Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 63 of 427
Found at i:15414983 original size:9 final size:9
Alignment explanation
Indices: 15414960--15414993 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
15414950 CAAAAGAAAC
15414960 ATTTTTATT
1 ATTTTTATT
15414969 GATTTTTATT
1 -ATTTTTATT
*
15414979 TTTTTTATT
1 ATTTTTATT
15414988 ATTTTT
1 ATTTTT
15414994 CATCACATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (9 bp):
ATTTTTATT
Found at i:15415072 original size:17 final size:17
Alignment explanation
Indices: 15415050--15415083 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15415040 GGGGTCGCTA
15415050 TTTTTTACAATTTTTAT
1 TTTTTTACAATTTTTAT
*
15415067 TTTTTTACTATTTTTAT
1 TTTTTTACAATTTTTAT
15415084 AAAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTTACAATTTTTAT
Found at i:15415972 original size:13 final size:13
Alignment explanation
Indices: 15415954--15415978 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15415944 GTTCAACGAG
15415954 TATTTAGATTTTC
1 TATTTAGATTTTC
15415967 TATTTAGATTTT
1 TATTTAGATTTT
15415979 TTTTGAGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.64
Consensus pattern (13 bp):
TATTTAGATTTTC
Found at i:15422346 original size:25 final size:25
Alignment explanation
Indices: 15422312--15422363 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
15422302 CTAATTCTCC
15422312 TTCTCTTTTACAATTC-GATTTTTTT
1 TTCTCTTTTACAATTCAG-TTTTTTT
*
15422337 TTCTCTTTTACAGTTCAGTTTTTTT
1 TTCTCTTTTACAATTCAGTTTTTTT
15422362 TT
1 TT
15422364 ATGAAACAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.13, C:0.15, G:0.06, T:0.65
Consensus pattern (25 bp):
TTCTCTTTTACAATTCAGTTTTTTT
Found at i:15423800 original size:2 final size:2
Alignment explanation
Indices: 15423793--15423825 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
15423783 AACAAACACA
15423793 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
15423826 TAAAAATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15423982 original size:2 final size:2
Alignment explanation
Indices: 15423935--15423964 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15423925 TATGGAGTAT
15423935 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
15423965 CTAGAAGGAT
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):
TA
Found at i:15440324 original size:40 final size:39
Alignment explanation
Indices: 15440160--15440342 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
15440150 AAATTGAATG
* * *
15440160 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
15440200 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
15440240 ACATCCGGGCTAAGACCC-AAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
15440279 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
15440318 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
15440343 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 26, Indels: 12
0.74 0.17 0.08
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 34 0.31
40 71 0.64
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:15445590 original size:20 final size:20
Alignment explanation
Indices: 15445565--15445615 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
15445555 CCATGGGCAG
*
15445565 GCCACATGGGCATGTCCCAA
1 GCCACACGGGCATGTCCCAA
* *
15445585 GCCACACAGGCATGTCCCAG
1 GCCACACGGGCATGTCCCAA
15445605 GCCACACGGGC
1 GCCACACGGGC
15445616 GTGTGCCCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.39, G:0.27, T:0.10
Consensus pattern (20 bp):
GCCACACGGGCATGTCCCAA
Found at i:15458649 original size:24 final size:24
Alignment explanation
Indices: 15458598--15458649 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
15458588 TTGTTTTTCT
*
15458598 TTTTCTTTTATTTTTATTTTTGCA
1 TTTTCTTTTATTTTTATTTATGCA
15458622 -TTTCTTTT-TGTCTTTATTTAT-CA
1 TTTTCTTTTAT-T-TTTATTTATGCA
15458645 TTTTC
1 TTTTC
15458650 CTAAAAGACC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
22 1 0.04
23 11 0.46
24 12 0.50
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.73
Consensus pattern (24 bp):
TTTTCTTTTATTTTTATTTATGCA
Found at i:15466963 original size:39 final size:39
Alignment explanation
Indices: 15466909--15467032 Score: 194
Period size: 39 Copynumber: 3.2 Consensus size: 39
15466899 ATTTGATGTG
15466909 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
15466948 TATCCGGACTTAGGGTCCACAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* * * *
15466987 TATCCGAACTTATGGTCCGCAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
15467026 TGTCCGG
1 TATCCGG
15467033 GCTAAAGTCC
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:15467059 original size:39 final size:39
Alignment explanation
Indices: 15467016--15467090 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
15467006 CAGGCTACGT
*
15467016 GCTGGAAATATGTCCGGG-CTAAAGTCCCGCAGGCTTTAA
1 GCTGGAAATAT-ACCGGGTCTAAAGTCCCGCAGGCTTTAA
* * * *
15467055 GCTGGTATTATACCGGGTTTAAATTCCCGCAGGCTT
1 GCTGGAAATATACCGGGTCTAAAGTCCCGCAGGCTT
15467091 GTGCTGGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 5 0.17
39 25 0.83
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (39 bp):
GCTGGAAATATACCGGGTCTAAAGTCCCGCAGGCTTTAA
Found at i:15467059 original size:78 final size:78
Alignment explanation
Indices: 15466909--15467066 Score: 183
Period size: 78 Copynumber: 2.0 Consensus size: 78
15466899 ATTTGATGTG
* * * **
15466909 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCACAGGCTA
1 TATCCGAACTTAGGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCACAGGCTA
**
15466974 TGTGCTGGAATTA
66 TAAGCTGGAATTA
* * * *
15466987 TATCCGAACTTATGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATCCGAACTTAGGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCACAGGCT
* *
15467051 TTAAGCTGGTATTA
65 ATAAGCTGGAATTA
15467065 TA
1 TA
15467067 CCGGGTTTAA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
77 4 0.06
78 62 0.94
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (78 bp):
TATCCGAACTTAGGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCACAGGCTA
TAAGCTGGAATTA
Found at i:15468225 original size:2 final size:2
Alignment explanation
Indices: 15468218--15468254 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15468208 CGTTAAAACC
15468218 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15468255 ACATGAGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15472263 original size:26 final size:25
Alignment explanation
Indices: 15472233--15472281 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
15472223 AATATTTTTT
15472233 TATATAAAATTAAATTAAAAATATAA
1 TATATAAAA-TAAATTAAAAATATAA
* *
15472259 TATATCAAATACATTAAAAATAT
1 TATATAAAATAAATTAAAAATAT
15472282 TAAAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
TATATAAAATAAATTAAAAATATAA
Found at i:15472392 original size:2 final size:2
Alignment explanation
Indices: 15472385--15472415 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15472375 TCCAATCTCT
15472385 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15472416 TTATCCAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15474105 original size:11 final size:11
Alignment explanation
Indices: 15474091--15474115 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15474081 GATATTGTAT
15474091 TGGTGGTAGTA
1 TGGTGGTAGTA
15474102 TGGTGGTAGTA
1 TGGTGGTAGTA
15474113 TGG
1 TGG
15474116 GCAATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (11 bp):
TGGTGGTAGTA
Found at i:15486320 original size:3 final size:3
Alignment explanation
Indices: 15486236--15486309 Score: 58
Period size: 3 Copynumber: 23.3 Consensus size: 3
15486226 TAATGAACAC
* * *
15486236 AAT AAT AAT AAAT AAT AAT AAC AAT AAT AAA AAT ATT CAATT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT -AA-T AAT AAT
* * *
15486284 ACT ATAT GAT AAT AAT GAT AAT AAT A
1 AAT A-AT AAT AAT AAT AAT AAT AAT A
15486310 GTGAAATAAT
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
3 47 0.85
4 7 0.13
5 1 0.02
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15486453 original size:3 final size:3
Alignment explanation
Indices: 15486445--15486489 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
15486435 TGATTATAAC
15486445 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15486490 TCTAATGACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15487742 original size:11 final size:11
Alignment explanation
Indices: 15487726--15487753 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
15487716 TTAGGTTATA
15487726 TATATAAATAT
1 TATATAAATAT
15487737 TATATAAATAT
1 TATATAAATAT
15487748 TATATA
1 TATATA
15487754 TAATTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TATATAAATAT
Found at i:15487742 original size:13 final size:12
Alignment explanation
Indices: 15487722--15487761 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
15487712 TTATTTAGGT
15487722 TATATATATAAA
1 TATATATATAAA
15487734 TAT-TATATAAA
1 TATATATATAAA
*
15487745 TATTATATATAAT
1 TA-TATATATAAA
15487758 TATA
1 TATA
15487762 AACCATCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 10 0.40
12 6 0.24
13 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATATATAAA
Found at i:15487789 original size:3 final size:3
Alignment explanation
Indices: 15487781--15487818 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
15487771 TATGGTTTTA
* *
15487781 TAT TAT TAT TAT TAT TAT TAG TAT TGT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
15487819 AATGAAGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:15489126 original size:23 final size:23
Alignment explanation
Indices: 15489063--15489130 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
15489053 ACCTGATCAG
15489063 AATACGACACATAAAAGTGCCT-A
1 AATACGACACAT-AAAGTGCCTGA
** *
15489086 AA-ACGACACACGAGGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
*
15489108 AATACAACACATAAAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
15489131 TCAGTAAAGC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
21 7 0.19
22 11 0.31
23 18 0.50
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.15
Consensus pattern (23 bp):
AATACGACACATAAAGTGCCTGA
Found at i:15491025 original size:3 final size:3
Alignment explanation
Indices: 15491017--15491054 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
15491007 TTACTTCATT
* *
15491017 TAA TAA TAA TAA TAA CAA TAC TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
15491055 TAAAACCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:15491095 original size:13 final size:12
Alignment explanation
Indices: 15491078--15491111 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
15491068 ATGGTTTATA
15491078 ATTATATATAAT
1 ATTATATATAAT
15491090 ATT-TATATAAT
1 ATTATATATAAT
15491101 ATTTATATATA
1 A-TTATATATA
15491112 TAACCTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 9 0.45
12 5 0.25
13 6 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTATATATAAT
Found at i:15491098 original size:11 final size:11
Alignment explanation
Indices: 15491082--15491109 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
15491072 TTTATAATTA
15491082 TATATAATATT
1 TATATAATATT
15491093 TATATAATATT
1 TATATAATATT
15491104 TATATA
1 TATATA
15491110 TATAACCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TATATAATATT
Found at i:15497616 original size:38 final size:38
Alignment explanation
Indices: 15497574--15497651 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
15497564 AAATGATTCT
15497574 AACCAATCTATATCTCTAATACTATTGAACACTAAATC
1 AACCAATCTATATCTCTAATACTATTGAACACTAAATC
15497612 AACCAATCTATATCTCTAATACTATTGAACACTAAATC
1 AACCAATCTATATCTCTAATACTATTGAACACTAAATC
15497650 AA
1 AA
15497652 GTGGCTTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.44, C:0.23, G:0.03, T:0.31
Consensus pattern (38 bp):
AACCAATCTATATCTCTAATACTATTGAACACTAAATC
Found at i:15499817 original size:21 final size:21
Alignment explanation
Indices: 15499790--15499840 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
15499780 AGAGTTATTT
15499790 TTTTTAAAATTT-TTAATATA
1 TTTTTAAAATTTATTAATATA
**
15499810 TATTTTAAAATTTATTGTTATA
1 T-TTTTAAAATTTATTAATATA
15499832 TTTTTAAAA
1 TTTTTAAAA
15499841 ATATTTATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 19 0.70
22 7 0.26
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTTAAAATTTATTAATATA
Found at i:15499845 original size:20 final size:22
Alignment explanation
Indices: 15499806--15499845 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
15499796 AAATTTTTAA
*
15499806 TATATATTTTAAAATTTATTGT
1 TATATATTTTAAAATATATTGT
15499828 TATAT-TTTTAAAA-ATATT
1 TATATATTTTAAAATATATT
15499846 TATGAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 8 0.47
22 5 0.29
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (22 bp):
TATATATTTTAAAATATATTGT
Found at i:15500496 original size:37 final size:37
Alignment explanation
Indices: 15500446--15500519 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
15500436 TTGGAGTGTA
*
15500446 CCACTTTTGCAAGTAACATCTATCTACCAAAATCATC
1 CCACTTTTGCAAGTAACATCTATCTAACAAAATCATC
15500483 CCACTTTTGCAAGTAACATCTATCTAACAAAATCATC
1 CCACTTTTGCAAGTAACATCTATCTAACAAAATCATC
15500520 AACATGAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.30
Consensus pattern (37 bp):
CCACTTTTGCAAGTAACATCTATCTAACAAAATCATC
Found at i:15503401 original size:45 final size:45
Alignment explanation
Indices: 15503337--15503502 Score: 185
Period size: 45 Copynumber: 3.6 Consensus size: 45
15503327 TGTAACCCAC
* *
15503337 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGTGTGTGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGTGTGTGCAT
* *
15503382 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG-TG--T-G-TGCAT
* * *
15503432 -C-TCA-CGAACTCAGACTCAACTCAACGAGCTCGGGTGTGCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTC-GGTGTGTGCAT
*
15503475 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGTGAACTCAGACTCAACTCAAC
15503503 AAGTTCGGAT
Statistics
Matches: 100, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
43 3 0.03
44 2 0.02
45 36 0.36
46 21 0.21
47 27 0.27
48 5 0.05
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGTGTGTGCAT
Found at i:15503448 original size:47 final size:47
Alignment explanation
Indices: 15503390--15503554 Score: 185
Period size: 47 Copynumber: 3.5 Consensus size: 47
15503380 ATCCATAAGT
15503390 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * ** * *
15503437 GAACTCAGACTCAACTCAACGAGCTCGGGTG--T-G-CGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-C
* * *
15503483 GAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
*
15503530 GAACTCGGACTCAACTCAACGAGTT
1 GAACTCAGACTCAACTCAACGAGTT
15503555 TGGAACTCAA
Statistics
Matches: 95, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 3 0.03
44 2 0.02
45 3 0.03
46 27 0.28
47 53 0.56
48 3 0.03
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (47 bp):
GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:15503508 original size:93 final size:92
Alignment explanation
Indices: 15503345--15503552 Score: 353
Period size: 93 Copynumber: 2.2 Consensus size: 92
15503335 ACCCATAAGT
* *
15503345 GAACTCGGACTCAACTCAATGAGCTCGGTGTGTGCATCCATAAGTGAACTCAGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGTGTGCGCATCCATAAGTGAACTCAGACTCAACTCAAC
*
15503410 GAGTTCGGATGCCTAGTTACATCTCAC
66 AAGTTCGGATGCCTAGTTACATCTCAC
* *
15503437 GAACTCAGACTCAACTCAACGAGCTCGGGTGTGCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTC-GGTGTGCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
15503502 CAAGTTCGGATGCCTAGTTACATTTCAC
65 CAAGTTCGGATGCCTAGTTACATCTCAC
15503530 GAACTCGGACTCAACTCAACGAG
1 GAACTCGGACTCAACTCAACGAG
15503553 TTTGGAACTC
Statistics
Matches: 108, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 24 0.22
93 84 0.78
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGTGTGCGCATCCATAAGTGAACTCAGACTCAACTCAAC
AAGTTCGGATGCCTAGTTACATCTCAC
Found at i:15505626 original size:30 final size:30
Alignment explanation
Indices: 15505590--15505649 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
15505580 CAGTTTGGAA
15505590 ACAACCTGGGATCAAATCGAATACTAAAAT
1 ACAACCTGGGATCAAATCGAATACTAAAAT
15505620 ACAACCTGGGATCAAATCGAATACTAAAAT
1 ACAACCTGGGATCAAATCGAATACTAAAAT
15505650 CATTCAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (30 bp):
ACAACCTGGGATCAAATCGAATACTAAAAT
Found at i:15507417 original size:19 final size:19
Alignment explanation
Indices: 15507393--15507441 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
15507383 AGTACTAAAA
*
15507393 AGTACCAAAATTATAAGGG
1 AGTACCAAAACTATAAGGG
*
15507412 AGTACCTAAAAACTATTAGGG
1 AGTACC--AAAACTATAAGGG
15507433 AGTA-CAAAA
1 AGTACCAAAA
15507442 GAAAAATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.15
19 6 0.23
20 1 0.04
21 15 0.58
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.20
Consensus pattern (19 bp):
AGTACCAAAACTATAAGGG
Found at i:15507508 original size:20 final size:20
Alignment explanation
Indices: 15507483--15507551 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
15507473 GAATACCCAA
15507483 AAAAAAATATGAAGAAGTAT
1 AAAAAAATATGAAGAAGTAT
* *
15507503 AAAAAATTAT-AAGGAAGTACC
1 AAAAAAATATGAA-GAAGTA-T
* *
15507524 AAAAAAATACGAGGGAA-TAT
1 AAAAAAATATGA-AGAAGTAT
15507544 AAAAAAAT
1 AAAAAAAT
15507552 CAGATGAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
19 2 0.05
20 23 0.59
21 10 0.26
22 4 0.10
ACGTcount: A:0.64, C:0.04, G:0.14, T:0.17
Consensus pattern (20 bp):
AAAAAAATATGAAGAAGTAT
Found at i:15510003 original size:30 final size:28
Alignment explanation
Indices: 15509959--15510065 Score: 73
Period size: 30 Copynumber: 3.8 Consensus size: 28
15509949 AAATTTTAAA
*
15509959 TTAATAATATTAAAATTATATTTTAACTTT
1 TTAA-AATAATAAAATTATA-TTTAACTTT
15509989 TTCAAAATAATAAAAACTTA-ATTTAA-TTCT
1 TT-AAAATAAT-AAAA-TTATATTTAACTT-T
* * *
15510019 TTAAAAATTATAAAA--ATA-TAAAC-TA
1 TT-AAAATAATAAAATTATATTTAACTTT
15510044 TTAAAATAATAAAATTATATTT
1 TTAAAATAATAAAATTATATTT
15510066 TTACTATTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 21
0.69 0.08 0.24
Matches are distributed among these distances:
24 11 0.18
25 2 0.03
26 8 0.13
27 2 0.03
29 6 0.10
30 22 0.36
31 7 0.11
32 3 0.05
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (28 bp):
TTAAAATAATAAAATTATATTTAACTTT
Found at i:15518588 original size:29 final size:29
Alignment explanation
Indices: 15518528--15518588 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
15518518 CATGATAACG
*** *
15518528 TAAGTGACTAAAATATAATATTTTTAACA
1 TAAGTGACTAAAATATAATATTAAGAAAA
15518557 TAAGTGACTAAAATATAAT-TTAAGACAAA
1 TAAGTGACTAAAATATAATATTAAGA-AAA
15518586 TAA
1 TAA
15518589 AAGTATCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.11
29 24 0.89
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (29 bp):
TAAGTGACTAAAATATAATATTAAGAAAA
Found at i:15520603 original size:28 final size:28
Alignment explanation
Indices: 15520570--15520630 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
15520560 ACTGGTGACA
*
15520570 ACACGAGCGTGTCTAGGCCGTGTGAGGG
1 ACACGAGCGTGTCTAGGCCGTGTAAGGG
15520598 ACACGAGCGTGTCTAGGCCGTGTAAGGG
1 ACACGAGCGTGTCTAGGCCGTGTAAGGG
15520626 ACACG
1 ACACG
15520631 GGCCAGGGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.21, C:0.23, G:0.39, T:0.16
Consensus pattern (28 bp):
ACACGAGCGTGTCTAGGCCGTGTAAGGG
Found at i:15522348 original size:67 final size:67
Alignment explanation
Indices: 15522235--15522361 Score: 191
Period size: 67 Copynumber: 1.9 Consensus size: 67
15522225 GTAGAGATCA
* * *
15522235 ATATGTATATCCAATCCAAATCGTATTGTAAAAATTTCATAGCTACTACAACATGATATTCGTGT
1 ATATATATATCCAATCCAAATCGTATTATAAAAATTCCATAGCTACTACAACATGATATTCGTGT
15522300 AT
66 AT
* * * *
15522302 ATATATATATCCGATCCAAATCGTTTTATAAAAGTTCCATAGCTACTACAATATGATATT
1 ATATATATATCCAATCCAAATCGTATTATAAAAATTCCATAGCTACTACAACATGATATT
15522362 GGTCCCATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 53 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (67 bp):
ATATATATATCCAATCCAAATCGTATTATAAAAATTCCATAGCTACTACAACATGATATTCGTGT
AT
Found at i:15524797 original size:3 final size:3
Alignment explanation
Indices: 15524791--15524824 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
15524781 AAATAATAAG
* *
15524791 AGA AGA AGA TGA AGA AGA AGA AGA AGA AGG AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
15524825 AGAGAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:15525397 original size:25 final size:24
Alignment explanation
Indices: 15525368--15525434 Score: 74
Period size: 25 Copynumber: 3.0 Consensus size: 24
15525358 AAATAAAAAA
15525368 ATTTAAAAT-ATAATAAATCAAATAC
1 ATTTAAAATCATAA-AAA-CAAATAC
15525393 ATTTAAAATCATAAAAACAAAT--
1 ATTTAAAATCATAAAAACAAATAC
15525415 A-TTAAAA-CA-AAAAACAAATA
1 ATTTAAAATCATAAAAACAAATA
15525435 AAAAATGAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
19 10 0.25
20 2 0.05
21 6 0.15
22 1 0.03
24 5 0.12
25 12 0.30
26 4 0.10
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (24 bp):
ATTTAAAATCATAAAAACAAATAC
Found at i:15525429 original size:19 final size:21
Alignment explanation
Indices: 15525362--15525434 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 21
15525352 TTTATTAAAT
15525362 AAAA-AAAT-TTAAAAT-ATA
1 AAAACAAATATTAAAATCATA
15525380 ATAAATCAAATACATTTAAAATCATA
1 A-AAA-CAAAT--A-TTAAAATCATA
15525406 AAAACAAATATTAAAA-CA-A
1 AAAACAAATATTAAAATCATA
15525425 AAAACAAATA
1 AAAACAAATA
15525435 AAAAATGAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 15
0.76 0.00 0.24
Matches are distributed among these distances:
18 1 0.02
19 14 0.30
20 2 0.04
21 10 0.21
22 1 0.02
24 5 0.11
25 10 0.21
26 4 0.09
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAACAAATATTAAAATCATA
Found at i:15526930 original size:3 final size:3
Alignment explanation
Indices: 15526915--15527022 Score: 180
Period size: 3 Copynumber: 36.0 Consensus size: 3
15526905 CCATTTTTTC
* *
15526915 TCT TCT CCT TCT TCT TCT TCT CCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
15526963 TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
15527011 TCT TTT TCT TCT
1 TCT TCT TCT TCT
15527023 CTCTATTATT
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 97 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:15527200 original size:30 final size:31
Alignment explanation
Indices: 15527136--15527203 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
15527126 CTGTTAATCG
*
15527136 GTGACTGTTTTGTCACTTTTTTATAACGTTA
1 GTGACTGTTTTGTCACTTTTTTATAAAGTTA
* *
15527167 GTGATTGTTTTGTTA-TTTTTTA-AAAGTTGA
1 GTGACTGTTTTGTCACTTTTTTATAAAGTT-A
15527197 GTGACTG
1 GTGACTG
15527204 AAATGAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.16
30 14 0.44
31 13 0.41
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.51
Consensus pattern (31 bp):
GTGACTGTTTTGTCACTTTTTTATAAAGTTA
Found at i:15531418 original size:81 final size:81
Alignment explanation
Indices: 15531330--15531571 Score: 385
Period size: 81 Copynumber: 3.0 Consensus size: 81
15531320 CTTCTAGAGG
* * * * *
15531330 TGGTACTGATTTATCTCCTCCTTGGAAGCGGAGGGTTAGGAATGGCACACCCTCACCAGAACCTT
1 TGGTACTGATTTATCTCCTCCTAGGAAACGGAGGGTTCGGAATGACACACCTTCACCAGAACCTT
15531395 TAGTAAACAGAGCAGA
66 TAGTAAACAGAGCAGA
**
15531411 TGGTACTGATTTATCTCCTCCTAGGAAACATAGGGTTCGGAATGACACACCTTCACCAGAACCTT
1 TGGTACTGATTTATCTCCTCCTAGGAAACGGAGGGTTCGGAATGACACACCTTCACCAGAACCTT
* *
15531476 TAGTAAACCGAACAGA
66 TAGTAAACAGAGCAGA
*
15531492 TGGTACTGATTTATCTCCTCCAAGGAAACGGAGGGTTCGGAATGACACACCTTCACCAGAACCTT
1 TGGTACTGATTTATCTCCTCCTAGGAAACGGAGGGTTCGGAATGACACACCTTCACCAGAACCTT
*
15531557 TAGCAAACAGAGCAG
66 TAGTAAACAGAGCAG
15531572 GTGCTGATCT
Statistics
Matches: 146, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 146 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (81 bp):
TGGTACTGATTTATCTCCTCCTAGGAAACGGAGGGTTCGGAATGACACACCTTCACCAGAACCTT
TAGTAAACAGAGCAGA
Found at i:15543495 original size:30 final size:31
Alignment explanation
Indices: 15543461--15543523 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
15543451 CCTTTTCATG
15543461 TTTCATA-TTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
15543491 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
15543522 TT
1 TT
15543524 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:15543765 original size:24 final size:24
Alignment explanation
Indices: 15543714--15543855 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
15543704 GCTTTATCAT
*
15543714 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
15543739 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
15543763 ATAACTGGGGCATAAG-CCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
15543785 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
15543809 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
15543833 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
15543856 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
22 16 0.15
23 11 0.10
24 70 0.64
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:15543802 original size:46 final size:48
Alignment explanation
Indices: 15543714--15543854 Score: 198
Period size: 46 Copynumber: 3.0 Consensus size: 48
15543704 GCTTTATCAT
* *
15543714 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
15543763 ATAACTGGGGCATAAG-CCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
15543809 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
15543855 TTCACTTCCT
Statistics
Matches: 85, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
46 37 0.44
47 11 0.13
48 27 0.32
49 10 0.12
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:15543815 original size:70 final size:72
Alignment explanation
Indices: 15543713--15543855 Score: 211
Period size: 70 Copynumber: 2.0 Consensus size: 72
15543703 TGCTTTATCA
*
15543713 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
15543778 G-CCTTT
66 GCCCTTT
* * **
15543784 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
15543847 AGCCCTTT
65 AGCCCTTT
15543855 T
1 T
15543856 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
70 46 0.71
71 19 0.29
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:15543930 original size:20 final size:20
Alignment explanation
Indices: 15543905--15543965 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
15543895 TTATGATTAC
15543905 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
15543925 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
15543945 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
15543965 A
1 A
15543966 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:15544040 original size:25 final size:25
Alignment explanation
Indices: 15544008--15544055 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
15543998 ATACATAAAC
* * *
15544008 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
15544033 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
15544056 CATGGTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:15551956 original size:24 final size:23
Alignment explanation
Indices: 15551832--15551955 Score: 164
Period size: 23 Copynumber: 5.4 Consensus size: 23
15551822 CTGGAGGCCT
*
15551832 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACT-GGGCATA
*
15551857 AGCCCTTTCAATAACTGGGCATA
1 AGCCCTTTTAATAACTGGGCATA
15551880 AGCCCTTTT-ATAACT-GGCATA
1 AGCCCTTTTAATAACTGGGCATA
*
15551901 AGCCC-TTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACT-GGGCATA
*
15551924 AGCCCTTTTGATAACTGGGCATA
1 AGCCCTTTTAATAACTGGGCATA
15551947 AGCCCTTTT
1 AGCCCTTTT
15551956 TCACTTCCTC
Statistics
Matches: 92, Mismatches: 3, Indels: 10
0.88 0.03 0.10
Matches are distributed among these distances:
20 3 0.03
21 17 0.18
22 6 0.07
23 41 0.45
24 21 0.23
25 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (23 bp):
AGCCCTTTTAATAACTGGGCATA
Found at i:15552060 original size:18 final size:20
Alignment explanation
Indices: 15552008--15552063 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
15551998 TGATTCATCT
15552008 ATGTGCATATCATACATATC
1 ATGTGCATATCATACATATC
15552028 ATGTGCATATCATACAT-TC
1 ATGTGCATATCATACATATC
15552047 ATGTGCAT-TCATACATA
1 ATGTGCATATCATACATA
15552064 CCATATTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 8 0.23
19 10 0.29
20 17 0.49
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGTGCATATCATACATATC
Found at i:15552326 original size:28 final size:30
Alignment explanation
Indices: 15552282--15552340 Score: 104
Period size: 28 Copynumber: 2.0 Consensus size: 30
15552272 GGCCTAAAAC
15552282 CCCTAATGGGCCCTACTTAGCCAA-TTCGT
1 CCCTAATGGGCCCTACTTAGCCAATTTCGT
15552311 CCCTAAT-GGCCCTACTTAGCCAATTTCGT
1 CCCTAATGGGCCCTACTTAGCCAATTTCGT
15552340 C
1 C
15552341 ATCTAGGCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 16 0.55
29 13 0.45
ACGTcount: A:0.20, C:0.36, G:0.15, T:0.29
Consensus pattern (30 bp):
CCCTAATGGGCCCTACTTAGCCAATTTCGT
Found at i:15558844 original size:39 final size:40
Alignment explanation
Indices: 15558712--15558903 Score: 133
Period size: 40 Copynumber: 4.8 Consensus size: 40
15558702 GGATATAACG
* * * * *
15558712 ACTCGCTCAAATGCCTTCGGGAC-GAAGCCCGG-TTATAGTG
1 ACTCGCACGAATGCCTTCGAGACTTAA-CCCGGATT-TAGTA
* *
15558752 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGAGACTTAACCCGGATTTAGTA
* * * * *
15558792 ACTTGCACAAATGCCTTCGAG-CTTAGCCTGGATTTATTA
1 ACTCGCACGAATGCCTTCGAGACTTAACCCGGATTTAGTA
* ** * *
15558831 ACTCGCACGAATGCCTTCG-GATCCTAGTCCGGATATAGTC
1 ACTCGCACGAATGCCTTCGAGA-CTTAACCCGGATTTAGTA
* * *
15558871 ACTTAGCAC-AAAGCCTTCGGGACTTAACCCGGA
1 AC-TCGCACGAATGCCTTCGAGACTTAACCCGGA
15558904 CATTATTCGA
Statistics
Matches: 122, Mismatches: 24, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
38 1 0.01
39 31 0.25
40 79 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGAGACTTAACCCGGATTTAGTA
Found at i:15558903 original size:40 final size:39
Alignment explanation
Indices: 15558686--15558903 Score: 129
Period size: 40 Copynumber: 5.5 Consensus size: 39
15558676 GAATCACGTA
* * *** *
15558686 CCTTCGGAATTTAA-CCGGATATAACGACTCGCTCAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAA-G
* * * *
15558725 CCTTCGGGAC-GAAGCCCGGTTATAGTGACTCGCACGAATG
1 CCTTCGGGACTTAA-CCCGGATATAGTAACTCGCAC-AAAG
* * *
15558765 CCTTCGGGACTTAACCCGGGTTTAGTAACTTGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAA-G
* * * * * *
15558805 CCTTCGAG-CTTAGCCTGGATTTATTAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCAC-AAAG
* ** * *
15558844 CCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATATAGTAAC-TCGCACAAAG
15558884 CCTTCGGGACTTAACCCGGA
1 CCTTCGGGACTTAACCCGGA
15558904 CATTATTCGA
Statistics
Matches: 136, Mismatches: 33, Indels: 19
0.72 0.18 0.10
Matches are distributed among these distances:
38 3 0.02
39 37 0.27
40 84 0.62
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAAG
Found at i:15565433 original size:35 final size:35
Alignment explanation
Indices: 15565387--15565455 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
15565377 GAGGAGGAGG
15565387 AGGAAAAATATATGAATGACTCATGTATAAATTGT
1 AGGAAAAATATATGAATGACTCATGTATAAATTGT
*
15565422 AGGAAAAATATATGAATGACTCGTGTATAAATTG
1 AGGAAAAATATATGAATGACTCATGTATAAATTG
15565456 ATCACATGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.30
Consensus pattern (35 bp):
AGGAAAAATATATGAATGACTCATGTATAAATTGT
Found at i:15565904 original size:50 final size:50
Alignment explanation
Indices: 15565761--15565936 Score: 284
Period size: 50 Copynumber: 3.5 Consensus size: 50
15565751 CCATGGAAAC
15565761 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
15565811 AAGTGATAAGTAATCGCTTCGGC-ACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
15565860 AAGTGATAAGTGATAGC-TCTGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTC-GGCTACACTTATCTGATCAAGGACAAATGA
*
15565910 CAAGTGAAAAGTGATAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
15565937 CTGATCAGTG
Statistics
Matches: 115, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
48 2 0.02
49 43 0.37
50 46 0.40
51 22 0.19
52 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:15565947 original size:31 final size:31
Alignment explanation
Indices: 15565912--15566060 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
15565902 ACAAATGACA
*
15565912 AGTGAAAAGTGATAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
15565943 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
15565974 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
15566005 ATTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
15566036 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
15566061 AAGTGACAAG
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:15566143 original size:49 final size:50
Alignment explanation
Indices: 15566078--15566172 Score: 165
Period size: 49 Copynumber: 1.9 Consensus size: 50
15566068 AAGTGATTTC
* *
15566078 CGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTG-ATATGTGATTA
1 CGTGTAAGACCATAGCTAGGCTATGGCATCGATATATGAATATGTGATTA
15566127 CGTGTAAGACCATAGCTAGGCTATGGCATCGATATATGAATATGTG
1 CGTGTAAGACCATAGCTAGGCTATGGCATCGATATATGAATATGTG
15566173 TAAGACCATA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
49 36 0.84
50 7 0.16
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (50 bp):
CGTGTAAGACCATAGCTAGGCTATGGCATCGATATATGAATATGTGATTA
Found at i:15566174 original size:42 final size:43
Alignment explanation
Indices: 15566079--15566242 Score: 147
Period size: 42 Copynumber: 3.7 Consensus size: 43
15566069 AGTGATTTCC
* *
15566079 GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATG-TGATT
1 GTGTAAGACCATAGCTAGGCTATGGCATCG--AT-T-ATATGAAGA-T
*
15566126 ACGTGTAAGACCATAGCTAGGCTATGGCATCGA-TATATGAATAT
1 --GTGTAAGACCATAGCTAGGCTATGGCATCGATTATATGAAGAT
* * * *
15566170 GTGTAAGACCATAACTGGGCTGTGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTAGGCTATGGCATCGATTATATGAAGAT
* *
15566212 GTGTAAGACCATAG-TTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTAG-GCTATGGCATCGA
15566243 GAGACGTTCA
Statistics
Matches: 99, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
41 3 0.03
42 57 0.58
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 29 0.29
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTAGGCTATGGCATCGATTATATGAAGAT
Found at i:15568539 original size:25 final size:25
Alignment explanation
Indices: 15568511--15568578 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
15568501 TCCCGATATT
* *
15568511 TGGCTCTCACGAGCTTCCCTATTAA
1 TGGCTCTCAAGAGCTTCCCGATTAA
** * *
15568536 TGGCTCTCTTGAGTTTCCCGATTTA
1 TGGCTCTCAAGAGCTTCCCGATTAA
*
15568561 TGGCTCGCAAGAGCTTCC
1 TGGCTCTCAAGAGCTTCC
15568579 TGATATACAT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.16, C:0.29, G:0.21, T:0.34
Consensus pattern (25 bp):
TGGCTCTCAAGAGCTTCCCGATTAA
Found at i:15571356 original size:47 final size:47
Alignment explanation
Indices: 15571277--15571404 Score: 141
Period size: 47 Copynumber: 2.7 Consensus size: 47
15571267 AATCGATAAG
* * * * * * *
15571277 TACCTATACCATAGTCCGTAGCAAAATTAAGGTAACTTATC-CCGGAG
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCTCC-GAA
* * *
15571324 TACTTATACTATGGCCCATAGCCAAATCAAGGTAACTCCTCTCCGAA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCTCCGAA
*
15571371 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTA
15571405 TTATTCGCAC
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
47 65 0.97
48 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (47 bp):
TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCTCCGAA
Found at i:15574339 original size:42 final size:42
Alignment explanation
Indices: 15574290--15574465 Score: 187
Period size: 42 Copynumber: 4.0 Consensus size: 42
15574280 CTTCGTTTTC
** *
15574290 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* *
15574333 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
*
15574374 TCGATGCCATAGCCCATCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC---AT---AT-TCACATA
*
15574423 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA
15574464 TC
1 TC
15574466 TCACTGATGC
Statistics
Matches: 116, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
41 11 0.09
42 62 0.53
43 2 0.02
45 2 0.02
47 1 0.01
48 2 0.02
49 36 0.31
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:15574433 original size:49 final size:49
Alignment explanation
Indices: 15574360--15574514 Score: 183
Period size: 49 Copynumber: 3.2 Consensus size: 49
15574350 TATGGTCTTA
* *
15574360 CACATATTCATATATCGATGCCATAGCCCATCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAACTATGGTCTTACACGTAAT
*
15574410 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
1 CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGTAAT
* * * * * *
15574458 CACATATCTCA-CT-GATGCCATATCCCAAATATGGTCTTATACAGT-AG
1 CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACAC-GTAAT
15574505 CACATATCAC
1 CACATATCAC
15574515 GCTGATGCCA
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
46 25 0.27
47 12 0.13
48 13 0.14
49 37 0.40
50 6 0.06
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGTAAT
Found at i:15574525 original size:47 final size:46
Alignment explanation
Indices: 15574376--15574543 Score: 183
Period size: 47 Copynumber: 3.6 Consensus size: 46
15574366 TTCATATATC
** *
15574376 GATGCCATAGCCCATCTATGGTCTTACACGTAATCACATATCACATAT
1 GATGCCATAGCCCAGATATGGTCTTACACGT-ATCACATATCACA-CT
* * *
15574424 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACT
1 -GATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACACT
* * * * *
15574471 GATGCCATATCCCAAATATGGTCTTATACAGTAGCACATATCACGCT
1 GATGCCATAGCCCAGATATGGTCTTACAC-GTATCACATATCACACT
**
15574518 GATGCCATTTCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGATATGGTCTTA
15574544 TACGGAAATC
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
46 25 0.24
47 38 0.37
48 12 0.12
49 29 0.28
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (46 bp):
GATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACACT
Found at i:15574555 original size:95 final size:95
Alignment explanation
Indices: 15574334--15574543 Score: 229
Period size: 95 Copynumber: 2.3 Consensus size: 95
15574324 TTCACATAAT
* * * **
15574334 GATGCCATAGCCCAGCTATGGTCTTACAC-ATAT-TCATATAT--C-GATGCCATAGCCCATCTA
1 GATGCCATAGCCCAGATATGGTCTTACACGA-ATCACATATCTCACTGATGCCATAGCCCAAATA
* *
15574394 TGGTCTTACACGTAATCACATATCACATATC
65 TGGTCTTACACGTAAGCACATATCACAGATC
* *
15574425 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTGATGCCATATCCCAAATAT
1 GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAAATAT
* *
15574490 GGTCTTATACAGT-AGCACATATCAC-GCT-
66 GGTCTTACAC-GTAAGCACATATCACAGATC
**
15574518 GATGCCATTTCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGATATGGTCTTA
15574544 TACGGAAATC
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
91 31 0.31
92 7 0.07
93 23 0.23
94 2 0.02
95 36 0.36
96 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (95 bp):
GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAAATAT
GGTCTTACACGTAAGCACATATCACAGATC
Found at i:15574564 original size:7 final size:7
Alignment explanation
Indices: 15574552--15574587 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
15574542 TATACGGAAA
15574552 TCACTTG
1 TCACTTG
15574559 TCACTTG
1 TCACTTG
15574566 TCACTTG
1 TCACTTG
15574573 TCACTTG
1 TCACTTG
15574580 TCACTTG
1 TCACTTG
15574587 T
1 T
15574588 AGCCAAAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.44
Consensus pattern (7 bp):
TCACTTG
Found at i:15574621 original size:31 final size:31
Alignment explanation
Indices: 15574586--15574765 Score: 236
Period size: 31 Copynumber: 5.8 Consensus size: 31
15574576 CTTGTCACTT
* *
15574586 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
** * *
15574617 GTAGCCGGTGCTATCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
15574648 GTAGCCGGAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
15574679 GTAGCC-AGAGCTACCACTTTTCATTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
* *
15574710 GTAGCTGAAGCTACCACTTTACACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
15574741 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
15574766 TGTCATTTGC
Statistics
Matches: 130, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
31 129 0.99
32 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:15574691 original size:93 final size:93
Alignment explanation
Indices: 15574586--15574765 Score: 261
Period size: 93 Copynumber: 1.9 Consensus size: 93
15574576 CTTGTCACTT
** * * *
15574586 GTAGCCAAAGCTACCACTATTCACTGATCAGGTAGCCGGTGCTATCATTTTTCACTGATCAGGTA
1 GTAGCCAAAGCTACCACTATTCACTGATCAGGTAGCCGAAGCTACCACTTTACACTGATCAGGTA
*
15574651 GCCGGAGCTACCACTTTTCACTGATTAG
66 GCCGAAGCTACCACTTTTCACTGATTAG
* * * *
15574679 GTAGCCAGAGCTACCACTTTTCATTGATCAGGTAGCTGAAGCTACCACTTTACACTGATCAGGTA
1 GTAGCCAAAGCTACCACTATTCACTGATCAGGTAGCCGAAGCTACCACTTTACACTGATCAGGTA
*
15574744 GCTGAAGCTACCACTTTTCACT
66 GCCGAAGCTACCACTTTTCACT
15574766 TGTCATTTGC
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (93 bp):
GTAGCCAAAGCTACCACTATTCACTGATCAGGTAGCCGAAGCTACCACTTTACACTGATCAGGTA
GCCGAAGCTACCACTTTTCACTGATTAG
Found at i:15574847 original size:50 final size:50
Alignment explanation
Indices: 15574741--15574917 Score: 275
Period size: 50 Copynumber: 3.5 Consensus size: 50
15574731 CACTGATCAG
* * *
15574741 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
*
15574792 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
15574842 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGGTAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
15574892 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
15574918 GTTGCCATGG
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
50 92 0.79
51 25 0.21
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:15583063 original size:31 final size:31
Alignment explanation
Indices: 15583028--15583088 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
15583018 ATTTTTAAAA
*
15583028 TTTAAATATTCAAAAA-ATAAAAAAAATATTT
1 TTTAAAAATT-AAAAATATAAAAAAAATATTT
*
15583059 TTTAAAAATTAAAAATTATGAAAAAAATAT
1 TTTAAAAATTAAAAA-TATAAAAAAAATAT
15583089 CAAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 5 0.19
31 9 0.35
32 12 0.46
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (31 bp):
TTTAAAAATTAAAAATATAAAAAAAATATTT
Found at i:15583084 original size:19 final size:19
Alignment explanation
Indices: 15583062--15583104 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
15583052 AATATTTTTT
15583062 AAAAAT-TAAAAATTATGAA
1 AAAAATATAAAAATTAT-AA
*
15583081 AAAAATATCAAAATTATAA
1 AAAAATATAAAAATTATAA
15583100 AAAAA
1 AAAAA
15583105 AATATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAAATATAAAAATTATAA
Found at i:15583085 original size:20 final size:20
Alignment explanation
Indices: 15583062--15583105 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
15583052 AATATTTTTT
*
15583062 AAAAAT-TAAAAATTATGAA
1 AAAAATATAAAAATTATAAA
*
15583081 AAAAATATCAAAATTATAAA
1 AAAAATATAAAAATTATAAA
15583101 AAAAA
1 AAAAA
15583106 ATATTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (20 bp):
AAAAATATAAAAATTATAAA
Found at i:15589737 original size:17 final size:17
Alignment explanation
Indices: 15589712--15589745 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
15589702 TTCAAATAAC
15589712 TTTTTATAATT-TTTAT
1 TTTTTATAATTATTTAT
15589728 TTTTTGATAATTATTTAT
1 TTTTT-ATAATTATTTAT
15589746 AAAGTGACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTTATAATTATTTAT
Found at i:15590543 original size:2 final size:2
Alignment explanation
Indices: 15590536--15590575 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
15590526 TTAATCCTTT
15590536 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
15590576 AAAGAACAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15594265 original size:20 final size:20
Alignment explanation
Indices: 15594240--15594290 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
15594230 AGAAAATTTT
15594240 TATATTTTTAAATTTTTATA
1 TATATTTTTAAATTTTTATA
15594260 TATATTTTTAGAATTTTTATA
1 TATATTTTTA-AATTTTTATA
15594281 -AT-TTTTTAAA
1 TATATTTTTAAA
15594291 AAATATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 2 0.07
19 6 0.20
20 12 0.40
21 10 0.33
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TATATTTTTAAATTTTTATA
Found at i:15601612 original size:39 final size:39
Alignment explanation
Indices: 15601558--15601667 Score: 148
Period size: 39 Copynumber: 2.8 Consensus size: 39
15601548 GATAAATATA
* ** *
15601558 GGCACAAAGCCTGCTAGGCTCAAAGCTTGATAAGTCACT
1 GGCACGAAGCCTGCTAGGCTCAAAGCCCGATAAGTCACC
* *
15601597 GGCATGAAGCTTGCTAGGCTCAAAGCCCGATAAGTCACC
1 GGCACGAAGCCTGCTAGGCTCAAAGCCCGATAAGTCACC
* *
15601636 GGCACGAGGCCTGCTAGGCTCAAGGCCCGATA
1 GGCACGAAGCCTGCTAGGCTCAAAGCCCGATA
15601668 CAATACACCA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 61 1.00
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.17
Consensus pattern (39 bp):
GGCACGAAGCCTGCTAGGCTCAAAGCCCGATAAGTCACC
Found at i:15604767 original size:27 final size:28
Alignment explanation
Indices: 15604737--15604793 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
15604727 CATTTATTCA
15604737 CTATTTTAATTAAAAA-TTAATTTTAAT
1 CTATTTTAATTAAAAAGTTAATTTTAAT
* *
15604764 CTATTTTCATTAAAAAGTTAGTTTTAAT
1 CTATTTTAATTAAAAAGTTAATTTTAAT
15604792 CT
1 CT
15604794 CGCACTGACT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 15 0.56
28 12 0.44
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.51
Consensus pattern (28 bp):
CTATTTTAATTAAAAAGTTAATTTTAAT
Found at i:15604871 original size:20 final size:21
Alignment explanation
Indices: 15604839--15604877 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
15604829 AATATTTTCA
15604839 TTAAAAGTTAATTTTAATCCC
1 TTAAAAGTTAATTTTAATCCC
15604860 TTAAAA-TTAATTTTAATC
1 TTAAAAGTTAATTTTAATC
15604878 TCACATTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (21 bp):
TTAAAAGTTAATTTTAATCCC
Found at i:15605178 original size:21 final size:22
Alignment explanation
Indices: 15605153--15605194 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15605143 CTATTTTGCA
15605153 TTAAAAA-TTAATTTTAATCCT
1 TTAAAAAGTTAATTTTAATCCT
*
15605174 TTAAAAAGTTAATTTTTATCC
1 TTAAAAAGTTAATTTTAATCC
15605195 CACATTGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (22 bp):
TTAAAAAGTTAATTTTAATCCT
Found at i:15607614 original size:9 final size:9
Alignment explanation
Indices: 15607602--15607653 Score: 63
Period size: 9 Copynumber: 5.8 Consensus size: 9
15607592 AAATATTTAA
15607602 ATAAAAATT
1 ATAAAAATT
15607611 ATAAAAATT
1 ATAAAAATT
15607620 ATAAAAATCCT
1 ATAAAAAT--T
15607631 A-AAAAATT
1 ATAAAAATT
*
15607639 ATAGAAA-T
1 ATAAAAATT
15607647 ATAAAAA
1 ATAAAAA
15607654 AAATTATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 9 0.24
9 21 0.55
10 6 0.16
11 2 0.05
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (9 bp):
ATAAAAATT
Found at i:15607625 original size:18 final size:18
Alignment explanation
Indices: 15607602--15607653 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
15607592 AAATATTTAA
15607602 ATAAAAATTATAAAAATT
1 ATAAAAATTATAAAAATT
15607620 ATAAAAATCCTA-AAAAATT
1 ATAAAAAT--TATAAAAATT
*
15607639 ATAGAAA-TATAAAAA
1 ATAAAAATTATAAAAA
15607654 AAATTATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 2 0.07
17 5 0.17
18 8 0.27
19 13 0.43
20 2 0.07
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (18 bp):
ATAAAAATTATAAAAATT
Found at i:15607637 original size:42 final size:42
Alignment explanation
Indices: 15607556--15607637 Score: 94
Period size: 42 Copynumber: 2.0 Consensus size: 42
15607546 AAAATTAAAA
* * **
15607556 TTAAATAAAAGTCATAAAAATGATTAAATTTTAATAAAATAT
1 TTAAATAAAAATCATAAAAATGATAAAATCCTAATAAAATAT
* *
15607598 TTAAATAAAAATTATAAAAATTATAAAAATCCTAA-AAAAT
1 TTAAATAAAAATCATAAAAATGAT-AAAATCCTAATAAAAT
15607638 TATAGAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
42 26 0.79
43 7 0.21
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (42 bp):
TTAAATAAAAATCATAAAAATGATAAAATCCTAATAAAATAT
Found at i:15607653 original size:19 final size:20
Alignment explanation
Indices: 15607613--15607663 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
15607603 TAAAAATTAT
*
15607613 AAAAATTATAAAAATCCT-A
1 AAAAATTATAAAAATCATAA
*
15607632 AAAAATTATAGAAAT-ATAAA
1 AAAAATTATAAAAATCAT-AA
15607652 AAAAATTATAAA
1 AAAAATTATAAA
15607664 CTTTTATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 1 0.04
19 14 0.52
20 12 0.44
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (20 bp):
AAAAATTATAAAAATCATAA
Found at i:15624061 original size:6 final size:6
Alignment explanation
Indices: 15624050--15624087 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
15624040 GACAGTAGAG
15624050 GGGGGA GGGGGA GGGGGA GGGGGA GGGGGA GGGGGA GG
1 GGGGGA GGGGGA GGGGGA GGGGGA GGGGGA GGGGGA GG
15624088 CGTTGAGTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.16, C:0.00, G:0.84, T:0.00
Consensus pattern (6 bp):
GGGGGA
Found at i:15624715 original size:18 final size:18
Alignment explanation
Indices: 15624694--15624731 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
15624684 TCCTCGACCA
15624694 CTATAACCAACTTATCCT
1 CTATAACCAACTTATCCT
15624712 CTATAACCAACTTATCCT
1 CTATAACCAACTTATCCT
15624730 CT
1 CT
15624732 GGAAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (18 bp):
CTATAACCAACTTATCCT
Found at i:15624852 original size:17 final size:17
Alignment explanation
Indices: 15624832--15624882 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
15624822 TGTAATTTGT
*
15624832 TTTTTTATTTTATTTCG
1 TTTTTTATTTTATTTAG
*
15624849 TTTTTTATTTTATTTAT
1 TTTTTTATTTTATTTAG
15624866 TTTTGTTACTTTTATTT
1 TTTT-TTA-TTTTATTT
15624883 TTATCAGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 19 0.63
18 3 0.10
19 8 0.27
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.78
Consensus pattern (17 bp):
TTTTTTATTTTATTTAG
Found at i:15627178 original size:44 final size:45
Alignment explanation
Indices: 15627101--15627206 Score: 108
Period size: 44 Copynumber: 2.4 Consensus size: 45
15627091 TTGGTTTTGT
** * * *
15627101 ATGGCACTAAGTGTATGATACCGAGATACCTTCAGTTTAA-TATG
1 ATGGCACTAAGTGTGCGATACCGAGATACCTTCAGCTAAACAATG
* ** * *
15627145 ATGGCACTAAGTGTGCGATATCGTTATAGCTTCAGCTAAACAATT
1 ATGGCACTAAGTGTGCGATACCGAGATACCTTCAGCTAAACAATG
15627190 AT-GCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
15627207 GTTCTTAAAG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 47 0.92
45 4 0.08
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (45 bp):
ATGGCACTAAGTGTGCGATACCGAGATACCTTCAGCTAAACAATG
Found at i:15629969 original size:22 final size:23
Alignment explanation
Indices: 15629939--15629982 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
15629929 ATTTTCTTAT
15629939 ATTATAAGAAAATAATAATAATG
1 ATTATAAGAAAATAATAATAATG
* *
15629962 ATTA-AAGAATATTATAATAAT
1 ATTATAAGAAAATAATAATAAT
15629983 ATAATACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (23 bp):
ATTATAAGAAAATAATAATAATG
Found at i:15637728 original size:30 final size:28
Alignment explanation
Indices: 15637688--15637788 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
15637678 GACAAGATTG
* * *
15637688 GCACTGAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* *
15637718 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * *
15637746 GCACTAAGTGTGCGAGCTGAATATATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
15637775 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
15637789 GATTCACTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 25 0.40
29 20 0.32
30 17 0.27
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:15637752 original size:28 final size:29
Alignment explanation
Indices: 15637717--15637788 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
15637707 AAAATTGTAC
*
15637717 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATATATAT
15637745 AGCACTAAGTGTGCGAGCTGAATATATAT
1 AGCACTAAGTGTGCGAGCTGAATATATAT
15637774 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
15637789 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATATATAT
Found at i:15645717 original size:30 final size:28
Alignment explanation
Indices: 15645677--15645777 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
15645667 GACAAGATTG
* * *
15645677 GCACTGAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* *
15645707 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * *
15645735 GCACTAAGTGTGCGAGCTGAATATATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
15645764 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
15645778 GATTCACTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 25 0.40
29 20 0.32
30 17 0.27
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:15645741 original size:28 final size:29
Alignment explanation
Indices: 15645706--15645777 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
15645696 AAAATTGTAC
*
15645706 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATATATAT
15645734 AGCACTAAGTGTGCGAGCTGAATATATAT
1 AGCACTAAGTGTGCGAGCTGAATATATAT
15645763 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
15645778 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATATATAT
Found at i:15648996 original size:5 final size:5
Alignment explanation
Indices: 15648986--15649017 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
15648976 CAATTTTTGA
15648986 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
15649018 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:15649011 original size:9 final size:9
Alignment explanation
Indices: 15648987--15649017 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
15648977 AATTTTTGAA
15648987 AAATAAAAT
1 AAATAAAAT
15648996 AAAATAAAAT
1 -AAATAAAAT
15649006 AAATAAAAT
1 AAATAAAAT
15649015 AAA
1 AAA
15649018 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:15649684 original size:39 final size:39
Alignment explanation
Indices: 15649630--15649756 Score: 191
Period size: 39 Copynumber: 3.3 Consensus size: 39
15649620 ATTCAGTGAT
15649630 TTATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
1 TTATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
*
15649669 TTATATCCGGGCTTAGGGTCCGCAGGCTATGTGCTGGAA
1 TTATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
* * * *
15649708 TTATATCCGGACTTAAGTTTCGCAGGCTACGTGCTGGAA
1 TTATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
* *
15649747 ATATGTCCGG
1 TTATATCCGG
15649757 GCTAAAGTCC
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (39 bp):
TTATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
Found at i:15649770 original size:78 final size:78
Alignment explanation
Indices: 15649630--15649774 Score: 202
Period size: 78 Copynumber: 1.9 Consensus size: 78
15649620 ATTCAGTGAT
* * * **
15649630 TTATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGGCTTAGGGTCCGCAGG
1 TTATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGGCTTAAAGTCCGCAGG
15649695 CTATGTGCTGGAA
66 CTATGTGCTGGAA
* * *
15649708 TTATATCCGGACTTAAGTTTCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAG
1 TTATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGGCTTAAAGT-CCGCAG
15649772 GCT
65 GCT
15649775 TCGAGCTGGT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
77 4 0.07
78 54 0.93
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (78 bp):
TTATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGGCTTAAAGTCCGCAGG
CTATGTGCTGGAA
Found at i:15649771 original size:39 final size:38
Alignment explanation
Indices: 15649647--15649790 Score: 153
Period size: 39 Copynumber: 3.7 Consensus size: 38
15649637 CGGACTTAGG
* **
15649647 GTCCGCAGGCTATGTGCTGGAATTATATCCGGGCTTAGG
1 GTCCGCAGGCTACGTGCTGGAATTATATCCGGGC-TAAA
* * *
15649686 GTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAA
1 GTCCGCAGGCTACGTGCTGGAATTATATCCGGGCTAAA
* * *
15649724 GTTTCGCAGGCTACGTGCTGGAAATATGTCCGGGCTAAA
1 G-TCCGCAGGCTACGTGCTGGAATTATATCCGGGCTAAA
* * *
15649763 GTCCCGCAGGCTTCGAGCTGGTATTATA
1 GT-CCGCAGGCTACGTGCTGGAATTATA
15649791 CCAGGTTTAA
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
38 3 0.03
39 84 0.97
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (38 bp):
GTCCGCAGGCTACGTGCTGGAATTATATCCGGGCTAAA
Found at i:15658108 original size:39 final size:39
Alignment explanation
Indices: 15658054--15658169 Score: 196
Period size: 39 Copynumber: 3.0 Consensus size: 39
15658044 TTCAGTGATG
*
15658054 TATATCCGGACTTAGGGTTCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
15658093 TATATCCGGACTTAGGGTCCGTAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* *
15658132 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
15658170 ACATGTCCGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:15658179 original size:39 final size:39
Alignment explanation
Indices: 15658054--15658217 Score: 179
Period size: 39 Copynumber: 4.2 Consensus size: 39
15658044 TTCAGTGATG
* * *
15658054 TATATCCGGACTTAGGGTTCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * *
15658093 TATATCCGGACTTAGGGTCCGTAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
*
15658132 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * * * * * *
15658171 CATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAAT
15658210 TATA-CCGG
1 TATATCCGG
15658218 GTTTAAATTC
Statistics
Matches: 108, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
38 9 0.08
39 99 0.92
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:15669558 original size:127 final size:126
Alignment explanation
Indices: 15669395--15669825 Score: 524
Period size: 127 Copynumber: 3.4 Consensus size: 126
15669385 AGTTGACTTT
* * * *
15669395 TTTCGGTCTTTCGTTTGTCTAAATAGTCAAATTTCCCTTCAAAATTCCGTGTGTGTTTTTTAAAC
1 TTTCGATCTTTCGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTCCGTGTGTGTTTTCTAAAC
* * *
15669460 CTTAAAACGAAGGCGATGTTTGATGTTTAGAAATTCGATGGATTGTACCCTAATGTGTTGGG
66 CTTAAAACGAAAGCGATGTTTGATGTTTAGAAATTCGA-GGATTATGCCCTAATGTGTTGGG
* * *
15669522 TTTCGGTCTTTCGTTTGTCTAAATAGTCAAATTTCCCTTTAAAATTTCGTGTGTGTTTTCTAAAC
1 TTTCGATCTTTCGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTCCGTGTGTGTTTTCTAAAC
* *
15669587 CTTAAAACGAAAGCGATGTTTGATGTTTAGAAATTCGAGGGATCATGCCCTGATGTGTTGGG
66 CTTAAAACGAAAGCGATGTTTGATGTTTAGAAATTCGA-GGATTATGCCCTAATGTGTTGGG
** * * * * ** * *
15669649 TTTCGATCTTTTATTTGTCCAAATAATCAGATTTCCCTTTTAAATTTCGTCCGCGTTTTCT-AAG
1 TTTCGATCTTTCGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTCCGTGTGTGTTTTCTAAAC
* * * * *
15669713 CTCTAAAACAAAAGCGATGGTTGATGTTTGGGAATTC-AGGAAATTATGCCCTAATGTGCTGGG
66 CT-TAAAACGAAAGCGATGTTTGATGTTTAGAAATTCGAGG--ATTATGCCCTAATGTGTTGGG
* * * *
15669776 TTTCGATTTTTTGTTTATCTAAATAATCAAATATCCCTTTAAAATTCCGT
1 TTTCGATCTTTCGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTCCGT
15669826 CTGCATTTTT
Statistics
Matches: 266, Mismatches: 35, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
125 2 0.01
126 5 0.02
127 259 0.97
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (126 bp):
TTTCGATCTTTCGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTCCGTGTGTGTTTTCTAAAC
CTTAAAACGAAAGCGATGTTTGATGTTTAGAAATTCGAGGATTATGCCCTAATGTGTTGGG
Found at i:15670692 original size:13 final size:13
Alignment explanation
Indices: 15670674--15670699 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15670664 AAGTAATCGA
15670674 ACACGGGCGTGTC
1 ACACGGGCGTGTC
15670687 ACACGGGCGTGTC
1 ACACGGGCGTGTC
15670700 CCTGCTGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:15674856 original size:55 final size:55
Alignment explanation
Indices: 15674789--15674915 Score: 173
Period size: 55 Copynumber: 2.3 Consensus size: 55
15674779 GACATGGCTG
* * **
15674789 TGGTCGAGCCTGTCAAAACAACACGGGCGTGCAACACGCCCGTGTGGAGGAACCA
1 TGGTCGAACCTGTCAAAACAACACGGGCGTGCAACACGCCCGTGTCGAACAACCA
* * * *
15674844 TGGTCGAACCTGTTAAAACAGCACGGGCGTGCAACACGCCCGTGTCGAACACCCG
1 TGGTCGAACCTGTCAAAACAACACGGGCGTGCAACACGCCCGTGTCGAACAACCA
*
15674899 TGGTCGAACTTGTCAAA
1 TGGTCGAACCTGTCAAA
15674916 TGTCCGTGGG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.27, C:0.29, G:0.28, T:0.16
Consensus pattern (55 bp):
TGGTCGAACCTGTCAAAACAACACGGGCGTGCAACACGCCCGTGTCGAACAACCA
Found at i:15676970 original size:6 final size:6
Alignment explanation
Indices: 15676959--15676994 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
15676949 TTTTAAAAAG
15676959 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
15676995 ATTAATTTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:15678045 original size:28 final size:28
Alignment explanation
Indices: 15678005--15678058 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
15677995 TTTCTTCTTT
15678005 ATCTAACTTGTTCTTAAAAAAAAAAAAC
1 ATCTAACTTGTTCTTAAAAAAAAAAAAC
15678033 ATCTAACTTGTTCTTAAAAAAAAAAA
1 ATCTAACTTGTTCTTAAAAAAAAAAA
15678059 CTATGTATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.30
Consensus pattern (28 bp):
ATCTAACTTGTTCTTAAAAAAAAAAAAC
Found at i:15681734 original size:26 final size:26
Alignment explanation
Indices: 15681698--15681781 Score: 143
Period size: 26 Copynumber: 3.2 Consensus size: 26
15681688 TGATACAAAT
15681698 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
15681724 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
15681750 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
15681776 TGATAA
1 TGATAA
15681782 GAATTTCATG
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
26 53 0.95
27 3 0.05
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:15683440 original size:27 final size:27
Alignment explanation
Indices: 15683399--15683538 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
15683389 GAGGAAGCGT
*
15683399 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
15683426 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
15683453 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
15683480 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
15683508 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
15683534 TCTGG
1 TCTGG
15683539 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:15683484 original size:54 final size:55
Alignment explanation
Indices: 15683399--15683538 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 55
15683389 GAGGAAGCGT
* * *
15683399 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
15683453 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
15683508 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
15683539 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 60 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:15690756 original size:20 final size:20
Alignment explanation
Indices: 15690733--15690781 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
15690723 AAATTAATAA
* *
15690733 AATACTAAAGTGATTATCTT
1 AATATTAAAGTGATTATATT
15690753 AATATTAAAGTGATTATATT
1 AATATTAAAGTGATTATATT
15690773 AATATTAAA
1 AATATTAAA
15690782 TTTAATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (20 bp):
AATATTAAAGTGATTATATT
Found at i:15696797 original size:23 final size:23
Alignment explanation
Indices: 15696721--15696798 Score: 75
Period size: 23 Copynumber: 3.4 Consensus size: 23
15696711 CAATGAGACA
* *
15696721 ATACCGAATTTGCCACAAAGGCT
1 ATACAGAATTAGCCACAAAGGCT
* * **
15696744 ATACAGATTTCGCCACAAATTCT
1 ATACAGAATTAGCCACAAAGGCT
* *
15696767 ATATAGAATTATCCACAAAGGCT
1 ATACAGAATTAGCCACAAAGGCT
*
15696790 ACACAGAAT
1 ATACAGAAT
15696799 ACACCATAAA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.24
Consensus pattern (23 bp):
ATACAGAATTAGCCACAAAGGCT
Found at i:15698298 original size:128 final size:128
Alignment explanation
Indices: 15698038--15698274 Score: 307
Period size: 128 Copynumber: 1.9 Consensus size: 128
15698028 ACCTTTAATA
* * * * *
15698038 GTTAGCCTCATCATGCTTACTATTTACTTATCATTTCCTTTTCTTAAATAATAGAATAACCTAAG
1 GTTAACCTCACCAGGCTTACTATTTACTTATCATATCCTTTTCTTAAACAATAGAATAACCTAAG
* * ***
15698103 ATAGAATCTTTAATCATTTCTTTGGAAGATACTTTTCGCTAGAGGCACACTATACCTTTAGCG
66 ATAGAATCTTTAATCATTTCTTTGGAAGATACTTTTCGCCAGACGCACACTATACCAAAAGCG
* * *
15698166 GTTAACCTCACCAGGCTTACTCTTTACTTATCATATCCTTTTCTTAAACACTAGAATAACCTGAG
1 GTTAACCTCACCAGGCTTACTATTTACTTATCATATCCTTTTCTTAAACAATAGAATAACCTAAG
* *
15698231 ATAGAATCTTTAATCATTT-TTTCGGCAGATA-TATTTTGCCAGAC
66 ATAGAATCTTTAATCATTTCTTT-GGAAGATACT-TTTCGCCAGAC
15698275 TCTGATTCTC
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
127 4 0.04
128 91 0.96
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (128 bp):
GTTAACCTCACCAGGCTTACTATTTACTTATCATATCCTTTTCTTAAACAATAGAATAACCTAAG
ATAGAATCTTTAATCATTTCTTTGGAAGATACTTTTCGCCAGACGCACACTATACCAAAAGCG
Found at i:15698540 original size:38 final size:39
Alignment explanation
Indices: 15698487--15698568 Score: 130
Period size: 38 Copynumber: 2.1 Consensus size: 39
15698477 GGATAATATG
* *
15698487 AAATGAGAAATCGAAGTGATCCAAAATGTATTGATGAT-
1 AAATGAGAAACCGAAGTGATCCAAAATCTATTGATGATC
*
15698525 AAATGGGAAACCGAAGTGATCCAAAATCTATTGATGATC
1 AAATGAGAAACCGAAGTGATCCAAAATCTATTGATGATC
15698564 AAATG
1 AAATG
15698569 TGATATTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 35 0.88
39 5 0.12
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.24
Consensus pattern (39 bp):
AAATGAGAAACCGAAGTGATCCAAAATCTATTGATGATC
Found at i:15705941 original size:15 final size:15
Alignment explanation
Indices: 15705921--15705953 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
15705911 GAGGTTAGCT
15705921 TTTATTTTATTTTAC
1 TTTATTTTATTTTAC
*
15705936 TTTATTTTATTTTGC
1 TTTATTTTATTTTAC
15705951 TTT
1 TTT
15705954 CAGCTTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTATTTTATTTTAC
Found at i:15714568 original size:3 final size:3
Alignment explanation
Indices: 15714560--15714593 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
15714550 AATATAAGTG
*
15714560 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGG AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
15714594 CCTTTGACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:15715619 original size:14 final size:14
Alignment explanation
Indices: 15715600--15715628 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
15715590 GAAAAATTAT
15715600 TATATTCATATTTC
1 TATATTCATATTTC
15715614 TATATTCATATTTC
1 TATATTCATATTTC
15715628 T
1 T
15715629 GAAGTTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.59
Consensus pattern (14 bp):
TATATTCATATTTC
Found at i:15724950 original size:26 final size:26
Alignment explanation
Indices: 15724921--15724972 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
15724911 AGGGTTAAAT
15724921 TTATTGAATTATTTAGAATTAAGATC
1 TTATTGAATTATTTAGAATTAAGATC
15724947 TTATTGAATTATTTAGAATTAAGATC
1 TTATTGAATTATTTAGAATTAAGATC
15724973 AAATTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (26 bp):
TTATTGAATTATTTAGAATTAAGATC
Found at i:15725923 original size:9 final size:10
Alignment explanation
Indices: 15725895--15725925 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
15725885 TATTAAATTT
15725895 TAATTAAAAA
1 TAATTAAAAA
*
15725905 TATTTAAAAA
1 TAATTAAAAA
15725915 TAATTAAAAA
1 TAATTAAAAA
15725925 T
1 T
15725926 TAGAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TAATTAAAAA
Found at i:15725942 original size:17 final size:18
Alignment explanation
Indices: 15725920--15725953 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15725910 AAAAATAATT
15725920 AAAAATTAG-AAAAAATA
1 AAAAATTAGTAAAAAATA
*
15725937 AAAAATTTGTAAAAAAT
1 AAAAATTAGTAAAAAAT
15725954 TATACAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (18 bp):
AAAAATTAGTAAAAAATA
Found at i:15725970 original size:19 final size:18
Alignment explanation
Indices: 15725944--15725991 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
15725934 ATAAAAAATT
15725944 TGTA-AAAAATTATACAAA
1 TGTATAAAAATTATA-AAA
*
15725962 TGTATAAAATTTATAAAA
1 TGTATAAAAATTATAAAA
* *
15725980 CGCATAAAAATT
1 TGTATAAAAATT
15725992 TCCTTTAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (18 bp):
TGTATAAAAATTATAAAA
Done.