Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, 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: 6215474
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 29
Found at i:4053394 original size:26 final size:26
Alignment explanation
Indices: 4053365--4053417 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
4053355 AAATATATAA
4053365 TGAATAAATAATAAAGTATAAAATTC
1 TGAATAAATAATAAAGTATAAAATTC
4053391 TGAATAAATAATAAAGTATAAAATTC
1 TGAATAAATAATAAAGTATAAAATTC
4053417 T
1 T
4053418 TACTCTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.32
Consensus pattern (26 bp):
TGAATAAATAATAAAGTATAAAATTC
Found at i:4057605 original size:30 final size:29
Alignment explanation
Indices: 4057550--4057610 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
4057540 AACTTGGAAG
* **
4057550 CTCACTTGCACTTACTTGATGGGTTAGTTT
1 CTCACTTGCACTTACTCGACAGGTTA-TTT
4057580 CTCACTTGCACTTACTCGACAGGTTATTT
1 CTCACTTGCACTTACTCGACAGGTTATTT
4057609 CT
1 CT
4057611 TATGCTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 5 0.18
30 23 0.82
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (29 bp):
CTCACTTGCACTTACTCGACAGGTTATTT
Found at i:4075042 original size:21 final size:21
Alignment explanation
Indices: 4075018--4075059 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4075008 CTATCAATTT
4075018 TATTTCCATTTAGTATCTAAA
1 TATTTCCATTTAGTATCTAAA
4075039 TATTTCCATTTAGTATCTAAA
1 TATTTCCATTTAGTATCTAAA
4075060 CTTTCATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.48
Consensus pattern (21 bp):
TATTTCCATTTAGTATCTAAA
Found at i:4076519 original size:31 final size:31
Alignment explanation
Indices: 4076486--4076588 Score: 111
Period size: 31 Copynumber: 3.3 Consensus size: 31
4076476 ATAAATATTG
* * * *
4076486 ATAAATTTAAGGACTATTTTATAATAATTTG
1 ATAAATTTAATGATTATTTTATAACAATTTA
* * *
4076517 ATAGACTCTAATGATTATTTTAT-ACCATTTA
1 ATA-AATTTAATGATTATTTTATAACAATTTA
4076548 ATAAAATTTAATGATTA-TTTATAACAATTTA
1 AT-AAATTTAATGATTATTTTATAACAATTTA
4076579 ATAAATTTAA
1 ATAAATTTAA
4076589 CTATACCTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
30 13 0.22
31 30 0.51
32 16 0.27
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.45
Consensus pattern (31 bp):
ATAAATTTAATGATTATTTTATAACAATTTA
Found at i:4087591 original size:2 final size:2
Alignment explanation
Indices: 4087584--4087609 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4087574 TTCTCATTAC
4087584 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
4087610 TTATTCTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4088849 original size:13 final size:13
Alignment explanation
Indices: 4088831--4088857 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4088821 TAAAGTTATG
4088831 TCACTTTAACATA
1 TCACTTTAACATA
4088844 TCACTTTAACATA
1 TCACTTTAACATA
4088857 T
1 T
4088858 TTTAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (13 bp):
TCACTTTAACATA
Found at i:4093066 original size:17 final size:17
Alignment explanation
Indices: 4093011--4093066 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
4093001 ATTGATATAC
4093011 TAAAACTAAATAAAAA-T
1 TAAAA-TAAATAAAAATT
* * * *
4093028 TAATATTAGATATAATTT
1 TAA-AATAAATAAAAATT
4093046 TAAAATAAATAAAAATT
1 TAAAATAAATAAAAATT
4093063 TAAA
1 TAAA
4093067 TACTAAAATA
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
17 24 0.83
18 5 0.17
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (17 bp):
TAAAATAAATAAAAATT
Found at i:4093917 original size:18 final size:19
Alignment explanation
Indices: 4093894--4093935 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
4093884 CAGTAATCAT
*
4093894 ATTCC-CTGGTAATCTTAC
1 ATTCCACTGATAATCTTAC
4093912 ATTCCCACTGATAATCTTAC
1 ATT-CCACTGATAATCTTAC
4093932 ATTC
1 ATTC
4093936 TATGAACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 3 0.14
20 15 0.71
ACGTcount: A:0.26, C:0.29, G:0.07, T:0.38
Consensus pattern (19 bp):
ATTCCACTGATAATCTTAC
Found at i:4105114 original size:23 final size:23
Alignment explanation
Indices: 4105084--4105227 Score: 175
Period size: 23 Copynumber: 6.3 Consensus size: 23
4105074 GTCAAGGGTT
* * *
4105084 CTATGTGGTCCTTCCGAACAAAC
1 CTATGTGGTCATTCGGGACAAAC
*
4105107 CTATGTGGTCATTCGGGACAAAT
1 CTATGTGGTCATTCGGGACAAAC
* * * *
4105130 TTACGTGGTCTTTCGGGATAAAC
1 CTATGTGGTCATTCGGGACAAAC
*
4105153 CTATGTGGTCTTTCGGGACAAAC
1 CTATGTGGTCATTCGGGACAAAC
*
4105176 CTATGTGGTCATTCGGGACAAAT
1 CTATGTGGTCATTCGGGACAAAC
*
4105199 CTATGTGGTTATTCGGGACAAA-
1 CTATGTGGTCATTCGGGACAAAC
4105221 -TATGTGG
1 CTATGTGG
4105228 CACTTCAGTG
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
21 7 0.07
23 99 0.93
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (23 bp):
CTATGTGGTCATTCGGGACAAAC
Found at i:4105195 original size:69 final size:69
Alignment explanation
Indices: 4105084--4105216 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 69
4105074 GTCAAGGGTT
*
4105084 CTATGTGGTCCTTCCGAACAAACCTATGTGGTCATTCGGGACAAATTTACGTGGTCT-TTCGGGA
1 CTATGTGGTCCTTCCGAACAAACCTATGTGGTCATTCGGGACAAATCTACGTGGT-TATTCGGGA
4105148 TAAAC
65 TAAAC
* * * *
4105153 CTATGTGGTCTTTCGGGACAAACCTATGTGGTCATTCGGGACAAATCTATGTGGTTATTCGGGA
1 CTATGTGGTCCTTCCGAACAAACCTATGTGGTCATTCGGGACAAATCTACGTGGTTATTCGGGA
4105217 CAAATATGTG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
68 1 0.02
69 57 0.98
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.32
Consensus pattern (69 bp):
CTATGTGGTCCTTCCGAACAAACCTATGTGGTCATTCGGGACAAATCTACGTGGTTATTCGGGAT
AAAC
Found at i:4105719 original size:43 final size:43
Alignment explanation
Indices: 4105580--4105765 Score: 246
Period size: 43 Copynumber: 4.3 Consensus size: 43
4105570 TCGAGACATA
*
4105580 TAGCGGCGTTTGTCTTTACAAACGCCACTATTGACTGTGTATT
1 TAGCGGCGTTTGTCTTTACAAACGCCGCTATTGACTGTGTATT
* * *
4105623 TAGCGGCGTTTGTCTTTTACAAACGCCGTTATTAATTGTGTATT
1 TAGCGGCGTTTGTC-TTTACAAACGCCGCTATTGACTGTGTATT
* * * * *
4105667 TAGTGGCGTTTGACTTTATAAATGCTGCTATTGACTGTGTATT
1 TAGCGGCGTTTGTCTTTACAAACGCCGCTATTGACTGTGTATT
* * * *
4105710 TAGCAGCGTTTGTCTTTATAAACGCCGTTATTGATTGTGTATT
1 TAGCGGCGTTTGTCTTTACAAACGCCGCTATTGACTGTGTATT
4105753 TAGCGGCGTTTGT
1 TAGCGGCGTTTGT
4105766 AATTGACTGT
Statistics
Matches: 122, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
43 85 0.70
44 37 0.30
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.42
Consensus pattern (43 bp):
TAGCGGCGTTTGTCTTTACAAACGCCGCTATTGACTGTGTATT
Found at i:4105770 original size:28 final size:28
Alignment explanation
Indices: 4105739--4105797 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
4105729 AAACGCCGTT
* *
4105739 ATTGATTGTGTATTTAGCGGCGTTTGTA
1 ATTGACTGTGTATTTAGCGGCATTTGTA
*
4105767 ATTGACTGTGTATTTAGTGGCATTTGTA
1 ATTGACTGTGTATTTAGCGGCATTTGTA
4105795 ATT
1 ATT
4105798 AAAAATGACG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.20, C:0.07, G:0.25, T:0.47
Consensus pattern (28 bp):
ATTGACTGTGTATTTAGCGGCATTTGTA
Found at i:4110122 original size:41 final size:41
Alignment explanation
Indices: 4110048--4110281 Score: 321
Period size: 41 Copynumber: 5.8 Consensus size: 41
4110038 AGAAACTTTA
*
4110048 AGCGGCGTTTGTA-AAAAACACCACTAAAG-ACGAGTCTAT
1 AGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTAT
*
4110087 AGCGGCGTTTGTATAAAAACGCCACTAATGTACGAGTCTAT
1 AGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTAT
* * *
4110128 AGCGGCGTTTATACAAAAACGTCACTAAAGTACGA-TCCTAT
1 AGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGT-CTAT
* * *
4110169 AACGGCCTTTGTATAAAAACGCCACTAAAGTACGAGCCTAT
1 AGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTAT
* *
4110210 AGCGGCATTTGTATAAAAACGCCACTAAAGTACGAGTTTAT
1 AGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTAT
* * *
4110251 AACGGCGTTTGTATAAAAACGTCGCTAAAGT
1 AGCGGCGTTTGTATAAAAACGCCACTAAAGT
4110282 TACCATTTTG
Statistics
Matches: 171, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 13 0.08
40 15 0.09
41 143 0.84
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (41 bp):
AGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTAT
Found at i:4110279 original size:123 final size:121
Alignment explanation
Indices: 4110050--4110281 Score: 356
Period size: 123 Copynumber: 1.9 Consensus size: 121
4110040 AAACTTTAAG
* * *
4110050 CGGCGTTTGTAAAAAACACCACTAAAGACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAA
1 CGGCCTTTGTAAAAAACACCACTAAAGACGAGCCTATAGCGGCATTTGTATAAAAACGCCACTAA
* *
4110115 TGTACGAGTCTATAGCGGCGTTTATACAAAAACGTCACTAAAGTACGATCCTATAA
66 AGTACGAGTCTATAACGGCGTTTATACAAAAACGTCACTAAAGTACGATCCTATAA
*
4110171 CGGCCTTTGTATAAAAACGCCACTAAAGTACGAGCCTATAGCGGCATTTGTATAAAAACGCCACT
1 CGGCCTTTGTA-AAAAACACCACTAAAG-ACGAGCCTATAGCGGCATTTGTATAAAAACGCCACT
* * * *
4110236 AAAGTACGAGTTTATAACGGCGTTTGTATAAAAACGTCGCTAAAGT
64 AAAGTACGAGTCTATAACGGCGTTTATACAAAAACGTCACTAAAGT
4110282 TACCATTTTG
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
121 10 0.10
122 15 0.15
123 74 0.75
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (121 bp):
CGGCCTTTGTAAAAAACACCACTAAAGACGAGCCTATAGCGGCATTTGTATAAAAACGCCACTAA
AGTACGAGTCTATAACGGCGTTTATACAAAAACGTCACTAAAGTACGATCCTATAA
Found at i:4111411 original size:26 final size:27
Alignment explanation
Indices: 4111375--4111446 Score: 94
Period size: 26 Copynumber: 2.7 Consensus size: 27
4111365 TTCAGGGTTT
*
4111375 AGGGGTATTTTGGTCATTTTAGCA-TTC
1 AGGGGTATTTTGGTCATTTTA-CAGTCC
*
4111402 A-GGGTATTTTGGTCATCTTACAGTCC
1 AGGGGTATTTTGGTCATTTTACAGTCC
*
4111428 AGGGGTATTTTTGTCATTT
1 AGGGGTATTTTGGTCATTT
4111447 CATTCAATTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 2 0.05
26 21 0.54
27 16 0.41
ACGTcount: A:0.18, C:0.12, G:0.25, T:0.44
Consensus pattern (27 bp):
AGGGGTATTTTGGTCATTTTACAGTCC
Found at i:4119590 original size:36 final size:35
Alignment explanation
Indices: 4119543--4119682 Score: 183
Period size: 36 Copynumber: 3.9 Consensus size: 35
4119533 TGAATAAGAA
*
4119543 GAACGAAAGGAAGCATTAGCACTTTCGATTCAAAGT
1 GAACGAAAGGAAGCATTCGCACTTTCGATTC-AAGT
* * *
4119579 GAACGGAAGGAAGCATTGGCACTTTCGATTCAAGAA
1 GAACGAAAGGAAGCATTCGCACTTTCGATTCAAG-T
*
4119615 GAACGAAAGGAAGTA-TCGACACTTTCGATTCAAGT
1 GAACGAAAGGAAGCATTCG-CACTTTCGATTCAAGT
* *
4119650 GAACGGAAGGAAGCATCCGCACTTTCGATTCAA
1 GAACGAAAGGAAGCATTCGCACTTTCGATTCAA
4119683 TTGTTCATCT
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
35 32 0.35
36 59 0.65
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (35 bp):
GAACGAAAGGAAGCATTCGCACTTTCGATTCAAGT
Found at i:4119679 original size:71 final size:72
Alignment explanation
Indices: 4119538--4119682 Score: 231
Period size: 71 Copynumber: 2.0 Consensus size: 72
4119528 GAAGGTGAAT
* **
4119538 AAGAAGAACGAAAGGAAGCATTAGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATTGGCACTT
1 AAGAAGAACGAAAGGAAGCATGAGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
4119603 TCGATTC
66 TCGATTC
*
4119610 AAGAAGAACGAAAGGAAGTATCGA-CACTTTCGATTC-AAGTGAACGGAAGGAAGCATCCGCACT
1 AAGAAGAACGAAAGGAAGCAT-GAGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACT
4119673 TTCGATTC
65 TTCGATTC
4119681 AA
1 AA
4119683 TTGTTCATCT
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
71 35 0.51
72 32 0.47
73 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (72 bp):
AAGAAGAACGAAAGGAAGCATGAGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
TCGATTC
Found at i:4125263 original size:30 final size:30
Alignment explanation
Indices: 4125207--4125268 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 30
4125197 ATGTTGTATA
4125207 TTTAAAATTAAATAAATTAGATTATATTTTT
1 TTTAAAATTAAATAAATTA-ATTATATTTTT
*
4125238 TTTAAAATTTTAATAAATT-ATTATATTTTT
1 TTTAAAA-TTAAATAAATTAATTATATTTTT
4125268 T
1 T
4125269 AAATTTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 12 0.41
31 7 0.24
32 10 0.34
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (30 bp):
TTTAAAATTAAATAAATTAATTATATTTTT
Found at i:4125292 original size:28 final size:28
Alignment explanation
Indices: 4125207--4125279 Score: 80
Period size: 32 Copynumber: 2.6 Consensus size: 28
4125197 ATGTTGTATA
*
4125207 TTTAAAA-TTAAATAAATTAGATTATATTTTT
1 TTTAAAATTTTAATAAATT--ATTATA--TTT
4125238 TTTAAAATTTTAATAAATTATTATATTT
1 TTTAAAATTTTAATAAATTATTATATTT
4125266 TTT-AAA-TTTAATAA
1 TTTAAAATTTTAATAA
4125280 TTTAGCTTCT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
26 8 0.20
27 3 0.08
28 6 0.15
30 6 0.15
31 7 0.17
32 10 0.25
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (28 bp):
TTTAAAATTTTAATAAATTATTATATTT
Found at i:4126807 original size:28 final size:27
Alignment explanation
Indices: 4126768--4126823 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 27
4126758 AGAATTTAAT
4126768 AATTATTAAAATTTAAAAAATATATAAAA
1 AATTATTAAAA--TAAAAAATATATAAAA
* *
4126797 AATTA-TAAAATGATAAATATATAAAA
1 AATTATTAAAATAAAAAATATATAAAA
4126823 A
1 A
4126824 GTATTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 15 0.60
28 5 0.20
29 5 0.20
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (27 bp):
AATTATTAAAATAAAAAATATATAAAA
Found at i:4135652 original size:16 final size:18
Alignment explanation
Indices: 4135621--4135663 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
4135611 TCTGATAATT
4135621 TTAAAAAAATTATATAAA
1 TTAAAAAAATTATATAAA
4135639 TTAAAAAAATTATAT--A
1 TTAAAAAAATTATATAAA
4135655 TTAAAAAAA
1 TTAAAAAAA
4135664 AAGAAAATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 10 0.40
18 15 0.60
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TTAAAAAAATTATATAAA
Found at i:4137976 original size:4 final size:4
Alignment explanation
Indices: 4137967--4138009 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
4137957 TTACAAAATA
*
4137967 TATG TATG TATG TATG TATG TATG TATG TATG TATG CATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
4138010 AAGATGCAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:4142608 original size:4 final size:4
Alignment explanation
Indices: 4142572--4142637 Score: 78
Period size: 4 Copynumber: 16.5 Consensus size: 4
4142562 ACATTAGAAG
* * * * * *
4142572 TATA TGTA TATA AATA AATA AATA AATA CATA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
4142620 TATA TATA TATA TATA TA
1 TATA TATA TATA TATA TA
4142638 CACACACGCA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 57 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (4 bp):
TATA
Found at i:4160637 original size:2 final size:2
Alignment explanation
Indices: 4160630--4160655 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4160620 CATTAAAGTT
4160630 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
4160656 AAGAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4164986 original size:22 final size:22
Alignment explanation
Indices: 4164958--4165013 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
4164948 GAAGGACTAT
4164958 GTCCCGAAGGACCACTGAATAC
1 GTCCCGAAGGACCACTGAATAC
* *
4164980 GTCCCGAAAGACCACTGGATAC
1 GTCCCGAAGGACCACTGAATAC
*
4165002 GTCCCAAAGGAC
1 GTCCCGAAGGAC
4165014 TAATATACCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.32, G:0.23, T:0.12
Consensus pattern (22 bp):
GTCCCGAAGGACCACTGAATAC
Found at i:4165671 original size:64 final size:64
Alignment explanation
Indices: 4165562--4165725 Score: 174
Period size: 64 Copynumber: 2.5 Consensus size: 64
4165552 TCCCTTGACG
* * *
4165562 GGTGCATCGATGCACTACCCATGCATCGGTGCA-TAAATCCTATTCGATGTT-TGTATTTTAAGT
1 GGTGCATCGATGCACT-CCTATGCATCGATGCACTAAATCCTATTCGATGTTATGTATTTTAAAT
* *
4165625 AGGTGCATCGATGCACTCCTTATGCATCGATGCACT-AATGGC-ATTCGATGTTCATTTATTTTA
1 -GGTGCATCGATGCACTCC-TATGCATCGATGCACTAAAT-CCTATTCGATGTT-ATGTATTTTA
4165688 AAT
62 AAT
* *
4165691 GAGTGCATCGATACACTCCATGTGCATCGATGCAC
1 G-GTGCATCGATGCACTCC-TATGCATCGATGCAC
4165726 CTTCAACAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
63 2 0.02
64 41 0.48
65 3 0.03
66 40 0.47
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (64 bp):
GGTGCATCGATGCACTCCTATGCATCGATGCACTAAATCCTATTCGATGTTATGTATTTTAAAT
Found at i:4165708 original size:66 final size:64
Alignment explanation
Indices: 4165603--4165725 Score: 167
Period size: 66 Copynumber: 1.9 Consensus size: 64
4165593 CATAAATCCT
* * *
4165603 ATTCGATGTTTGTATTTTAAGTAGGTGCATCGATGCACTCCTTATGCATCGATGCACTAATGGC
1 ATTCGATGTTTGTATTTTAAATAGGTGCATCGATACACTCCATATGCATCGATGCACTAATGGC
* *
4165667 ATTCGATGTTCATTTATTTTAAAT-GAGTGCATCGATACACTCCATGTGCATCGATGCAC
1 ATTCGATGTT--TGTATTTTAAATAG-GTGCATCGATACACTCCATATGCATCGATGCAC
4165726 CTTCAACAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
64 10 0.20
65 1 0.02
66 40 0.78
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (64 bp):
ATTCGATGTTTGTATTTTAAATAGGTGCATCGATACACTCCATATGCATCGATGCACTAATGGC
Found at i:4172569 original size:7 final size:7
Alignment explanation
Indices: 4172557--4172589 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
4172547 GTCAAAGGAA
4172557 GTCAACG
1 GTCAACG
4172564 GTCAACG
1 GTCAACG
4172571 GTCAACG
1 GTCAACG
4172578 GTC-ACG
1 GTCAACG
4172584 GTCAAC
1 GTCAAC
4172590 AGTCGGGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.15
Consensus pattern (7 bp):
GTCAACG
Found at i:4172633 original size:9 final size:9
Alignment explanation
Indices: 4172621--4172719 Score: 72
Period size: 9 Copynumber: 10.3 Consensus size: 9
4172611 AGTCGGGTCG
*
4172621 GGTCAGACC
1 GGTCAAACC
4172630 GGTCAAACC
1 GGTCAAACC
*
4172639 GGTTCAGACC
1 GG-TCAAACC
*
4172649 GATCAAACC
1 GGTCAAACC
* *
4172658 GGTTCGAATC
1 GG-TCAAACC
*
4172668 GGTCGGAACC
1 GGTC-AAACC
*
4172678 GGTCAAACA
1 GGTCAAACC
4172687 GGTCAAAACC
1 GGTC-AAACC
*
4172697 GGTTGAAAACC
1 GG-T-CAAACC
4172708 GGTCAAACC
1 GGTCAAACC
4172717 GGT
1 GGT
4172720 TTTCCAGCAG
Statistics
Matches: 71, Mismatches: 13, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
9 34 0.48
10 29 0.41
11 8 0.11
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:4172647 original size:19 final size:19
Alignment explanation
Indices: 4172623--4172720 Score: 83
Period size: 19 Copynumber: 5.1 Consensus size: 19
4172613 TCGGGTCGGG
4172623 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
4172642 TCAGACCGATCAAACCGGT
1 TCAGACCGGTCAAACCGGT
* *
4172661 TC-GAATCGGTCGGAACCGG-
1 TCAG-ACCGGTC-AAACCGGT
* *
4172680 TCAAACAGGTCAAAACCGGT
1 TCAGACCGGTC-AAACCGGT
* *
4172700 TGAAAACCGGTCAAACCGGT
1 T-CAGACCGGTCAAACCGGT
4172720 T
1 T
4172721 TTCCAGCAGC
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
18 1 0.02
19 38 0.60
20 16 0.25
21 8 0.13
ACGTcount: A:0.31, C:0.28, G:0.26, T:0.16
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:4173284 original size:19 final size:19
Alignment explanation
Indices: 4173256--4173331 Score: 57
Period size: 19 Copynumber: 4.0 Consensus size: 19
4173246 GGGTCAGGTC
*
4173256 AGACCAGTC-AAACCGGTTT
1 AGACCGGTCAAAACCGG-TT
*
4173275 AGACCGGTC-AAATCGGTT
1 AGACCGGTCAAAACCGGTT
* ** *
4173293 CGAACCGGTCGGAACCGGTC
1 AG-ACCGGTCAAAACCGGTT
*
4173313 AAACCGGTCAAAACCGGTT
1 AGACCGGTCAAAACCGGTT
4173332 GAAAATCGAT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
18 3 0.07
19 35 0.80
20 6 0.14
ACGTcount: A:0.29, C:0.28, G:0.26, T:0.17
Consensus pattern (19 bp):
AGACCGGTCAAAACCGGTT
Found at i:4173326 original size:10 final size:9
Alignment explanation
Indices: 4173252--4173330 Score: 59
Period size: 10 Copynumber: 8.3 Consensus size: 9
4173242 AATCGGGTCA
*
4173252 GGTCAGACC
1 GGTCAAACC
*
4173261 AGTCAAACC
1 GGTCAAACC
* *
4173270 GGTTTAGACC
1 GG-TCAAACC
*
4173280 GGTCAAATC
1 GGTCAAACC
*
4173289 GGTTCGAACC
1 GG-TCAAACC
*
4173299 GGTCGGAACC
1 GGTC-AAACC
4173309 GGTCAAACC
1 GGTCAAACC
4173318 GGTCAAAACC
1 GGTC-AAACC
4173328 GGT
1 GGT
4173331 TGAAAATCGA
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
9 24 0.44
10 31 0.56
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:4180560 original size:7 final size:7
Alignment explanation
Indices: 4180544--4180574 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
4180534 GTCAAAGGAA
4180544 GTCAACG
1 GTCAACG
*
4180551 GTCAATG
1 GTCAACG
4180558 GTCAACG
1 GTCAACG
4180565 GTCAACG
1 GTCAACG
4180572 GTC
1 GTC
4180575 GGATCAACGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.19
Consensus pattern (7 bp):
GTCAACG
Found at i:4180593 original size:5 final size:5
Alignment explanation
Indices: 4180583--4180615 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
4180573 TCGGATCAAC
*
4180583 GGTCG GGTCG GGTC- AGTCG GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
4180616 TGACCGGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.03, C:0.21, G:0.55, T:0.21
Consensus pattern (5 bp):
GGTCG
Found at i:4180603 original size:14 final size:14
Alignment explanation
Indices: 4180584--4180610 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4180574 CGGATCAACG
4180584 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
4180598 GTCGGGTCGGGTC
1 GTCGGGTCGGGTC
4180611 GGGTCTGACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.04, C:0.22, G:0.52, T:0.22
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:4180624 original size:19 final size:19
Alignment explanation
Indices: 4180582--4180624 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
4180572 GTCGGATCAA
*
4180582 CGGTCGGGTCGGGTCAGTC
1 CGGTCGGGTCGGGTCAGAC
* *
4180601 GGGTCGGGTCGGGTCTGAC
1 CGGTCGGGTCGGGTCAGAC
4180620 CGGTC
1 CGGTC
4180625 AAACCGATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.05, C:0.26, G:0.49, T:0.21
Consensus pattern (19 bp):
CGGTCGGGTCGGGTCAGAC
Found at i:4180640 original size:19 final size:19
Alignment explanation
Indices: 4180618--4180661 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
4180608 GTCGGGTCTG
4180618 ACCGGTC-AAACCGATCAGA
1 ACCGGTCAAAACCGATCA-A
*
4180637 ACCGGTCAAAACCGGTCAA
1 ACCGGTCAAAACCGATCAA
4180656 ACCGGT
1 ACCGGT
4180662 TTTCTAGCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.34, C:0.32, G:0.23, T:0.11
Consensus pattern (19 bp):
ACCGGTCAAAACCGATCAA
Found at i:4180649 original size:10 final size:9
Alignment explanation
Indices: 4180618--4180661 Score: 61
Period size: 9 Copynumber: 4.7 Consensus size: 9
4180608 GTCGGGTCTG
4180618 ACCGGTCAA
1 ACCGGTCAA
*
4180627 ACCGATCAGA
1 ACCGGTCA-A
4180637 ACCGGTCAAA
1 ACCGGTC-AA
4180647 ACCGGTCAA
1 ACCGGTCAA
4180656 ACCGGT
1 ACCGGT
4180662 TTTCTAGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 15 0.48
10 15 0.48
11 1 0.03
ACGTcount: A:0.34, C:0.32, G:0.23, T:0.11
Consensus pattern (9 bp):
ACCGGTCAA
Found at i:4181899 original size:18 final size:18
Alignment explanation
Indices: 4181868--4181921 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
4181858 GTTCAGTATT
*
4181868 TGTCCCGAATGACCACTA
1 TGTCCCGAAAGACCACTA
* *
4181886 TGTTCCGAAGGACCACTA
1 TGTCCCGAAAGACCACTA
4181904 TGTCCCGAAAGACCACTA
1 TGTCCCGAAAGACCACTA
4181922 GATATGTCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAAGACCACTA
Found at i:4181930 original size:22 final size:22
Alignment explanation
Indices: 4181890--4181978 Score: 114
Period size: 22 Copynumber: 4.2 Consensus size: 22
4181880 CCACTATGTT
4181890 CCGAAGGACCACT--AT--GTC
1 CCGAAGGACCACTGGATACGTC
* * *
4181908 CCGAAAGACCACTAGATATGTC
1 CCGAAGGACCACTGGATACGTC
*
4181930 CCGAAGGACCATTGGATACGTC
1 CCGAAGGACCACTGGATACGTC
4181952 CCGAAGGACCACTGGATACGTC
1 CCGAAGGACCACTGGATACGTC
4181974 CCGAA
1 CCGAA
4181979 TAACTATACC
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
18 12 0.20
20 2 0.03
22 47 0.77
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.16
Consensus pattern (22 bp):
CCGAAGGACCACTGGATACGTC
Found at i:4182661 original size:19 final size:19
Alignment explanation
Indices: 4182613--4182664 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
4182603 TTTTAAATGA
*
4182613 GTGCATCGATACACTCCAT
1 GTGCATCGATGCACTCCAT
4182632 GTGCATCGATGCACTCCAT
1 GTGCATCGATGCACTCCAT
4182651 GTGCATCGATGCAC
1 GTGCATCGATGCAC
4182665 CTTCAACAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (19 bp):
GTGCATCGATGCACTCCAT
Found at i:4185574 original size:60 final size:60
Alignment explanation
Indices: 4185478--4185603 Score: 175
Period size: 60 Copynumber: 2.1 Consensus size: 60
4185468 AACGTCTCCC
* *
4185478 GATTATAAGATATTACTTTATTGAATTCTTTAACTATTAAAAGTTATAAAATAGTCATTT
1 GATTATAAGATATTACTTTATTGAATTCTTTAACTATTAAAAGTTACAAAATAGTCACTT
* * *
4185538 GATTATAAGGA-ATTACTTTGTTGAA-TCTCTTGACTATTAAAAGTTACAAAATGGTCACTT
1 GATTATAA-GATATTACTTTATTGAATTCT-TTAACTATTAAAAGTTACAAAATAGTCACTT
4185598 GATTAT
1 GATTAT
4185604 TCATTATGTT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
59 3 0.05
60 54 0.92
61 2 0.03
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (60 bp):
GATTATAAGATATTACTTTATTGAATTCTTTAACTATTAAAAGTTACAAAATAGTCACTT
Found at i:4186460 original size:13 final size:13
Alignment explanation
Indices: 4186442--4186466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4186432 TTCTAAATTT
4186442 TAAATCATAAATC
1 TAAATCATAAATC
4186455 TAAATCATAAAT
1 TAAATCATAAAT
4186467 AGTAAATCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAATCATAAATC
Found at i:4189363 original size:26 final size:26
Alignment explanation
Indices: 4189332--4189391 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
4189322 TCCGAGAGCT
4189332 AAATTGATGAAAAAACAATATGGACA
1 AAATTGATGAAAAAACAATATGGACA
4189358 AAATTGATGAAAAAACAATATGGACA
1 AAATTGATGAAAAAACAATATGGACA
4189384 AAATTGAT
1 AAATTGAT
4189392 AAATTAGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.22
Consensus pattern (26 bp):
AAATTGATGAAAAAACAATATGGACA
Found at i:4201701 original size:11 final size:11
Alignment explanation
Indices: 4201687--4201714 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
4201677 TTAAAGTTTC
4201687 ATATTTTTTAT
1 ATATTTTTTAT
4201698 ATATTTTTTAT
1 ATATTTTTTAT
4201709 ATATTT
1 ATATTT
4201715 CAAAATGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
ATATTTTTTAT
Found at i:4202778 original size:14 final size:14
Alignment explanation
Indices: 4202761--4202794 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
4202751 TATTTCACCA
4202761 AAAATATTTTTCAT
1 AAAATATTTTTCAT
*
4202775 AAAATATTTTTCGT
1 AAAATATTTTTCAT
4202789 AAAATA
1 AAAATA
4202795 AATTACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (14 bp):
AAAATATTTTTCAT
Found at i:4203125 original size:21 final size:21
Alignment explanation
Indices: 4203095--4203157 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 21
4203085 TCTATAAAAA
*
4203095 TAAAAATATTATATTATATTT
1 TAAAATTATTATATTATATTT
*
4203116 TAAAATTATTAATAAATATATTT
1 TAAAATTATT-AT-ATTATATTT
4203139 TAAGGAATT-TT-TATTATAT
1 TAA--AATTATTATATTATAT
4203158 GTTATTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
21 15 0.43
22 3 0.09
23 11 0.31
24 2 0.06
25 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
TAAAATTATTATATTATATTT
Found at i:4204214 original size:58 final size:59
Alignment explanation
Indices: 4204089--4204214 Score: 157
Period size: 58 Copynumber: 2.2 Consensus size: 59
4204079 TTGATCCTTC
* * * *
4204089 AACTTTTGAATATTCCAATTCCATCCTCAAAATATGACTCTTATTCTAAATTAGTCCTTA
1 AACTTTT-AACATTCCAATTCCATCCCCAAAATATGACTCTAATTCTAAATTAGTCCTCA
** * *
4204149 AAC-TTTAACATTCCAATTTTATCCCCAAACTATGACTCTAATTCTAAATTGGTCC-CA
1 AACTTTTAACATTCCAATTCCATCCCCAAAATATGACTCTAATTCTAAATTAGTCCTCA
4204206 AACTTTTAA
1 AACTTTTAA
4204215 ATCTTCCAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
57 4 0.07
58 47 0.82
59 3 0.05
60 3 0.05
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (59 bp):
AACTTTTAACATTCCAATTCCATCCCCAAAATATGACTCTAATTCTAAATTAGTCCTCA
Found at i:4205554 original size:50 final size:50
Alignment explanation
Indices: 4205500--4205613 Score: 210
Period size: 50 Copynumber: 2.3 Consensus size: 50
4205490 AGATGTATGT
* *
4205500 AAATTATTAATATTGATACTTAGTGTATATGTATTGATACATATTCAGGA
1 AAATTATTAATATCGATACTTAGTGTATATGTATTGATACATATTCAAGA
4205550 AAATTATTAATATCGATACTTAGTGTATATGTATTGATACATATTCAAGA
1 AAATTATTAATATCGATACTTAGTGTATATGTATTGATACATATTCAAGA
4205600 AAATTATTAATATC
1 AAATTATTAATATC
4205614 TGGTATTGAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.41
Consensus pattern (50 bp):
AAATTATTAATATCGATACTTAGTGTATATGTATTGATACATATTCAAGA
Found at i:4206239 original size:100 final size:99
Alignment explanation
Indices: 4206066--4206252 Score: 277
Period size: 100 Copynumber: 1.9 Consensus size: 99
4206056 AAGTTAATTG
* * * *
4206066 TAAATATTTTATCGTTTACATTAATATTATACATTTAAGCAAACAGATAAGTAGTTTAACGTAAT
1 TAAATATTTTACCATTTACATTAATATTATACATTTAAACAAACAGATAAGTAATTTAACGTAAT
*
4206131 AGGTAGCGCCTATTTTATTTTAACTAGATAAGTTA
66 AGGTAGCGCATA-TTTATTTTAACTAGATAAGTTA
* **
4206166 TAAATATTTTACCATTTACATTAATATTATATC-TTTAAACAAACCGATGGGTAATTTAACGTAA
1 TAAATATTTTACCATTTACATTAATATTATA-CATTTAAACAAACAGATAAGTAATTTAACGTAA
4206230 TAGGTAGCGCATATTTATTTTAA
65 TAGGTAGCGCATATTTATTTTAA
4206253 TCGGTTACAT
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
99 10 0.13
100 67 0.86
101 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (99 bp):
TAAATATTTTACCATTTACATTAATATTATACATTTAAACAAACAGATAAGTAATTTAACGTAAT
AGGTAGCGCATATTTATTTTAACTAGATAAGTTA
Found at i:4206270 original size:76 final size:76
Alignment explanation
Indices: 4206181--4206412 Score: 283
Period size: 76 Copynumber: 3.0 Consensus size: 76
4206171 ATTTTACCAT
* *
4206181 TTACATTAATATTATATCTTTAAACAAACCGATGGGTAATTTAACGTAATAGGTAGCGC-ATATT
1 TTACATTATTATTATACCTTTAAACAAACCGATGGGTAATTTAACGTAATAGGTAGCGCTAT-TT
4206245 TATTTTAATCGG
65 TATTTTAATCGG
* * *
4206257 TTACATTATTATTATACCTTTAAACGAA-C-ATGTAGATAATTTAACGTAATATGTAGCGTCTAT
1 TTACATTATTATTATACCTTTAAACAAACCGATG--GGTAATTTAACGTAATAGGTAGCG-CTAT
* *
4206320 TTTATTTT-ACCGT
63 TTTATTTTAATCGG
* * * *
4206333 TTACATTATTATTATACCTTTAAACAAACTGGTAGGTAGTTTAACGTAATAGGTAGCGCCTATTT
1 TTACATTATTATTATACCTTTAAACAAACCGATGGGTAATTTAACGTAATAGGTAGCG-CTATTT
*
4206398 TATTTTAGTCGG
65 TATTTTAATCGG
4206410 TTA
1 TTA
4206413 AATTGTAAAT
Statistics
Matches: 131, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
74 3 0.02
75 1 0.01
76 110 0.84
77 14 0.11
78 3 0.02
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (76 bp):
TTACATTATTATTATACCTTTAAACAAACCGATGGGTAATTTAACGTAATAGGTAGCGCTATTTT
ATTTTAATCGG
Found at i:4206448 original size:100 final size:100
Alignment explanation
Indices: 4206325--4206504 Score: 324
Period size: 100 Copynumber: 1.8 Consensus size: 100
4206315 TCTATTTTAT
* * *
4206325 TTTACCGTTTACATTATTATTATACCTTTAAACAAACTGGTAGGTAGTTTAACGTAATAGGTAGC
1 TTTACCGTTTACATTAGTATTATACCTTTAAACAAACTGGTAGGTAGTTTAACGTAATAGATAAC
4206390 GCCTATTTTATTTTAGTCGGTTAAATTGTAAATAG
66 GCCTATTTTATTTTAGTCGGTTAAATTGTAAATAG
*
4206425 TTTACCGTTTACATTAGTATTATACCTTTAAACAAACTGGTAGGTAGTTTAACGTAATAGATAAT
1 TTTACCGTTTACATTAGTATTATACCTTTAAACAAACTGGTAGGTAGTTTAACGTAATAGATAAC
4206490 GCCTATTTTATTTTA
66 GCCTATTTTATTTTA
4206505 ACCGGTTACA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 76 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (100 bp):
TTTACCGTTTACATTAGTATTATACCTTTAAACAAACTGGTAGGTAGTTTAACGTAATAGATAAC
GCCTATTTTATTTTAGTCGGTTAAATTGTAAATAG
Found at i:4206523 original size:77 final size:77
Alignment explanation
Indices: 4206428--4206665 Score: 257
Period size: 77 Copynumber: 3.1 Consensus size: 77
4206418 TAAATAGTTT
* * * * *
4206428 ACCGTTTACATTAGTATTATACCTTTAAACAAACTGGTAGGTAGTTTAACGTAATAGATAATGCC
1 ACCGGTTACATTATTATTATACCTTTAAACAAACCGATAGCTAGTTTAACGTAATAGATAATGCC
4206493 TATTTTATTTTA
66 TATTTTATTTTA
* * * * * * **
4206505 ACCGGTTACATTATTATTATACCTTTAAATAAACCGATCGCCAATTTAACATAATAGCTAGCGCC
1 ACCGGTTACATTATTATTATACCTTTAAACAAACCGATAGCTAGTTTAACGTAATAGATAATGCC
4206570 TATTTTATTTT-
66 TATTTTATTTTA
* * * * **
4206581 ACCGTTTACTTTATTATTATA-CTTGTAATCAAACCGATAGCTAGTTTAACGTAATATGTTGCT-
1 ACCGGTTACATTATTATTATACCTT-TAAACAAACCGATAGCTAGTTTAACGTAATA-GATAATG
4206644 CCTATTTTATTTTA
64 CCTATTTTATTTTA
*
4206658 ACTGGTTA
1 ACCGGTTA
4206666 ACTTGTTAAC
Statistics
Matches: 131, Mismatches: 27, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
75 3 0.02
76 57 0.44
77 71 0.54
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (77 bp):
ACCGGTTACATTATTATTATACCTTTAAACAAACCGATAGCTAGTTTAACGTAATAGATAATGCC
TATTTTATTTTA
Found at i:4206636 original size:76 final size:75
Alignment explanation
Indices: 4206425--4206657 Score: 263
Period size: 76 Copynumber: 3.1 Consensus size: 75
4206415 TTGTAAATAG
* * * * * **
4206425 TTTACCGTTTACATTAGTATTATACCTTTAAACAAACTGGTAGGTAGTTTAACGTAATAGATAAT
1 TTTACCGTTTACATTATTATTATACCTTTAATCAAACCGATAGCTAGTTTAACGTAATAG-TAGC
4206490 GCCTATTTTAT
65 GCCTATTTTAT
* * * * *
4206501 TTTAACCGGTTACATTATTATTATACCTTTAAAT-AAACCGATCGCCAATTTAACATAATAGCTA
1 TTT-ACCGTTTACATTATTATTATACCTTT-AATCAAACCGATAGCTAGTTTAACGTAATAG-TA
4206565 GCGCCTATTTTAT
63 GCGCCTATTTTAT
* *
4206578 TTTACCGTTTACTTTATTATTATA-CTTGTAATCAAACCGATAGCTAGTTTAACGTAATATGTTG
1 TTTACCGTTTACATTATTATTATACCTT-TAATCAAACCGATAGCTAGTTTAACGTAATA-GTAG
*
4206642 CTCCTATTTTAT
64 CGCCTATTTTAT
4206654 TTTA
1 TTTA
4206658 ACTGGTTAAC
Statistics
Matches: 131, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
75 6 0.05
76 62 0.47
77 61 0.47
78 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (75 bp):
TTTACCGTTTACATTATTATTATACCTTTAATCAAACCGATAGCTAGTTTAACGTAATAGTAGCG
CCTATTTTAT
Found at i:4206700 original size:100 final size:100
Alignment explanation
Indices: 4206576--4206757 Score: 267
Period size: 100 Copynumber: 1.8 Consensus size: 100
4206566 CGCCTATTTT
* * * * *
4206576 ATTTTACCGTTTACTTTATTATTATA-CTTGTAATCAAACCGATAGCTAGTTTAACGTAATATGT
1 ATTTTACCGTTTACATTATCATTATATCTT-TAAACAAACCGATAGCTAATTTAACGTAATAGGT
* *
4206640 TGCTCCTATTTTATTTTAACTGGTTAACTTGTTAAC
65 AGCGCCTATTTTATTTTAACTGGTTAACTTGTTAAC
* *
4206676 ATTTTACCGTTTACATTATCATTATATCTTTAAACAAACCGGTAGCTAATTTAACGTTATAGGTA
1 ATTTTACCGTTTACATTATCATTATATCTTTAAACAAACCGATAGCTAATTTAACGTAATAGGTA
4206741 GCGCCTATTTTATTTTA
66 GCGCCTATTTTATTTTA
4206758 TCGTTTATAT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 69 0.96
101 3 0.04
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (100 bp):
ATTTTACCGTTTACATTATCATTATATCTTTAAACAAACCGATAGCTAATTTAACGTAATAGGTA
GCGCCTATTTTATTTTAACTGGTTAACTTGTTAAC
Found at i:4206729 original size:176 final size:177
Alignment explanation
Indices: 4206499--4206833 Score: 480
Period size: 176 Copynumber: 1.9 Consensus size: 177
4206489 TGCCTATTTT
* * *
4206499 ATTTTAACCGGTTACATTATTATTATACCTTTAAATAAACCGATCGCCAATTTAACATAATAGCT
1 ATTTTAACCGGTTACATTATCATTATACCTTTAAACAAACCGATAGCCAATTTAACATAATAGCT
4206564 AGCGCCTATTTTATTTTACCGTTTACT-TTATTATTATA-CTTGT-AATCAAACCGATAGCTAGT
66 AGCGCCTATTTTATTTTACCGTTTA-TATTATTATTATATCTT-TAAAT-AAACCGATAGCTAGT
* * *
4206626 TTAACGTAATATGTTGCTCCTATTTTATTTTAACTGGTTAACTTGTTAAC
128 TTAACGTAATATATTACACCTATTTTATTTTAACTGGTTAACTTGTTAAC
* * * * * * *
4206676 ATTTT-ACCGTTTACATTATCATTATATCTTTAAACAAACCGGTAGCTAATTTAACGTTATAGGT
1 ATTTTAACCGGTTACATTATCATTATACCTTTAAACAAACCGATAGCCAATTTAACATAATAGCT
*
4206740 AGCGCCTATTTTATTTTATCGTTTATATTATTATTATATCTTTAAATAAACCGATAGCTAGTTTA
66 AGCGCCTATTTTATTTTACCGTTTATATTATTATTATATCTTTAAATAAACCGATAGCTAGTTTA
*
4206805 ACGTAATATATTACACTTATTTTATTTTA
131 ACGTAATATATTACACCTATTTTATTTTA
4206834 CCGTTTATAT
Statistics
Matches: 140, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
175 1 0.01
176 128 0.91
177 11 0.08
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (177 bp):
ATTTTAACCGGTTACATTATCATTATACCTTTAAACAAACCGATAGCCAATTTAACATAATAGCT
AGCGCCTATTTTATTTTACCGTTTATATTATTATTATATCTTTAAATAAACCGATAGCTAGTTTA
ACGTAATATATTACACCTATTTTATTTTAACTGGTTAACTTGTTAAC
Found at i:4206776 original size:76 final size:75
Alignment explanation
Indices: 4206676--4206909 Score: 283
Period size: 76 Copynumber: 3.1 Consensus size: 75
4206666 ACTTGTTAAC
* * *
4206676 ATTTTACCGTTTACATTATCATTATATCTTTAAACAAACCGGTAGCTAATTTAACGTTATAGGTA
1 ATTTTACCGTTTATATTATTATTATATCTTTAAACAAACCGGTAGCTAGTTTAACGTTATAGGTA
*
4206741 GCGCCTATTTT
66 GC-CTTATTTT
* * * *
4206752 ATTTTATCGTTTATATTATTATTATATCTTTAAATAAACCGATAGCTAGTTTAACGTAATATA-T
1 ATTTTACCGTTTATATTATTATTATATCTTTAAACAAACCGGTAGCTAGTTTAACGT--TATAGG
4206816 TA-CACTTATTTT
64 TAGC-CTTATTTT
* * * * * *
4206828 ATTTTACCGTTTATATTATTATTATACCTTTAAACTAACCCGTAGCTAGTTTAACATAATAGGTT
1 ATTTTACCGTTTATATTATTATTATATCTTTAAACAAACCGGTAGCTAGTTTAACGTTATAGGTA
4206893 GTCCTTATTTT
66 G-CCTTATTTT
4206904 ATTTTA
1 ATTTTA
4206910 ACCGGCTAAG
Statistics
Matches: 134, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
74 3 0.02
75 1 0.01
76 123 0.92
77 3 0.02
78 4 0.03
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (75 bp):
ATTTTACCGTTTATATTATTATTATATCTTTAAACAAACCGGTAGCTAGTTTAACGTTATAGGTA
GCCTTATTTT
Found at i:4206859 original size:152 final size:154
Alignment explanation
Indices: 4206676--4206967 Score: 367
Period size: 152 Copynumber: 1.9 Consensus size: 154
4206666 ACTTGTTAAC
* * * *
4206676 ATTTTACCGTTTACATTATCATTATATCTTTAAACAAACCGGTAGCTAATTTAACGTTATAGGTA
1 ATTTTACCGTTTACATTATCATTATACCTTTAAACAAACCCGTAGCTAATTTAACATAATAGGTA
* ** ** ** *
4206741 G-CGCCTATTTTATTTT-ATCGTTTATA-T-TATTATTATATCTTTAAATAAACCGATAGCTAGT
66 GTC-CCTATTTTATTTTAACCGGCTA-AGTGTAAAAAAATACCTTTAAATAAACCGATAGCTAGT
4206802 TTAACGTAATATATTACACTTATTTT
129 TTAACGTAATATATTACACTTATTTT
* * * * *
4206828 ATTTTACCGTTTATATTATTATTATACCTTTAAACTAACCCGTAGCTAGTTTAACATAATAGGTT
1 ATTTTACCGTTTACATTATCATTATACCTTTAAACAAACCCGTAGCTAATTTAACATAATAGGTA
*
4206893 GTCCTTATTTTATTTTAACCGGCTAAGTTGTAAAAAAATACCTTTAAATAAACCGATAGCTAGTT
66 GTCCCTATTTTATTTTAACCGGCTAAG-TGTAAAAAAATACCTTTAAATAAACCGATAGCTAGTT
4206958 TAACGTAATA
130 TAACGTAATA
4206968 AGTTGCGCCT
Statistics
Matches: 117, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
152 70 0.60
153 6 0.05
154 1 0.01
155 40 0.34
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (154 bp):
ATTTTACCGTTTACATTATCATTATACCTTTAAACAAACCCGTAGCTAATTTAACATAATAGGTA
GTCCCTATTTTATTTTAACCGGCTAAGTGTAAAAAAATACCTTTAAATAAACCGATAGCTAGTTT
AACGTAATATATTACACTTATTTT
Found at i:4206904 original size:252 final size:250
Alignment explanation
Indices: 4206070--4206926 Score: 958
Period size: 252 Copynumber: 3.4 Consensus size: 250
4206060 TAATTGTAAA
* * * * * * *
4206070 TATTTTATCGTTTACATTAATATTATACATTTAAGCAAACAGATAAG-TAGTTTAACGTAATAGG
1 TATTTTACCGTTTATATTATTATTATACCTTTAAACAACCCG-T-AGCTAGTTTAACGTAATAGG
* * * * *
4206134 TAGCGCCTATTTTATTTTAACTAGATAAGTTATAAATATTTTACCATTTACATTAATATTATATC
64 TAGCGCCTATTTTATTTTAACTGGTTAAATTGTAAATATTTTACCGTTTACATT-ATATTATATC
* * *
4206199 TTTAAACAAACCGATGGGTAATTTAACGTAATAGGTAGCGCATA-TTTATTTTAATCGGTTACAT
128 TTTAAACAAACCGGTAGGTAATTTAACGTAATAGGTAGCGCCTATTTTATTTTAATCGGTTACAT
** * * * *
4206263 TATTATTATACCTTTAAACGAACATG-TAGATAATTTAACGTAATATGTAGCGTCTATTT
193 TATTATTATACCTTTAAATAAAC-CGATAGCTAATTTAACGTAATATCTAGCCT-TATTT
* ** *
4206322 TATTTTACCGTTTACATTATTATTATACCTTTAAACAAACTGGTAGGTAGTTTAACGTAATAGGT
1 TATTTTACCGTTTATATTATTATTATACCTTTAAAC-AACCCGTAGCTAGTTTAACGTAATAGGT
* * *
4206387 AGCGCCTATTTTATTTT-AGTCGGTTAAATTGTAAATAGTTTACCGTTTACATTAGTATTATACC
65 AGCGCCTATTTTATTTTAACT-GGTTAAATTGTAAATATTTTACCGTTTACATTA-TATTATATC
* * * ** *
4206451 TTTAAACAAACTGGTAGGTAGTTTAACGTAATAGATAATGCCTATTTTATTTTAACCGGTTACAT
128 TTTAAACAAACCGGTAGGTAATTTAACGTAATAGGTAGCGCCTATTTTATTTTAATCGGTTACAT
* * * * *
4206516 TATTATTATACCTTTAAATAAACCGATCGCCAATTTAACATAATAGCTAGCGCCTATTT
193 TATTATTATACCTTTAAATAAACCGATAGCTAATTTAACGTAATATCTAGC-CTTATTT
* * *
4206575 TATTTTACCGTTTACT-TTATTATTATA-CTTGTAATCAAACCGATAGCTAGTTTAACGTAATAT
1 TATTTTACCGTTTA-TATTATTATTATACCTT-TAAACAACCCG-TAGCTAGTTTAACGTAATAG
* * * * *
4206638 GTTGCTCCTATTTTATTTTAACTGGTTAACTTGTTAACATTTTACCGTTTACATTATCATTATAT
63 GTAGCGCCTATTTTATTTTAACTGGTTAAATTGTAAATATTTTACCGTTTACATTAT-ATTATAT
* * * *
4206703 CTTTAAACAAACCGGTAGCTAATTTAACGTTATAGGTAGCGCCTATTTTATTTT-ATCGTTTATA
127 CTTTAAACAAACCGGTAGGTAATTTAACGTAATAGGTAGCGCCTATTTTATTTTAATCGGTTACA
* * *
4206767 TTATTATTATATCTTTAAATAAACCGATAGCTAGTTTAACGTAATATATTA-CACTTATTT
192 TTATTATTATACCTTTAAATAAACCGATAGCTAATTTAACGTAATAT-CTAGC-CTTATTT
*
4206827 TATTTTACCGTTTATATTATTATTATACCTTTAAACTAACCCGTAGCTAGTTTAACATAATAGGT
1 TATTTTACCGTTTATATTATTATTATACCTTTAAAC-AACCCGTAGCTAGTTTAACGTAATAGGT
* * * * *
4206892 TGTC-CTTATTTTATTTTAACCGGCTAAGTTGTAAA
65 AG-CGCCTATTTTATTTTAACTGGTTAAATTGTAAA
4206927 AAAATACCTT
Statistics
Matches: 510, Mismatches: 78, Indels: 34
0.82 0.13 0.05
Matches are distributed among these distances:
251 6 0.01
252 278 0.55
253 224 0.44
254 2 0.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.42
Consensus pattern (250 bp):
TATTTTACCGTTTATATTATTATTATACCTTTAAACAACCCGTAGCTAGTTTAACGTAATAGGTA
GCGCCTATTTTATTTTAACTGGTTAAATTGTAAATATTTTACCGTTTACATTATATTATATCTTT
AAACAAACCGGTAGGTAATTTAACGTAATAGGTAGCGCCTATTTTATTTTAATCGGTTACATTAT
TATTATACCTTTAAATAAACCGATAGCTAATTTAACGTAATATCTAGCCTTATTT
Found at i:4206958 original size:79 final size:79
Alignment explanation
Indices: 4206779--4207004 Score: 259
Period size: 79 Copynumber: 2.9 Consensus size: 79
4206769 ATTATTATAT
* *
4206779 CTTTAAATAAACCGATAGCTAGTTTAACGTAATATA-TTACACTTATTTTATTTT-ACC-GTTTA
1 CTTTAAATAAACCGATAGCTAGTTTAACGTAATA-AGTTGCACTTATTTTATTTTAACCGGTTAA
** **
4206841 -TAT-TATTATTATAC
65 GT-TGTAAAAAAATAC
* * * *
4206855 CTTTAAACTAACCCG-TAGCTAGTTTAACATAATAGGTTGTC-CTTATTTTATTTTAACCGGCTA
1 CTTTAAA-TAAACCGATAGCTAGTTTAACGTAATAAGTTG-CACTTATTTTATTTTAACCGGTTA
4206918 AGTTGTAAAAAAATAC
64 AGTTGTAAAAAAATAC
* *
4206934 CTTTAAATAAACCGATAGCTAGTTTAACGTAATAAGTTGCGCCTATTTTATTTTAACCGGTTAAG
1 CTTTAAATAAACCGATAGCTAGTTTAACGTAATAAGTTGCACTTATTTTATTTTAACCGGTTAAG
4206999 TTGTAA
66 TTGTAA
4207005 TTATTATTAT
Statistics
Matches: 126, Mismatches: 15, Indels: 15
0.81 0.10 0.10
Matches are distributed among these distances:
76 40 0.32
77 10 0.08
78 11 0.09
79 65 0.52
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.40
Consensus pattern (79 bp):
CTTTAAATAAACCGATAGCTAGTTTAACGTAATAAGTTGCACTTATTTTATTTTAACCGGTTAAG
TTGTAAAAAAATAC
Found at i:4233544 original size:592 final size:584
Alignment explanation
Indices: 4232474--4233653 Score: 1740
Period size: 592 Copynumber: 2.0 Consensus size: 584
4232464 AAAGCACGAT
* *
4232474 ACCTGCCATGTTGTCGTCAAAATGTGTGTACTCGTGGAACATTTTCAAGATGGCGACAACAATGG
1 ACCTGCCATGTTGTCGTCAAAACGCGTGTACTCGTGGAACATTTTCAAGATGGCGACAACAATGG
* *
4232539 GGTGAATGACATGGCCTTTCAGTTAGGCTGAAGATTTAAACAGCAACAACCAGAATTTTGTATGC
66 GGTGAATGACATGACCTTTCAGTTAGGCTGAAGATTTAAACAGCAACAACCAGAATTTCGTATGC
* * * *
4232604 TACACTGATTTGAAATCAAAACAAAGTAAAAAAACACATGAATATCACTTAATGAACTTCCTTGC
131 AACACTGATTAGAAATCAAAACAAAGTAAAAAAACACATGAATATCAATTAATAAACTTCCTTGC
* * *
4232669 ATATGAGCTGAGAATCTAACCATAAACACTTTTTGTATCTAATGTTTCCAACCAGATGCATACAT
196 ATATGAGCCGAGAATCTAACCATAAACACTCTTTGTATCTAATGATTCCAACCAGATGCATACAT
4232734 GATTCAAAGCTAACCAGAGACTTCCAACAAGAAGGAAACAGAACAAAGCACGATAACTGCCATGT
261 GATTCAAAGCTAACCAGAGACTTCCAACAAGAAGGAAACAGAACAAAGCACGATAACTGCCATGT
* * * * * *
4232799 CGTCGTCAAAATGCGTGTGTTCGTTGAACATTTTCAAGATGGCGACAACAATGGGATGAATGACA
326 CGTCATCAAAACGCATGTGTTCGTGGAACATTTTCAAGATGGCAACAACAATGGGATGAAGGACA
* * * * *
4232864 TAGCCTTTCTGATAGGCTGGAGTTTTAAACAGTAACAACCCAGCATTTTGTATGGAACACTGAAT
391 CAGCCTTTCAGATAGGCTGAAGCTTTAAACAGCAACAACCCAGCATTTTGTATGGAACACTGAAT
* * *
4232929 TCGAAATCAAAACAAAGTAGAAAAGACATGAATATTCTGGCACTTAATGAA-C-TTCCTTGCATA
456 TCGAAATCAAAACAAAATAGAAAACACATGAATATTCTGGCACTTAATGAATCGTTCCTAGCATA
*
4232992 TGAGCTGAGAATATAACCATAAACACCTTTGTATTCAATGTTTCCAACCAGATGCGTATATGAA
521 TGAGCTGAGAATATAACCATAAACACCTTTGTATTCAATGTTTCCAACCAGATGCATATATGAA
* * **
4233056 ACCTGCCATGTTGTCGTCAAAACGCGTGTGCTTGTGGAACATTTTCAAGATGTTGACAACAATGG
1 ACCTGCCATGTTGTCGTCAAAACGCGTGTACTCGTGGAACATTTTCAAGATGGCGACAACAATGG
* * *
4233121 GGTGAATGACATGACCTTTCAGTTAGGTTGAAGCTTTAAACTGCAACAACCCAGAATTTCGTATG
66 GGTGAATGACATGACCTTTCAGTTAGGCTGAAGATTTAAACAGCAACAA-CCAGAATTTCGTATG
*
4233186 GAACACTGAATTAGAAATCAAAACAAAGTAAAAAAAAAACACATGAATATTCTGGAAATTAATAA
130 CAACACTG-ATTAGAAATCAAAACAAAGT---AAAAAAACACATGAATA-TC----AATTAATAA
* *
4233251 ACTTCCTTGCATATGAGCCGAGAATCTAACCATAAATAC-CTTTGTAT-TCAATGATTCCAATCA
186 ACTTCCTTGCATATGAGCCGAGAATCTAACCATAAACACTCTTTGTATCT-AATGATTCCAACCA
* **
4233314 GATGCATATATGATTCATGGC-ACACCAGAGACTTCCAACAAGAAGGAAACAGAACAAAGCACGA
250 GATGCATACATGATTCAAAGCTA-ACCAGAGACTTCCAACAAGAAGGAAACAGAACAAAGCACGA
* * *
4233378 TACCTGCCATGTTGTCATCAAAACGCATGTGTTTGTGGAACATTTTCAAGATGGCAACAACAATG
314 TAACTGCCATGTCGTCATCAAAACGCATGTGTTCGTGGAACATTTTCAAGATGGCAACAACAATG
* *
4233443 GGAGTGAAGGACACAGCCTTTCAGTTAGGCTGAAGCTTTAAACAGCAATAACCCAGCATTTTGTA
379 GGA-TGAAGGACACAGCCTTTCAGATAGGCTGAAGCTTTAAACAGCAACAACCCAGCATTTTGTA
*
4233508 TGGAACACTGAATTGGAAATCAAAACAAAATAGAAAACACATGAATATTCTGGCACTTAATGAAC
443 TGGAACACTGAATTCGAAATCAAAACAAAATAGAAAACACATGAATATTCTGGCACTTAATGAA-
* *
4233573 TTCTGAGTTCCTAGCATATGAGCTGAGAATATAACCATAAACACTTTTGTATTTAATGTTTCCAA
507 -TC---GTTCCTAGCATATGAGCTGAGAATATAACCATAAACACCTTTGTATTCAATGTTTCCAA
4233638 CCAGATGCATATATGA
568 CCAGATGCATATATGA
4233654 TTCATATCTC
Statistics
Matches: 531, Mismatches: 47, Indels: 23
0.88 0.08 0.04
Matches are distributed among these distances:
582 104 0.20
583 20 0.04
584 19 0.04
587 17 0.03
588 2 0.00
590 2 0.00
591 138 0.26
592 158 0.30
595 1 0.00
599 70 0.13
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (584 bp):
ACCTGCCATGTTGTCGTCAAAACGCGTGTACTCGTGGAACATTTTCAAGATGGCGACAACAATGG
GGTGAATGACATGACCTTTCAGTTAGGCTGAAGATTTAAACAGCAACAACCAGAATTTCGTATGC
AACACTGATTAGAAATCAAAACAAAGTAAAAAAACACATGAATATCAATTAATAAACTTCCTTGC
ATATGAGCCGAGAATCTAACCATAAACACTCTTTGTATCTAATGATTCCAACCAGATGCATACAT
GATTCAAAGCTAACCAGAGACTTCCAACAAGAAGGAAACAGAACAAAGCACGATAACTGCCATGT
CGTCATCAAAACGCATGTGTTCGTGGAACATTTTCAAGATGGCAACAACAATGGGATGAAGGACA
CAGCCTTTCAGATAGGCTGAAGCTTTAAACAGCAACAACCCAGCATTTTGTATGGAACACTGAAT
TCGAAATCAAAACAAAATAGAAAACACATGAATATTCTGGCACTTAATGAATCGTTCCTAGCATA
TGAGCTGAGAATATAACCATAAACACCTTTGTATTCAATGTTTCCAACCAGATGCATATATGAA
Found at i:4235289 original size:36 final size:36
Alignment explanation
Indices: 4235249--4235317 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
4235239 AATGAATGGG
* *
4235249 TTGATTACTAACATGTGTTCATATCTACTTAATTGT
1 TTGATTACTAACACGTGGTCATATCTACTTAATTGT
4235285 TTGATTACTAACACGTGGTCATATCTACTTAAT
1 TTGATTACTAACACGTGGTCATATCTACTTAAT
4235318 CCGTCAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (36 bp):
TTGATTACTAACACGTGGTCATATCTACTTAATTGT
Found at i:4235331 original size:36 final size:36
Alignment explanation
Indices: 4235255--4235333 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 36
4235245 TGGGTTGATT
* * * ** *
4235255 ACTAACATGTGTTCATATCTACTTAATTGTTTGATT
1 ACTAACACGTGGTCATATCTACTTAATCGTTCAATA
4235291 ACTAACACGTGGTCATATCTACTTAATCCG-TCAATA
1 ACTAACACGTGGTCATATCTACTTAAT-CGTTCAATA
4235327 ACTAACA
1 ACTAACA
4235334 AAACTCACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
36 35 0.97
37 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (36 bp):
ACTAACACGTGGTCATATCTACTTAATCGTTCAATA
Found at i:4235446 original size:122 final size:121
Alignment explanation
Indices: 4235230--4235462 Score: 367
Period size: 122 Copynumber: 1.9 Consensus size: 121
4235220 ATAGCATGTA
* * *
4235230 CTCAGAGCTAATGAATGGGTTGATTACTAACATGTGTTCATATCTACTTAATTGTTTGATTACTA
1 CTCAGAGCTAATGAATCGGTTGATTACGAACACGTGTTCATATCTACTTAATTGTTTGATTACTA
*
4235295 ACACGTGGTCATATCTACTTAATCCGTCAATAACTAACAAAACTCACAACAATGAG
66 ACACGTGGTCATATCTACTTAATACGTCAATAACTAACAAAACTCACAACAATGAG
* * * *
4235351 CTCAGAGCTACTGAATCGGTTGATTTCGAACACGTGTTCGGTGTCTACTTAATTGTTTGATTACT
1 CTCAGAGCTAATGAATCGGTTGATTACGAACACGTGTTC-ATATCTACTTAATTGTTTGATTACT
* *
4235416 AACGCGTGGTCATATCTACTTAATACGTCAATAACTAACAAAGCTCA
65 AACACGTGGTCATATCTACTTAATACGTCAATAACTAACAAAACTCA
4235463 TAACTACTAT
Statistics
Matches: 101, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
121 34 0.34
122 67 0.66
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (121 bp):
CTCAGAGCTAATGAATCGGTTGATTACGAACACGTGTTCATATCTACTTAATTGTTTGATTACTA
ACACGTGGTCATATCTACTTAATACGTCAATAACTAACAAAACTCACAACAATGAG
Found at i:4235949 original size:36 final size:37
Alignment explanation
Indices: 4235896--4235979 Score: 127
Period size: 36 Copynumber: 2.3 Consensus size: 37
4235886 TTATTGTCCT
4235896 CTAACACGT-GTTCGTATCTACTCAACCGTTTGATTA
1 CTAACACGTGGTTCGTATCTACTCAACCGTTTGATTA
* *
4235932 CTAACACGTGGTT-GTATCTACTTAATCGTTTGATTA
1 CTAACACGTGGTTCGTATCTACTCAACCGTTTGATTA
*
4235968 CTAACAGGTGGT
1 CTAACACGTGGT
4235980 CATTCTACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
36 41 0.93
37 3 0.07
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (37 bp):
CTAACACGTGGTTCGTATCTACTCAACCGTTTGATTA
Found at i:4235973 original size:259 final size:257
Alignment explanation
Indices: 4235379--4235960 Score: 699
Period size: 259 Copynumber: 2.2 Consensus size: 257
4235369 GTTGATTTCG
* * * *
4235379 AACACGTGTTCGGTGTCTACTTAATTGTTTGATTACTAACGCGTGGTCATATCTACTTAATACGT
1 AACACGTGTTC-GTATCTACTTAATCGTTTGATTACTAACACGTGGT-TTATCTACTTAAT-CGT
4235444 CAATAACTAACAAAGCTCATAACTACTATCCAAAAATTACGAACACATTTCTCCAATCAATCAAC
63 CAATAACTAACAAAGCTCATAACTACTATCCAAAAATTACGAACACATTTCTCCAATCAATCAAC
* * *
4235509 TGTCAGCACACTAAGAACATTTTATCTGACCAATGCATATAGGAAAGAACAAAATAAGAATGAAA
128 TGTCAGCAAACTAAGAACACTTTATCTGACCAATGCATATAGGAAAGAACAAAATAAGAAAGAAA
* *
4235574 CACATGCACATCAAAACAATCATGCATCCCAAACTTTCTAGATTGATAAACAGTTATCATGCTCT
193 CACATGCACATCAAAACAATCATGCATCCCAAACTTTCTAGACTGATAAACAGTTATCATCCTCT
** * * * * * * * *
4235639 AA-ATTATTTTCATATCTACTTAATCATTTGATTACTAACTCATGGCCTTATCCACTCT-ATCCA
1 AACA-CGTGTTCGTATCTACTTAATCGTTTGATTACTAACACGTGG-TTTATCTACT-TAAT-CG
* * * * * * **
4235702 TCAATAACTAACAAAGCTCATTACTACTATCTAATAATTGCTAATATGTTTCTCCAATCAATCAA
62 TCAATAACTAACAAAGCTCATAACTACTATCCAAAAATTACGAACACATTTCTCCAATCAATCAA
* * *
4235767 CTGTCAGCAAACTCAGAACACTTTATCTGACCGAA-GCATGTTA-GAAAGAACAAAATTAGAAAG
127 CTGTCAGCAAACTAAGAACACTTTATCTGACC-AATGCAT-ATAGGAAAGAACAAAATAAGAAAG
* **
4235830 AAACACATGCACATCAAAACAAGT-ATGCATCCCGAACTTTCCTA-ACTGATAAACAGTTATTGT
190 AAACACATGCACATCAAAACAA-TCATGCATCCCAAACTTT-CTAGACTGATAAACAGTTATCAT
4235893 CCTCT
253 CCTCT
* *
4235898 AACACGTGTTCGTATCTACTCAACCGTTTGATTACTAACACGTGGTTGTATCTACTTAATCGT
1 AACACGTGTTCGTATCTACTTAATCGTTTGATTACTAACACGTGGTT-TATCTACTTAATCGT
4235961 TTGATTACTA
Statistics
Matches: 267, Mismatches: 45, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
258 4 0.01
259 247 0.93
260 16 0.06
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (257 bp):
AACACGTGTTCGTATCTACTTAATCGTTTGATTACTAACACGTGGTTTATCTACTTAATCGTCAA
TAACTAACAAAGCTCATAACTACTATCCAAAAATTACGAACACATTTCTCCAATCAATCAACTGT
CAGCAAACTAAGAACACTTTATCTGACCAATGCATATAGGAAAGAACAAAATAAGAAAGAAACAC
ATGCACATCAAAACAATCATGCATCCCAAACTTTCTAGACTGATAAACAGTTATCATCCTCT
Found at i:4236255 original size:289 final size:293
Alignment explanation
Indices: 4235648--4236262 Score: 724
Period size: 289 Copynumber: 2.1 Consensus size: 293
4235638 TAAATTATTT
* * *
4235648 TCATATCTACTTAATCATTTGATTACTAACTCATGGCCTTATCCACTCTATCCATCAATAACTAA
1 TCATATCTACTTAATCATTTGATTACTAACACATGGCCATATCCACTCTAGCCATCAATAACTAA
* * * *
4235713 CAAAGCTCATTACTACTATCTAATAATTGCTAATATGTTTCTCCAATCAATCAACTGTCAGCAAA
66 CAAAGCTCATTAC-AC-ATCCAATAATTACTAACATGTTTCTCCAAGCAATCAACTGTCAGCAAA
* *
4235778 CTCAGAACACTTTATCTGACCGAAGCATGTTAGAAAGAACAAAATTAGAAAGAAACACATGCACA
129 CTAAGAACACTTTATCTGACCGAAGCATGTTAGAAAGAACAAAATGAGAAAGAAACACATGCACA
* *
4235843 TCAAAACAAGTATGCATCCCGAACTTTCCTAACTGATAAACAGTTATTGTCCTCTAACACGTGTT
194 TCAAAACAAGTATGCATCCCGAACTTTCCGAACTGATAAACAGTCATTGTCCTCTAACACGTGTT
** * *
4235908 CGTATCTACTCAACCGTTTGATTACTAACACGTGG
259 CAAATCCACTCAACCGTTTGATCACTAACACGTGG
** * ** * *
4235943 TTGTATCTACTTAATCGTTTGATTACTAACAGGTGGTCAT-TCTACT-TAAGCCATCAATAACTA
1 TCATATCTACTTAATCATTTGATTACTAACACATGGCCATATCCACTCT-AGCCATCAATAACTA
* * * **
4236006 GCAAAGCTCA-TA-A-ATCCAATAATTACTGACATGTTTCTCGAAGCAATTGACTGTTC-GCAAA
65 ACAAAGCTCATTACACATCCAATAATTACTAACATGTTTCTCCAAGCAATCAACTG-TCAGCAAA
* ** * * *
4236067 CTAAGAACATTTTATCTGACTTATGCATG-TAGGAAAGAACAAAGTGAGAAAGAAACACGTGCAC
129 CTAAGAACACTTTATCTGACCGAAGCATGTTA-GAAAGAACAAAATGAGAAAGAAACACATGCAC
* * * * * * * *
4236131 ATCAAAACTAGTATGCATCCCTAACTTTCCGGATTGGTAAACAGTCA-TGATGCTCTAATATGTG
193 ATCAAAACAAGTATGCATCCCGAACTTTCCGAACTGATAAACAGTCATTG-TCCTCTAACACGTG
* * *
4236195 TTCAAATCCACTTAATCGTTTGATCACTATCACGTGG
257 TTCAAATCCACTCAACCGTTTGATCACTAACACGTGG
4236232 TCATATCTACTTAATCATTTGATTACTAACA
1 TCATATCTACTTAATCATTTGATTACTAACA
4236263 AAGCTCATAA
Statistics
Matches: 269, Mismatches: 47, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
288 4 0.01
289 199 0.74
290 2 0.01
291 1 0.00
293 3 0.01
294 28 0.10
295 32 0.12
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.31
Consensus pattern (293 bp):
TCATATCTACTTAATCATTTGATTACTAACACATGGCCATATCCACTCTAGCCATCAATAACTAA
CAAAGCTCATTACACATCCAATAATTACTAACATGTTTCTCCAAGCAATCAACTGTCAGCAAACT
AAGAACACTTTATCTGACCGAAGCATGTTAGAAAGAACAAAATGAGAAAGAAACACATGCACATC
AAAACAAGTATGCATCCCGAACTTTCCGAACTGATAAACAGTCATTGTCCTCTAACACGTGTTCA
AATCCACTCAACCGTTTGATCACTAACACGTGG
Found at i:4236308 original size:548 final size:552
Alignment explanation
Indices: 4235394--4236408 Score: 1286
Period size: 548 Copynumber: 1.8 Consensus size: 552
4235384 GTGTTCGGTG
* * *
4235394 TCTACTTAATTGTTTGATTACTAACGCGTGGTCATATCTACTTAATACGTCAATAACTAACAAAG
1 TCTACTTAATCGTTTGATTACTAACGCGTGGTCATATCTACTTAAGACATCAATAACTAACAAAG
* *
4235459 CTCATAACTACTATCCAAAAATTACGAACACATTTCTCCAATCAATCAACTGTCAGCACACTAAG
66 CTCATAAC-AC-ATCCAAAAATTACGAACACATTTCTCCAAGCAATCAACTGTCAGCAAACTAAG
*
4235524 AACATTTTATCTGACCAATGCATATAGGAAAGAACAAAATAAGAATGAAACACATGCACATCAAA
129 AACATTTTATCTGACCAATGCATATAGGAAAGAACAAAATAAGAAAGAAACACATGCACATCAAA
* * *
4235589 ACAATCATGCATCCCAAACTTTCTAGATTGATAAACAGTTATCATGCTCTAAATTATTTTCATAT
194 ACAATCATGCATCCCAAACTTTCCAGATTGATAAACAGTCATCATGCTCTAAATTATTTTCAAAT
* * * *
4235654 CTACTTAATCATTTGATTACTAACTCATGGCCTTATCCACTCTATCCATCAATAACTAACAAAGC
259 CCACTTAATCATTTGATCACTAACACATGGCCATATCCACTCTATCCATCAATAACTAACAAAGC
* * * * *
4235719 TCATTACTACTATCTAATAATTGCTAATATGTTTCTCCAATCAATCAACTGTCAGCAAACT-CAG
324 TCATAACTACTATCCAATAATTACTAATATGTTTATCCAATCAATCAACTATCAGCAAACTAC-G
* * * *
4235783 AACACTTTATCT-GACCGAAGCATGT-TAGAAAGAACAAAATTAGAAAGAAACACATGCACATCA
388 AACACTTTATCTAG-CCGAAGCATATAT-GAAAGAACAAAATGAGAAAGAAACAAAGGCACATCA
4235846 AAACAAGTATGCATCCCGAACTTTCCTAACTGATAAACAGTTATTGTCCTCTAACACGTGTTCGT
451 AAACAAGTATGCATCCCGAACTTTCCTAACTGATAAACAGTTATTGTCCTCTAACACGTGTTCGT
4235911 ATCTACTCAACCGTTTGATTACTAACACGTGGTTGTA
516 ATCTACTCAACCGTTTGATTACTAACACGTGGTTGTA
* *
4235948 TCTACTTAATCGTTTGATTACTAACAG-GTGGTCAT-TCTACTTAAGCCATCAATAACTAGCAAA
1 TCTACTTAATCGTTTGATTACTAAC-GCGTGGTCATATCTACTTAAGACATCAATAACTAACAAA
* ** * **
4236011 GCTCAT-A-A-ATCCAATAATTACTG-ACATGTTTCTCGAAGCAATTGACTGTTC-GCAAACTAA
65 GCTCATAACACATCCAAAAATTAC-GAACACATTTCTCCAAGCAATCAACTG-TCAGCAAACTAA
** * * * *
4236071 GAACATTTTATCTGACTTATGCATGTAGGAAAGAACAAAGTGAGAAAGAAACACGTGCACATCAA
128 GAACATTTTATCTGACCAATGCATATAGGAAAGAACAAAATAAGAAAGAAACACATGCACATCAA
* * * * *
4236136 AACTAGT-ATGCATCCCTAACTTTCCGGATTGGTAAACAGTCATGATGCTCT-AA-TATGTGTTC
193 AAC-AATCATGCATCCCAAACTTTCCAGATTGATAAACAGTCATCATGCTCTAAATTAT-T-TTC
* * * * * ** *
4236198 AAATCCACTTAATCGTTTGATCACTATCACGTGGTCATATCTACT-TAAT-CATTTGATTACTAA
255 AAATCCACTTAATCATTTGATCACTAACACATGGCCATATCCACTCT-ATCCA-TCAATAACTAA
* * * * *
4236261 CAAAGCTCATAACTGCTATCCCATAATTACTAATGTGTTTATCCAATCAATCAACTATCGGTAAA
318 CAAAGCTCATAACTACTATCCAATAATTACTAATATGTTTATCCAATCAATCAACTATCAGCAAA
** * *
4236326 CTACGAACACTTTATCTAGTTGATGCATATATGAAAGAACAAAATGAGAAAGAAACAAAGGCACG
383 CTACGAACACTTTATCTAGCCGAAGCATATATGAAAGAACAAAATGAGAAAGAAACAAAGGCACA
4236391 TCAAAACAAGTATGCATC
448 TCAAAACAAGTATGCATC
4236409 ATGAAATTTC
Statistics
Matches: 392, Mismatches: 58, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
546 3 0.01
547 6 0.02
548 310 0.79
549 8 0.02
550 1 0.00
552 1 0.00
553 30 0.08
554 32 0.08
555 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.29
Consensus pattern (552 bp):
TCTACTTAATCGTTTGATTACTAACGCGTGGTCATATCTACTTAAGACATCAATAACTAACAAAG
CTCATAACACATCCAAAAATTACGAACACATTTCTCCAAGCAATCAACTGTCAGCAAACTAAGAA
CATTTTATCTGACCAATGCATATAGGAAAGAACAAAATAAGAAAGAAACACATGCACATCAAAAC
AATCATGCATCCCAAACTTTCCAGATTGATAAACAGTCATCATGCTCTAAATTATTTTCAAATCC
ACTTAATCATTTGATCACTAACACATGGCCATATCCACTCTATCCATCAATAACTAACAAAGCTC
ATAACTACTATCCAATAATTACTAATATGTTTATCCAATCAATCAACTATCAGCAAACTACGAAC
ACTTTATCTAGCCGAAGCATATATGAAAGAACAAAATGAGAAAGAAACAAAGGCACATCAAAACA
AGTATGCATCCCGAACTTTCCTAACTGATAAACAGTTATTGTCCTCTAACACGTGTTCGTATCTA
CTCAACCGTTTGATTACTAACACGTGGTTGTA
Found at i:4237493 original size:42 final size:42
Alignment explanation
Indices: 4237428--4238252 Score: 635
Period size: 42 Copynumber: 19.4 Consensus size: 42
4237418 CTGAGTAGCT
* * * * * * *
4237428 GAAACATCAGAACCATCGGTGACTTTCTCCTCTGAAGTAACC
1 GAAACACCAGAACCGTTGATGACTTTCTTCTCCGAAGGAACC
*
4237470 GAAACACCAGAACTGTTGATGACTTTCTTCTTCTCCGAAGGAACC
1 GAAACACCAGAACCGTTGATGAC--T-TTCTTCTCCGAAGGAACC
* *
4237515 GAAACACCAGAACTGTTGATGACTTTCTTCTCTGAAGGAACC
1 GAAACACCAGAACCGTTGATGACTTTCTTCTCCGAAGGAACC
** ***
4237557 GAACCACTAGTAGAACCAACGATGACTTTCTTCTCCGAAGGAACC
1 GAA--AC-ACCAGAACCGTTGATGACTTTCTTCTCCGAAGGAACC
* *
4237602 GAAACACCAGAACCTTTGATGACTTTCTTCTCTGAA-GAAGCC
1 GAAACACCAGAACCGTTGATGACTTTCTTCTCCGAAGGAA-CC
** * *
4237644 GAAACACCAGAACCAATAATGAGTTTCTTCTCCGAAGGAACC
1 GAAACACCAGAACCGTTGATGACTTTCTTCTCCGAAGGAACC
* ** * *
4237686 GAAACGCCAGAACCAATAATGAGTTTCTTCTCCGAAGGAACC
1 GAAACACCAGAACCGTTGATGACTTTCTTCTCCGAAGGAACC
* *** * *
4237728 GAAACACCAGAATCAAAGATGACTTTTTTCTCCGAAGAAACC
1 GAAACACCAGAACCGTTGATGACTTTCTTCTCCGAAGGAACC
** * *
4237770 GAAACACCAGAACCAATAATGACTTTCTTCTCCGAAGGAACA
1 GAAACACCAGAACCGTTGATGACTTTCTTCTCCGAAGGAACC
**** * *
4237812 GAAACACCAGAACCAAAAAAGAATTTCTTCTCCGAAGGAACC
1 GAAACACCAGAACCGTTGATGACTTTCTTCTCCGAAGGAACC
** * *
4237854 GAAACACCAGAACCAATAATGACTTTCTTCTCCGAAGGACCC
1 GAAACACCAGAACCGTTGATGACTTTCTTCTCCGAAGGAACC
* *
4237896 GAAACACCAGAACCGTGGATGAC---CTTCTCCGAAGTAACC
1 GAAACACCAGAACCGTTGATGACTTTCTTCTCCGAAGGAACC
* * * *
4237935 CAAACACCAGAAGGTCCAGAACTGCTGATGAATTTCCTCTCCGGAGCG-ACC
1 GAAACACCAGAA---CC-G---T--TGATGACTTTCTTCTCCGAAG-GAACC
* * *
4237986 GAAACTCCAGAACTGTTGATGACTTTCTTCTCCGAAGAAACC
1 GAAACACCAGAACCGTTGATGACTTTCTTCTCCGAAGGAACC
* * * * * *
4238028 CAAGCACCAGAACTGTTGACGACTTTCTCCCCCGAAGTG-ACC
1 GAAACACCAGAACCGTTGATGACTTTCTTCTCCGAAG-GAACC
* * * * * **
4238070 GAAGCACGAGGACCGTTGATGAATTTCTTATCCGGATTG-ACC
1 GAAACACCAGAACCGTTGATGACTTTCTTCTCC-GAAGGAACC
* * *
4238112 GAAACACCAGAACCGGTGATGACTTTCTTCTCCGAAGTACCC
1 GAAACACCAGAACCGTTGATGACTTTCTTCTCCGAAGGAACC
* * * * * * *
4238154 CAAACGCAAGAACCATTGGTGGCCTTCTTCTCCGAA-GAGACC
1 GAAACACCAGAACCGTTGATGACTTTCTTCTCCGAAGGA-ACC
** * * *
4238196 GAAACACCAGAATTGTTGATGA-TTCTCTTCTCAGGAGTAACC
1 GAAACACCAGAACCGTTGATGACTT-TCTTCTCCGAAGGAACC
4238238 -ATAACACCAGAACCG
1 GA-AACACCAGAACCG
4238253 ACGAAGGCTT
Statistics
Matches: 634, Mismatches: 120, Indels: 58
0.78 0.15 0.07
Matches are distributed among these distances:
39 25 0.04
41 8 0.01
42 486 0.77
43 10 0.02
44 4 0.01
45 71 0.11
46 1 0.00
47 1 0.00
48 6 0.01
51 22 0.03
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (42 bp):
GAAACACCAGAACCGTTGATGACTTTCTTCTCCGAAGGAACC
Found at i:4237990 original size:90 final size:91
Alignment explanation
Indices: 4237872--4238039 Score: 223
Period size: 90 Copynumber: 1.8 Consensus size: 91
4237862 AGAACCAATA
* * *
4237872 ATGACTTTCTTCTCCGAAGGACCCGAAACACCAGAACCGTGGATGAC-CTTCTCCGAAGTAACCC
1 ATGAATTTCCTCTCCGAAGGACCCGAAACACCAGAACCGTGGATGACTCTTCTCCGAAGAAACCC
4237936 AAACACCAGAAGGTCCAGAACTGCTG
66 AAACACCAGAAGGTCCAGAACTGCTG
* * * *
4237962 ATGAATTTCCTCTCCGGAGCGA-CCGAAACTCCAGAACTGTTGATGACTTTCTTCTCCGAAGAAA
1 ATGAATTTCCTCTCCGAAG-GACCCGAAACACCAGAACCGTGGATGAC--TCTTCTCCGAAGAAA
*
4238026 CCCAAGCACCAGAA
63 CCCAAACACCAGAA
4238040 CTGTTGACGA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
90 38 0.58
91 2 0.03
93 26 0.39
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (91 bp):
ATGAATTTCCTCTCCGAAGGACCCGAAACACCAGAACCGTGGATGACTCTTCTCCGAAGAAACCC
AAACACCAGAAGGTCCAGAACTGCTG
Found at i:4239445 original size:2 final size:2
Alignment explanation
Indices: 4239438--4239493 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
4239428 GGGTGAAAGG
4239438 AT AT AT AT 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 AT
4239480 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
4239494 TCGTTTCGTG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4244730 original size:21 final size:21
Alignment explanation
Indices: 4244682--4244730 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
4244672 AAAGTATATC
4244682 AAATTAATAAATAATACTATT
1 AAATTAATAAATAATACTATT
* * *
4244703 GATTTAATTAAATAA-ATTATT
1 AAATTAA-TAAATAATACTATT
4244724 AAATTAA
1 AAATTAA
4244731 ATCATTTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
AAATTAATAAATAATACTATT
Found at i:4246239 original size:29 final size:29
Alignment explanation
Indices: 4246185--4246241 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
4246175 GCCTAAAGTT
* *
4246185 TATTTCGTTCCAGTTTGGTTTCTGACGTA
1 TATTTCGTTCCAATTTGGTTGCTGACGTA
4246214 TATTTCGTTCCAATTTGG-TGCATGACGT
1 TATTTCGTTCCAATTTGGTTGC-TGACGT
4246242 TTCATTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.46
Consensus pattern (29 bp):
TATTTCGTTCCAATTTGGTTGCTGACGTA
Found at i:4256946 original size:60 final size:60
Alignment explanation
Indices: 4256834--4257075 Score: 256
Period size: 60 Copynumber: 4.0 Consensus size: 60
4256824 CAGCATATGT
* * *
4256834 TCCC-AAACTATAATCTTCA-TTTTAAATT-GATCTTTAAACTTTTAAATATTCTAATTTCA
1 TCCCTAAACTATGATCTT-ATTTTTAAATTAG-TCATTAAACTTTTGAATATTCTAATTTCA
* * * * * * *
4256893 TTCTTAAGCTATGATTTTATTTTTAAATTAGTCATTAAATTTTTGAACATTCTAATTCCA
1 TCCCTAAACTATGATCTTATTTTTAAATTAGTCATTAAACTTTTGAATATTCTAATTTCA
* *
4256953 TCCCTAAACTATGATCTTCTTTTTAAATTAGTCATTAAACTTTGGAATATTCTAATTTCA
1 TCCCTAAACTATGATCTTATTTTTAAATTAGTCATTAAACTTTTGAATATTCTAATTTCA
* * * * * ** * *
4257013 TCCCTAAACTACGATCCTCTTTCTAAATTAGCCCCTAAACTTTTGGATATTCAAATTTCA
1 TCCCTAAACTATGATCTTATTTTTAAATTAGTCATTAAACTTTTGAATATTCTAATTTCA
4257073 TCC
1 TCC
4257076 TCAAATTCAT
Statistics
Matches: 152, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
59 3 0.02
60 148 0.97
61 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.44
Consensus pattern (60 bp):
TCCCTAAACTATGATCTTATTTTTAAATTAGTCATTAAACTTTTGAATATTCTAATTTCA
Found at i:4262377 original size:16 final size:16
Alignment explanation
Indices: 4262356--4262386 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4262346 ATGAATAAAT
4262356 GAACATAAACGAACAC
1 GAACATAAACGAACAC
4262372 GAACATAAACGAACA
1 GAACATAAACGAACA
4262387 ATTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (16 bp):
GAACATAAACGAACAC
Found at i:4262479 original size:16 final size:16
Alignment explanation
Indices: 4262458--4262516 Score: 82
Period size: 16 Copynumber: 3.7 Consensus size: 16
4262448 ATAAATAAAT
*
4262458 GAACATAAACGAACTC
1 GAACATAAACGAACAC
*
4262474 GAACATAAACGAACAA
1 GAACATAAACGAACAC
* *
4262490 TAACATAAATGAACAC
1 GAACATAAACGAACAC
4262506 GAACATAAACG
1 GAACATAAACG
4262517 TTGGAGACCC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.56, C:0.20, G:0.12, T:0.12
Consensus pattern (16 bp):
GAACATAAACGAACAC
Found at i:4263645 original size:14 final size:14
Alignment explanation
Indices: 4263599--4263637 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
4263589 AAACATAAAT
4263599 GAACGAACATAACC
1 GAACGAACATAACC
4263613 GAACGAACATAACC
1 GAACGAACATAACC
4263627 GAACGAACATA
1 GAACGAACATA
4263638 TCCAAACGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.51, C:0.26, G:0.15, T:0.08
Consensus pattern (14 bp):
GAACGAACATAACC
Found at i:4263645 original size:28 final size:28
Alignment explanation
Indices: 4263590--4263645 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
4263580 TATTGGATTA
* *
4263590 AACATAAATGAACGAACATAACCGAACG
1 AACATAAACGAACGAACATAACCAAACG
* *
4263618 AACATAACCGAACGAACATATCCAAACG
1 AACATAAACGAACGAACATAACCAAACG
4263646 TTCACGAACG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.52, C:0.25, G:0.12, T:0.11
Consensus pattern (28 bp):
AACATAAACGAACGAACATAACCAAACG
Found at i:4267214 original size:18 final size:19
Alignment explanation
Indices: 4267191--4267284 Score: 104
Period size: 19 Copynumber: 4.9 Consensus size: 19
4267181 TCTGTTTGCA
4267191 AAAAAAACCGG-TTTTTTT
1 AAAAAAACCGGATTTTTTT
*
4267209 AAAAAAACCGGTTTTTTTT
1 AAAAAAACCGGATTTTTTT
*
4267228 AAAAAAACCGGATTTTTTCGG
1 AAAAAAACCGGATTTTTT--T
* *
4267249 ATAAAAATCCAG-TTTTTTT
1 A-AAAAAACCGGATTTTTTT
4267268 -AAAAAACCGGATTTTTT
1 AAAAAAACCGGATTTTTT
4267285 CCGGATAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
17 8 0.12
18 17 0.27
19 24 0.38
21 7 0.11
22 8 0.12
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (19 bp):
AAAAAAACCGGATTTTTTT
Found at i:4267214 original size:19 final size:19
Alignment explanation
Indices: 4267190--4267273 Score: 89
Period size: 18 Copynumber: 4.3 Consensus size: 19
4267180 TTCTGTTTGC
4267190 AAAAAAAACCGGTTTTTTT
1 AAAAAAAACCGGTTTTTTT
4267209 -AAAAAAACCGGTTTTTTT
1 AAAAAAAACCGGTTTTTTT
* *
4267227 TAAAAAAACCGGATTTTTTCGG
1 AAAAAAAACCGG-TTTTTT--T
* * *
4267249 ATAAAAATCCAGTTTTTTT
1 AAAAAAAACCGGTTTTTTT
4267268 AAAAAA
1 AAAAAA
4267274 CCGGATTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
18 18 0.33
19 16 0.30
20 6 0.11
21 6 0.11
22 8 0.15
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (19 bp):
AAAAAAAACCGGTTTTTTT
Found at i:4267255 original size:40 final size:40
Alignment explanation
Indices: 4267191--4267306 Score: 143
Period size: 40 Copynumber: 3.0 Consensus size: 40
4267181 TCTGTTTGCA
* *
4267191 AAAAAAACCGG-TTTTTT--TAAAAAAACCGGTTTTTTTT
1 AAAAAAACCGGATTTTTTCGGATAAAAACCGGTTTTTTTT
*
4267228 AAAAAAACCGGATTTTTTCGGATAAAAATCCAG-TTTTTTT
1 AAAAAAACCGGATTTTTTCGGATAAAAA-CCGGTTTTTTTT
4267268 -AAAAAACCGGATTTTTTCCGGATAAAAAACCGGTTTTTT
1 AAAAAAACCGGATTTTTT-CGGAT-AAAAACCGGTTTTTT
4267307 ATCCGGTTTG
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
37 11 0.16
38 6 0.09
39 17 0.25
40 21 0.31
41 13 0.19
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (40 bp):
AAAAAAACCGGATTTTTTCGGATAAAAACCGGTTTTTTTT
Found at i:4267283 original size:19 final size:19
Alignment explanation
Indices: 4267192--4267284 Score: 86
Period size: 18 Copynumber: 4.9 Consensus size: 19
4267182 CTGTTTGCAA
*
4267192 AAAAAACCGG-TTTTTTTA
1 AAAAAACCGGATTTTTTTT
4267210 AAAAAACCGG-TTTTTTTT
1 AAAAAACCGGATTTTTTTT
*
4267228 AAAAAAACCGGATTTTTTCGGAT
1 -AAAAAACCGGATTTTTT---TT
* *
4267251 AAAAATCC--AGTTTTTTT
1 AAAAAACCGGATTTTTTTT
4267268 AAAAAACCGGATTTTTT
1 AAAAAACCGGATTTTTT
4267285 CCGGATAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
17 8 0.13
18 17 0.28
19 16 0.26
20 12 0.20
22 7 0.11
23 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.39
Consensus pattern (19 bp):
AAAAAACCGGATTTTTTTT
Found at i:4267285 original size:39 final size:41
Alignment explanation
Indices: 4267210--4267306 Score: 144
Period size: 40 Copynumber: 2.4 Consensus size: 41
4267200 GGTTTTTTTA
*
4267210 AAAAAACCGGTTTTTTTTAAAAAAACCGGATTTTTT-CGGAT
1 AAAAAACCAG-TTTTTTTAAAAAAACCGGATTTTTTCCGGAT
*
4267251 AAAAATCCAGTTTTTTT-AAAAAACCGGATTTTTTCCGGAT
1 AAAAAACCAGTTTTTTTAAAAAAACCGGATTTTTTCCGGAT
*
4267291 AAAAAACCGGTTTTTT
1 AAAAAACCAGTTTTTT
4267307 ATCCGGTTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
39 17 0.33
40 26 0.51
41 8 0.16
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Consensus pattern (41 bp):
AAAAAACCAGTTTTTTTAAAAAAACCGGATTTTTTCCGGAT
Found at i:4267306 original size:24 final size:24
Alignment explanation
Indices: 4267268--4267352 Score: 93
Period size: 27 Copynumber: 3.5 Consensus size: 24
4267258 CAGTTTTTTT
*
4267268 AAAAAACCGGATTTTT-TCCGG-A
1 AAAAAACCGGTTTTTTATCCGGTA
4267290 TAAAAAACCGGTTTTTTATCCGGTTTGA
1 -AAAAAACCGGTTTTTTATCCGG--T-A
* *
4267318 AAAAAACCGGATTTTAATCCGGTA
1 AAAAAACCGGTTTTTTATCCGGTA
4267342 AAAAAACCGGT
1 AAAAAACCGGT
4267353 CGTTCAATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
23 15 0.28
24 16 0.30
25 1 0.02
27 20 0.38
28 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (24 bp):
AAAAAACCGGTTTTTTATCCGGTA
Found at i:4267307 original size:39 final size:38
Alignment explanation
Indices: 4267210--4267307 Score: 133
Period size: 39 Copynumber: 2.4 Consensus size: 38
4267200 GGTTTTTTTA
4267210 AAAAAACCGGTTTTTTTTAAAAAAACCGGATTTTTTCGGAT
1 AAAAAACCGG--TTTTTT-AAAAAACCGGATTTTTTCGGAT
* *
4267251 AAAAATCCAGTTTTTTTAAAAAACCGGATTTTTTCCGGAT
1 AAAAAACC-GGTTTTTTAAAAAACCGGATTTTTT-CGGAT
4267291 AAAAAACCGGTTTTTTA
1 AAAAAACCGGTTTTTTA
4267308 TCCGGTTTGA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
39 25 0.49
40 18 0.35
41 7 0.14
42 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (38 bp):
AAAAAACCGGTTTTTTAAAAAACCGGATTTTTTCGGAT
Found at i:4268212 original size:20 final size:23
Alignment explanation
Indices: 4268189--4268231 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 23
4268179 TTAACACCCA
4268189 TTAAAAAT-T-ATTAAT-TTATT
1 TTAAAAATATAATTAATATTATT
4268209 TTAAAAATATAATTAATATTATT
1 TTAAAAATATAATTAATATTATT
4268232 ATGACCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 6 0.30
23 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAAAAATATAATTAATATTATT
Found at i:4270670 original size:59 final size:59
Alignment explanation
Indices: 4270603--4270721 Score: 186
Period size: 59 Copynumber: 2.0 Consensus size: 59
4270593 ATTTTCCTTG
*
4270603 TATGGTCCTTATGTGATCTTAAGTT-AGCTAATTTTATTGTGTTTAGGAAAATATTTTTA
1 TATGGTCCTTATGTGATCTTAAGTTGA-CTAATTTTATTGTGTTTAGGAAAATATCTTTA
* **
4270662 TATGGTCCTTATGTGATCTTAAGTTGACTAATTTTCTTGTGTTTATTAAAATATCTTTA
1 TATGGTCCTTATGTGATCTTAAGTTGACTAATTTTATTGTGTTTAGGAAAATATCTTTA
4270721 T
1 T
4270722 TATATGTTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 54 0.98
60 1 0.02
ACGTcount: A:0.26, C:0.08, G:0.15, T:0.50
Consensus pattern (59 bp):
TATGGTCCTTATGTGATCTTAAGTTGACTAATTTTATTGTGTTTAGGAAAATATCTTTA
Found at i:4275861 original size:15 final size:15
Alignment explanation
Indices: 4275841--4275871 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4275831 CAACAGATAG
4275841 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
4275856 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
4275871 A
1 A
4275872 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:4276724 original size:249 final size:249
Alignment explanation
Indices: 4276462--4276966 Score: 811
Period size: 249 Copynumber: 2.0 Consensus size: 249
4276452 CTAAGACCCG
* *
4276462 ACCCGACCAAAATAAAGTTTCACCCGATCCGACCTGAATATATGAATTAGAAACCCGACCCGACC
1 ACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGACC
*
4276527 CGAAATTATAAAAAAATTATTTTTATTCAATAAAAACAATGAATTAATT-AGAAAAAA-TATATA
66 CGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAATGAATTAATTGA-AAAAAATTATATA
* * *
4276590 GAGAGAGTTGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATAT-TTTTTGGGTC
130 GAGAG-G-GGTATTACTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTC
*
4276654 GGGTATTTTTCACCCTAAACCCGAACCCGACCCAACCCGAATATCACACTTAAAAAA
193 GGATATTTTTCACCCTAAACCCGAACCCGACCCAACCCGAATATCACACTTAAAAAA
* *
4276711 ACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGACT
1 ACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGACC
* * * *
4276776 CGAAATAATAAAAAAATTATTTTTATTCGATAAAAACAGTGACTTAATTGAAAAAAATTATATAT
66 CGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAATGAATTAATTGAAAAAAATTATATAG
4276841 AGAGGGGTATTACTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGA
131 AGAGGGGTATTACTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGA
* * *
4276906 TATTTTTTACCCTAAACCCGAACTCGACCCGACCCGAATATCACACTTAAAAAA
196 TATTTTTCACCCTAAACCCGAACCCGACCCAACCCGAATATCACACTTAAAAAA
4276960 A-CCGACC
1 ACCCGACC
4276967 CGACCCGACC
Statistics
Matches: 237, Mismatches: 16, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
248 50 0.21
249 176 0.74
250 11 0.05
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (249 bp):
ACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGACC
CGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAATGAATTAATTGAAAAAAATTATATAG
AGAGGGGTATTACTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGA
TATTTTTCACCCTAAACCCGAACCCGACCCAACCCGAATATCACACTTAAAAAA
Found at i:4277976 original size:21 final size:21
Alignment explanation
Indices: 4277950--4277994 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
4277940 ATTCTGACTA
4277950 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
*
4277971 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
4277992 TCG
1 TCG
4277995 TAATGCGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:4278001 original size:21 final size:21
Alignment explanation
Indices: 4277950--4278002 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
4277940 ATTCTGACTA
*
4277950 TCGCATTGCGATTTTCCAAAT
1 TCGCAATGCGATTTTCCAAAT
* *
4277971 TCGCATTGCGATTTTCCTAAT
1 TCGCAATGCGATTTTCCAAAT
*
4277992 TCGTAATGCGA
1 TCGCAATGCGA
4278003 ATACGTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAAAT
Found at i:4278021 original size:20 final size:20
Alignment explanation
Indices: 4277996--4278104 Score: 200
Period size: 20 Copynumber: 5.5 Consensus size: 20
4277986 CCTAATTCGT
4277996 AATGCGAATACGTAAATCGC
1 AATGCGAATACGTAAATCGC
4278016 AATGCGAATACGTAAATCGC
1 AATGCGAATACGTAAATCGC
4278036 AATGCGAATACGTAAATCGC
1 AATGCGAATACGTAAATCGC
4278056 AATGCGAATACGTAAATCGC
1 AATGCGAATACGTAAATCGC
*
4278076 AATGCGAATATGTAAATCGC
1 AATGCGAATACGTAAATCGC
*
4278096 AAAGCGAAT
1 AATGCGAAT
4278105 CTGACTATCG
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 87 1.00
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.20
Consensus pattern (20 bp):
AATGCGAATACGTAAATCGC
Found at i:4278326 original size:22 final size:22
Alignment explanation
Indices: 4278301--4278366 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
4278291 GGCGACATCC
4278301 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
4278323 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
4278345 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
4278367 TTCACGGTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:4278791 original size:20 final size:20
Alignment explanation
Indices: 4278703--4278792 Score: 92
Period size: 20 Copynumber: 4.5 Consensus size: 20
4278693 GCGATTCTGT
4278703 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTTCATTTTCG
** **
4278722 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTTTCATTTTCG
**
4278742 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
* *
4278762 TGTTACGATTTTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
*
4278782 TGTTGCGATTT
1 CGTTGCGATTT
4278793 AATGTTTCAG
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
19 12 0.20
20 48 0.80
ACGTcount: A:0.16, C:0.18, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTCG
Found at i:4280707 original size:20 final size:20
Alignment explanation
Indices: 4280682--4280731 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
4280672 AGAATAGTTT
4280682 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* **
4280702 ACTATCACAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
4280722 ACTATCGCAA
1 ACTATCGCAA
4280732 CGAAAGAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:4280807 original size:20 final size:20
Alignment explanation
Indices: 4280776--4280844 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
4280766 GCGATTCTCT
* *
4280776 CGTTGGGATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
* *
4280796 CATTGCGATAGT-AATTTTTG
1 CGTTGCGATAGTCAA-TTTCG
*
4280816 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
4280836 CGTTGCGAT
1 CGTTGCGAT
4280845 TTTAAGTTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.05
20 37 0.93
21 1 0.03
ACGTcount: A:0.20, C:0.16, G:0.26, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:4281419 original size:21 final size:21
Alignment explanation
Indices: 4281328--4281432 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
4281318 GACTCACCTG
*
4281328 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
4281350 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
4281370 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
4281391 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
4281412 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
4281433 CCAACATTCT
Statistics
Matches: 63, Mismatches: 19, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 59 0.94
22 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:4281425 original size:42 final size:42
Alignment explanation
Indices: 4281325--4281435 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
4281315 CCCGACTCAC
* * * *
4281325 CTGTCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGGCCA
* **
4281367 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
*
4281409 CTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCCTCCCA
4281436 ACATTCTATA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.04
42 52 0.93
43 2 0.04
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
Found at i:4282813 original size:14 final size:14
Alignment explanation
Indices: 4282794--4282829 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4282784 ATTGTTTAAT
4282794 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
4282808 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
4282822 TGATTTGT
1 TGATTTGT
4282830 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:4282974 original size:14 final size:14
Alignment explanation
Indices: 4282955--4282985 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
4282945 GGAAATGACT
4282955 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
4282969 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
4282983 ATC
1 ATC
4282986 ACAATGCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.10
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:4283088 original size:33 final size:34
Alignment explanation
Indices: 4283026--4283101 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 34
4283016 ACTAAATTCG
* *
4283026 CGTTGCAATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTACGATTCTCT
4283060 CGTTGCGATTTTCATTTT-GCATTACGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTACGATTCTCT
4283093 CGTTGCGAT
1 CGTTGCGAT
4283102 AGTCATTTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 23 0.57
34 17 0.43
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTACGATTCTCT
Found at i:4283108 original size:33 final size:34
Alignment explanation
Indices: 4283037--4283109 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 34
4283027 GTTGCAATTT
* **
4283037 TCATTTTCGCATTGCGATTCTCTCGTTGCGATTT
1 TCATTTTCGCATTACGATTCTCTCGTTGCGATAG
4283071 TCATTTT-GCATTACGATTCTCTCGTTGCGATAG
1 TCATTTTCGCATTACGATTCTCTCGTTGCGATAG
4283104 TCATTT
1 TCATTT
4283110 CCGCGTTGCG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 29 0.81
34 7 0.19
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.47
Consensus pattern (34 bp):
TCATTTTCGCATTACGATTCTCTCGTTGCGATAG
Found at i:4283118 original size:20 final size:19
Alignment explanation
Indices: 4283093--4283181 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 19
4283083 ACGATTCTCT
4283093 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
4283113 CGTTGCGATAGTCAATTTCG
1 CGTTGCGATAGTC-ATTTCG
*
4283133 TGTTGCGATAGTCATTTC-
1 CGTTGCGATAGTCATTTCG
4283151 CGTATTGCGATAGTCATATTCG
1 CG--TTGCGATAGTCAT-TTCG
4283173 CGTTGCGAT
1 CGTTGCGAT
4283182 TTCCGCGTTG
Statistics
Matches: 62, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
18 1 0.02
19 5 0.08
20 47 0.76
21 7 0.11
22 2 0.03
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:4283149 original size:40 final size:40
Alignment explanation
Indices: 4283093--4283181 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
4283083 ACGATTCTCT
*
4283093 CGTTGCGATAGTCATTTCCGCGTTGCGATAGTCA-ATTTCG
1 CGTTGCGATAGTCATTTCCGCATTGCGATAGTCATA-TTCG
* *
4283133 TGTTGCGATAGTCATTTCCGTATTGCGATAGTCATATTCG
1 CGTTGCGATAGTCATTTCCGCATTGCGATAGTCATATTCG
4283173 CGTTGCGAT
1 CGTTGCGAT
4283182 TTCCGCGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 43 0.98
41 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (40 bp):
CGTTGCGATAGTCATTTCCGCATTGCGATAGTCATATTCG
Found at i:4285627 original size:23 final size:23
Alignment explanation
Indices: 4285599--4285644 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
4285589 CAAAATCCGA
4285599 GTATTGACCAAGATCAAAGTTCG
1 GTATTGACCAAGATCAAAGTTCG
*
4285622 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
4285645 AATACTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (23 bp):
GTATTGACCAAGATCAAAGTTCG
Found at i:4286544 original size:20 final size:20
Alignment explanation
Indices: 4286478--4286531 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
4286468 AAATTCAGTA
4286478 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
4286498 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
4286518 TTGCGATAGTCAGA
1 TTGCGATAGTCAGA
4286532 TTCGCGTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:4286554 original size:20 final size:20
Alignment explanation
Indices: 4286531--4286579 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
4286521 CGATAGTCAG
* *
4286531 ATTCGCGTTACGATTTACGT
1 ATTCGCATTACAATTTACGT
*
4286551 ATTCGCATTGCAATTTACGT
1 ATTCGCATTACAATTTACGT
4286571 ATTCGCATT
1 ATTCGCATT
4286580 GCGAATTAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.41
Consensus pattern (20 bp):
ATTCGCATTACAATTTACGT
Found at i:4286580 original size:20 final size:21
Alignment explanation
Indices: 4286543--4286586 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
4286533 TCGCGTTACG
4286543 ATTTACGTATTCGCATTGC-A
1 ATTTACGTATTCGCATTGCGA
4286563 ATTTACGTATTCGCATTGCGA
1 ATTTACGTATTCGCATTGCGA
4286584 ATT
1 ATT
4286587 AGGAAAATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (21 bp):
ATTTACGTATTCGCATTGCGA
Found at i:4286597 original size:21 final size:21
Alignment explanation
Indices: 4286573--4286625 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
4286563 ATTTACGTAT
*
4286573 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* *
4286594 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAATTAGGAAAA
4286615 TCGCAATGCGA
1 TCGCAATGCGA
4286626 TAGTCAGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:4287632 original size:2 final size:2
Alignment explanation
Indices: 4287625--4287686 Score: 103
Period size: 2 Copynumber: 32.5 Consensus size: 2
4287615 ATGACATGAT
4287625 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4287665 TA TA TA TA TA TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
4287687 TTTGAATTCG
Statistics
Matches: 57, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
1 3 0.05
2 54 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4287661 original size:32 final size:32
Alignment explanation
Indices: 4287625--4287686 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
4287615 ATGACATGAT
4287625 TATATATATATATATATATATATTATATATAA
1 TATATATATATATATATATATATTATATATAA
4287657 TATATATATATATATATATATATTATATAT
1 TATATATATATATATATATATATTATATAT
4287687 TTTGAATTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
TATATATATATATATATATATATTATATATAA
Found at i:4296103 original size:64 final size:64
Alignment explanation
Indices: 4296002--4296127 Score: 157
Period size: 64 Copynumber: 2.0 Consensus size: 64
4295992 ATGCACTTCT
*
4296002 TTAAAATAAAAACATCGAATGCCATTAGAGTATCGATGCATA-AGTAGTACATCGATGCACCCCC
1 TTAAAATAAAAACATCGAATGCCATTAGAGTACCGATGCATAGA-TAGTACATCGATGCACCCCC
* ** * * *
4296066 TTAAAATACAAACATCGAATGGGATTTA-TGTACCGATGCATAGATTGTGCATCGATGCACCC
1 TTAAAATAAAAACATCGAATGCCA-TTAGAGTACCGATGCATAGATAGTACATCGATGCACCC
4296128 GTCAAAGGAT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
64 49 0.92
65 4 0.08
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (64 bp):
TTAAAATAAAAACATCGAATGCCATTAGAGTACCGATGCATAGATAGTACATCGATGCACCCCC
Found at i:4298657 original size:23 final size:23
Alignment explanation
Indices: 4298605--4298690 Score: 95
Period size: 23 Copynumber: 3.7 Consensus size: 23
4298595 AAGTGTCACA
* *
4298605 TAGAATTTGTCTCGAAGAACCGCG
1 TAGAATTTGTCCCGAAG-ACCACG
4298629 TAGAATTTGTCCCGAAGACCACG
1 TAGAATTTGTCCCGAAGACCACG
**
4298652 TAGAA-TTGTCCCGAAGGACCATA
1 TAGAATTTGTCCCGAA-GACCACG
*
4298675 TAG-ATTTTTCCCGAAG
1 TAGAATTTGTCCCGAAG
4298691 GACTGCGTAG
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
22 12 0.22
23 27 0.49
24 16 0.29
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (23 bp):
TAGAATTTGTCCCGAAGACCACG
Found at i:4311127 original size:6 final size:6
Alignment explanation
Indices: 4311116--4311192 Score: 122
Period size: 6 Copynumber: 13.2 Consensus size: 6
4311106 GACACGTATT
* *
4311116 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCTCG ACCTCG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
4311164 A-C-CG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG A
4311193 GCCGAGCCGT
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
4 3 0.04
5 2 0.03
6 63 0.93
ACGTcount: A:0.31, C:0.49, G:0.17, T:0.03
Consensus pattern (6 bp):
ACCACG
Found at i:4315891 original size:33 final size:33
Alignment explanation
Indices: 4315849--4315915 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
4315839 TTCTGTCGAG
4315849 AGTGTCCCATATTGTCTTGGCACTCCTTTCTCT
1 AGTGTCCCATATTGTCTTGGCACTCCTTTCTCT
4315882 AGTGTCCCATATTGTCTTGGCACTCCTTTCTCT
1 AGTGTCCCATATTGTCTTGGCACTCCTTTCTCT
4315915 A
1 A
4315916 AGGAACATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.13, C:0.30, G:0.15, T:0.42
Consensus pattern (33 bp):
AGTGTCCCATATTGTCTTGGCACTCCTTTCTCT
Found at i:4317072 original size:6 final size:6
Alignment explanation
Indices: 4317061--4317140 Score: 151
Period size: 6 Copynumber: 13.2 Consensus size: 6
4317051 GACACGTATT
4317061 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
4317109 ACCCACG ACCACG ACCACG ACCACG ACCACG A
1 A-CCACG ACCACG ACCACG ACCACG ACCACG A
4317141 GCCGAGCCGA
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
6 67 0.92
7 6 0.08
ACGTcount: A:0.34, C:0.50, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:4317211 original size:5 final size:5
Alignment explanation
Indices: 4317138--4317207 Score: 95
Period size: 5 Copynumber: 13.8 Consensus size: 5
4317128 ACCACGACCA
* * *
4317138 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGAG CGTGC CGTGC CGAGC CGAGC
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAG-C CGAGC CGAGC CGAGC CGAGC
*
4317189 CGAGC CGAGC CGAGA CGAG
1 CGAGC CGAGC CGAGC CGAG
4317208 ACGACGGACG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
5 56 0.95
6 3 0.05
ACGTcount: A:0.20, C:0.36, G:0.41, T:0.03
Consensus pattern (5 bp):
CGAGC
Found at i:4318625 original size:23 final size:23
Alignment explanation
Indices: 4318599--4318661 Score: 101
Period size: 23 Copynumber: 2.7 Consensus size: 23
4318589 ATTTTTAATT
4318599 TGTTAATCATATTATTTAAATGA
1 TGTTAATCATATTATTTAAATGA
4318622 TGTTAATCATATTATTTAAATGA
1 TGTTAATCATATTATTTAAATGA
*
4318645 TGTCAATCA-ATTCATTT
1 TGTTAATCATATT-ATTT
4318662 GATATTAAGG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
22 3 0.08
23 35 0.92
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.48
Consensus pattern (23 bp):
TGTTAATCATATTATTTAAATGA
Found at i:4327193 original size:167 final size:168
Alignment explanation
Indices: 4326916--4327251 Score: 665
Period size: 167 Copynumber: 2.0 Consensus size: 168
4326906 TATTCTTTAT
4326916 TTTATGATTATTTTACATTCATTGTTATCATGTTTATATTATTACGTGATTATATAAAAAAATTA
1 TTTATGATTATTTTACATTCATTGTTATCATGTTTATATTATTACGTGATTATATAAAAAAATTA
4326981 TGAAATTATAATTTTTACAAAAAAAATCACACTAACATTTTCTCTATCTTTAATATTTATTTTAT
66 TGAAATTATAATTTTTACAAAAAAAATCACACTAACATTTTCTCTATCTTTAATATTTATTTTAT
4327046 TATCTATGTTTAAGATTTAAAGTTGTTTTTCTTAATAA
131 TATCTATGTTTAAGATTTAAAGTTGTTTTTCTTAATAA
4327084 TTTATGATTA-TTTACATTCATTGTTATCATGTTTATATTATTACGTGATTATATAAAAAAATTA
1 TTTATGATTATTTTACATTCATTGTTATCATGTTTATATTATTACGTGATTATATAAAAAAATTA
4327148 TGAAATTATAATTTTTACAAAAAAAATCACACTAACATTTTCTCTATCTTTAATATTTATTTTAT
66 TGAAATTATAATTTTTACAAAAAAAATCACACTAACATTTTCTCTATCTTTAATATTTATTTTAT
4327213 TATCTATGTTTAAGATTTAAAGTTGTTTTTCTTAATAA
131 TATCTATGTTTAAGATTTAAAGTTGTTTTTCTTAATAA
4327251 T
1 T
4327252 ATCTACTTCA
Statistics
Matches: 168, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
167 158 0.94
168 10 0.06
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.49
Consensus pattern (168 bp):
TTTATGATTATTTTACATTCATTGTTATCATGTTTATATTATTACGTGATTATATAAAAAAATTA
TGAAATTATAATTTTTACAAAAAAAATCACACTAACATTTTCTCTATCTTTAATATTTATTTTAT
TATCTATGTTTAAGATTTAAAGTTGTTTTTCTTAATAA
Found at i:4332127 original size:31 final size:31
Alignment explanation
Indices: 4332092--4332152 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
4332082 TTACAATACA
*
4332092 GTCCCCCAACATTTAGTCCATTTGCAATATG
1 GTCCCCCAACATTTAGTCCAATTGCAATATG
*
4332123 GTCCCTCAACATTTAGTCCAATTGCAATAT
1 GTCCCCCAACATTTAGTCCAATTGCAATAT
4332153 TATCCCCGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (31 bp):
GTCCCCCAACATTTAGTCCAATTGCAATATG
Done.