Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 62 of 127
Found at i:12076823 original size:17 final size:17
Alignment explanation
Indices: 12076803--12076837 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12076793 ATTTTTCTAA
12076803 TTTTTAATTTTTAATTT
1 TTTTTAATTTTTAATTT
* *
12076820 TTTTTACTTTTTACTTT
1 TTTTTAATTTTTAATTT
12076837 T
1 T
12076838 AATTTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTAATTTTTAATTT
Found at i:12076830 original size:23 final size:24
Alignment explanation
Indices: 12076804--12076858 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
12076794 TTTTTCTAAT
12076804 TTTTAATTTTTAA-TTTTTTTTAC
1 TTTTAATTTTTAATTTTTTTTTAC
* * *
12076827 TTTTTACTTTTAATTTTTTTTTAT
1 TTTTAATTTTTAATTTTTTTTTAC
12076851 TTTTAATT
1 TTTTAATT
12076859 AAATAAATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTAATTTTTAATTTTTTTTTAC
Found at i:12079518 original size:2 final size:2
Alignment explanation
Indices: 12079499--12079536 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
12079489 GTACAAGTTC
*
12079499 AT AT AT ACT -T AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12079537 TAAATCGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 1 0.03
2 30 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:12085193 original size:21 final size:22
Alignment explanation
Indices: 12085167--12085215 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
12085157 ATTTTATATC
12085167 CTTAATT-TAGGGATACAAATA
1 CTTAATTCTAGGGATACAAATA
12085188 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGGGATACAAATA
12085210 CTTAAT
1 CTTAAT
12085216 ATATTACACC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (22 bp):
CTTAATTCTAGGGATACAAATA
Found at i:12090000 original size:22 final size:22
Alignment explanation
Indices: 12089972--12090014 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
12089962 TTTTTCTGTC
* *
12089972 CTTAATTCTAGGGATATAAATA
1 CTTAATTCTAAGGATACAAATA
12089994 CTTAATTCTAAGGATACAAAT
1 CTTAATTCTAAGGATACAAAT
12090015 TTATACAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (22 bp):
CTTAATTCTAAGGATACAAATA
Found at i:12099166 original size:29 final size:29
Alignment explanation
Indices: 12099125--12099193 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
12099115 AAGAGCTTTA
*
12099125 AATTATAATAAAATTTTTAATATGACAA-TTG
1 AATTAT-A-AAAATTTTTAATAT-AAAATTTG
*
12099156 AATTTTAAAAATTTTTAATATAAAATTTG
1 AATTATAAAAATTTTTAATATAAAATTTG
12099185 AATTATAAA
1 AATTATAAA
12099194 TCTATAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.09
29 25 0.74
30 1 0.03
31 5 0.15
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (29 bp):
AATTATAAAAATTTTTAATATAAAATTTG
Found at i:12101796 original size:2 final size:2
Alignment explanation
Indices: 12101784--12101822 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
12101774 CACTACTGTG
12101784 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12101823 CGGAACAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12116721 original size:21 final size:19
Alignment explanation
Indices: 12116697--12116737 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
12116687 AATATTTGTT
12116697 TCAAATAATTTATAATTCTAA
1 TCAAAT-ATTTATAATT-TAA
*
12116718 TCAAATTTTTATAATTTAA
1 TCAAATATTTATAATTTAA
12116737 T
1 T
12116738 ATATTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (19 bp):
TCAAATATTTATAATTTAA
Found at i:12116743 original size:18 final size:19
Alignment explanation
Indices: 12116705--12116752 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
12116695 TTTCAAATAA
12116705 TTTATAATTCTAATCAAATT
1 TTTATAATT-TAATCAAATT
*
12116725 TTTATAATTTAAT-ATATT
1 TTTATAATTTAATCAAATT
*
12116743 TTTATTATTT
1 TTTATAATTT
12116753 TAATTAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 13 0.50
19 4 0.15
20 9 0.35
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTATAATTTAATCAAATT
Found at i:12116745 original size:19 final size:20
Alignment explanation
Indices: 12116705--12116747 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
12116695 TTTCAAATAA
12116705 TTTATAATTCTAATCAAATT
1 TTTATAATTCTAATCAAATT
*
12116725 TTTATAATT-TAAT-ATATT
1 TTTATAATTCTAATCAAATT
12116743 TTTAT
1 TTTAT
12116748 TATTTTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
19 4 0.18
20 9 0.41
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTATAATTCTAATCAAATT
Found at i:12123745 original size:25 final size:25
Alignment explanation
Indices: 12123703--12123762 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
12123693 TATTAATATA
*
12123703 ATTATTAAAATAT-TTTAAATTATTT
1 ATTATTAAAATATATTAAAATTA-TT
*
12123728 ATTATTAAAGTATATTAAAATTATT
1 ATTATTAAAATATATTAAAATTATT
*
12123753 AATATTAAAA
1 ATTATTAAAA
12123763 AATAATTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 22 0.73
26 8 0.27
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
ATTATTAAAATATATTAAAATTATT
Found at i:12123751 original size:22 final size:22
Alignment explanation
Indices: 12123672--12123753 Score: 67
Period size: 25 Copynumber: 3.5 Consensus size: 22
12123662 TTGATTGTTT
*
12123672 TTAAAATT-TTTTTATAAATAATA
1 TTAAAATTATTATTA-AAAT-ATA
* * *
12123695 TTAATATAATTATTAAAATATT
1 TTAAAATTATTATTAAAATATA
*
12123717 TTAAATTATTTATTATTAAAGTATA
1 TTAAA--A-TTATTATTAAAATATA
12123742 TTAAAATTATTA
1 TTAAAATTATTA
12123754 ATATTAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
22 12 0.26
23 11 0.23
24 6 0.13
25 18 0.38
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (22 bp):
TTAAAATTATTATTAAAATATA
Found at i:12123770 original size:26 final size:25
Alignment explanation
Indices: 12123717--12123785 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
12123707 TTAAAATATT
* **
12123717 TTAAATTATTTATTATTAAAGTAT-A
1 TTAAATTA-TTAATATTAAAAAATAA
12123742 TTAAAATTATTAATATTAAAAAATAA
1 TT-AAATTATTAATATTAAAAAATAA
*
12123768 TTATA-T-TTAATATTAAAA
1 TTAAATTATTAATATTAAAA
12123786 TATTATATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
23 12 0.32
24 1 0.03
25 16 0.42
26 9 0.24
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (25 bp):
TTAAATTATTAATATTAAAAAATAA
Found at i:12123771 original size:20 final size:20
Alignment explanation
Indices: 12123746--12123806 Score: 56
Period size: 23 Copynumber: 3.0 Consensus size: 20
12123736 AGTATATTAA
12123746 AATTATTAATATTAAAAAAT
1 AATTATTAATATTAAAAAAT
*
12123766 AATTATATTTAATATTAAAATAT
1 AA-T-TA-TTAATATTAAAAAAT
*
12123789 TA-TATT-ATA-TAAAAAAT
1 AATTATTAATATTAAAAAAT
12123806 A
1 A
12123807 CTTAAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
17 7 0.21
18 3 0.09
19 2 0.06
20 4 0.12
21 1 0.03
22 2 0.06
23 15 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AATTATTAATATTAAAAAAT
Found at i:12131269 original size:23 final size:23
Alignment explanation
Indices: 12131230--12131292 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
12131220 CTGCATAATA
* * *
12131230 ATGAAGTAAATATTTTTTGAACT
1 ATGAAGTAGATACTTTTTAAACT
*
12131253 GTGAAGTAGATACTTTTTAAACT
1 ATGAAGTAGATACTTTTTAAACT
*
12131276 ATGAAGTAGATAGTTTT
1 ATGAAGTAGATACTTTT
12131293 ACATAGTAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (23 bp):
ATGAAGTAGATACTTTTTAAACT
Found at i:12132170 original size:22 final size:23
Alignment explanation
Indices: 12132142--12132184 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
12132132 TAAGTATTTT
*
12132142 TTATTTTTTTAAATT-TTTTAAA
1 TTATTTTTTAAAATTGTTTTAAA
12132164 TTATTTTTTAAAATTGTTTTA
1 TTATTTTTTAAAATTGTTTTA
12132185 GTTTTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
TTATTTTTTAAAATTGTTTTAAA
Found at i:12132649 original size:14 final size:14
Alignment explanation
Indices: 12132610--12132661 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
12132600 GTTTTTTTAA
*
12132610 AAAATCTAAAATCCT
1 AAAATC-AAAACCCT
*
12132625 AAACA-CCAAACCCT
1 AAA-ATCAAAACCCT
12132639 AAAATCAAAACCCT
1 AAAATCAAAACCCT
*
12132653 ATAATCAAA
1 AAAATCAAA
12132662 CTCTTAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 1 0.03
14 25 0.81
15 4 0.13
16 1 0.03
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAATCAAAACCCT
Found at i:12132843 original size:15 final size:15
Alignment explanation
Indices: 12132802--12132849 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
12132792 ATAGATCCTC
* *
12132802 AAAACCCTAAAATCT
1 AAAATCCTAAACTCT
12132817 AAAAT-CTCAAACTCT
1 AAAATCCT-AAACTCT
*
12132832 AAAATCCTAAACCCT
1 AAAATCCTAAACTCT
12132847 AAA
1 AAA
12132850 TTTAGCACAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATCCTAAACTCT
Found at i:12134538 original size:18 final size:18
Alignment explanation
Indices: 12134515--12134553 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
12134505 TATTAATTTA
*
12134515 TATTTTGACATGCAAGAT
1 TATTTTGACATACAAGAT
12134533 TATTTTGACATACAAGAT
1 TATTTTGACATACAAGAT
12134551 TAT
1 TAT
12134554 GTCATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (18 bp):
TATTTTGACATACAAGAT
Found at i:12138308 original size:103 final size:103
Alignment explanation
Indices: 12138115--12138389 Score: 347
Period size: 103 Copynumber: 2.7 Consensus size: 103
12138105 ACTACTATAT
* * * *
12138115 CAATATAACAAAATACTAGTGTCCATAAAATTTGCTAAAAATCTTCAATCTAATAATGTCTGTCA
1 CAATATAACAAAATAATAGTATCCATAAAATTTGTTAAAAATCTTCAAACTAATAATGTCTGTCA
* *
12138180 CCATCAATCACAAAATAAAATAATCATAATAAA-CATAA
66 CCATCAACCACAAAATAAAACAATCATAATAAATC-TAA
* *
12138218 CAATATAACAGAATAATAGTATCCATAAAAATTGTTAAAAATCTTCAAACTAATAATG-CTTGTC
1 CAATATAACAAAATAATAGTATCCATAAAATTTGTTAAAAATCTTCAAACTAATAATGTC-TGTC
* *** *
12138282 ACTATCAACCACATTCTAAGACAATCATAATAAATCTAA
65 ACCATCAACCACAAAATAAAACAATCATAATAAATCTAA
* * * * * *
12138321 CAAAATAACAAAATAATAGCATCCATAAAATTTGTTAAAAATCTTCAAATTAGTAAAGTCTGACA
1 CAATATAACAAAATAATAGTATCCATAAAATTTGTTAAAAATCTTCAAACTAATAATGTCTGTCA
12138386 CCAT
66 CCAT
12138390 ATAAAACAAC
Statistics
Matches: 147, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
102 1 0.01
103 144 0.98
104 2 0.01
ACGTcount: A:0.49, C:0.17, G:0.06, T:0.28
Consensus pattern (103 bp):
CAATATAACAAAATAATAGTATCCATAAAATTTGTTAAAAATCTTCAAACTAATAATGTCTGTCA
CCATCAACCACAAAATAAAACAATCATAATAAATCTAA
Found at i:12139579 original size:144 final size:143
Alignment explanation
Indices: 12139400--12139752 Score: 353
Period size: 143 Copynumber: 2.5 Consensus size: 143
12139390 ATAAGGGTGG
* * *
12139400 AATTACTAAAATAT-TTTTAGGGGTATTTTTATAATTTATCTTTTTTGAGGTCGATTTTTCATGA
1 AATTACTAAAATATCTTTTA-GGGTATTTTTATAATTTATCATTTTCGAGATCGATTTTTCATGA
* * * *
12139464 AAAACTTCATATCATG-TTTTAATATGATTTCATGAATTTTGATGCGTTGAAAACTTTAATTGCA
65 AAAACTTCAGATCATGCTTTT-ATATGATTCCATGAATTTTGATGCATTAAAAACTTTAATTGCA
*
12139528 CTTCAGA-AAG-GTTGA
129 CCTCA-ACAAGAG-TGA
* * * * * *
12139543 AATTACTAAAATATCCTTTAGTGGTATTTTCATAATTTGA-CATTCTCGAGTTGGTTTTTTGCA-
1 AATTACTAAAATATCTTTTAG-GGTATTTTTATAATTT-ATCATTTTCGAGATCGATTTTT-CAT
* * * * *
12139606 -AAAAATTTCAGATCATGCTTTTATATTATTCCATGAATTTTTATGCATTAAAAATTTTAATTGT
63 GAAAAACTTCAGATCATGCTTTTATATGATTCCATGAATTTTGATGCATTAAAAACTTTAATTGC
12139670 ACCTCAACAAGAGTGA
128 ACCTCAACAAGAGTGA
* * * * *
12139686 AATTACGAAAATA-CATTTTAGGTGTATTTTTGTAATTTATCCTTTTCAAGATCGATTTTGCATG
1 AATTACTAAAATATC-TTTTAGG-GTATTTTTATAATTTATCATTTTCGAGATCGATTTTTCATG
12139750 AAA
64 AAA
12139753 GGCTTTAGAT
Statistics
Matches: 169, Mismatches: 29, Indels: 23
0.76 0.13 0.10
Matches are distributed among these distances:
142 6 0.04
143 119 0.70
144 41 0.24
145 3 0.02
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (143 bp):
AATTACTAAAATATCTTTTAGGGTATTTTTATAATTTATCATTTTCGAGATCGATTTTTCATGAA
AAACTTCAGATCATGCTTTTATATGATTCCATGAATTTTGATGCATTAAAAACTTTAATTGCACC
TCAACAAGAGTGA
Found at i:12141293 original size:31 final size:31
Alignment explanation
Indices: 12141237--12141318 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 31
12141227 AATCATGGTG
*
12141237 AACCCTAAACTAAAT-CTTAACCAAACCCTA
1 AACCCTAAACTAAATCCTAAACCAAACCCTA
* *
12141267 AACCCTAAATTAAATCCTAAACCAAACCTTA
1 AACCCTAAACTAAATCCTAAACCAAACCCTA
12141298 AACCCTAATACTAAA-CCTAAA
1 AACCCTAA-ACTAAATCCTAAA
12141319 TAAATTTGGA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
30 14 0.30
31 27 0.59
32 5 0.11
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (31 bp):
AACCCTAAACTAAATCCTAAACCAAACCCTA
Found at i:12141298 original size:19 final size:20
Alignment explanation
Indices: 12141276--12141319 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
12141266 AAACCCTAAA
12141276 TTAAATCCTAA-ACCAAACC
1 TTAAATCCTAATACCAAACC
* *
12141295 TTAAACCCTAATACTAAACC
1 TTAAATCCTAATACCAAACC
12141315 -TAAAT
1 TTAAAT
12141320 AAATTTGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (20 bp):
TTAAATCCTAATACCAAACC
Found at i:12141453 original size:20 final size:19
Alignment explanation
Indices: 12141406--12141455 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
12141396 AAATCATGGT
*
12141406 AAACCCTAAAACCCTAAATC
1 AAACCCT-AAACCCTAAAGC
*
12141426 AAATCCTAAACCCTAAAAGC
1 AAACCCTAAACCCT-AAAGC
*
12141446 TAACCCTAAA
1 AAACCCTAAA
12141456 TCTATTCTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.50, C:0.32, G:0.02, T:0.16
Consensus pattern (19 bp):
AAACCCTAAACCCTAAAGC
Found at i:12142381 original size:23 final size:22
Alignment explanation
Indices: 12142350--12142394 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
12142340 TTTCCACAAC
* *
12142350 AAAATTCACTAAAATATAAAATA
1 AAAAATCACAAAAATA-AAAATA
12142373 AAAAATCACAAAAATAAAAATA
1 AAAAATCACAAAAATAAAAATA
12142395 GAAATAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.20
Consensus pattern (22 bp):
AAAAATCACAAAAATAAAAATA
Found at i:12144407 original size:103 final size:103
Alignment explanation
Indices: 12144227--12144424 Score: 258
Period size: 103 Copynumber: 1.9 Consensus size: 103
12144217 AAAATTTTTA
* * * *
12144227 TTTGTGAAAACAATTTATTTTCATAAATATATTCCAATATGTTAGTCAAAATTTCTATCAAATAT
1 TTTGTAAAAACAATTTATTTTCAAAAATATATTCCAATATGTTAATCAAAATTACTATCAAATAT
12144292 TATCCTCAAATATGTT-AGTAGAATTGAAAATTTATTTG
66 TATCCTCAAATATGTTGA-TAGAATTGAAAATTTATTTG
* * * *
12144330 TTTGTAAAAAGAATTTATTTTCAAAAATATCTTGCAATATGTTAAT-AAGAGTTACTATCAAGA-
1 TTTGTAAAAACAATTTATTTTCAAAAATATATTCCAATATGTTAATCAA-AATTACTATCAA-AT
* *
12144393 ATTATCCTCCAATATGTTGATAGAATTTAAAA
64 ATTATCCTCAAATATGTTGATAGAATTGAAAA
12144425 AAAATAATTT
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
102 2 0.02
103 78 0.95
104 2 0.02
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (103 bp):
TTTGTAAAAACAATTTATTTTCAAAAATATATTCCAATATGTTAATCAAAATTACTATCAAATAT
TATCCTCAAATATGTTGATAGAATTGAAAATTTATTTG
Found at i:12144594 original size:15 final size:16
Alignment explanation
Indices: 12144574--12144603 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
12144564 TTAAAACAAT
12144574 TATCATGCAA-AATAA
1 TATCATGCAATAATAA
12144589 TATCATGCAATAATA
1 TATCATGCAATAATA
12144604 TAATATGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (16 bp):
TATCATGCAATAATAA
Found at i:12144652 original size:19 final size:19
Alignment explanation
Indices: 12144628--12144665 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12144618 ATAATATAAT
*
12144628 TAAATATATAATCATGCAA
1 TAAATAAATAATCATGCAA
*
12144647 TAAATAAATAATGATGCAA
1 TAAATAAATAATCATGCAA
12144666 AAGGATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (19 bp):
TAAATAAATAATCATGCAA
Found at i:12144779 original size:17 final size:17
Alignment explanation
Indices: 12144759--12144794 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
12144749 AAAAAATAAG
12144759 AAATAAAATAAAACAAA
1 AAATAAAATAAAACAAA
*
12144776 AAATAAAATAAAATAAA
1 AAATAAAATAAAACAAA
12144793 AA
1 AA
12144795 GGAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (17 bp):
AAATAAAATAAAACAAA
Found at i:12144800 original size:17 final size:17
Alignment explanation
Indices: 12144763--12144806 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
12144753 AATAAGAAAT
*
12144763 AAAATAAAACAAAAAAT
1 AAAATAAAACAAAAAAG
* *
12144780 AAAATAAAATAAAAAGG
1 AAAATAAAACAAAAAAG
*
12144797 AAAAAAAAAC
1 AAAATAAAAC
12144807 CTGCGTTATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.09
Consensus pattern (17 bp):
AAAATAAAACAAAAAAG
Found at i:12144805 original size:22 final size:22
Alignment explanation
Indices: 12144749--12144793 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
12144739 AATAATAAGG
12144749 AAAAAATAAGAAATAAAATAAAAC
1 AAAAAAT-A-AAATAAAATAAAAC
12144773 AAAAAATAAAATAAAATAAAA
1 AAAAAATAAAATAAAATAAAA
12144794 AGGAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 13 0.62
23 1 0.05
24 7 0.33
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.13
Consensus pattern (22 bp):
AAAAAATAAAATAAAATAAAAC
Found at i:12145104 original size:22 final size:22
Alignment explanation
Indices: 12145074--12145122 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
12145064 AATTAGACTA
* *
12145074 AAAAACAAAGTCAAATTAAAAT
1 AAAATCAAAATCAAATTAAAAT
*
12145096 AAAATCAAAATTAAATTAAAAT
1 AAAATCAAAATCAAATTAAAAT
*
12145118 TAAAT
1 AAAAT
12145123 TTTCAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAATCAAAATCAAATTAAAAT
Found at i:12145105 original size:11 final size:11
Alignment explanation
Indices: 12145086--12145123 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
12145076 AAACAAAGTC
*
12145086 AAATTAAAATA
1 AAATTAAAATT
*
12145097 AAATCAAAATT
1 AAATTAAAATT
12145108 AAATTAAAATT
1 AAATTAAAATT
12145119 AAATT
1 AAATT
12145124 TTCAAATTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTAAAATT
Found at i:12146334 original size:161 final size:157
Alignment explanation
Indices: 12146150--12146897 Score: 489
Period size: 161 Copynumber: 4.7 Consensus size: 157
12146140 ATAAAAAATG
* * * * * *
12146150 CTAAACATACATAAACTATAACTTTTTCACCCATATTAATCACGGAAACAAAATTCAATCATTTG
1 CTAAACA-A-ATAAACCATAACTTTTTCACACATATCAATCATGAAAACAAAGTTCAATCATTTG
* *
12146215 AGCATGTTTACTATCATGTATTGAAGCTATCTAAATTGTTACAATAGAACAATAACTGCAAACTT
64 AGCATGTTTAATATCATGTATTGAAGCTATCTAAATTGTTA-AATAGAACAATAACTGCAAAATT
*
12146280 GCATTTTTGGTTTTTAATGGCA-AAACGAGTC
128 GCATTTTT-GTTTTTAATGGCACAAA-AAGTC
* * * * *
12146311 CTAAACAGATATAAACCATAACTTTTTCATACATATCAACCATGAAAACGAAGTTCAATC-GTTC
1 CTAAACA-A-ATAAACCATAACTTTTTCACACATATCAATCATGAAAACAAAGTTCAATCATTTG
* * * ** * *
12146375 AG-ATAAATTTAATATCATGTATTGAAACTATCCAAATTAATAAA-ACGAAACAATAATTGTAAA
64 AGCAT--GTTTAATATCATGTATTGAAGCTATCTAAATTGTTAAATA-G-AACAATAACTGCAAA
* * * * *
12146438 TTTGCATTTTTACTTTTTAACGGCATAAAAAATC
125 ATTGCATTTTT-GTTTTTAATGGCACAAAAAGTC
* * * * *
12146472 CTAAACAAACAATAACAGTAACTTTTTCACATATATCAATCATGAAAACCAAGTTTAATCATTTG
1 CTAAACAAATAA-ACCA-TAACTTTTTCACACATATCAATCATGAAAACAAAGTTCAATCATTTG
* * * * * *
12146537 -GACAAGTTTAATATCATATATTTAAGCTATGTAAACTGTTAAAATAGAA-ATATAACTACAAAA
64 AG-CATGTTTAATATCATGTATTGAAGCTATCTAAATTGTT-AAATAGAACA-ATAACTGCAAAA
* *
12146600 TTACCTTTTTGTCTTTTAATGGCACAAAAAGTC
126 TTGCATTTTTGT-TTTTAATGGCACAAAAAGTC
* * ** * * * * * *
12146633 CTAAATATATGTAAACTGTAACTTTTTTACATATATCAATCGTGTAAACGAAGTTCAATAATTTG
1 CTAAACA-A-ATAAACCATAACTTTTTCACACATATCAATCATGAAAACAAAGTTCAATCATTTG
* * * * * * ** * * *
12146698 AACAAGTTTAATATTATATATTTAAGCTATATAAATT-ACAAA-AAAAAAAT-A-TAACAAAATT
64 AGCATGTTTAATATCATGTATTGAAGCTATCTAAATTGTTAAATAGAACAATAACT-GCAAAATT
* * * * *
12146759 ACTTTTTTGCTCTTTAACGGCATAAAAAGTC
128 GCATTTTTG-TTTTTAATGGCACAAAAAGTC
* ** *
12146790 CTAACCAAATAGAAACTGTAACTTTTTCACTCATATCAA-CTATGAAAATC-AAGTTCAATCATT
1 CTAAACAAAT--AAACCATAACTTTTTCACACATATCAATC-ATGAAAA-CAAAGTTCAATCATT
* ** *
12146853 CG-GACAAATTTAATATTATGTATTGAAGCTATGC-AAATTGTTAAA
62 TGAG-CATGTTTAATATCATGTATTGAAGCTAT-CTAAATTGTTAAA
12146898 ACGAAACAAT
Statistics
Matches: 464, Mismatches: 96, Indels: 57
0.75 0.16 0.09
Matches are distributed among these distances:
155 1 0.00
156 3 0.01
157 111 0.24
158 10 0.02
159 10 0.02
160 13 0.03
161 301 0.65
162 11 0.02
163 4 0.01
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (157 bp):
CTAAACAAATAAACCATAACTTTTTCACACATATCAATCATGAAAACAAAGTTCAATCATTTGAG
CATGTTTAATATCATGTATTGAAGCTATCTAAATTGTTAAATAGAACAATAACTGCAAAATTGCA
TTTTTGTTTTTAATGGCACAAAAAGTC
Found at i:12146534 original size:322 final size:317
Alignment explanation
Indices: 12145879--12146898 Score: 766
Period size: 322 Copynumber: 3.2 Consensus size: 317
12145869 AGCAATAATG
* * * * *
12145879 AAGTTCAAACATTT-GACAAGTTTAATATCATGTATTGGAA-CTGTGTAAACTATTAAAATAG-A
1 AAGTTCAATCATTTGGACAAGTTTAATATCATGTATT-GAAGCTATCTAAATTGTTAAAATAGAA
* * * * * * * * *
12145941 ATAATAACTATAAAATTTGCATGTTTGCCTTTTAACGGCACAAAAAATCTTAAAAAGATATAAAT
65 AT-ATAACTACAAAA-TTACATTTTTGTCTTTTAATGGCACAAAAAGTCCTAAACAGATATAAAC
*** * * * * * * * *
12146006 TGCAACTTATTT---ACGTATCGAATCAT-AGAAACTAAGTTCAATCATTTGGACAAATTTATTA
128 CATAACTT-TTTCACACATATC-AACCATGA-AAACGAAGTTCAATAATTAGAACAAGTTTAATA
* * * * * * * * * * * *
12146067 TTATGTGTTTAAGCTAT-CTAAACTATTAAAACATAAATATAACTACAAAATTGCATTTTAACCC
190 TCATATATTGAAACTATAC-AAATTA-CAAAAAAAAAATAT-A--ACAAAATTACATTTTTACTC
* * * * * * *
12146131 ATTAACGACATAAAAAATGCTAAACATAC-ATAAACTA-TAACTTTTTCACCCATATTAATCACG
250 TTTAACGGCATAAAAAATCCTAAACAAACAAT-AAC-AGTAACTTTTTCA-CTATATCAATCATG
* *
12146194 GAAACA
312 AAAACC
* * * *
12146200 AAATTCAATCATTT-GAGCATGTTTACTATCATGTATTGAAGCTATCTAAATTGTTACAATAGAA
1 AAGTTCAATCATTTGGA-CAAGTTTAATATCATGTATTGAAGCTATCTAAATTGTTAAAATAGAA
* * * *
12146264 CA-ATAACTGCAAACTTGCATTTTTGGT-TTTTAATGGCA-AAACGAGTCCTAAACAGATATAAA
65 -ATATAACTACAAAATTACATTTTT-GTCTTTTAATGGCACAAA-AAGTCCTAAACAGATATAAA
* **
12146326 CCATAACTTTTTCATACATATCAACCATGAAAACGAAGTTCAATCGTTCAGATA-AA-TTTAATA
127 CCATAACTTTTTCACACATATCAACCATGAAAACGAAGTTCAATAATT-AGA-ACAAGTTTAATA
* * *** * * *
12146389 TCATGTATTGAAACTATCCAAATTA-ATAAAACGAAACAATAATTGTAAATTTGCATTTTTACTT
190 TCATATATTGAAACTATACAAATTACA-AAAA--AAA-AAT-ATAACAAAATTACATTTTTACTC
12146453 TTTAACGGCATAAAAAATCCTAAACAAACAATAACAGTAACTTTTTCACATATATCAATCATGAA
250 TTTAACGGCATAAAAAATCCTAAACAAACAATAACAGTAACTTTTTCAC-TATATCAATCATGAA
12146518 AACC
314 AACC
* * * * *
12146522 AAGTTTAATCATTTGGACAAGTTTAATATCATATATTTAAGCTATGTAAACTGTTAAAATAGAAA
1 AAGTTCAATCATTTGGACAAGTTTAATATCATGTATTGAAGCTATCTAAATTGTTAAAATAGAAA
* * * * **
12146587 TATAACTACAAAATTACCTTTTTGTCTTTTAATGGCACAAAAAGTCCTAAATATATGTAAACTGT
66 TATAACTACAAAATTACATTTTTGTCTTTTAATGGCACAAAAAGTCCTAAACAGATATAAACCAT
* * * * * * *
12146652 AACTTTTTTACATATATCAATCGTGTAAACGAAGTTCAATAATTTGAACAAGTTTAATATTATAT
131 AACTTTTTCACACATATCAACCATGAAAACGAAGTTCAATAATTAGAACAAGTTTAATATCATAT
* * * * *
12146717 ATTTAAGCTATATAAATTACAAAAAAAAAATATAACAAAATTACTTTTTTGCTCTTTAACGGCAT
196 ATTGAAACTATACAAATTACAAAAAAAAAATATAACAAAATTACATTTTTACTCTTTAACGGCAT
* * * * *
12146782 AAAAAGTCCTAACCAAATAGA-AACTGTAACTTTTTCACTCATATCAA-CTATGAAAATC
261 AAAAAATCCTAAACAAACA-ATAACAGTAACTTTTTCACT-ATATCAATC-ATGAAAACC
* * *
12146840 AAGTTCAATCATTCGGACAAATTTAATATTATGTATTGAAGCTATGC-AAATTGTTAAAA
1 AAGTTCAATCATTTGGACAAGTTTAATATCATGTATTGAAGCTAT-CTAAATTGTTAAAA
12146899 CGAAACAATG
Statistics
Matches: 559, Mismatches: 108, Indels: 67
0.76 0.15 0.09
Matches are distributed among these distances:
317 2 0.00
318 123 0.22
319 4 0.01
320 11 0.02
321 69 0.12
322 321 0.57
323 22 0.04
324 5 0.01
325 2 0.00
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (317 bp):
AAGTTCAATCATTTGGACAAGTTTAATATCATGTATTGAAGCTATCTAAATTGTTAAAATAGAAA
TATAACTACAAAATTACATTTTTGTCTTTTAATGGCACAAAAAGTCCTAAACAGATATAAACCAT
AACTTTTTCACACATATCAACCATGAAAACGAAGTTCAATAATTAGAACAAGTTTAATATCATAT
ATTGAAACTATACAAATTACAAAAAAAAAATATAACAAAATTACATTTTTACTCTTTAACGGCAT
AAAAAATCCTAAACAAACAATAACAGTAACTTTTTCACTATATCAATCATGAAAACC
Found at i:12146826 original size:157 final size:158
Alignment explanation
Indices: 12146444--12146884 Score: 486
Period size: 157 Copynumber: 2.8 Consensus size: 158
12146434 TAAATTTGCA
* * * * *
12146444 TTTTTACTTTTTAACGGCATAAAAAATCCTAAACAAACA-ATAACAGTAACTTTTTCACATATAT
1 TTTTTGCTCTTTAACGGCATAAAAAGTCCT-AACAAATAGA-AACTGTAACTTTTTCACATATAT
* * *
12146508 CAATCATGAAAACCAAGTTTAATCATTTGGACAAGTTTAATATCATATATTTAAGCTATGTAAAC
64 CAATCATGAAAA-CAAGTTCAATCATTTGGACAAGTTTAATATTATATATTTAAGCTATATAAAC
* * *
12146573 TGTTAAAATAGAAATATAACTACAAAATTACC
128 TGTCAAAAAAAAAATATAAC-ACAAAATTACC
* * * *
12146605 TTTTTG-TCTTTTAATGGCACAAAAAGTCCTAA-ATATATGTAAACTGTAACTTTTTTACATATA
1 TTTTTGCTC-TTTAACGGCATAAAAAGTCCTAACAAATA-G-AAACTGTAACTTTTTCACATATA
* * * *
12146668 TCAATCGTGTAAACGAAGTTCAATAATTTGAACAAGTTTAATATTATATATTTAAGCTATATAAA
63 TCAATCATGAAAAC-AAGTTCAATCATTTGGACAAGTTTAATATTATATATTTAAGCTATATAAA
*
12146733 -T-TACAAAAAAAAAATAT-A-ACAAAATTACT
127 CTGT-CAAAAAAAAAATATAACACAAAATTACC
12146762 TTTTTGCTCTTTAACGGCATAAAAAGTCCTAACCAAATAGAAACTGTAACTTTTTCAC-TCATAT
1 TTTTTGCTCTTTAACGGCATAAAAAGTCCTAA-CAAATAGAAACTGTAACTTTTTCACAT-ATAT
* * * *
12146826 CAA-CTATGAAAATCAAGTTCAATCATTCGGACAAATTTAATATTATGTATTGAAGCTAT
64 CAATC-ATGAAAA-CAAGTTCAATCATTTGGACAAGTTTAATATTATATATTTAAGCTAT
12146885 GCAAATTGTT
Statistics
Matches: 236, Mismatches: 32, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
156 2 0.01
157 105 0.44
158 4 0.02
159 9 0.04
160 16 0.07
161 99 0.42
162 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (158 bp):
TTTTTGCTCTTTAACGGCATAAAAAGTCCTAACAAATAGAAACTGTAACTTTTTCACATATATCA
ATCATGAAAACAAGTTCAATCATTTGGACAAGTTTAATATTATATATTTAAGCTATATAAACTGT
CAAAAAAAAAATATAACACAAAATTACC
Found at i:12146891 original size:157 final size:155
Alignment explanation
Indices: 12146329--12146891 Score: 490
Period size: 161 Copynumber: 3.5 Consensus size: 155
12146319 ATATAAACCA
* * * * * * *
12146329 TAACTTTTTCATACATATCAACCATGAAAACGAAGTTCAATCGTTCAGATAAATTTAATATCATG
1 TAACTTTTTCACATATATCAATCATGAAAACGAAGTTCAATCATTCGGACAAATTTAATATCATA
* * *** * * * *
12146394 TATTGAAACTATCCAAATTAATAAAACGAAACAATAATTGTAAATTTGCATTTTTACTTTTTAAC
66 TATTGAAGCTATGCAAATTAA-AAAA--AAA-AAT-ATAACAAAATTACATTTTTGCTCTTTAAC
* * *
12146459 GGCATAAAAAATCCTAAACAAACA-ATAACAG
126 GGCATAAAAAGTCCT-AACAAATAGA-AACTG
* * * *
12146490 TAACTTTTTCACATATATCAATCATGAAAACCAAGTTTAATCATTTGGACAAGTTTAATATCATA
1 TAACTTTTTCACATATATCAATCATGAAAACGAAGTTCAATCATTCGGACAAATTTAATATCATA
* * * * * *
12146555 TATTTAAGCTATGTAAACTGTTAAAATAGAAATATAACTACAAAATTACCTTTTTG-TCTTTTAA
66 TATTGAAGCTATGCAAA-T-TAAAAAAAAAAATAT-A--ACAAAATTACATTTTTGCTC-TTTAA
* * *
12146619 TGGCACAAAAAGTCCTAA-ATATATGTAAACTG
125 CGGCATAAAAAGTCCTAACAAATA-G-AAACTG
* * * * * * * *
12146651 TAACTTTTTTACATATATCAATCGTGTAAACGAAGTTCAATAATTTGAACAAGTTTAATATTATA
1 TAACTTTTTCACATATATCAATCATGAAAACGAAGTTCAATCATTCGGACAAATTTAATATCATA
* ** *
12146716 TATTTAAGCTATATAAATTACAAAAAAAAAATATAACAAAATTACTTTTTTGCTCTTTAACGGCA
66 TATTGAAGCTATGCAAATTA-AAAAAAAAAATATAACAAAATTACATTTTTGCTCTTTAACGGCA
12146781 TAAAAAGTCCTAACCAAATAGAAACTG
130 TAAAAAGTCCTAA-CAAATAGAAACTG
*
12146808 TAACTTTTTCAC-TCATATCAA-CTATGAAAATC-AAGTTCAATCATTCGGACAAATTTAATATT
1 TAACTTTTTCACAT-ATATCAATC-ATGAAAA-CGAAGTTCAATCATTCGGACAAATTTAATATC
*
12146870 ATGTATTGAAGCTATGCAAATT
63 ATATATTGAAGCTATGCAAATT
12146892 GTTAAAACGA
Statistics
Matches: 327, Mismatches: 59, Indels: 36
0.77 0.14 0.09
Matches are distributed among these distances:
156 2 0.01
157 110 0.34
158 6 0.02
159 12 0.04
160 17 0.05
161 173 0.53
162 5 0.02
163 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (155 bp):
TAACTTTTTCACATATATCAATCATGAAAACGAAGTTCAATCATTCGGACAAATTTAATATCATA
TATTGAAGCTATGCAAATTAAAAAAAAAAATATAACAAAATTACATTTTTGCTCTTTAACGGCAT
AAAAAGTCCTAACAAATAGAAACTG
Found at i:12148862 original size:12 final size:12
Alignment explanation
Indices: 12148845--12148873 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
12148835 TCATTCAAAA
12148845 ATTTTATTAATT
1 ATTTTATTAATT
12148857 ATTTTATTAATT
1 ATTTTATTAATT
12148869 -TTTTA
1 ATTTTA
12148874 ATTTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTTATTAATT
Found at i:12149484 original size:13 final size:13
Alignment explanation
Indices: 12149466--12149500 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
12149456 CGGTCAACGC
* *
12149466 GCGGTTCGGTCGG
1 GCGGTTCGATCCG
12149479 GCGGTTCGATCCG
1 GCGGTTCGATCCG
12149492 GCGGTTCGA
1 GCGGTTCGA
12149501 CTCGGTCTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.26, G:0.46, T:0.23
Consensus pattern (13 bp):
GCGGTTCGATCCG
Found at i:12150411 original size:6 final size:6
Alignment explanation
Indices: 12150400--12150471 Score: 56
Period size: 6 Copynumber: 10.8 Consensus size: 6
12150390 AGGATGAAGA
*
12150400 AAAAAG AAAAAG AAAGGAAG AAAAAG ACAAACGCAG AAACAG AAAGAA-
1 AAAAAG AAAAAG AAA--AAG AAAAAG A-AAA---AG AAAAAG AAA-AAG
12150448 AAGAAAG AAAAAG AAAAAG AAAAA
1 AA-AAAG AAAAAG AAAAAG AAAAA
12150472 AATATTAAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
6 37 0.67
7 7 0.13
8 6 0.11
9 2 0.04
10 3 0.05
ACGTcount: A:0.75, C:0.06, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:12150757 original size:48 final size:46
Alignment explanation
Indices: 12150685--12151148 Score: 548
Period size: 48 Copynumber: 9.9 Consensus size: 46
12150675 TTGAAAGTTT
*
12150685 AAAAGGCTCCTCTCAGCAGGGGCTCAACAACTTTAAAATCTCACCTTGG
1 AAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCA-C-TGG
* * * *
12150734 AAAAGCTCCTCTTAGTAGAGGCTCAACAACTTTAAAATTCTC-TTGAA
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCACTG-G
* *
12150781 AAAAGCTCCTCTCAGCAGAAGCTCAACAACTTTAAAATTTCATCTTGG
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCA-C-TGG
* *
12150829 AAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATTTCA-T-G
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCACTGG
* *
12150874 AAAAGGCTCCTCTCAGCAGAGGCTTAACAACTTTAAAATCTCA-T-A
1 AAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCACTGG
*
12150919 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTGA
1 AAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCA-CTGG
*
12150968 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTGG
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCA-C-TGG
** *
12151016 AAAAGCTCCTCTCAATAGAGGCTCAACAACTTTAAAAATTTCA-T-G
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCACTGG
* *
12151061 AAAAGGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATCTCA-TGC
1 AAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCACTGG
*
12151107 AAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTC
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTC
12151149 CTCTGTTTTC
Statistics
Matches: 372, Mismatches: 27, Indels: 35
0.86 0.06 0.08
Matches are distributed among these distances:
45 89 0.24
46 82 0.22
47 44 0.12
48 124 0.33
49 33 0.09
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (46 bp):
AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCACTGG
Found at i:12150948 original size:139 final size:137
Alignment explanation
Indices: 12150685--12151143 Score: 611
Period size: 139 Copynumber: 3.3 Consensus size: 137
12150675 TTGAAAGTTT
* * * *
12150685 AAAAGGCTCCTCTCAGCAGGGGCTCAACAACTTTAAAATCTCACCTTGGAAAAGCTCCTCTTAGT
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCA-C-TGGAAAAGCTCCTCTCAGT
* * *
12150750 AGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAAGCTCCTCTCAGCAGAAGCTCAACAACTTTA
64 AGAGGCTCAACAACTTTAAAA-TCTCAT-AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTA
12150815 AAATTTCATCTTG
127 AAA-TTCATC-TG
* * *
12150828 GAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATTTCA-T-GAAAAGGCTCCTCTCAGC
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATTTCACTGGAAAA-GCTCCTCTCAGT
*
12150891 AGAGGCTTAACAACTTTAAAATCTCATAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAA
64 AGAGGCTCAACAACTTTAAAATCTCATAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AA
12150956 AATCTCATCTG
128 AAT-TCATCTG
*
12150967 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTGGAAAAGCTCCTCTCAAT
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCA-C-TGGAAAAGCTCCTCTCAGT
* * *
12151032 AGAGGCTCAACAACTTTAAAAATTTCATGAAAAGGCTCCTCTCAGTAGAGGCTCAACAACTTTAA
64 AGAGGCTCAACAACTTT-AAAATCTCATAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAA
12151097 AA-TC-TCATG
128 AATTCATC-TG
* *
12151106 CAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
12151144 ATCTCCTCTG
Statistics
Matches: 285, Mismatches: 21, Indels: 24
0.86 0.06 0.07
Matches are distributed among these distances:
138 11 0.04
139 108 0.38
140 19 0.07
141 62 0.22
142 47 0.16
143 30 0.11
144 8 0.03
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (137 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCACTGGAAAAGCTCCTCTCAGTAG
AGGCTCAACAACTTTAAAATCTCATAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT
TCATCTG
Found at i:12151014 original size:187 final size:187
Alignment explanation
Indices: 12150685--12151153 Score: 773
Period size: 187 Copynumber: 2.5 Consensus size: 187
12150675 TTGAAAGTTT
* *
12150685 AAAAGGCTCCTCTCAGCAGGGGCTCAACAACTTTAAAATCTCACCTTGGAAAA-GCTCCTCTTAG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCA---T-GAAAAGGCTCCTCTCAG
* *
12150749 TAGAGGCTCAACAACTTTAAAATTCTCT-TGAAAAAAGCTCCTCTCAGCAGAAGCTCAACAACTT
62 CAGAGGCTCAACAACTTTAAAAATCTCTCTGAAAAAAGCTCCTCTCAGCAGAAGCTCAACAACTT
12150813 TAAAATTTCATCTTGGAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATTTCATG
127 TAAAATTTCATCTTGGAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATTTCATG
* *
12150874 AAAAGGCTCCTCTCAGCAGAGGCTTAACAACTTTAAAATCTCATAAAAAGGCTCCTCTCAGCAGA
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATGAAAAGGCTCCTCTCAGCAGA
*
12150939 GGCTCAACAACTTTAAAAATCTCATCTG-AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAA
66 GGCTCAACAACTTTAAAAATCTC-TCTGAAAAAAGCTCCTCTCAGCAGAAGCTCAACAACTTTAA
*
12151003 AATTTCATCTTGGAAAAGCTCCTCTCAATAGAGGCTCAACAACTTTAAAAATTTCATG
130 AATTTCATCTTGGAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATTTCATG
* *
12151061 AAAAGGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATCTCATGCAAAGGCTCCTCTCAGCAGA
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATGAAAAGGCTCCTCTCAGCAGA
12151126 GGCTCAACAACTTTAAAAATCTCCTCTG
66 GGCTCAACAACTTTAAAAATCT-CTCTG
12151154 TTTTCAAATT
Statistics
Matches: 264, Mismatches: 12, Indels: 10
0.92 0.04 0.03
Matches are distributed among these distances:
185 4 0.02
186 36 0.14
187 180 0.68
188 3 0.01
189 41 0.16
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (187 bp):
AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATGAAAAGGCTCCTCTCAGCAGA
GGCTCAACAACTTTAAAAATCTCTCTGAAAAAAGCTCCTCTCAGCAGAAGCTCAACAACTTTAAA
ATTTCATCTTGGAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATTTCATG
Found at i:12160855 original size:13 final size:13
Alignment explanation
Indices: 12160829--12160861 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
12160819 ACGGGAAGAC
12160829 AAAAAAAGAGAAG
1 AAAAAAAGAGAAG
12160842 AAGAAAAAGA-AAG
1 AA-AAAAAGAGAAG
12160855 AAAAAAA
1 AAAAAAA
12160862 TATTAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.26
13 7 0.37
14 7 0.37
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAGAAG
Found at i:12163301 original size:21 final size:21
Alignment explanation
Indices: 12163276--12163316 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12163266 CCTTATCACT
12163276 TTAAGCATCAACATCACCAAC
1 TTAAGCATCAACATCACCAAC
* *
12163297 TTAAGTATCAATATCACCAA
1 TTAAGCATCAACATCACCAA
12163317 TTTGACGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.27, G:0.05, T:0.24
Consensus pattern (21 bp):
TTAAGCATCAACATCACCAAC
Found at i:12171563 original size:222 final size:222
Alignment explanation
Indices: 12171165--12171567 Score: 612
Period size: 222 Copynumber: 1.8 Consensus size: 222
12171155 TATGTGGTGG
* * *
12171165 TATATTGAAGGTATTTTACAATAGAAGATGCCTTTAATAATTTCTAAAATTTTTCAAGGAAAAAT
1 TATATTGAAGGCATTTTACAATAGAAGATGCCTTTAATAATGTCTAAAATTTTTCAAGAAAAAAT
* *** *
12171230 ATTGAAGGCATTTGTTATTAACAAATGCCTTTGGTAATGGATTACTAAGTTTAAAGGTATATTGA
66 ATTGAAGGCATCTGTTATTAACAAATGCCTTCCATAATGGATTACTAAATTTAAAGGTATATTGA
* * *
12171295 ATGAGCTTTTGTGAATAAATGCCTTCTATAATAATCATGCTATATTGAAGGCATTTTATAATAAA
131 AAGAGCTTTTGTGAATAAACGCCTTCTATAACAATCATGCTATATTGAAGGCATTTTATAATAAA
12171360 AAAATACCTCTAATAATCATATCATGA
196 AAAATACCTCTAATAATCATATCATGA
*
12171387 TATATTGAAGGCATTTTACAGTAGAAGATGCCTTTAATAATGTCTAAAATTTTT-AGAGAAAAAA
1 TATATTGAAGGCATTTTACAATAGAAGATGCCTTTAATAATGTCTAAAATTTTTCA-AGAAAAAA
* *
12171451 TATTGAAGTCATCTGTTATTAACAAATGCCTTCCATAATGGATTACTAAATTTAAGGGTATATTG
65 TATTGAAGGCATCTGTTATTAACAAATGCCTTCCATAATGGATTACTAAATTTAAAGGTATATTG
* * * *
12171516 AAAGTGCATTTT-TGAATAAACGCCTTCTATAACCATCGTGGTATATTGAAGG
130 AAAGAGC-TTTTGTGAATAAACGCCTTCTATAACAATCATGCTATATTGAAGG
12171568 TGTTTTATGT
Statistics
Matches: 161, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
221 1 0.01
222 156 0.97
223 4 0.02
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (222 bp):
TATATTGAAGGCATTTTACAATAGAAGATGCCTTTAATAATGTCTAAAATTTTTCAAGAAAAAAT
ATTGAAGGCATCTGTTATTAACAAATGCCTTCCATAATGGATTACTAAATTTAAAGGTATATTGA
AAGAGCTTTTGTGAATAAACGCCTTCTATAACAATCATGCTATATTGAAGGCATTTTATAATAAA
AAAATACCTCTAATAATCATATCATGA
Found at i:12171600 original size:7 final size:7
Alignment explanation
Indices: 12171588--12171617 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
12171578 AGAAGACACC
12171588 ATTAATA
1 ATTAATA
12171595 ATTAATA
1 ATTAATA
12171602 ATTAATA
1 ATTAATA
12171609 ATTAATA
1 ATTAATA
12171616 AT
1 AT
12171618 AGGGAAGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
ATTAATA
Found at i:12175924 original size:103 final size:103
Alignment explanation
Indices: 12175786--12176060 Score: 356
Period size: 103 Copynumber: 2.7 Consensus size: 103
12175776 ACTACTATAT
* * *
12175786 CAATATAACAAAATACTAGTGTCTATAAAATTTGTTAAAAATCTTCAAACTAATAATGTCTGTCA
1 CAATATAACAAAATAATAGTATCCATAAAATTTGTTAAAAATCTTCAAACTAATAATGTCTGTCA
* **
12175851 CCATCAATCACAAAATAAAATGATCATAATAAA-CATAA
66 CCATCAACCACAAAATAAAACAATCATAATAAATC-TAA
* *
12175889 CCATATAACAAAATAATAGTATCCATAAAAATTGTTAAAAATCTTCAAACTAATAATG-CTCGTC
1 CAATATAACAAAATAATAGTATCCATAAAATTTGTTAAAAATCTTCAAACTAATAATGTCT-GTC
*** *
12175953 ACCATCAACCACATTCTAAGACAATCATAATAAATCTAA
65 ACCATCAACCACAAAATAAAACAATCATAATAAATCTAA
* * * * * *
12175992 CAAAATAACAAAATAATAGCATCCATAAAATTTGTTAAAAATCTTCAAATTAGTAAAGTCTGACA
1 CAATATAACAAAATAATAGTATCCATAAAATTTGTTAAAAATCTTCAAACTAATAATGTCTGTCA
12176057 CCAT
66 CCAT
12176061 ATAAAACAAC
Statistics
Matches: 149, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
102 2 0.01
103 144 0.97
104 3 0.02
ACGTcount: A:0.49, C:0.17, G:0.06, T:0.28
Consensus pattern (103 bp):
CAATATAACAAAATAATAGTATCCATAAAATTTGTTAAAAATCTTCAAACTAATAATGTCTGTCA
CCATCAACCACAAAATAAAACAATCATAATAAATCTAA
Found at i:12177404 original size:143 final size:143
Alignment explanation
Indices: 12177069--12177413 Score: 326
Period size: 143 Copynumber: 2.4 Consensus size: 143
12177059 ATAAGGGTGG
* * * **
12177069 AATTACCAAAATA-TTTTTAGGGGTATTTTTGTAATTTATCTTTTTTGAGGTCGATTTTTCATGA
1 AATTACCAAAATACCTTTTAGGTGTATTTTTGTAATTTATCATTTTCAAGGTCGATTTTTCA-GA
* * * * *
12177133 AAAACTCCATATCATGTTTTAATATGATTGCGTGAATTTTGGTGCATTGAAAACTTTGATTGCAC
65 AAAACTCCATATCATGTTTTAATATGATTCCATGAATTTTGATGCATTAAAAACTTTAATTGCAC
*
12177198 TTCAGAAAGGTTGA
130 CTCAGAAAGGTTGA
* ** * * * *
12177212 AATTACTAAAATATCC-TTTA-GTGGTATTTTCATAATTTGA-CATTCTCAAGTTGGTTTTTTGC
1 AATTACCAAAATA-CCTTTTAGGT-GTATTTTTGTAATTT-ATCATTTTCAAGGTCGATTTTT-C
* * * * *
12177274 -GAAAAATTTCATATCATGCTTTT-ATATTATTCCATGAATTTTTATGCATTAAAAATTTTAATT
62 AGAAAAACTCCATATCATG-TTTTAATATGATTCCATGAATTTTGATGCATTAAAAACTTTAATT
* *
12177337 GTACCTCAGCAAGAG-TGA
126 GCACCTCAGAAAG-GTTGA
* * *
12177355 AATTACGAAAATACCTTTTAGGTGTATTTTTGTAATTTATCCTTTTCAAGATCGATTTT
1 AATTACCAAAATACCTTTTAGGTGTATTTTTGTAATTTATCATTTTCAAGGTCGATTTT
12177414 GCATGAAAGG
Statistics
Matches: 159, Mismatches: 33, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
142 3 0.02
143 117 0.74
144 37 0.23
145 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (143 bp):
AATTACCAAAATACCTTTTAGGTGTATTTTTGTAATTTATCATTTTCAAGGTCGATTTTTCAGAA
AAACTCCATATCATGTTTTAATATGATTCCATGAATTTTGATGCATTAAAAACTTTAATTGCACC
TCAGAAAGGTTGA
Found at i:12178962 original size:31 final size:30
Alignment explanation
Indices: 12178906--12178987 Score: 119
Period size: 31 Copynumber: 2.7 Consensus size: 30
12178896 AATCATGGTG
*
12178906 AACCCTAAACTAAACCTTAACCAAACCCTA
1 AACCCTAAACTAAACCTAAACCAAACCCTA
* *
12178936 AACCCTAAATTAAATCCTAAACCAAACCTTA
1 AACCCTAAACTAAA-CCTAAACCAAACCCTA
12178967 AACCCTAATACTAAACCTAAA
1 AACCCTAA-ACTAAACCTAAA
12178988 TAAATTTGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
30 13 0.28
31 28 0.61
32 5 0.11
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.20
Consensus pattern (30 bp):
AACCCTAAACTAAACCTAAACCAAACCCTA
Found at i:12178967 original size:19 final size:20
Alignment explanation
Indices: 12178945--12178988 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
12178935 AAACCCTAAA
12178945 TTAAATCCTAA-ACCAAACC
1 TTAAATCCTAATACCAAACC
* *
12178964 TTAAACCCTAATACTAAACC
1 TTAAATCCTAATACCAAACC
12178984 -TAAAT
1 TTAAAT
12178989 AAATTTGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (20 bp):
TTAAATCCTAATACCAAACC
Found at i:12179122 original size:20 final size:19
Alignment explanation
Indices: 12179075--12179124 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
12179065 AAATCATGGT
*
12179075 AAACCCTAAAACCCTAAATC
1 AAACCCT-AAACCCTAAAGC
*
12179095 AAATCCTAAACCCTAAAAGC
1 AAACCCTAAACCCT-AAAGC
*
12179115 TAACCCTAAA
1 AAACCCTAAA
12179125 TCTATTCTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.50, C:0.32, G:0.02, T:0.16
Consensus pattern (19 bp):
AAACCCTAAACCCTAAAGC
Found at i:12180054 original size:24 final size:24
Alignment explanation
Indices: 12180026--12180073 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
12180016 TTTCCACAAC
* *
12180026 AAAATTCACTAAAAAACA-AAATA
1 AAAAATCACAAAAAAACAGAAATA
*
12180049 AAAAATCACAAAAAAATAGAAATA
1 AAAAATCACAAAAAAACAGAAATA
12180073 A
1 A
12180074 TAGAATGTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.73, C:0.10, G:0.02, T:0.15
Consensus pattern (24 bp):
AAAAATCACAAAAAAACAGAAATA
Found at i:12182416 original size:15 final size:15
Alignment explanation
Indices: 12182405--12182434 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
12182395 TTAAAAAAAT
12182405 TATCATGCAAAATAA
1 TATCATGCAAAATAA
12182420 TATCATGCAATAATA
1 TATCATGCAA-AATA
12182435 TAATATGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (15 bp):
TATCATGCAAAATAA
Found at i:12182613 original size:15 final size:16
Alignment explanation
Indices: 12182593--12182631 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
12182583 AATAAGAAAT
12182593 AAAATAAAACAAAAA-
1 AAAATAAAACAAAAAG
*
12182608 AAAATAAAATAAAAAG
1 AAAATAAAACAAAAAG
12182624 AAAA-AAAA
1 AAAATAAAA
12182632 AACTTGCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.87, C:0.03, G:0.03, T:0.08
Consensus pattern (16 bp):
AAAATAAAACAAAAAG
Found at i:12182614 original size:20 final size:20
Alignment explanation
Indices: 12182589--12182631 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
12182579 CAAAAATAAG
12182589 AAATAAAATAAAACA-AAAAA
1 AAATAAAATAAAA-AGAAAAA
12182609 AAATAAAATAAAAAGAAAAA
1 AAATAAAATAAAAAGAAAAA
12182629 AAA
1 AAA
12182632 AACTTGCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.86, C:0.02, G:0.02, T:0.09
Consensus pattern (20 bp):
AAATAAAATAAAAAGAAAAA
Found at i:12182617 original size:25 final size:25
Alignment explanation
Indices: 12182580--12182633 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
12182570 ATAATAAGGC
12182580 AAAAATAAGAAATAAAATAAAACAAAA
1 AAAAATAAGAAATAAAA-AAAA-AAAA
*
12182607 AAAAAT-A-AAATAAAAAGAAAAAA
1 AAAAATAAGAAATAAAAAAAAAAAA
12182630 AAAA
1 AAAA
12182634 CTTGCGTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 8 0.31
24 3 0.12
25 8 0.31
26 1 0.04
27 6 0.23
ACGTcount: A:0.85, C:0.02, G:0.04, T:0.09
Consensus pattern (25 bp):
AAAAATAAGAAATAAAAAAAAAAAA
Found at i:12183552 original size:22 final size:22
Alignment explanation
Indices: 12183522--12183565 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
12183512 AATTAGACTA
12183522 AAAAACAAAATGAAATTAAAAT
1 AAAAACAAAATGAAATTAAAAT
* *
12183544 AAAATCAAAATTAAATTAAAAT
1 AAAAACAAAATGAAATTAAAAT
12183566 TTAAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (22 bp):
AAAAACAAAATGAAATTAAAAT
Found at i:12183566 original size:11 final size:11
Alignment explanation
Indices: 12183528--12183578 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
12183518 ACTAAAAAAC
*
12183528 AAAATGAAATT
1 AAAATTAAATT
* *
12183539 AAAATAAAATC
1 AAAATTAAATT
12183550 AAAATTAAATT
1 AAAATTAAATT
12183561 AAAATTTAAATTT
1 AAAA-TTAAA-TT
12183574 AAAAT
1 AAAAT
12183579 CTCAAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
11 22 0.65
12 6 0.18
13 6 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (11 bp):
AAAATTAAATT
Found at i:12184319 original size:17 final size:17
Alignment explanation
Indices: 12184299--12184371 Score: 76
Period size: 17 Copynumber: 4.3 Consensus size: 17
12184289 TTAGATTCAC
*
12184299 AAGATTTTCAGATTCGT
1 AAGAATTTCAGATTCGT
*
12184316 AAGAATTTCAAATTC-T
1 AAGAATTTCAGATTCGT
* *
12184332 CAAGAATTACAGGTTCGT
1 -AAGAATTTCAGATTCGT
* *
12184350 AGGAATTTCATATTCGT
1 AAGAATTTCAGATTCGT
12184367 AAGAA
1 AAGAA
12184372 CATCAGGTTT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
16 1 0.02
17 42 0.95
18 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (17 bp):
AAGAATTTCAGATTCGT
Found at i:12184349 original size:34 final size:34
Alignment explanation
Indices: 12184293--12184364 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
12184283 GGATTTTTAG
* *
12184293 ATTCACAAGATTTTCAGATTCGTAAGAATTTCAA
1 ATTCACAAGAATTACAGATTCGTAAGAATTTCAA
* * * *
12184327 ATTCTCAAGAATTACAGGTTCGTAGGAATTTCAT
1 ATTCACAAGAATTACAGATTCGTAAGAATTTCAA
12184361 ATTC
1 ATTC
12184365 GTAAGAACAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (34 bp):
ATTCACAAGAATTACAGATTCGTAAGAATTTCAA
Found at i:12184371 original size:34 final size:35
Alignment explanation
Indices: 12184306--12184407 Score: 93
Period size: 34 Copynumber: 3.0 Consensus size: 35
12184296 CACAAGATTT
* * *
12184306 TCAGATTCGTAAGAATTTCAAATTC-TCAAGAATTA
1 TCAGGTTCGTAGGAATTTCATATTCGT-AAGAATTA
*
12184341 -CAGGTTCGTAGGAATTTCATATTCGTAAGAA-CA
1 TCAGGTTCGTAGGAATTTCATATTCGTAAGAATTA
* * * * *
12184374 TCAGGTTTGTAGAAACTTCATATTTGTAGGAATT
1 TCAGGTTCGTAGGAATTTCATATTCGTAAGAATT
12184408 TTAGATCTAC
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
33 1 0.02
34 52 0.96
35 1 0.02
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (35 bp):
TCAGGTTCGTAGGAATTTCATATTCGTAAGAATTA
Found at i:12184841 original size:45 final size:46
Alignment explanation
Indices: 12184790--12184930 Score: 133
Period size: 46 Copynumber: 3.1 Consensus size: 46
12184780 ATTCATATCG
* *
12184790 AAAATTTTAAAAATTCACATTT-ACAAACTTTAATATTTCACAACC
1 AAAATTTTAAAAATTCACATTTGAAAAACTTTAAGATTTCACAACC
* * * * * *
12184835 AAAATTTCAAAGATTCTCATTTGAAAAATTTTAGGATTTCACATCC
1 AAAATTTTAAAAATTCACATTTGAAAAACTTTAAGATTTCACAACC
* * * * *
12184881 AAAATTTTAAAGATCCGCATTTGAAAAAAATTTAAAGA-TTCACATCC
1 AAAATTTTAAAAATTCACATTTG-AAAAACTTT-AAGATTTCACAACC
12184928 AAA
1 AAA
12184931 GTTTCAAAGG
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
45 19 0.24
46 38 0.47
47 20 0.25
48 3 0.04
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (46 bp):
AAAATTTTAAAAATTCACATTTGAAAAACTTTAAGATTTCACAACC
Found at i:12184883 original size:46 final size:47
Alignment explanation
Indices: 12184781--12184944 Score: 147
Period size: 45 Copynumber: 3.6 Consensus size: 47
12184771 AACATAAAAA
* * * * * * * *
12184781 TTCATATCGAAAATTTTAAAAATTCACATTT-ACAAACTTT-AATAT
1 TTCACATCCAAAATTTCAAAGATTCTCATTTGAAAAAATTTAAAGAT
* * *
12184826 TTCACAACCAAAATTTCAAAGATTCTCATTTG-AAAAATTTTAGGAT
1 TTCACATCCAAAATTTCAAAGATTCTCATTTGAAAAAATTTAAAGAT
* * *
12184872 TTCACATCCAAAATTTTAAAGATCCGCATTTGAAAAAAATTTAAAGA-
1 TTCACATCCAAAATTTCAAAGATTCTCATTTG-AAAAAATTTAAAGAT
* *
12184919 TTCACATCCAAAGTTTCAAAGGTTCT
1 TTCACATCCAAAATTTCAAAGATTCT
12184945 TTTTAAAAAA
Statistics
Matches: 94, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
45 31 0.33
46 31 0.33
47 21 0.22
48 11 0.12
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (47 bp):
TTCACATCCAAAATTTCAAAGATTCTCATTTGAAAAAATTTAAAGAT
Found at i:12184927 original size:47 final size:46
Alignment explanation
Indices: 12184824--12184939 Score: 144
Period size: 46 Copynumber: 2.5 Consensus size: 46
12184814 AAACTTTAAT
* * * * *
12184824 ATTTCACAACCAAAATTTCAAAGATTCTCATTTGAAAAATTTTAGG
1 ATTTCACATCCAAAATTTCAAAGATCCGCATTTGAAAAATTTAAAG
*
12184870 ATTTCACATCCAAAATTTTAAAGATCCGCATTTGAAAAAAATTTAAAG
1 ATTTCACATCCAAAATTTCAAAGATCCGCATTTG--AAAAATTTAAAG
*
12184918 A-TTCACATCCAAAGTTTCAAAG
1 ATTTCACATCCAAAATTTCAAAG
12184940 GTTCTTTTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
46 30 0.50
47 19 0.32
48 11 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (46 bp):
ATTTCACATCCAAAATTTCAAAGATCCGCATTTGAAAAATTTAAAG
Found at i:12190781 original size:103 final size:103
Alignment explanation
Indices: 12190597--12190789 Score: 248
Period size: 103 Copynumber: 1.9 Consensus size: 103
12190587 AAAACTTTTA
* * * * *
12190597 TTTGTGAAAATAATTTATTTTTAGAAATATCTTTGAATATGGTGGTAAGATTTTCTGTTAAAGAT
1 TTTGTAAAAAGAATTTATTTTCAGAAATATCTTTGAATATGGTGGTAAAATTTTCTGTCAAAGAT
*
12190662 TATTCTCCAATATGTTGATAGGATTGAAAATTTATTTG
66 TATCCTCCAATATGTTGATAGGATTGAAAATTTATTTG
*
12190700 TTTGTAAAAAGAATTTATTTTCAGAAATATCTTCT-AATATGTTGGTAAAAGTTTT-TGTC-AAG
1 TTTGTAAAAAGAATTTATTTTCAGAAATATCTT-TGAATATGGTGGTAAAA-TTTTCTGTCAAAG
* * *
12190762 AATTATCCTCTAATGTGTTGGTAGGATT
64 -ATTATCCTCCAATATGTTGATAGGATT
12190790 TTAAAAATAT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
102 3 0.04
103 69 0.90
104 5 0.06
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.45
Consensus pattern (103 bp):
TTTGTAAAAAGAATTTATTTTCAGAAATATCTTTGAATATGGTGGTAAAATTTTCTGTCAAAGAT
TATCCTCCAATATGTTGATAGGATTGAAAATTTATTTG
Found at i:12190812 original size:103 final size:103
Alignment explanation
Indices: 12190603--12190811 Score: 230
Period size: 103 Copynumber: 2.0 Consensus size: 103
12190593 TTTATTTGTG
* * * * *
12190603 AAAATAATTTATTTTTAGAAATATCTTTGAATATGGTGGTAAGATTTTCTGTTAAAGATTATTCT
1 AAAAGAATTTATTTTCAGAAATATCTTTGAATATGGTGGTAAAATTTTCTGTCAAAGATTATCCT
* **
12190668 CCAATATGTTGATAGGATTGAAAATTTATTTGTTTGTA
66 CCAATATGTTGATAGGATTGAAAATATATTTGTTTAAA
*
12190706 AAAAGAATTTATTTTCAGAAATATCTTCT-AATATGTTGGTAAAAGTTTT-TGTC-AAGAATTAT
1 AAAAGAATTTATTTTCAGAAATATCTT-TGAATATGGTGGTAAAA-TTTTCTGTCAAAG-ATTAT
* * * *
12190768 CCTCTAATGTGTTGGTAGGATTTTAAAA-ATATTT-TTTAAA
63 CCTCCAATATGTTGATAGGA-TTGAAAATATATTTGTTTAAA
12190808 AAAA
1 AAAA
12190812 AAAATGGTAA
Statistics
Matches: 89, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
102 11 0.12
103 67 0.75
104 11 0.12
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (103 bp):
AAAAGAATTTATTTTCAGAAATATCTTTGAATATGGTGGTAAAATTTTCTGTCAAAGATTATCCT
CCAATATGTTGATAGGATTGAAAATATATTTGTTTAAA
Found at i:12190968 original size:23 final size:21
Alignment explanation
Indices: 12190932--12190973 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
12190922 ATCATGGAAA
12190932 ATAATATTATGCAATAATAAT
1 ATAATATTATGCAATAATAAT
12190953 ATAATACTTCATGCAATAATA
1 ATAATA-TT-ATGCAATAATA
12190974 TAATATGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 2 0.11
23 11 0.58
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.36
Consensus pattern (21 bp):
ATAATATTATGCAATAATAAT
Found at i:12192053 original size:11 final size:11
Alignment explanation
Indices: 12192037--12192066 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
12192027 AAGAAAAATT
12192037 AAATTAAATCA
1 AAATTAAATCA
*
12192048 AAATTAAATTA
1 AAATTAAATCA
12192059 AAATTAAA
1 AAATTAAA
12192067 ATTTCAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (11 bp):
AAATTAAATCA
Found at i:12194530 original size:161 final size:160
Alignment explanation
Indices: 12193715--12195869 Score: 1299
Period size: 161 Copynumber: 13.4 Consensus size: 160
12193705 AGCAATAATG
* * * * *
12193715 AAGTTCAAACATT-TGACAAGTTTAATATCATGTATTGGAA-CTATGTAAACTATTAAAATAG-A
1 AAGTTCAATCATTCGGACAAGTTTAATATCATATATT-TAAGCTATGTAAACTATTAAAACAGAA
* * * * * * * * *
12193777 ATAATAACTGCAAAATTTGCATGTTTGCCTTTTAACGGCATAAAAAATCTTAAA-AAGATATAAA
65 AT-ATAACTACAAAA-TTACCTTTTTGCCCTTTAACGGCACAAAAAGTCCTAAACAA-ACATAAA
* * *
12193841 TTGCAACTTATTT-AC--GTATCGAATCAT-AGAAAC
127 CTGTAACTT-TTTCACATATATC-AATCATGA-AAAC
* * * * * * * * *
12193874 TAAGTTCAATCATTTGGACAAATTTATTATTATGTGTTTAAGCTATCTAAAATATTAAAACATAA
1 -AAGTTCAATCATTCGGACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACAGAA
* * ** * * * * * * * *
12193939 ATATAACTACAAAATTGCATTTTAACCCATTAGCGACATAAAAAATGCTAAACATACATAAACTA
65 ATATAACTACAAAATTACCTTTTTGCCCTTTAACGGCACAAAAAGTCCTAAACAAACATAAACTG
** * *
12194004 TAACTTTTTCACCCATATTAATCACGAAAAC
130 TAACTTTTTCACATATATCAATCATGAAAAC
* * * * * * * * * * *
12194035 AAAATTCAATCATT-TGAGCATGTTTACTATCATGTATTGAAGCTATCTAAATTGTTATAATAG-
1 -AAGTTCAATCATTCGGA-CAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACAGA
* * * * *** * * *
12194098 AATAATAACTGCAAACTTGCATTTTTGGTTTTTAATGGCA-AAACTAGTCCTAAACAAATATAAA
64 AAT-ATAACTACAAAATTACCTTTTTGCCCTTTAACGGCACAAA-AAGTCCTAAACAAACATAAA
** *
12194162 CCATAACTTTTT--C--ATATCAACCATGAAAACC
127 CTGTAACTTTTTCACATATATCAATCATGAAAA-C
* * * * * * ** * *
12194193 AAGTTCAATCATTCAGATAAATTTAATATCATGTATTGAAACTATCCAAATTAATAAAAC-GAAA
1 AAGTTCAATCATTCGGACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACAGAAA
* * ** * * * * ** * * *
12194257 CAATAATTGTAAATTTGCATTTTTACTTTTTAACGGCATAAAAAATCC-AAACAAACA-ATAACA
66 -TATAACTACAAAATTACCTTTTTGCCCTTTAACGGCACAAAAAGTCCTAAACAAACATA-AACT
* *
12194320 GTAACTGTTTCACACATATCAATCATGAAAACC
129 GTAACTTTTTCACATATATCAATCATGAAAA-C
* * *
12194353 AAGTTTAATCATTTGGACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAATAGAAA
1 AAGTTCAATCATTCGGACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACAGAAA
* * * * **
12194418 TATAACTACAAAATTACCTTTTTGTCCTTTAATGGCACAAAAAGTCCTAAATATATGTAAACTGT
66 TATAACTACAAAATTACCTTTTTGCCCTTTAACGGCACAAAAAGTCCTAAACAAACATAAACTGT
* * *
12194483 AACTTTTTTACATATATCAATCGTGTAAAC
131 AACTTTTTCACATATATCAATCATGAAAAC
* * * * * * *
12194513 GAAGTTCAATAATTTGGACAAGTTTAATATTATATATTTAAACTATATAAATTACATAAAGA-A-
1 -AAGTTCAATCATTCGGACAAGTTTAATATCATATATTTAAGCTATGTAAACTA-TTAAA-ACAG
* * * * * *
12194576 AAATAT-A--ACAAAATTACTTTTTTGCTCTTTAACGGCATAAAAAGTCCTAACCAAATAGAAAC
63 AAATATAACTACAAAATTACCTTTTTGCCCTTTAACGGCACAAAAAGTCCTAAACAAACATAAAC
12194638 TGTAACTTTTTCAC-TCATATCAA-CTATGAAAATC
128 TGTAACTTTTTCACAT-ATATCAATC-ATGAAAA-C
* * * * * *
12194672 AAGTTCAATCATTCGGACAAATTTAATATTATGTATTGAAGCTATGCAAACTGTTAAAACA-AAA
1 AAGTTCAATCATTCGGACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACAGAAA
* * ** * ** * * * *
12194736 CAATGACGGCAAATTTATATTTTTACCTTTTAACGGCACAAAAAGTGCTAAACAAACATAAAACG
66 -TATAACTACAAAATTACCTTTTTGCCCTTTAACGGCACAAAAAGTCCTAAACAAACAT-AAACT
* * * **
12194801 GTAATTTTTTCATACATATCAATTGTGAAAAC
129 GTAACTTTTTCACATATATCAATCATGAAAAC
* * *
12194833 TCAGTTCAAT-AGTTCGAACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACATA
1 -AAGTTCAATCA-TTCGGACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACAGA
* * * ** * *
12194897 AATATAACAATAAAATTACCTATTTGCCCTTTAACGATACAAAAAGTCTTAAACAAATATAAA-T
64 AATATAACTACAAAATTACCTTTTTGCCCTTTAACGGCACAAAAAGTCCTAAACAAACATAAACT
* *
12194961 CGTAACTTTTTCACACATATCAA-CTATAAAAAC
129 -GTAACTTTTTCACATATATCAATC-ATGAAAAC
* * * * * *
12194994 TAAGTTTAATCATTCGGACAAGTTTAATATCATGTATTAAAGCTATCTAAACTGTTGAAACAGAA
1 -AAGTTCAATCATTCGGACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACAGAA
* *** ** ** * * *
12195059 CA-ATAACTACAAATTTGTATTTTAACTTTTTAACAGCATAAAAAGTCCTAAACAAACATAAACA
65 -ATATAACTACAAAATTACCTTTTTGCCCTTTAACGGCACAAAAAGTCCTAAACAAACATAAACT
* * * ** *
12195123 ATAAATTTTTTTCACACATATCAATTGTGGAAACC
129 GT-AA-CTTTTTCACATATATCAATCAT-GAAAAC
* * * * *
12195158 AAGTTCAATCATTTGTACAAGTTTAATATCATATATTTAAGTTATGTAAACTGTTAAAACATAAA
1 AAGTTCAATCATTCGGACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACAGAAA
* * *
12195223 TATAA-TAACAAAATTACCTTTTTGCCCTTTAATGGCACAAAAAGTCCTAAACAAATATAAACTA
66 TATAACT-ACAAAATTACCTTTTTGCCCTTTAACGGCACAAAAAGTCCTAAACAAACATAAACTG
* ** ** *
12195287 CAGTTTTTTCACATGCATCAACCATGAAAAC
130 TAACTTTTTCACATATATCAATCATGAAAAC
* * * * * * *
12195318 AAAGTTCAATCGTTTGGACAAATTTAATATTATGTATTGAAGCTA-GCTAAACTATTAAAATAGA
1 -AAGTTCAATCATTCGGACAAGTTTAATATCATATATTTAAGCTATG-TAAACTATTAAAACAGA
* * ** * * *
12195382 ACA-ATAACTA-TAAATCTACATTTTT-ATCTGTTAATGACACAAAAAGTCATAAACAAACATAA
64 A-ATATAACTACAAAAT-TACCTTTTTGCCCT-TTAACGGCACAAAAAGTCCTAAACAAACATAA
*
12195444 AC-GATAACTTTTTCACATATATCAATCATAAAAATC
126 ACTG-TAACTTTTTCACATATATCAATCATGAAAA-C
* * *
12195480 AAGTTTAATCATTCGGACATGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACATAAA
1 AAGTTCAATCATTCGGACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACAGAAA
* * * * * *
12195545 TATATC-AGCCAAATTACCTTTTTGCCCTTTAA-TG-ACACAGAGTCTTAAACAAACATAAA-TC
66 TATAACTA-CAAAATTACCTTTTTGCCCTTTAACGGCACAAAAAGTCCTAAACAAACATAAACT-
** * * *
12195606 ACAACTTTTTCACACATATTAA-CCTCGAAAATC
129 GTAACTTTTTCACATATATCAATCAT-GAAAA-C
* * * ** * * * * *
12195639 AAGTTCAATTATTTGGACAAGTTTAATATTATGCATTAAAGCTATATGAATTGTTAAAACAG-AA
1 AAGTTCAATCATTCGGACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACAGAAA
* * * * ** * ** *
12195703 TAATAA-T-CGTAAATTTGCATTTTTACTTTTTAACAGCATTAAAAGTCTTAAAC-AA-ATACAA
66 T-ATAACTAC--AAAATTACCTTTTTGCCCTTTAACGGCACAAAAAGTCCTAAACAAACATA-AA
*
12195764 CTGGCAACTTTTTCACATATAAT-AATCATGAAAACC
127 CT-GTAACTTTTTCACATAT-ATCAATCATGAAAA-C
* * ** * * * *
12195800 AAGTTTAATTATTCAAACAAGTTTAATATTATGTATTTAAGCTATGTAAACTGTTAAAACAAAAA
1 AAGTTCAATCATTCGGACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACAGAAA
*
12195865 AATAA
66 TATAA
12195870 TTGTAAACTA
Statistics
Matches: 1553, Mismatches: 363, Indels: 157
0.75 0.18 0.08
Matches are distributed among these distances:
155 1 0.00
156 21 0.01
157 105 0.07
158 127 0.08
159 123 0.08
160 183 0.12
161 707 0.46
162 157 0.10
163 125 0.08
164 4 0.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (160 bp):
AAGTTCAATCATTCGGACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACAGAAA
TATAACTACAAAATTACCTTTTTGCCCTTTAACGGCACAAAAAGTCCTAAACAAACATAAACTGT
AACTTTTTCACATATATCAATCATGAAAAC
Found at i:12195833 original size:481 final size:474
Alignment explanation
Indices: 12193715--12195858 Score: 1476
Period size: 481 Copynumber: 4.5 Consensus size: 474
12193705 AGCAATAATG
* * * * *
12193715 AAGTTCAAACATTT-GACAAGTTTAATATCATGTATTGGAA-CTATGTAAACTATTAAAATAGAA
1 AAGTTCAATCATTTGGACAAGTTTAATATTATGTATT-AAAGCTATGTAAACTGTTAAAACA-AA
* * * * * *
12193778 TAATAA-CTGCAAAATTTGCATGTTTGCCTTTTAACGGCATAAAAAATCTTAAA-AAGATATAAA
64 AAATAATC-GC-AAATTTACATTTTTACCTTTTAACGGCACAAAAAGTC-TAAACAA-ATA-AAA
** * * * * * *
12193841 TTGCAACTTATTT---ACGTATCGAATCAT-AGAAACTAAGTTCAATCATTTGGACAAATTTATT
124 CGGCAACTT-TTTCACACATATC-AATCATGA-AAACCAAGTTCAATCATTCGAACAAGTTTAAT
* * * * * * * * * * * *
12193902 ATTATGTGTTTAAGCTATCTAAAATATTAAAACATAAATATAACTACAAAATTGCATTTTAACCC
186 ATCATATATTTAAGCTATGTAAACTATTAAAATAGAAATATAACTA-TAAATTACCTTTTTA-TC
* ** * * * * * ** * **
12193967 ATTAGCGACATAAAAAATGC-TAAACATACATAAACTATAACTTTTTCACCCATATTAATCACGA
249 TTTAATGACACAAAAAGT-CATAAACAAATATAAAC-GTAACTTTTTCACATATATCAATCATAA
* * * * * * * * * * *
12194031 AAACAAAATTCAATCATT-TGAGCATGTTTACTATCATGTATTGAAGCTATCTAAATTGTTATAA
312 AAACGAAGTTTAATCATTCGGA-CAAGTTTAATATCATATATTTAAGCTATATAAACTATTA-AA
* ** * * * * ** * *
12194095 TAGAATAATA-ACTGCAAACTTGCATTTTTGGTTTTTAATGGCA-AAACTAGTCCTAAACAAATA
375 -ACAA-AATATACACCAAA-TTACCTTTTTGCTCTTTAACAGCATAAA-AAGTCCTAAACAAACA
* * * *
12194158 TAAACCATAACTTTTT----CATATCAACCATGAAAACC
436 TAAACAAAAACTTTTTCACACATATCAACTATGAAAATC
** * * * ** * **
12194193 AAGTTCAATCATTCAGATAAATTTAATATCATGTATTGAAA-CTATCCAAATTAATAAAACGAAA
1 AAGTTCAATCATTTGGACAAGTTTAATATTATGTATT-AAAGCTATGTAAACTGTTAAAAC-AAA
* * * * * * * * * * *
12194257 CAATAATTGTAAATTTGCATTTTTACTTTTTAACGGCATAAAAAATCCAAACAAACAATAACAGT
64 AAATAATCGCAAATTTACATTTTTACCTTTTAACGGCACAAAAAGTCTAAACAAATAA-AACGGC
* * * *
12194322 AACTGTTTCACACATATCAATCATGAAAACCAAGTTTAATCATTTGGACAAGTTTAATATCATAT
128 AACTTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTCGAACAAGTTTAATATCATAT
* *
12194387 ATTTAAGCTATGTAAACTATTAAAATAGAAATATAACTACAAAATTACCTTTTTGTCCTTTAATG
193 ATTTAAGCTATGTAAACTATTAAAATAGAAATATAACTA-TAAATTACCTTTTTAT-CTTTAATG
* * * * * * * **
12194452 GCACAAAAAGTCCTAAATATATGTAAACTGTAACTTTTTTACATATATCAATCGTGTAAACGAAG
256 ACACAAAAAGTCATAAACAAATATAAAC-GTAACTTTTTCACATATATCAATCATAAAAACGAAG
* * * * * * *
12194517 TTCAATAATTTGGACAAGTTTAATATTATATATTTAAACTATATAAATTACATAAAGA-AAAATA
320 TTTAATCATTCGGACAAGTTTAATATCATATATTTAAGCTATATAAACTA-TTAAA-ACAAAATA
* * * * * * ***
12194581 TA-ACAAAATTACTTTTTTGCTCTTTAACGGCATAAAAAGTCCTAACCAAATAGAAACTGTAACT
383 TACACCAAATTACCTTTTTGCTCTTTAACAGCATAAAAAGTCCTAAACAAACATAAACAAAAACT
*
12194645 TTTTCACTCATATCAACTATGAAAATC
448 TTTTCACACATATCAACTATGAAAATC
* * * *
12194672 AAGTTCAATCATTCGGACAAATTTAATATTATGTATTGAAGCTATGCAAACTGTTAAAACAAAAC
1 AAGTTCAATCATTTGGACAAGTTTAATATTATGTATTAAAGCTATGTAAACTGTTAAAACAAAA-
* *
12194737 AATGA-CGGCAAATTTATATTTTTACCTTTTAACGGCACAAAAAGTGCTAAACAAACATAAAACG
65 AATAATC-GCAAATTTACATTTTTACCTTTTAACGGCACAAAAAGT-CTAAAC-AA-ATAAAACG
* * * **
12194801 GTAATTTTTTCATACATATCAATTGTGAAAACTC-AGTTCAAT-AGTTCGAACAAGTTTAATATC
126 GCAACTTTTTCACACATATCAATCATGAAAAC-CAAGTTCAATCA-TTCGAACAAGTTTAATATC
* * * ***
12194864 ATATATTTAAGCTATGTAAACTATTAAAACATAAATATAACAATAAAATTACCTATTTGCCCTTT
189 ATATATTTAAGCTATGTAAACTATTAAAATAGAAATATAACTAT-AAATTACCT-TTTTATCTTT
* * * *
12194929 AACGATACAAAAAGTCTTAAACAAATATAAATCGTAACTTTTTCACACATATCAA-CTATAAAAA
252 AATGACACAAAAAGTCATAAACAAATATAAA-CGTAACTTTTTCACATATATCAATC-ATAAAAA
* * * * * *
12194993 CTAAGTTTAATCATTCGGACAAGTTTAATATCATGTATTAAAGCTATCTAAACTGTTGAAACAGA
315 CGAAGTTTAATCATTCGGACAAGTTTAATATCATATATTTAAGCTATATAAACTATTAAAACA-A
** * *
12195058 ACA-ATA-ACTACAAATT-TGTATTTTAACTTTTTAACAGCATAAAAAGTCCTAAACAAACATAA
379 A-ATATACAC--CAAATTACCT-TTTT-GCTCTTTAACAGCATAAAAAGTCCTAAACAAACATAA
* * * * *
12195120 ACAATAAATTTTTTTCACACATATCAATTGTGGAAACC
439 ACAA-AAA-CTTTTTCACACATATCAACTATGAAAATC
* * * * *
12195158 AAGTTCAATCATTTGTACAAGTTTAATATCATATATTTAAGTTATGTAAACTGTTAAAACATAAA
1 AAGTTCAATCATTTGGACAAGTTTAATATTATGTATTAAAGCTATGTAAACTGTTAAAACA-AAA
* ** * * * * * **
12195223 TATAATAACAAAATTACCTTTTTGCCCTTTAATGGCACAAAAAGTCCTAAACAAATATAAACTAC
65 AATAATCGCAAATTTACATTTTTACCTTTTAACGGCACAAAAAGT-CTAAACAAATA-AAACGGC
** *** * * * * * * * *
12195288 AGTTTTTTCACATGCATCAACCATGAAAACAAAGTTCAATCGTTTGGACAAATTTAATATTATGT
128 AACTTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTCGAACAAGTTTAATATCATAT
* *
12195353 ATTGAAGCTA-GCTAAACTATTAAAATAGAACA-ATAACTATAAATCTACATTTTTATCTGTTAA
193 ATTTAAGCTATG-TAAACTATTAAAATAGAA-ATATAACTATAAAT-TACCTTTTTATCT-TTAA
*
12195416 TGACACAAAAAGTCATAAACAAACATAAACGATAACTTTTTCACATATATCAATCATAAAAATC-
254 TGACACAAAAAGTCATAAACAAATATAAACG-TAACTTTTTCACATATATCAATCATAAAAA-CG
* *
12195480 AAGTTTAATCATTCGGACATGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACATAAA
317 AAGTTTAATCATTCGGACAAGTTTAATATCATATATTTAAGCTATATAAACTATTAAAACA-AAA
* * * * * *
12195545 TATATCAGCCAAATTACCTTTTTGCCCTTTAA-TG-ACACAGAGTCTTAAACAAACATAAATC-A
381 TATA-CA-CCAAATTACCTTTTTGCTCTTTAACAGCATAAAAAGTCCTAAACAAACATAAA-CAA
* * *
12195607 CAACTTTTTCACACATATTAACCT-CGAAAATC
443 AAACTTTTTCACACATATCAA-CTATGAAAATC
* * * * * *
12195639 AAGTTCAATTATTTGGACAAGTTTAATATTATGCATTAAAGCTATATGAATTGTTAAAACAGAAT
1 AAGTTCAATCATTTGGACAAGTTTAATATTATGTATTAAAGCTATGTAAACTGTTAAAACA-AAA
* * * * ** *
12195704 AATAATCGTAAATTTGCATTTTTACTTTTTAACAGCATTAAAAGTCTTAAACAAATACAACTGGC
65 AATAATCGCAAATTTACATTTTTACCTTTTAACGGCACAAAAAGTC-TAAACAAATAAAAC-GGC
* * * * * *
12195769 AACTTTTTCACATATAAT-AATCATGAAAACCAAGTTTAATTATTCAAACAAGTTTAATATTATG
128 AACTTTTTCACACAT-ATCAATCATGAAAACCAAGTTCAATCATTCGAACAAGTTTAATATCATA
*
12195833 TATTTAAGCTATGTAAACTGTTAAAA
192 TATTTAAGCTATGTAAACTATTAAAA
12195859 CAAAAAAATA
Statistics
Matches: 1322, Mismatches: 281, Indels: 123
0.77 0.16 0.07
Matches are distributed among these distances:
475 46 0.03
476 14 0.01
477 16 0.01
478 230 0.17
479 159 0.12
480 16 0.01
481 394 0.30
482 16 0.01
483 31 0.02
484 51 0.04
485 214 0.16
486 129 0.10
487 5 0.00
488 1 0.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (474 bp):
AAGTTCAATCATTTGGACAAGTTTAATATTATGTATTAAAGCTATGTAAACTGTTAAAACAAAAA
ATAATCGCAAATTTACATTTTTACCTTTTAACGGCACAAAAAGTCTAAACAAATAAAACGGCAAC
TTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTCGAACAAGTTTAATATCATATATT
TAAGCTATGTAAACTATTAAAATAGAAATATAACTATAAATTACCTTTTTATCTTTAATGACACA
AAAAGTCATAAACAAATATAAACGTAACTTTTTCACATATATCAATCATAAAAACGAAGTTTAAT
CATTCGGACAAGTTTAATATCATATATTTAAGCTATATAAACTATTAAAACAAAATATACACCAA
ATTACCTTTTTGCTCTTTAACAGCATAAAAAGTCCTAAACAAACATAAACAAAAACTTTTTCACA
CATATCAACTATGAAAATC
Found at i:12195886 original size:805 final size:799
Alignment explanation
Indices: 12194174--12195886 Score: 1854
Period size: 805 Copynumber: 2.1 Consensus size: 799
12194164 ATAACTTTTT
* * *
12194174 CATATCAACCATGAAAACCAAGTTCAATCATTCAGATAAATTTAATATCATGTATTGAAA-CTAT
1 CATATCAA-CATGAAAACCAAGTTTAATCATTCAGACAAGTTTAATATCATGTATT-AAAGCTAT
* * ** * * * *
12194238 CCAAATTAATAAAACGAAACAATAATTGTAAATTTGCATTTTTACTTTTTAACGGCATAAAAAAT
64 CTAAACTGTTAAAACAAAACAATAATTGTAAATTTGTATTTTAACTTTTTAACAGCATAAAAAAT
* *
12194303 CCAAACAAACAATAACAGTAACTGTTTCACACATATCAATCATGAAAACCAAGTTTAATCATTTG
129 CCAAACAAACAATAACAATAACTGTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTTG
*
12194368 GACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAATAGAAATATAACTACAAAATT
194 GACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACAGAAATATAACTACAAAATT
* * * * *
12194433 ACCTTTTTGTCCTTTAATGGCACAAAAAGTCCTAAATATATGTAAACTGTAACTTTTTTACATAT
259 ACCTTTTTGCCCTTTAATGGCACAAAAAGTCCTAAACAAATATAAAC-GTAACTTTTTTACATAC
* * * * * * *
12194498 ATCAATCGTGTAAACGAAGTTCAATAATTTGGACAAGTTTAATATTATATATTTAAACTATATAA
323 ATCAACCATGAAAACAAAGTTCAATAATTTGGACAAATTTAATATTATATATTGAAACTAGATAA
* * * * * * *
12194563 ATTACATAAAGAAAAATATAACAAAATTACTTTTTTGCTCTTTAACGGCATAAAAAGTCCTAACC
388 ACTACATAAAGAAAAATATAACAAAATTACATTTTTGATCTTTAACGACACAAAAAGTCATAAAC
* *
12194628 AAATAGAAACTGTAACTTTTTCACTCATATCAACTATGAAAATCAAGTTCAATCATTCGGACAAA
453 AAACAGAAACTGTAACTTTTTCACTCATATCAACTATAAAAATCAAGTTCAATCATTCGGACAAA
* * * * * *
12194693 TTTAATATTATGTATTGAAGCTATGCAAACTGTTAAAACAAAACAATGACGGCAAATTTATATTT
518 TTTAATATCATATATTGAAGCTATGCAAACTATTAAAACAAAACAATCACGCCAAATTTACATTT
* ** * *
12194758 TTACCTTTTAACGGCACAAAAAGTGCTAAACAAACATAAAACGGTAATTTTTTCATACATATCAA
583 TTACCCTTTAACGGCACAAAAAGTGCTAAACAAACATAAAACGACAACTTTTTCACACATATCAA
* * * * *
12194823 TTGTGAAAACTCAGTTCAATAGTTCGAACAAGTTTAATATCATATATTTAAGCTATGTAAACTAT
648 CTGCGAAAACTCAGTTCAATAGTTCGAACAAGTTTAATATCATACATTAAAGCTATATAAACTAT
* * *
12194888 TAAAACATAAATATAACAATAAAATTACCTATTTGCCCTTTAACGATACAAAAAGTCTTAAACAA
713 TAAAACAGAAATATAACAATAAAATTACATATTTACCCTTTAACGATA-AAAAAGTCTTAAACAA
* *
12194953 ATATAAATCGTAACTTTTTCACA
777 ATACAAATCGCAACTTTTTCACA
* * *
12194976 CATATCAACTATAAAAACTAAGTTTAATCATTCGGACAAGTTTAATATCATGTATTAAAGCTATC
1 CATATCAAC-ATGAAAACCAAGTTTAATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATC
* * * ** *
12195041 TAAACTGTTGAAACAGAACAATAACTACAAATTTGTATTTTAACTTTTTAACAGCATAAAAAGTC
65 TAAACTGTTAAAACAAAACAATAATTGTAAATTTGTATTTTAACTTTTTAACAGCATAAAAAATC
* * ** *
12195106 CTAAACAAAC-ATAAACAATAAATTTTTTTCACACATATCAATTGTGGAAACCAAGTTCAATCAT
130 C-AAACAAACAAT-AACAAT-AA-CTGTTTCACACATATCAATCATGAAAACCAAGTTCAATCAT
* * * *
12195170 TTGTACAAGTTTAATATCATATATTTAAGTTATGTAAACTGTTAAAACATAAATATAA-TAACAA
191 TTGGACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACAGAAATATAACT-ACAA
*
12195234 AATTACCTTTTTGCCCTTTAATGGCACAAAAAGTCCTAAACAAATATAAAC-TACAGTTTTTTCA
255 AATTACCTTTTTGCCCTTTAATGGCACAAAAAGTCCTAAACAAATATAAACGTA-ACTTTTTT-A
* ** * *
12195298 CATGCATCAACCATGAAAACAAAGTTCAATCGTTTGGACAAATTTAATATTATGTATTGAAGCTA
318 CATACATCAACCATGAAAACAAAGTTCAATAATTTGGACAAATTTAATATTATATATTGAAACTA
* * *
12195363 GCTAAACTA-TTAAA-ATAGAACA-ATAACTATAAATCTACATTTTT-ATCTGTTAATGACACAA
383 GATAAACTACATAAAGA-A-AA-ATATAAC-A-AAAT-TACATTTTTGATCT-TTAACGACACAA
* *
12195424 AAAGTCATAAACAAACATAAAC-GATAACTTTTTCACAT-ATATCAA-TCATAAAAATCAAGTTT
441 AAAGTCATAAACAAACAGAAACTG-TAACTTTTTCAC-TCATATCAACT-ATAAAAATCAAGTTC
** * * *
12195486 AATCATTCGGACATGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACATAAATATATC
503 AATCATTCGGACAAATTTAATATCATATATTGAAGCTATGCAAACTATTAAAACA-AAACA-ATC
* * * * * *
12195551 A-GCCAAA-TTACCTTTTTGCCCTTTAA-TG-ACACAGAGT-CTTAAACAAACATAAATC-ACAA
566 ACGCCAAATTTACATTTTTACCCTTTAACGGCACAAAAAGTGC-TAAACAAACATAAAACGACAA
* * * * *
12195610 CTTTTTCACACATATTAACCT-CGAAAA-TCAAGTTCAATTA-TTTGGACAAGTTTAATATTATG
630 CTTTTTCACACATATCAA-CTGCGAAAACTC-AGTTCAA-TAGTTCGAACAAGTTTAATATCATA
* * * * * * * **
12195672 CATTAAAGCTATATGAATTGTTAAAACAG-AATAATAATC-GTAAATTTGCATTTTTACTTTTTA
692 CATTAAAGCTATATAAACTATTAAAACAGAAAT-ATAA-CAATAAAATTACATATTTACCCTTTA
* * *
12195735 ACAGCAT-TAAAAGTCTTAAACAAATACAACTGGCAACTTTTTCACA
755 AC-G-ATAAAAAAGTCTTAAACAAATACAAATCGCAACTTTTTCACA
* * * * *
12195781 TATAAT-AATCATGAAAACCAAGTTTAATTATTCAAACAAGTTTAATATTATGTATTTAAGCTAT
1 CAT-ATCAA-CATGAAAACCAAGTTTAATCATTCAGACAAGTTTAATATCATGTATTAAAGCTAT
* * * *
12195845 GTAAACTGTTAAAACAAAAAAATAATTGTAAACTAGTATTTT
64 CTAAACTGTTAAAACAAAACAATAATTGTAAATTTGTATTTT
12195887 TGCCTTTTAG
Statistics
Matches: 750, Mismatches: 130, Indels: 59
0.80 0.14 0.06
Matches are distributed among these distances:
801 4 0.01
802 107 0.14
803 16 0.02
804 20 0.03
805 416 0.55
806 32 0.04
807 12 0.02
808 130 0.17
809 10 0.01
810 3 0.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (799 bp):
CATATCAACATGAAAACCAAGTTTAATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATCT
AAACTGTTAAAACAAAACAATAATTGTAAATTTGTATTTTAACTTTTTAACAGCATAAAAAATCC
AAACAAACAATAACAATAACTGTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTTGGA
CAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACAGAAATATAACTACAAAATTAC
CTTTTTGCCCTTTAATGGCACAAAAAGTCCTAAACAAATATAAACGTAACTTTTTTACATACATC
AACCATGAAAACAAAGTTCAATAATTTGGACAAATTTAATATTATATATTGAAACTAGATAAACT
ACATAAAGAAAAATATAACAAAATTACATTTTTGATCTTTAACGACACAAAAAGTCATAAACAAA
CAGAAACTGTAACTTTTTCACTCATATCAACTATAAAAATCAAGTTCAATCATTCGGACAAATTT
AATATCATATATTGAAGCTATGCAAACTATTAAAACAAAACAATCACGCCAAATTTACATTTTTA
CCCTTTAACGGCACAAAAAGTGCTAAACAAACATAAAACGACAACTTTTTCACACATATCAACTG
CGAAAACTCAGTTCAATAGTTCGAACAAGTTTAATATCATACATTAAAGCTATATAAACTATTAA
AACAGAAATATAACAATAAAATTACATATTTACCCTTTAACGATAAAAAAGTCTTAAACAAATAC
AAATCGCAACTTTTTCACA
Found at i:12195890 original size:320 final size:318
Alignment explanation
Indices: 12194322--12195870 Score: 1299
Period size: 320 Copynumber: 4.8 Consensus size: 318
12194312 CAATAACAGT
* * * * * * *
12194322 AACTGTTTCACACATATCAATCATGAAAA-CCAAGTTTAATCATTTGGACAAGTTTAATATCATA
1 AACTTTTTCACACATATCAA-C-TGAAAATCAAAGTTCAATCATTCGGACAAATTTAATATTATG
* * * * *** * * * *
12194386 TATTTAAGCTATGTAAACTATTAAAATAGAA-ATATAACTACAAAATTACCTTTTT-GTCCTTTA
64 TATTAAAGCTATCTAAACTGTTAAAACAGAACA-ATAACGGTAAATTTACATTTTTACT-TTTTA
** * * * ** * * * * * *
12194449 ATGGCACAAAAAGTCCTAAATATATGTAAACTGTAACTTTTTTACATATATCAATCGTGTAAACG
127 ACAGCATAAAAAGT-CTAAACAAACATAAACGGTAACTTTTTCACACATATCAATCATGAAAACC
* * * * * * * * *
12194514 AAGTTCAATAATTTGGACAAGTTTAATATTATATATTTAAACTATATAAATTA-CATAAAGA-AA
191 AAGTTCAATCATTCGAACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTA-AAACATAA
* * * * * * *
12194577 A-AT-ATAACAAAATTACTTTTTTGCTCTTTAACGGCATAAAAAGTCCTAACCAAATAGAAA-CT
255 ATATAATAACAAAATTAC-TTTTTGCCCTTTAA-TGAACAAAAAGTCTTAAACAAATATAAATC-
**
12194639 GT
317 AC
*
12194641 AACTTTTTCACTCATATCAACTATGAAAATC-AAGTTCAATCATTCGGACAAATTTAATATTATG
1 AACTTTTTCACACATATCAAC--TGAAAATCAAAGTTCAATCATTCGGACAAATTTAATATTATG
* * * * * *
12194705 TATTGAAGCTATGC-AAACTGTTAAAACAAAACAATGACGGCAAATTTATATTTTTACCTTTTAA
64 TATTAAAGCTAT-CTAAACTGTTAAAACAGAACAATAACGGTAAATTTACATTTTTACTTTTTAA
* * * * **
12194769 CGGCACAAAAAGTGCTAAACAAACATAAAACGGTAATTTTTTCATACATATCAATTGTGAAAACT
128 CAGCATAAAAAGT-CTAAACAAACAT-AAACGGTAACTTTTTCACACATATCAATCATGAAAAC-
12194834 C-AGTTCAAT-AGTTCGAACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACATA
190 CAAGTTCAATCA-TTCGAACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACATA
* * * *
12194897 AATATAACAATAAAATTACCTATTTGCCCTTTAACGATACAAAAAGTCTTAAACAAATATAAATC
254 AATATAATAACAAAATTA-CTTTTTGCCCTTTAATGA-ACAAAAAGTCTTAAACAAATATAAATC
**
12194962 GT
317 AC
* * * * * *
12194964 AACTTTTTCACACATATCAACTATAAAAACTAAGTTTAATCATTCGGACAAGTTTAATATCATGT
1 AACTTTTTCACACATATCAACT-GAAAATCAAAGTTCAATCATTCGGACAAATTTAATATTATGT
* *** ** *
12195029 ATTAAAGCTATCTAAACTGTTGAAACAGAACAATAACTACAAATTTGTATTTTAACTTTTTAACA
65 ATTAAAGCTATCTAAACTGTTAAAACAGAACAATAACGGTAAATTTACATTTTTACTTTTTAACA
** * ** *
12195094 GCATAAAAAGTCCTAAACAAACATAAACAATAAATTTTTTTCACACATATCAATTGTGGAAACCA
130 GCATAAAAAGT-CTAAACAAACATAAACGGT-AA-CTTTTTCACACATATCAATCATGAAAACCA
* * * *
12195159 AGTTCAATCATTTGTACAAGTTTAATATCATATATTTAAGTTATGTAAACTGTTAAAACATAAAT
192 AGTTCAATCATTCGAACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACATAAAT
* *
12195224 ATAATAACAAAATTACCTTTTTGCCCTTTAATGGCACAAAAAGTCCTAAACAAATATAAA-CTAC
257 ATAATAACAAAATTA-CTTTTTGCCCTTTAAT-GAACAAAAAGTCTTAAACAAATATAAATC-AC
** *** * *
12195288 AGTTTTTTCACATGCATCAACCATGAAAA-CAAAGTTCAATCGTTTGGACAAATTTAATATTATG
1 AACTTTTTCACACATATCAA-C-TGAAAATCAAAGTTCAATCATTCGGACAAATTTAATATTATG
* * * * ** * *
12195352 TATTGAAGCTAGCTAAACTATTAAAATAGAACAATAACTATAAATCTACATTTTTA-TCTGTTAA
64 TATTAAAGCTATCTAAACTGTTAAAACAGAACAATAACGGTAAATTTACATTTTTACT-TTTTAA
* * * * * *
12195416 -TGACACAAAAAGTCATAAACAAACATAAACGATAACTTTTTCACATATATCAATCATAAAAATC
128 CAG-CATAAAAAGTC-TAAACAAACATAAACGGTAACTTTTTCACACATATCAATCATGAAAACC
* * *
12195480 AAGTTTAATCATTCGGACATGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACATAAA
191 AAGTTCAATCATTCGAACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACATAAA
* * * * *
12195545 TAT-ATCAGCCAAATTACCTTTTTGCCCTTTAATG-ACACAGAGTCTTAAACAAACATAAATCAC
256 TATAAT-AACAAAATTA-CTTTTTGCCCTTTAATGAACAAAAAGTCTTAAACAAATATAAATCAC
* * * *
12195608 AACTTTTTCACACATATTAACCTCGAAAATC-AAGTTCAATTATTTGGACAAGTTTAATATTATG
1 AACTTTTTCACACATATCAA-CT-GAAAATCAAAGTTCAATCATTCGGACAAATTTAATATTATG
* * * * * *
12195672 CATTAAAGCTATATGAATTGTTAAAACAGAATAATAATC-GTAAATTTGCATTTTTACTTTTTAA
64 TATTAAAGCTATCTAAACTGTTAAAACAGAACAATAA-CGGTAAATTTACATTTTTACTTTTTAA
* * *
12195736 CAGCATTAAAAGTCTTAAAC-AA-ATACAACTGGCAACTTTTTCACATATAAT-AATCATGAAAA
128 CAGCATAAAAAGTC-TAAACAAACATA-AAC-GGTAACTTTTTCACACAT-ATCAATCATGAAAA
* * * * * * *
12195798 CCAAGTTTAATTATTCAAACAAGTTTAATATTATGTATTTAAGCTATGTAAACTGTTAAAACAAA
189 CCAAGTTCAATCATTCGAACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACATA
*
12195863 AAAATAAT
254 AATATAAT
12195871 TGTAAACTAG
Statistics
Matches: 1019, Mismatches: 171, Indels: 78
0.80 0.13 0.06
Matches are distributed among these distances:
318 4 0.00
319 126 0.12
320 301 0.30
321 17 0.02
322 123 0.12
323 180 0.18
324 260 0.26
325 7 0.01
326 1 0.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (318 bp):
AACTTTTTCACACATATCAACTGAAAATCAAAGTTCAATCATTCGGACAAATTTAATATTATGTA
TTAAAGCTATCTAAACTGTTAAAACAGAACAATAACGGTAAATTTACATTTTTACTTTTTAACAG
CATAAAAAGTCTAAACAAACATAAACGGTAACTTTTTCACACATATCAATCATGAAAACCAAGTT
CAATCATTCGAACAAGTTTAATATCATATATTTAAGCTATGTAAACTATTAAAACATAAATATAA
TAACAAAATTACTTTTTGCCCTTTAATGAACAAAAAGTCTTAAACAAATATAAATCAC
Found at i:12197102 original size:13 final size:13
Alignment explanation
Indices: 12197082--12197115 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12197072 ACTAACTATG
12197082 TATAAAGAACATA
1 TATAAAGAACATA
* *
12197095 TCTAAAGAATATA
1 TATAAAGAACATA
12197108 TATAAAGA
1 TATAAAGA
12197116 CGTTGAGAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (13 bp):
TATAAAGAACATA
Found at i:12199317 original size:21 final size:21
Alignment explanation
Indices: 12199292--12199332 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
12199282 CCTTATCACT
12199292 TTAAGCATCAACATCACCAAC
1 TTAAGCATCAACATCACCAAC
* **
12199313 TTAAGTATCAGTATCACCAA
1 TTAAGCATCAACATCACCAA
12199333 TTTGACGAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.24
Consensus pattern (21 bp):
TTAAGCATCAACATCACCAAC
Found at i:12207525 original size:221 final size:221
Alignment explanation
Indices: 12207125--12207537 Score: 609
Period size: 221 Copynumber: 1.9 Consensus size: 221
12207115 ATTTATATGG
* *
12207125 TGGTATATTGAAGGCATTTTACAATAGAAGACGTCTTTAATAATTTCTAAAATTTTTCAAGAAAA
1 TGGTATATTGAAGGCATTTTACAATAGAAGAAGTCTTTAATAATGTCTAAAATTTTTCAAGAAAA
* * * ***
12207190 AATATTGAAGGCGTTTGTTATTAACAAATGCCTTTGGTAATGGATTACTAAGTTTAAAGGTATAT
66 AATATTGAAGGCATCTATTATTAACAAATGCCTTCCATAATGGATTACTAAGTTTAAAGGTATAT
* *
12207255 TGAATGAGCTTTTGTGAATAAATGCCTTTTATAACAATCATGCTATATTGAAGGCT-TTTTATAA
131 TGAATGAGCTTTTGTGAATAAACGCCTTCTATAACAATCATGCTATATTGAAGG-TGTTTTATAA
12207319 TAAATTATGCCTCTAATAATCATATCA
195 TAAATTATGCCTCTAATAATCATATCA
* *
12207346 TGGTATATTGAAGGCATTTTACAGTAGAAGAAG-CTTTTAATAATGTCTAAAATTTTT-AGAGGA
1 TGGTATATTGAAGGCATTTTACAATAGAAGAAGTC-TTTAATAATGTCTAAAATTTTTCA-AGAA
*
12207409 AAAATATTGAAGGCATCTATTATTAACAAATGCCTTCCATAATGGATTACTAAGTTTAAGGGTAT
64 AAAATATTGAAGGCATCTATTATTAACAAATGCCTTCCATAATGGATTACTAAGTTTAAAGGTAT
* * * *
12207474 ATTGAATGTGCATTTT-TGAATAAACGCCTTCTATAACCATCGTGGTATATTGAAGGTGTTTTAT
129 ATTGAATGAGC-TTTTGTGAATAAACGCCTTCTATAACAATCATGCTATATTGAAGGTGTTTTAT
12207538 GTAGAAGACA
Statistics
Matches: 171, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
220 3 0.02
221 164 0.96
222 4 0.02
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.38
Consensus pattern (221 bp):
TGGTATATTGAAGGCATTTTACAATAGAAGAAGTCTTTAATAATGTCTAAAATTTTTCAAGAAAA
AATATTGAAGGCATCTATTATTAACAAATGCCTTCCATAATGGATTACTAAGTTTAAAGGTATAT
TGAATGAGCTTTTGTGAATAAACGCCTTCTATAACAATCATGCTATATTGAAGGTGTTTTATAAT
AAATTATGCCTCTAATAATCATATCA
Found at i:12207586 original size:221 final size:221
Alignment explanation
Indices: 12207129--12207586 Score: 520
Period size: 221 Copynumber: 2.1 Consensus size: 221
12207119 ATATGGTGGT
* * * *
12207129 ATATTGAAGGCATTTTACAATAGAAGACGTCTTTAATAATTTCTAAAATTTTTCAAGAAAAAATA
1 ATATTAAAAGCATTTTACAATAGAAGAAGTCTTTAATAATGTCTAAAATTTTTCAAGAAAAAATA
* * * ***
12207194 TTGAAGGCGTTTGTTATTAACAAATGCCTTTGGTAATGGATTACTAAGTTTAAAGGTATATTGAA
66 TTGAAGGCATCTATTATTAACAAATGCCTTCCATAATGGATTACTAAGTTTAAAGGTATATTGAA
* *
12207259 TGAGCTTTTGTGAATAAATGCCTTTTATAACAATCATGCTATATTGAAGGCTTTTTATAATAAAT
131 TGAGCTTTTGTGAATAAACGCCTTCTATAACAATCATGCTATATTGAAGGCTTTTTATAATAAAT
* ** * *
12207324 TATGCCTCTAATAATCATATCATGGT
196 GACACCTCTAATAATCATATAATGGG
* * * *
12207350 ATATTGAAGGCATTTTACAGTAGAAGAAG-CTTTTAATAATGTCTAAAATTTTT-AGAGGAAAAA
1 ATATTAAAAGCATTTTACAATAGAAGAAGTC-TTTAATAATGTCTAAAATTTTTCA-AGAAAAAA
*
12207413 TATTGAAGGCATCTATTATTAACAAATGCCTTCCATAATGGATTACTAAGTTTAAGGGTATATTG
64 TATTGAAGGCATCTATTATTAACAAATGCCTTCCATAATGGATTACTAAGTTTAAAGGTATATTG
* * * * *
12207478 AATGTGCATTTT-TGAATAAACGCCTTCTATAACCATCGTGGTATATTGAAGG-TGTTTTAT-GT
129 AATGAGC-TTTTGTGAATAAACGCCTTCTATAACAATCATGCTATATTGAAGGCT-TTTTATAAT
*
12207540 AGAA-GACACCAT-TAATAATTA-ATAATAGGG
192 A-AATGACACC-TCTAATAATCATATAAT-GGG
12207570 A-AGCTTAAAAGCATTTT
1 ATA--TTAAAAGCATTTT
12207587 TCTTTAATAT
Statistics
Matches: 202, Mismatches: 26, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
219 5 0.02
220 19 0.09
221 174 0.86
222 4 0.02
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (221 bp):
ATATTAAAAGCATTTTACAATAGAAGAAGTCTTTAATAATGTCTAAAATTTTTCAAGAAAAAATA
TTGAAGGCATCTATTATTAACAAATGCCTTCCATAATGGATTACTAAGTTTAAAGGTATATTGAA
TGAGCTTTTGTGAATAAACGCCTTCTATAACAATCATGCTATATTGAAGGCTTTTTATAATAAAT
GACACCTCTAATAATCATATAATGGG
Found at i:12219379 original size:21 final size:21
Alignment explanation
Indices: 12219350--12219391 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
12219340 ACGAAAGATG
*
12219350 TCTAGGCTAGAAACCATGAAA
1 TCTAAGCTAGAAACCATGAAA
*
12219371 TCTAAGCTAGAAATCATGAAA
1 TCTAAGCTAGAAACCATGAAA
12219392 GAAGAAAAGA
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:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (21 bp):
TCTAAGCTAGAAACCATGAAA
Found at i:12220128 original size:12 final size:12
Alignment explanation
Indices: 12220111--12220135 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12220101 ATTTTGATTT
12220111 TAACTGAATTGA
1 TAACTGAATTGA
12220123 TAACTGAATTGA
1 TAACTGAATTGA
12220135 T
1 T
12220136 TTAATTAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (12 bp):
TAACTGAATTGA
Found at i:12221025 original size:22 final size:22
Alignment explanation
Indices: 12220982--12221025 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
12220972 TTTTATAGTT
* * *
12220982 AATAATATTTATGATAAATTTA
1 AATAAAATGTATGACAAATTTA
*
12221004 AATAAAATGTATGACAATTTTA
1 AATAAAATGTATGACAAATTTA
12221026 TTTGGATTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (22 bp):
AATAAAATGTATGACAAATTTA
Found at i:12229275 original size:16 final size:17
Alignment explanation
Indices: 12229251--12229284 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
12229241 CAGGTATTAT
*
12229251 ATTTAGTAAATATTTAA
1 ATTTAGTAAATATATAA
12229268 ATTT-GTAAATATATAA
1 ATTTAGTAAATATATAA
12229284 A
1 A
12229285 AAGCTTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATTTAGTAAATATATAA
Found at i:12230739 original size:3 final size:3
Alignment explanation
Indices: 12230731--12230760 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
12230721 CTTGCAAAAT
*
12230731 TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12230761 GAAAGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:12233571 original size:21 final size:21
Alignment explanation
Indices: 12233542--12233583 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
12233532 ACGAAAGATG
*
12233542 TCTAGGCTAGAAACCATGAAA
1 TCTAAGCTAGAAACCATGAAA
*
12233563 TCTAAGCTAGAAATCATGAAA
1 TCTAAGCTAGAAACCATGAAA
12233584 GAAGAAAAGA
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:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (21 bp):
TCTAAGCTAGAAACCATGAAA
Found at i:12234257 original size:24 final size:25
Alignment explanation
Indices: 12234223--12234272 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
12234213 TATATTTTTT
*
12234223 TTTTTTAAATTTAAAAGATTACAAC
1 TTTTTTAAATTTAAAAAATTACAAC
12234248 TTTTTT-AATTTAAAAAATTACAAC
1 TTTTTTAAATTTAAAAAATTACAAC
12234272 T
1 T
12234273 CTTGAAACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (25 bp):
TTTTTTAAATTTAAAAAATTACAAC
Found at i:12235212 original size:22 final size:22
Alignment explanation
Indices: 12235169--12235212 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
12235159 TTTTATAGTT
* * *
12235169 AATAATATTTATGATAAATTTA
1 AATAAAATGTATGACAAATTTA
*
12235191 AATAAAATGTATGACAATTTTA
1 AATAAAATGTATGACAAATTTA
12235213 TTTGGATTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (22 bp):
AATAAAATGTATGACAAATTTA
Found at i:12238817 original size:23 final size:24
Alignment explanation
Indices: 12238726--12238828 Score: 75
Period size: 23 Copynumber: 4.3 Consensus size: 24
12238716 TAATTATATT
*
12238726 TTTTATTAATTTAAAATATTGACA
1 TTTTATTAATTTAAAATATTGATA
* ** * *
12238750 TATTATTAA-TTAATTTTTTGTTA
1 TTTTATTAATTTAAAATATTGATA
** * *
12238773 TAATATTAATTAATAAATTATT-TTA
1 TTTTATTAATT--TAAAATATTGATA
*
12238798 TTTTATTAATTTAAAATATTAATA
1 TTTTATTAATTTAAAATATTGATA
12238822 TTTTATT
1 TTTTATT
12238829 TATTATTTTT
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
23 25 0.40
24 18 0.29
25 12 0.19
26 7 0.11
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTTATTAATTTAAAATATTGATA
Found at i:12238828 original size:34 final size:34
Alignment explanation
Indices: 12238726--12238830 Score: 88
Period size: 35 Copynumber: 3.0 Consensus size: 34
12238716 TAATTATATT
*
12238726 TTTTATTAATTTAAAATATTGACATATTATTAATTAA
1 TTTTATTAATTTAAAATATT-A-ATATT-TTATTTAA
* * ** *
12238763 TTTT-TT-GTTATAATATTAATTAATAAATTATTTTA
1 TTTTATTAATT-TAA-AAT-ATTAATATTTTATTTAA
12238798 TTTTATTAATTTAAAATATTAATATTTTATTTA
1 TTTTATTAATTTAAAATATTAATATTTTATTTA
12238831 TTATTTTTTG
Statistics
Matches: 52, Mismatches: 11, Indels: 13
0.68 0.14 0.17
Matches are distributed among these distances:
34 13 0.25
35 14 0.27
36 13 0.25
37 9 0.17
38 3 0.06
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (34 bp):
TTTTATTAATTTAAAATATTAATATTTTATTTAA
Found at i:12238856 original size:71 final size:72
Alignment explanation
Indices: 12238717--12238873 Score: 205
Period size: 71 Copynumber: 2.2 Consensus size: 72
12238707 AGGAAAAAAT
* * *
12238717 AATTATATT-TTTTATTAATTTAAAATATTGACATATTATTAATTAATTTTTTGTTATAATATTA
1 AATTATTTTATTTTATTAATTTAAAATATTAACATATTATTAATTAATTTTTTGTTATAAAATTA
*
12238781 ATTAATA
66 ATTAACA
* * *
12238788 AATTATTTTATTTTATTAATTTAAAATATTAATATTTTATTTATT-ATTTTTTGTTATAAAATCT
1 AATTATTTTATTTTATTAATTTAAAATATTAACATATTATTAATTAATTTTTTGTTATAAAAT-T
12238852 -ATTAACA
65 AATTAACA
12238859 AA-TAGTTTTATTTTA
1 AATTA-TTTTATTTTA
12238874 ATTTCCTATT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
70 2 0.03
71 42 0.55
72 32 0.42
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.57
Consensus pattern (72 bp):
AATTATTTTATTTTATTAATTTAAAATATTAACATATTATTAATTAATTTTTTGTTATAAAATTA
ATTAACA
Found at i:12249767 original size:16 final size:15
Alignment explanation
Indices: 12249731--12249773 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
12249721 TGCCTATTAG
*
12249731 AGAAAAAAAATTGGTA
1 AGAAAAAAAA-AGGTA
12249747 A-AAAAAAAAAGGATA
1 AGAAAAAAAAAGG-TA
12249762 AGAAAAAAAAAG
1 AGAAAAAAAAAG
12249774 AAAAATAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 2 0.08
15 11 0.46
16 11 0.46
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.09
Consensus pattern (15 bp):
AGAAAAAAAAAGGTA
Found at i:12250456 original size:21 final size:21
Alignment explanation
Indices: 12250430--12250476 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
12250420 ATGGACATTA
12250430 TTTTTT-TAAATTTCGTGATAT
1 TTTTTTGTAAATTT-GTGATAT
**
12250451 TTTTTTGTTTATTTGTGATAT
1 TTTTTTGTAAATTTGTGATAT
12250472 TTTTT
1 TTTTT
12250477 ATATTTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.17, C:0.02, G:0.11, T:0.70
Consensus pattern (21 bp):
TTTTTTGTAAATTTGTGATAT
Found at i:12250483 original size:22 final size:22
Alignment explanation
Indices: 12250439--12250484 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
12250429 ATTTTTTTAA
*
12250439 ATTTCGTGATATTTTTTTGTTT
1 ATTTCGTGATATTTTTTTATTT
12250461 ATTT-GTGATATTTTTTATATTT
1 ATTTCGTGATATTTTTT-TATTT
12250483 AT
1 AT
12250485 GTTTTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.67
Consensus pattern (22 bp):
ATTTCGTGATATTTTTTTATTT
Found at i:12251447 original size:20 final size:19
Alignment explanation
Indices: 12251413--12251472 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
12251403 AAAATATGAA
* *
12251413 TTTTTATATTATTTTTATT
1 TTTTTATGTTTTTTTTATT
12251432 TTTTTAAT-TTTTTTTTCATT
1 TTTTT-ATGTTTTTTTT-ATT
* *
12251452 TCTTTATGTTTATTTTATT
1 TTTTTATGTTTTTTTTATT
12251471 TT
1 TT
12251473 AGATAACTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTTATGTTTTTTTTATT
Found at i:12251848 original size:14 final size:15
Alignment explanation
Indices: 12251804--12251848 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
12251794 GGTAAAAAAT
12251804 AATAAAATAAATT-A
1 AATAAAATAAATTCA
12251818 GAA-AAAATAAATCTCA
1 -AATAAAATAAAT-TCA
12251834 AATAAAA-AAATTCA
1 AATAAAATAAATTCA
12251848 A
1 A
12251849 GCAACAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 13 0.48
15 9 0.33
16 5 0.19
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (15 bp):
AATAAAATAAATTCA
Found at i:12255407 original size:15 final size:16
Alignment explanation
Indices: 12255389--12255431 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
12255379 AATATTATTT
12255389 TTTAAATATA-AAATA
1 TTTAAATATATAAATA
* *
12255404 TTTAAAAATATAATTA
1 TTTAAATATATAAATA
*
12255420 TATAAATATATA
1 TTTAAATATATA
12255432 TAAATAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAAATATATAAATA
Found at i:12255444 original size:26 final size:25
Alignment explanation
Indices: 12255394--12255450 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
12255384 TATTTTTTAA
* *
12255394 ATATAAAATATTTAAAAATATAATT
1 ATATAAAATATATAAAAATAAAATT
12255419 ATATAAATATATATAAATAA-AAAATT
1 ATATAAA-ATATATAAA-AATAAAATT
*
12255445 AAATAA
1 ATATAA
12255451 TTAATTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 7 0.26
26 18 0.67
27 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
ATATAAAATATATAAAAATAAAATT
Found at i:12261775 original size:28 final size:28
Alignment explanation
Indices: 12261735--12261790 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
12261725 TTGTAAGGAA
12261735 AAAAAACCAGAGAAGGTTATTTTCATCT
1 AAAAAACCAGAGAAGGTTATTTTCATCT
*
12261763 AAAAACCCAGAGAAGGTTATTTTCATCT
1 AAAAAACCAGAGAAGGTTATTTTCATCT
12261791 CTCCTTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (28 bp):
AAAAAACCAGAGAAGGTTATTTTCATCT
Found at i:12274020 original size:115 final size:115
Alignment explanation
Indices: 12273813--12274037 Score: 405
Period size: 115 Copynumber: 2.0 Consensus size: 115
12273803 CGGTTTTTAT
* *
12273813 CATTGACCTTTTCAATAAATATGGTTGGCTTGGGTTTCACATCTGATGGGTAGTTTTTTGGGATT
1 CATTAACCTTTTCAATAAATATGGTTGGCTTGGGTTTCACATCTGACGGGTAGTTTTTTGGGATT
12273878 GAATCAGCTTTTGTCACCTCTACTCAAAGTAAATGCATACATATATTTTG
66 GAATCAGCTTTTGTCACCTCTACTCAAAGTAAATGCATACATATATTTTG
* * *
12273928 CATTAACCTTTTCAATAAATTTGGTTGGTTTGGGTTTCACATCTGACGGGTAGTTTTTTGGGGTT
1 CATTAACCTTTTCAATAAATATGGTTGGCTTGGGTTTCACATCTGACGGGTAGTTTTTTGGGATT
12273993 GAATCAGCTTTTGTCACCTCTACTCAAAGTAAATGCATACATATA
66 GAATCAGCTTTTGTCACCTCTACTCAAAGTAAATGCATACATATA
12274038 GGGCTTTTAC
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
115 105 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (115 bp):
CATTAACCTTTTCAATAAATATGGTTGGCTTGGGTTTCACATCTGACGGGTAGTTTTTTGGGATT
GAATCAGCTTTTGTCACCTCTACTCAAAGTAAATGCATACATATATTTTG
Found at i:12276451 original size:2 final size:2
Alignment explanation
Indices: 12276444--12276479 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
12276434 GTTTGATCTA
12276444 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
12276480 TTAGAACTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:12286596 original size:21 final size:21
Alignment explanation
Indices: 12286572--12286616 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
12286562 CTTTTTGAAC
*
12286572 TTTT-ATTATATAATTTTTTTA
1 TTTTAATTATA-AAATTTTTTA
*
12286593 TTTTAATTTTAAAATTTTTTA
1 TTTTAATTATAAAATTTTTTA
12286614 TTT
1 TTT
12286617 AAAAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTAATTATAAAATTTTTTA
Found at i:12291292 original size:12 final size:11
Alignment explanation
Indices: 12291271--12291301 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
12291261 ATTATATTAT
12291271 TTATTTTAATA
1 TTATTTTAATA
12291282 TTATTTATAATA
1 TTATTT-TAATA
12291294 TTATTTTA
1 TTATTTTA
12291302 TCATATCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTTTAATA
Found at i:12294557 original size:4 final size:4
Alignment explanation
Indices: 12294548--12294585 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
12294538 CTAACGTTGA
*
12294548 TTAT TTAT TTAT TTAT TTA- TTA- TTAG TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
12294586 CCTTGATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
3 6 0.19
4 26 0.81
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:12294645 original size:3 final size:3
Alignment explanation
Indices: 12294637--12294678 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
12294627 GATTAAGTGT
*
12294637 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA TAT TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA
12294679 TTAAAGATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:12295169 original size:20 final size:20
Alignment explanation
Indices: 12295134--12295176 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
12295124 AGTCAGTGTT
*
12295134 TTTTTTGTGAATTTCTAAGAA
1 TTTTTTGTGAAATTCTAA-AA
12295155 TTTTTTG-GAAATTCTAAAA
1 TTTTTTGTGAAATTCTAAAA
12295174 TTT
1 TTT
12295177 GTTAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 9 0.43
21 7 0.33
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (20 bp):
TTTTTTGTGAAATTCTAAAA
Found at i:12299790 original size:26 final size:30
Alignment explanation
Indices: 12299742--12299795 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
12299732 ATATTTTATT
*
12299742 ATAATTTTATTAAAAGATAAAAT-TAAAAA
1 ATAATATTATTAAAAGATAAAATATAAAAA
12299771 ATAATATT-TTAAAA-AT-AAATATAAA
1 ATAATATTATTAAAAGATAAAATATAAA
12299796 TATTGTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 4 0.17
27 6 0.26
28 6 0.26
29 7 0.30
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (30 bp):
ATAATATTATTAAAAGATAAAATATAAAAA
Found at i:12300650 original size:24 final size:24
Alignment explanation
Indices: 12300621--12300671 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
12300611 ATAAGATATC
12300621 ATTTGTCTTATATTTATTATTTTT
1 ATTTGTCTTATATTTATTATTTTT
* * *
12300645 ATTTGTGTTGTGTTTATTATTTTT
1 ATTTGTCTTATATTTATTATTTTT
12300669 ATT
1 ATT
12300672 AAATTAATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.18, C:0.02, G:0.10, T:0.71
Consensus pattern (24 bp):
ATTTGTCTTATATTTATTATTTTT
Found at i:12303911 original size:31 final size:31
Alignment explanation
Indices: 12303876--12303947 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
12303866 ATTTGAATTA
**
12303876 AAATTATATACAATTTGAAAGTTCAGGATGT
1 AAATTATATACAATTTGAAAGTTCAAAATGT
* ** *
12303907 AAATTATACATTATTTGAAAGTTTAAAATGT
1 AAATTATATACAATTTGAAAGTTCAAAATGT
12303938 AAATTATATA
1 AAATTATATA
12303948 ATTTATATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (31 bp):
AAATTATATACAATTTGAAAGTTCAAAATGT
Found at i:12308943 original size:20 final size:20
Alignment explanation
Indices: 12308918--12308958 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
12308908 CAGAAAAGAT
*
12308918 TTTCAGAAAAATCCTGGTAA
1 TTTCAGAAAAAACCTGGTAA
*
12308938 TTTCAGAAAAAACTTGGTAA
1 TTTCAGAAAAAACCTGGTAA
12308958 T
1 T
12308959 CAGTGCCTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (20 bp):
TTTCAGAAAAAACCTGGTAA
Found at i:12314987 original size:33 final size:31
Alignment explanation
Indices: 12314935--12315024 Score: 96
Period size: 33 Copynumber: 2.9 Consensus size: 31
12314925 AAAAGTGATC
* *
12314935 AAATTATATCCAAACAATAAAAAATAAATAATT
1 AAATTATATTCAAATAATAAAAAATAAA-AA-T
*
12314968 AAATTATATTTAAATAAT---AAATAAAAAT
1 AAATTATATTCAAATAATAAAAAATAAAAAT
12314996 AAATTTATATTCAAATAATGAAAAAATAA
1 AAA-TTATATTCAAATAAT-AAAAAATAA
12315025 TAAAGTAGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
28 4 0.08
29 16 0.33
30 7 0.15
33 21 0.44
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (31 bp):
AAATTATATTCAAATAATAAAAAATAAAAAT
Found at i:12315001 original size:23 final size:25
Alignment explanation
Indices: 12314952--12315002 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
12314942 ATCCAAACAA
*
12314952 TAAAAAATAAATAATTAAATTATATT
1 TAAAAAATAAATAA-TAAATTAAATT
*
12314978 TAAATAATAAATAA-AAA-TAAATT
1 TAAAAAATAAATAATAAATTAAATT
12315001 TA
1 TA
12315003 TATTCAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 7 0.30
24 3 0.13
26 13 0.57
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
TAAAAAATAAATAATAAATTAAATT
Found at i:12315013 original size:29 final size:29
Alignment explanation
Indices: 12314950--12315028 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 29
12314940 ATATCCAAAC
* *
12314950 AATAAAAAATAAATAATTAAATTATATTTA
1 AATAATAAATAAATAA-TAAATTATATTCA
12314980 AATAATAAATAAA-AATAAATTTATATTCA
1 AATAATAAATAAATAATAAA-TTATATTCA
12315009 AATAATGAAA-AAATAATAAA
1 AATAAT-AAATAAATAATAAA
12315029 GTAGTGGTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
28 4 0.09
29 19 0.43
30 21 0.48
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (29 bp):
AATAATAAATAAATAATAAATTATATTCA
Found at i:12316227 original size:12 final size:12
Alignment explanation
Indices: 12316206--12316239 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
12316196 AATCAAGCAA
*
12316206 GAGACTAAGAAT
1 GAGACAAAGAAT
12316218 GAGACAAAGAAT
1 GAGACAAAGAAT
12316230 GAGACAAAGA
1 GAGACAAAGA
12316240 TACAAGAGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.56, C:0.09, G:0.26, T:0.09
Consensus pattern (12 bp):
GAGACAAAGAAT
Found at i:12316728 original size:20 final size:21
Alignment explanation
Indices: 12316684--12316728 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
12316674 TTTCTCTCAA
12316684 ATTTTCATTCTTTATTTTCCT
1 ATTTTCATTCTTTATTTTCCT
*
12316705 -TTTTC-TTCTTTATTTTTCT
1 ATTTTCATTCTTTATTTTCCT
12316724 ATTTT
1 ATTTT
12316729 TTCCATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (21 bp):
ATTTTCATTCTTTATTTTCCT
Found at i:12320736 original size:5 final size:5
Alignment explanation
Indices: 12320726--12320764 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
12320716 ATATAAAATT
12320726 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTT
12320765 TAAAATGCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
ATTTA
Found at i:12323040 original size:16 final size:16
Alignment explanation
Indices: 12323019--12323049 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12323009 TAACAATTAT
*
12323019 TAAAATAGAAAATAAA
1 TAAAATAAAAAATAAA
12323035 TAAAATAAAAAATAA
1 TAAAATAAAAAATAA
12323050 TTGTAAATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (16 bp):
TAAAATAAAAAATAAA
Found at i:12323881 original size:14 final size:14
Alignment explanation
Indices: 12323851--12323897 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
12323841 TATCTAATTA
*
12323851 AAAAAACAAAA-GAT
1 AAAAAGCAAAATG-T
12323865 AAAAAGCAAAATGT
1 AAAAAGCAAAATGT
* *
12323879 AAAATGTAAAATGT
1 AAAAAGCAAAATGT
12323893 AAAAA
1 AAAAA
12323898 AAAAATTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 27 0.96
15 1 0.04
ACGTcount: A:0.70, C:0.04, G:0.11, T:0.15
Consensus pattern (14 bp):
AAAAAGCAAAATGT
Found at i:12323882 original size:7 final size:7
Alignment explanation
Indices: 12323872--12323896 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
12323862 GATAAAAAGC
12323872 AAAATGT
1 AAAATGT
12323879 AAAATGT
1 AAAATGT
12323886 AAAATGT
1 AAAATGT
12323893 AAAA
1 AAAA
12323897 AAAAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (7 bp):
AAAATGT
Found at i:12324679 original size:14 final size:14
Alignment explanation
Indices: 12324660--12324692 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12324650 AAGACAGTTG
12324660 AAAAAAGCAAAAA-A
1 AAAAAAG-AAAAAGA
12324674 AAAAAAGAAAAAGA
1 AAAAAAGAAAAAGA
12324688 AAAAA
1 AAAAA
12324693 TTGAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAGA
Found at i:12324884 original size:12 final size:12
Alignment explanation
Indices: 12324843--12324885 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
12324833 GCTTGATCAT
12324843 ATATATAATTAA
1 ATATATAATTAA
12324855 ATA-ATTAATTAA
1 ATATA-TAATTAA
* *
12324867 AAATATAATTAT
1 ATATATAATTAA
12324879 ATATATA
1 ATATATA
12324886 CTTCGTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 1 0.04
12 24 0.92
13 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATATAATTAA
Found at i:12327250 original size:13 final size:13
Alignment explanation
Indices: 12327232--12327257 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12327222 CTACTTTTTC
12327232 TTATTATTTTATT
1 TTATTATTTTATT
12327245 TTATTATTTTATT
1 TTATTATTTTATT
12327258 ATTTTTTGTT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTATTTTATT
Found at i:12327571 original size:12 final size:12
Alignment explanation
Indices: 12327556--12327590 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
12327546 TAAATTTTAT
12327556 AATAAAAAAATC
1 AATAAAAAAATC
12327568 AATAAAAAAAT-
1 AATAAAAAAATC
*
12327579 AACAAAAAAATC
1 AATAAAAAAATC
12327591 TATATCCGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (12 bp):
AATAAAAAAATC
Done.