAATATA
1 TATAAATATAAAAGTGTAAAATAAATAATATA
*
35249401 TATAAATATAAAAGTGTAAAATAAATATTATA
1 TATAAATATAAAAGTGTAAAATAAATAATATA
35249433 AAGAATATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.38
Consensus pattern (32 bp):
TATAAATATAAAAGTGTAAAATAAATAATATA
Found at i:35249468 original size:25 final size:24
Alignment explanation
Indices: 35249417--35249474 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
35249407 TATAAAAGTG
* *
35249417 TAAAATAAATATTATAAAGAATAT
1 TAAAATAAATATAATAAACAATAT
35249441 TAAAATAAATAATAATAAAACAAT-T
1 TAAAATAAAT-ATAAT-AAACAATAT
35249466 T-AAATAAAT
1 TAAAATAAAT
35249475 GAAAAGAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 18 0.60
25 6 0.20
26 6 0.20
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (24 bp):
TAAAATAAATATAATAAACAATAT
Found at i:35249512 original size:24 final size:24
Alignment explanation
Indices: 35249483--35249538 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
35249473 ATGAAAAGAG
*
35249483 TTTAAAATAAGGCATATGAAAT-AA
1 TTTAAAATAAGGAATAT-AAATCAA
*
35249507 TTTAAAATAAGTAATATAAATCAA
1 TTTAAAATAAGGAATATAAATCAA
35249531 TTTAAAAT
1 TTTAAAAT
35249539 TTATATACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 4 0.14
24 25 0.86
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (24 bp):
TTTAAAATAAGGAATATAAATCAA
Found at i:35252699 original size:16 final size:15
Alignment explanation
Indices: 35252678--35252708 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
35252668 GTTTTCAACC
35252678 TTCAATTTTCTATTCT
1 TTCAATTTTCT-TTCT
35252694 TTCAATTTTCTTTCT
1 TTCAATTTTCTTTCT
35252709 ACTCTACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.16, C:0.19, G:0.00, T:0.65
Consensus pattern (15 bp):
TTCAATTTTCTTTCT
Found at i:35254266 original size:18 final size:18
Alignment explanation
Indices: 35254243--35254283 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
35254233 GTATTTTGAT
35254243 CCACATGCTCATGTGGAC
1 CCACATGCTCATGTGGAC
* *
35254261 CCACATGTTCATGTGGAT
1 CCACATGCTCATGTGGAC
35254279 CCACA
1 CCACA
35254284 CGGCTTAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (18 bp):
CCACATGCTCATGTGGAC
Found at i:35259601 original size:14 final size:14
Alignment explanation
Indices: 35259543--35259616 Score: 53
Period size: 14 Copynumber: 5.0 Consensus size: 14
35259533 CAGAAAAACC
*
35259543 AAAAATATATATATTT
1 AAAAATA-ATA-AATT
35259559 AAAAATAA-AAATTT
1 AAAAATAATAAA-TT
**
35259573 AAAAATGGTTAAATT
1 AAAAAT-AATAAATT
35259588 AAGAAA-AATAAATT
1 AA-AAATAATAAATT
35259602 AAAAATAATATAATT
1 AAAAATAATA-AATT
35259617 TTTTTGAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
13 4 0.09
14 21 0.45
15 9 0.19
16 13 0.28
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (14 bp):
AAAAATAATAAATT
Found at i:35260464 original size:24 final size:25
Alignment explanation
Indices: 35260424--35260480 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
35260414 GTTAATAATT
* * *
35260424 TTTTTTATAAATAAAAAATTTGTAG
1 TTTTTTATAAATAAAAAAATTATAA
35260449 TTTTTTATAAAT-AAAAAATTATAA
1 TTTTTTATAAATAAAAAAATTATAA
35260473 TTTTTTAT
1 TTTTTTAT
35260481 TTTTAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 17 0.59
25 12 0.41
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (25 bp):
TTTTTTATAAATAAAAAAATTATAA
Found at i:35260477 original size:25 final size:25
Alignment explanation
Indices: 35260418--35260478 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
35260408 GTAAGTGTTA
35260418 ATAATTTTTTTTATAAATAAAAAATT
1 ATAA-TTTTTTTATAAATAAAAAATT
* *
35260444 -TGTAGTTTTTTATAAATAAAAAATT
1 AT-AATTTTTTTATAAATAAAAAATT
35260469 ATAATTTTTT
1 ATAATTTTTT
35260479 ATTTTTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (25 bp):
ATAATTTTTTTATAAATAAAAAATT
Done.