Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 196 of 279
Found at i:64325028 original size:23 final size:23
Alignment explanation
Indices: 64324996--64325039 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
64324986 AAAAATTGAA
*
64324996 ATAAACAAAT-AAAATAGAAATTT
1 ATAAAAAAATGAAAATA-AAATTT
64325019 ATAAAAAAATGAAAATAAAAT
1 ATAAAAAAATGAAAATAAAAT
64325040 GAATTTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (23 bp):
ATAAAAAAATGAAAATAAAATTT
Found at i:64325050 original size:29 final size:29
Alignment explanation
Indices: 64325002--64325059 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
64324992 TGAAATAAAC
64325002 AAATAAAATAGAAATTTATAAAAAAATGA
1 AAATAAAATAGAAATTTATAAAAAAATGA
64325031 AAATAAAAT-G-AATTTATATATAAAAATGA
1 AAATAAAATAGAAATTTATA-A-AAAAATGA
64325060 TAAGTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 8 0.30
28 2 0.07
29 17 0.63
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (29 bp):
AAATAAAATAGAAATTTATAAAAAAATGA
Found at i:64325126 original size:3 final size:3
Alignment explanation
Indices: 64325118--64325150 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
64325108 TAATAGTATG
64325118 ATA ATA ATA ATA ATA GA-A ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
64325151 CATCTAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 1 0.04
3 26 0.93
4 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:64326973 original size:13 final size:13
Alignment explanation
Indices: 64326955--64327016 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
64326945 AGTTTGGCAA
64326955 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
64326968 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
64326981 TGATGTGGAAAAG
1 TGCTTTTGAAAAG
*
64326994 TGTTTTTGAGAAA-
1 TGCTTTTGA-AAAG
64327007 TGCTTTTGAA
1 TGCTTTTGAA
64327017 CAATTTGGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
12 1 0.02
13 37 0.90
14 3 0.07
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:64328254 original size:28 final size:28
Alignment explanation
Indices: 64328222--64328277 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
64328212 GGGATATTTT
64328222 AGAGATTTTAGCTTTAGAGTGTTCGGAA
1 AGAGATTTTAGCTTTAGAGTGTTCGGAA
64328250 AGAGATTTTAGCTTTAGAGTGTTCGGAA
1 AGAGATTTTAGCTTTAGAGTGTTCGGAA
64328278 TTTTGTGACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (28 bp):
AGAGATTTTAGCTTTAGAGTGTTCGGAA
Found at i:64328692 original size:28 final size:28
Alignment explanation
Indices: 64328659--64328714 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
64328649 TTGCCAAGCT
64328659 TTCAAGTTTTTTGGGTTTTCGATCAAAC
1 TTCAAGTTTTTTGGGTTTTCGATCAAAC
*
64328687 TTCAAGTTTTTTGGGTTTTTGATCAAAC
1 TTCAAGTTTTTTGGGTTTTCGATCAAAC
64328715 GCTCAGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.48
Consensus pattern (28 bp):
TTCAAGTTTTTTGGGTTTTCGATCAAAC
Found at i:64328725 original size:29 final size:28
Alignment explanation
Indices: 64328660--64328725 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
64328650 TGCCAAGCTT
*
64328660 TCAAGTTTTTTGGGTTTTCGATCAAACT
1 TCAAGTTTTTTGGGTTTTCGATCAAACC
*
64328688 TCAAGTTTTTTGGGTTTTTGATCAAACGC
1 TCAAGTTTTTTGGGTTTTCGATCAAAC-C
64328717 TC-AGTTTTT
1 TCAAGTTTTT
64328726 CATCAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 33 0.94
29 2 0.06
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.48
Consensus pattern (28 bp):
TCAAGTTTTTTGGGTTTTCGATCAAACC
Found at i:64332611 original size:126 final size:126
Alignment explanation
Indices: 64332444--64332675 Score: 315
Period size: 126 Copynumber: 1.8 Consensus size: 126
64332434 ATTCATGCAT
* * * * *
64332444 TGAAATTTTAAAAGGATATTTGGCTATTTGGTCAACGG-AAAATCGAAACTCAGCACGTTAGGGC
1 TGAAATTTGAAAAGGATATTTAGCTATTCGGTCAACGGAAAAATCGAAACCCAGCACGTTAGGAC
* *
64332508 ACGATTTCTCAAATTTCCAAACACGAAATATTACCTTGTTTTTTAATTTAAGAAAACATGGA
66 ACAATTTCTCAAATTTCCAAAC-CAAAATATTACCTTGTTTTTTAATTTAAGAAAACATGGA
* * * *
64332570 TGAAATTTGGAAAGGATATTTAGTTATTCGGTCAAAC-GAAAAATTGAAACCCAGCACGTTATGA
1 TGAAATTTGAAAAGGATATTTAGCTATTCGGTC-AACGGAAAAATCGAAACCCAGCACGTTAGGA
* *
64332634 CACAATTTCTCGAATTTTCAAACCAAAATATTACCTTGTTTT
65 CACAATTTCTCAAATTTCCAAACCAAAATATTACCTTGTTTT
64332676 GATAAGTTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
126 47 0.52
127 44 0.48
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (126 bp):
TGAAATTTGAAAAGGATATTTAGCTATTCGGTCAACGGAAAAATCGAAACCCAGCACGTTAGGAC
ACAATTTCTCAAATTTCCAAACCAAAATATTACCTTGTTTTTTAATTTAAGAAAACATGGA
Found at i:64333175 original size:16 final size:18
Alignment explanation
Indices: 64333145--64333190 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
64333135 GAAATCAATT
*
64333145 ATAAAATAAAAATAA-AA
1 ATAAAATATAAATAATAA
*
64333162 ATAAAA-ATAAATAATAC
1 ATAAAATATAAATAATAA
64333179 ATAAAATATAAA
1 ATAAAATATAAA
64333191 CTTCAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.28
17 13 0.52
18 5 0.20
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (18 bp):
ATAAAATATAAATAATAA
Found at i:64333185 original size:12 final size:11
Alignment explanation
Indices: 64333145--64333186 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
64333135 GAAATCAATT
64333145 ATAAAATAAAA
1 ATAAAATAAAA
64333156 ATAAAAATAAAA
1 AT-AAAATAAAA
*
64333168 AT-AAATAATAC
1 ATAAAATAA-AA
64333179 ATAAAATA
1 ATAAAATA
64333187 TAAACTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 6 0.22
11 5 0.19
12 16 0.59
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:64333190 original size:7 final size:6
Alignment explanation
Indices: 64333147--64333177 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
64333137 AATCAATTAT
64333147 AAAATA AAAATA AAAATA AAAATA AATAATA
1 AAAATA AAAATA AAAATA AAAATA AA-AATA
64333178 CATAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:64336395 original size:35 final size:35
Alignment explanation
Indices: 64336356--64336427 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
64336346 AAAAAAATGT
*
64336356 AAATAAATTAATATGCTGATGTGTTTCTCAAATTG
1 AAATAAATTAATATGCTGATGTGTTACTCAAATTG
64336391 AAATAAATTAATATGCTGATGTGTTACTCAAATTG
1 AAATAAATTAATATGCTGATGTGTTACTCAAATTG
64336426 AA
1 AA
64336428 TGTCTTCTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (35 bp):
AAATAAATTAATATGCTGATGTGTTACTCAAATTG
Found at i:64336787 original size:129 final size:127
Alignment explanation
Indices: 64336502--64336845 Score: 512
Period size: 129 Copynumber: 2.7 Consensus size: 127
64336492 TTCTTACGTC
* *
64336502 ACTCAAATTGGATGTCTATTTGCCATAAATATAAGGATGTCATGTTGGAATGTTTCTTTAGTTAG
1 ACTCAAATTGGATGTCTATTTGTCATAAATAT-AGGATGTCATGTTGGAATGTTTCTTTAATTAG
* *
64336567 TAGTATATAGC-T-TAATATATATATATATATATTAATTTTCTTACTTCACGATGTTGATTTGTT
65 TAG--TATAGCTTATAATATATATATATATATATTAATTTTCTTACGTCACGATGTTGATGTGTT
* *
64336630 ACTCAAATTGGATGTCTATTTGTGATAAATATAGGATGTCATGTTGGAATGTTTCTTTACTTAGT
1 ACTCAAATTGGATGTCTATTTGTCATAAATATAGGATGTCATGTTGGAATGTTTCTTTAATTAGT
* * *
64336695 AGTATAGCTTATAATATATATATATGTATATCTTAGTTTTTTTACGTCACGATGTTGATGTGTT
66 AGTATAGCTTATAATATATATATA--TATATATTAATTTTCTTACGTCACGATGTTGATGTGTT
* * *
64336759 ACTCAAATTGGATGTCTATTAGTCATAAATATATGGATTTCATGTTGGAATGTTTCTTTAATTAT
1 ACTCAAATTGGATGTCTATTTGTCATAAATATA-GGATGTCATGTTGGAATGTTTCTTTAATTAG
64336824 TAGTATAGCTTATAATATATAT
65 TAGTATAGCTTATAATATATAT
64336846 TAGTTTTTTT
Statistics
Matches: 198, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
125 6 0.03
126 1 0.01
127 47 0.24
128 30 0.15
129 64 0.32
130 50 0.25
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (127 bp):
ACTCAAATTGGATGTCTATTTGTCATAAATATAGGATGTCATGTTGGAATGTTTCTTTAATTAGT
AGTATAGCTTATAATATATATATATATATATTAATTTTCTTACGTCACGATGTTGATGTGTT
Found at i:64337297 original size:18 final size:18
Alignment explanation
Indices: 64337274--64337309 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
64337264 ATTTTTAAAT
*
64337274 ATATAAAATACATCAAAA
1 ATATAAAAAACATCAAAA
*
64337292 ATATAAAAAATATCAAAA
1 ATATAAAAAACATCAAAA
64337310 TAAATATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (18 bp):
ATATAAAAAACATCAAAA
Found at i:64337426 original size:30 final size:30
Alignment explanation
Indices: 64337392--64337454 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
64337382 ACTTAACAAG
*
64337392 CAAATGCTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
*
64337422 CAAATGCCTCTAAAATAATAAGAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
64337452 CAA
1 CAA
64337455 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.13, G:0.05, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAAAAAAATTAA
Found at i:64347353 original size:420 final size:416
Alignment explanation
Indices: 64346694--64347839 Score: 1198
Period size: 419 Copynumber: 2.7 Consensus size: 416
64346684 GTACGCTCAG
* * * * **
64346694 ATAAATAAGGT-GAA-ACATATTTGGTATTGCTTTTCTCAAAAGGAATCGAAAAACAAAGCCGAA
1 ATAAAGAAGGTGGAACACA-ATTT-GTATTACTCTTCTCGAAAGGAATCG-AAAACAAAGAAGAA
* * * * *
64346757 AATGTAGTCAGAAATTTGAATGAAAAATTTCTAAAAAGAAAACAAACGAGAGAAAAGGAGAATGA
63 AATGTAGTAAGAAATTTGATTGAAAAATTGCT-AAAAGAAAACAAACAAGAGAAAAGTAGAATGA
* *
64346822 GAGAAAGATTGTTGTTTGCTTGTTATGTAAAATGAGGAAAATGATCTGCTATTTATACGGTTTTC
127 GAGAAAGATTGTTGTTTGCTTGTTATGTAAAATGAGGAAAATGA-CTGCTATTTATACTGTTTTA
* ** * *
64346887 TTAAGGGGTAAAACAATAAAACACGCAATGTTTGTTTCCT-AAAAAATGCAACTGA-TCAAATTT
191 TGAAGGGGTAAAATGATAAAACACACAATGTTAGTTTCCTCAAAAAATGCAACTGACT-AAATTT
* * * *
64346950 TCTACAACAGTCATGATTTTCCACAACTAAAAATATTTTGAAAATAATTTCAAAAAG-AAAAACA
255 TCTACAATAGTCAGGATTTTCCACAACTGAAAATATTCTGAAAATAATTT-AAAAAGAAAAAACA
** *
64347014 GAAATTTTATCC-AAAAGAAA-ATACACGT-GGTA-CGTAGACATGTGTTAACAAGGACACGGAC
319 GAAATTTTATCCAAAAAGAAACATACACGTAGGTACCGTAGACACATGTTAACAAGGACACAGAC
* * * *
64347075 ACAGATTGGGTTGGGCCGGGCAGCGGTTCATACAC-CAGA
384 AC-GAATAGG-TCGG--GGG-A-CGGCTCATACACTC-GA
* *
64347114 ATAAAGGAGGTGGAACACAA-TTGTTATTACTCTTCTCGAAAGGAATCAGAAAACAAAGTAGAAA
1 ATAAAGAAGGTGGAACACAATTTG-TATTACTCTTCTCGAAAGGAATC-GAAAACAAAGAAGAAA
* **
64347178 ATGTAGTAAAAAATTTGATTGAAAAACCGCTAAAAGAAAACAAACAAGAGAAAAGTAGAATGAGA
64 ATGTAGTAAGAAATTTGATTGAAAAATTGCTAAAAGAAAACAAACAAGAGAAAAGTAGAATGAGA
* * * *
64347243 GAAGGATTGTTGTTTGTTTGTTATGTAAAATAAGGAAAATGACATACTATTTATACTGTTTTATG
129 GAAAGATTGTTGTTTGCTTGTTATGTAAAATGAGGAAAATGAC-TGCTATTTATACTGTTTTATG
* * ** * * *
64347308 AAGGGGTAAAATGGTAAAATACACAATGCCAATTTCCTCAAAAAATGCAATTGACTAGATTTTCC
193 AAGGGGTAAAATGATAAAACACACAATGTTAGTTTCCTCAAAAAATGCAACTGACTAAATTTT-C
* * * * * *
64347373 T-TAATAGTTAAAGGATTTTCCGA-AATTGAAAATATTCTGACAATAATTTACAAAGAAAAAATA
257 TACAATAG-T-CAGGATTTTCC-ACAACTGAAAATATTCTGAAAATAATTTAAAAAGAAAAAACA
* ** * * * *
64347436 GAAATTTTATCCAAAAAGAAACATGCTGGTATGTACCGTAGACACATGTTAACATGGGCGCAGAC
319 GAAATTTTATCCAAAAAGAAACATACACGTAGGTACCGTAGACACATGTTAACAAGGACACAGAC
* *
64347501 ACGAATAGGTCGGGTGACGGCTCGTACACTCGA
384 ACGAATAGGTCGGGGGACGGCTCATACACTCGA
* * * *
64347534 ATAAAGAAGGTGGAACACAATTTGTATTGCTCTTCCCGAAAGGGATTGAAAAGCAAAGAAGAAAA
1 ATAAAGAAGGTGGAACACAATTTGTATTACTCTTCTCGAAAGGAATCGAAAA-CAAAGAAGAAAA
* * *
64347599 TGTAGTAGGGAATTTGATTG-AAAATTGCTAAAA-AGAAACAGACAAGAGAAAA-TGAGAATGAG
65 TGTAGTAAGAAATTTGATTGAAAAATTGCTAAAAGA-AAACAAACAAGAGAAAAGT-AGAATGAG
* * * *
64347661 AGAAAGAATGTTGTTTGCTTGTTATGTTAAATGAGGAAAATGACCTGCTATTTTTATTGTTTTCA
128 AGAAAGATTGTTGTTTGCTTGTTATGTAAAATGAGGAAAATGA-CTGCTATTTATACTGTTTT-A
* * * *
64347726 -GAAGGGGCAAAATGACAAAACA-AGCAATTTTAGTTTCCTCAAAATATGCAACTGACTAGAATT
191 TGAAGGGGTAAAATGATAAAACACA-CAATGTTAGTTTCCTCAAAAAATGCAACTGACTA-AATT
*
64347789 TT-TACAATAGTCAGAGGATTTTCCGCAACTGAAAATATTCTGAAAA-AATTT
254 TTCTACAATAGTC--AGGATTTTCCACAACTGAAAATATTCTGAAAATAATTT
64347840 TATCCAAAAA
Statistics
Matches: 602, Mismatches: 95, Indels: 60
0.80 0.13 0.08
Matches are distributed among these distances:
418 11 0.02
419 290 0.48
420 178 0.30
421 19 0.03
422 54 0.09
423 9 0.01
424 8 0.01
425 8 0.01
426 25 0.04
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (416 bp):
ATAAAGAAGGTGGAACACAATTTGTATTACTCTTCTCGAAAGGAATCGAAAACAAAGAAGAAAAT
GTAGTAAGAAATTTGATTGAAAAATTGCTAAAAGAAAACAAACAAGAGAAAAGTAGAATGAGAGA
AAGATTGTTGTTTGCTTGTTATGTAAAATGAGGAAAATGACTGCTATTTATACTGTTTTATGAAG
GGGTAAAATGATAAAACACACAATGTTAGTTTCCTCAAAAAATGCAACTGACTAAATTTTCTACA
ATAGTCAGGATTTTCCACAACTGAAAATATTCTGAAAATAATTTAAAAAGAAAAAACAGAAATTT
TATCCAAAAAGAAACATACACGTAGGTACCGTAGACACATGTTAACAAGGACACAGACACGAATA
GGTCGGGGGACGGCTCATACACTCGA
Found at i:64354101 original size:22 final size:23
Alignment explanation
Indices: 64354073--64354115 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
64354063 TTTATTTTAA
*
64354073 TTAAATAATAT-TTATTTTTATG
1 TTAAATAATATATTATGTTTATG
*
64354095 TTAAATATTATATTATGTTTA
1 TTAAATAATATATTATGTTTA
64354116 ATTTTTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
TTAAATAATATATTATGTTTATG
Found at i:64358036 original size:14 final size:14
Alignment explanation
Indices: 64357992--64358036 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
64357982 AACTTTTGAC
64357992 CCCTAAACCTTAAA
1 CCCTAAACCTTAAA
* * * *
64358006 TCATAAAACATAAA
1 CCCTAAACCTTAAA
64358020 CCCTAAACCTTAAA
1 CCCTAAACCTTAAA
64358034 CCC
1 CCC
64358037 CAACCCCTCT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (14 bp):
CCCTAAACCTTAAA
Found at i:64358054 original size:23 final size:23
Alignment explanation
Indices: 64358022--64358065 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
64358012 AACATAAACC
*
64358022 CTAAACCTTAAACCCCAACCCCT
1 CTAAAACTTAAACCCCAACCCCT
*
64358045 CTAAAACTTAAACCCTAACCC
1 CTAAAACTTAAACCCCAACCC
64358066 TTAACCCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.43, G:0.00, T:0.18
Consensus pattern (23 bp):
CTAAAACTTAAACCCCAACCCCT
Found at i:64358093 original size:22 final size:21
Alignment explanation
Indices: 64358055--64358104 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
64358045 CTAAAACTTA
*
64358055 AACCC-TAACCCTTAACCCAT
1 AACCCATAACCCTAAACCCAT
64358075 AACCCATAATCCCTAAACCCAT
1 AACCCATAA-CCCTAAACCCAT
*
64358097 AATCCATA
1 AACCCATA
64358105 TAAACCTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 5 0.19
21 3 0.12
22 18 0.69
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (21 bp):
AACCCATAACCCTAAACCCAT
Found at i:64358593 original size:41 final size:40
Alignment explanation
Indices: 64358546--64358734 Score: 243
Period size: 41 Copynumber: 4.7 Consensus size: 40
64358536 TTATTTTTTT
* **
64358546 GCGGCGTTTTTTCAAAAGCGCCGCTAAAACCTCGATTAATA
1 GCGGCGTTTTTTCAAAAGCGCCGCTAAAAACT-GAGCAATA
*
64358587 GTGGCGTTTTTTCAAAAAGCGCCGCTAAAAACTGAGCAATA
1 GCGGCGTTTTTTC-AAAAGCGCCGCTAAAAACTGAGCAATA
* *
64358628 GCGGCGTTTTTCCAAAAGCGCCGCTAAAAACTGAGCACTA
1 GCGGCGTTTTTTCAAAAGCGCCGCTAAAAACTGAGCAATA
* * * * * *
64358668 GCGACGTTTTTTAAAAAGCGCAGCTAAAAGCTGGATCTATA
1 GCGGCGTTTTTTCAAAAGCGCCGCTAAAAACT-GAGCAATA
64358709 GCGGCGTTTTTTCAAAAGCGCCGCTA
1 GCGGCGTTTTTTCAAAAGCGCCGCTA
64358735 TTGTTTAGTT
Statistics
Matches: 128, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
40 53 0.41
41 57 0.45
42 18 0.14
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (40 bp):
GCGGCGTTTTTTCAAAAGCGCCGCTAAAAACTGAGCAATA
Found at i:64358726 original size:81 final size:82
Alignment explanation
Indices: 64358546--64358734 Score: 256
Period size: 81 Copynumber: 2.3 Consensus size: 82
64358536 TTATTTTTTT
* ** * * *
64358546 GCGGCGTTTTTTCAAAAGCGCCGCTAAAACCTCGATTAATAGTGGCGTTTTTTCAAAAAGCGCCG
1 GCGGCGTTTTTTCAAAAGCGCCGCTAAAAACTCGAGCAATAGCGACGTTTTTTCAAAAAGCGCAG
64358611 CTAAAAACTGAGCAATA
66 CTAAAAACTGAGCAATA
* *
64358628 GCGGCGTTTTTCCAAAAGCGCCGCTAAAAACT-GAGCACTAGCGACGTTTTTT-AAAAAGCGCAG
1 GCGGCGTTTTTTCAAAAGCGCCGCTAAAAACTCGAGCAATAGCGACGTTTTTTCAAAAAGCGCAG
* * *
64358691 CTAAAAGCTGGATCTATA
66 CTAAAAACT-GAGCAATA
64358709 GCGGCGTTTTTTCAAAAGCGCCGCTA
1 GCGGCGTTTTTTCAAAAGCGCCGCTA
64358735 TTGTTTAGTT
Statistics
Matches: 94, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 18 0.19
81 46 0.49
82 30 0.32
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (82 bp):
GCGGCGTTTTTTCAAAAGCGCCGCTAAAAACTCGAGCAATAGCGACGTTTTTTCAAAAAGCGCAG
CTAAAAACTGAGCAATA
Found at i:64358789 original size:41 final size:42
Alignment explanation
Indices: 64358707--64358829 Score: 148
Period size: 41 Copynumber: 3.0 Consensus size: 42
64358697 GCTGGATCTA
** * *
64358707 TAGCGGCGTTTTTTC-AAAAGCGCCGCTATTG-TTTAGTTTT
1 TAGCGGCGTTTTGACTAAAAACGCCGCTATTGCTCTAGTTTT
*
64358747 TAGCGGCGTTTTGACTAAAAACGCCACTATTGCTCTA-TTTT
1 TAGCGGCGTTTTGACTAAAAACGCCGCTATTGCTCTAGTTTT
*
64358788 TAGCGGCGTTTGGA-TCAAAAACGCCGCTATTGCTC-AGTTTT
1 TAGCGGCGTTTTGACT-AAAAACGCCGCTATTGCTCTAGTTTT
64358829 T
1 T
64358830 TGCGACATTT
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
40 15 0.21
41 54 0.75
42 3 0.04
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.37
Consensus pattern (42 bp):
TAGCGGCGTTTTGACTAAAAACGCCGCTATTGCTCTAGTTTT
Found at i:64359069 original size:31 final size:29
Alignment explanation
Indices: 64359029--64359091 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 29
64359019 GGACTACCCA
64359029 TATTAATTTTTAATTTA-ATATTTAATAATTT
1 TATTAATTTTT-ATTTATATA-TTAA-AATTT
* *
64359060 TATTCATTTTTATTTATTTATTAAAATTT
1 TATTAATTTTTATTTATATATTAAAATTT
64359089 TAT
1 TAT
64359092 ATATAGTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 8 0.28
30 9 0.31
31 12 0.41
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (29 bp):
TATTAATTTTTATTTATATATTAAAATTT
Found at i:64360083 original size:16 final size:15
Alignment explanation
Indices: 64360049--64360105 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 15
64360039 ATGGCATTAG
64360049 TCATGTAATACTCAAT
1 TCATG-AATACTCAAT
*
64360065 TCATGAATACATCATT
1 TCATGAATAC-TCAAT
64360081 TCAT-ACCATACTCAAT
1 TCATGA--ATACTCAAT
64360097 TCATGAATA
1 TCATGAATA
64360106 TATAACTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 9 0.26
16 21 0.60
17 5 0.14
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (15 bp):
TCATGAATACTCAAT
Found at i:64363284 original size:22 final size:22
Alignment explanation
Indices: 64363189--64363285 Score: 62
Period size: 22 Copynumber: 4.4 Consensus size: 22
64363179 TTACTAATGC
*
64363189 TAGGGTTCACATATTAATC--TA
1 TAGGGTTCACATATTAA-CAACA
*
64363210 TATGGTTCACATATATAGAC-ACA
1 TAGGGTTCACATAT-TA-ACAACA
*
64363233 TA-GGTTCACAT-GTAACAACA
1 TAGGGTTCACATATTAACAACA
*
64363253 TGAAGGGTTCACATATTAATC-ACC
1 T--AGGGTTCACATATTAA-CAACA
64363277 TAGGGTTCA
1 TAGGGTTCA
64363286 GATGTATATA
Statistics
Matches: 62, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
19 2 0.03
20 6 0.10
21 13 0.21
22 21 0.34
23 13 0.21
24 6 0.10
25 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (22 bp):
TAGGGTTCACATATTAACAACA
Found at i:64363536 original size:18 final size:18
Alignment explanation
Indices: 64363513--64363575 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 18
64363503 AAAAAGGGTT
64363513 CACATACAAGAGGGTTCA
1 CACATACAAGAGGGTTCA
* * *
64363531 CACATACTAGGGGGTTCT
1 CACATACAAGAGGGTTCA
* * *
64363549 CACATGCTA-AGGGTTCG
1 CACATACAAGAGGGTTCA
*
64363566 CACATGCAAG
1 CACATACAAG
64363576 GATCTTGCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
17 14 0.38
18 23 0.62
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (18 bp):
CACATACAAGAGGGTTCA
Found at i:64366526 original size:17 final size:18
Alignment explanation
Indices: 64366476--64366526 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
64366466 CCCGATTACA
64366476 TCAAAACCCAACTAAACC
1 TCAAAACCCAACTAAACC
64366494 TCAAAACCCAACTAAACC
1 TCAAAACCCAACTAAACC
*
64366512 TCTAAACCC-ACTAAA
1 TCAAAACCCAACTAAA
64366527 ACCCTTAACC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 6 0.19
18 26 0.81
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (18 bp):
TCAAAACCCAACTAAACC
Found at i:64366655 original size:21 final size:21
Alignment explanation
Indices: 64366614--64366698 Score: 61
Period size: 21 Copynumber: 4.0 Consensus size: 21
64366604 TAAGCCCCCT
* *
64366614 CAAAAAAAAAA-AAACATAACC
1 CAAAAAAAAAACCAAGA-AACC
64366635 CAAAAAAAAAACCAAGAAACC
1 CAAAAAAAAAACCAAGAAACC
*
64366656 CTAGCCAAAAAAAAACC---TAACC
1 C-A---AAAAAAAAACCAAGAAACC
*
64366678 CCAAAAAAAAACCAAGAAACC
1 CAAAAAAAAAACCAAGAAACC
64366699 TTAGCCAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
18 11 0.22
21 20 0.39
22 9 0.18
25 11 0.22
ACGTcount: A:0.67, C:0.26, G:0.04, T:0.04
Consensus pattern (21 bp):
CAAAAAAAAAACCAAGAAACC
Found at i:64366665 original size:25 final size:25
Alignment explanation
Indices: 64366637--64366707 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
64366627 ACATAACCCA
64366637 AAAAAAAAACCAAGAAACCCTAGCC
1 AAAAAAAAACCAAGAAACCCTAGCC
*
64366662 AAAAAAAAACC---TAA-CC---CC
1 AAAAAAAAACCAAGAAACCCTAGCC
*
64366680 AAAAAAAAACCAAGAAACCTTAGCC
1 AAAAAAAAACCAAGAAACCCTAGCC
64366705 AAA
1 AAA
64366708 TAGAAAAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 14
0.68 0.06 0.26
Matches are distributed among these distances:
18 13 0.36
21 4 0.11
22 3 0.08
25 16 0.44
ACGTcount: A:0.62, C:0.27, G:0.06, T:0.06
Consensus pattern (25 bp):
AAAAAAAAACCAAGAAACCCTAGCC
Found at i:64366684 original size:43 final size:43
Alignment explanation
Indices: 64366619--64366707 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
64366609 CCCCTCAAAA
64366619 AAAAAAAAACATAACCCAAAAAAAAAACCAAGAAACCCTAGCC
1 AAAAAAAAACATAACCCAAAAAAAAAACCAAGAAACCCTAGCC
* * *
64366662 AAAAAAAAACCTAACCCCAAAAAAAAACCAAGAAACCTTAGCC
1 AAAAAAAAACATAACCCAAAAAAAAAACCAAGAAACCCTAGCC
64366705 AAA
1 AAA
64366708 TAGAAAAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.64, C:0.26, G:0.04, T:0.06
Consensus pattern (43 bp):
AAAAAAAAACATAACCCAAAAAAAAAACCAAGAAACCCTAGCC
Found at i:64366957 original size:18 final size:18
Alignment explanation
Indices: 64366916--64366954 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
64366906 CCTAAAGGTG
*
64366916 ATTTTA-TCTTCTTTATT
1 ATTTTACTCTTATTTATT
64366933 ATTTTACTCTTATTT-TT
1 ATTTTACTCTTATTTATT
64366950 ATTTT
1 ATTTT
64366955 TACCGCCGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTTACTCTTATTTATT
Found at i:64367052 original size:18 final size:18
Alignment explanation
Indices: 64367029--64367066 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
64367019 CCGGATTCCC
*
64367029 CTCTCTTCTCTCTCCCTT
1 CTCTCTTCCCTCTCCCTT
*
64367047 CTCTCTTCCCTCTCTCTT
1 CTCTCTTCCCTCTCCCTT
64367065 CT
1 CT
64367067 TTTTTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (18 bp):
CTCTCTTCCCTCTCCCTT
Found at i:64367064 original size:11 final size:12
Alignment explanation
Indices: 64367033--64367065 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
64367023 ATTCCCCTCT
64367033 CTTCTCTC-TCC
1 CTTCTCTCTTCC
64367044 CTTCTCTCTTCC
1 CTTCTCTCTTCC
64367056 C-TCTCTCTTC
1 CTTCTCTCTTC
64367066 TTTTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (12 bp):
CTTCTCTCTTCC
Found at i:64367567 original size:3 final size:3
Alignment explanation
Indices: 64367518--64367553 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
64367508 ATTTAAATTA
*
64367518 ATT ATT -TT AGT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
64367554 CATACTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:64379429 original size:74 final size:73
Alignment explanation
Indices: 64379320--64380298 Score: 717
Period size: 74 Copynumber: 12.7 Consensus size: 73
64379310 TGATGTTTTT
* * *
64379320 ATTTCTGTTTCAAAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGG
1 ATTTCTGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG
**
64379385 TATTTTTT
66 TATTTTCA
* * *
64379393 ATTTCTGTTTGAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAACCTCAAGACACATTGAG
1 ATTTCTGTTT-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
64379458 GTATTTTCA
65 GTATTTTCA
* * * **
64379467 ATTTCTACTTTTTAAAAAAATCAACTCATGTTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA
1 ATTTCT--GTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
64379532 GGTATTTTCA
64 GGTATTTTCA
* * * * * *
64379542 ATTTCTTTCTTTCAAAAAAATCAACTCATACTGCGATAGGTGAGTTGAGCCT-AAGGACATGCTG
1 ATTTC--TGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA-GACACGTTG
*
64379606 AGGTAATTTCA
63 AGGTATTTTCA
* **
64379617 ATTTCTGTTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 ATTTCTGTT-TAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA-
64379682 GTAGTTTCAATTTCTGTTCA
64 G--G--T--A--T-T-TTCA
*** *** * *
64379702 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGGCACGCTGAGG
1 ATTTCTGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG
*
64379767 TATTGTCA
66 TATTTTCA
* * ** *
64379775 ATTTTTGTGTTTAAATCTATTTTTCAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAG
1 A--TTTCTGTTT-AA---A------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
* *
64379840 GACACGCTGAGGTAATTTCA
54 GACACGTTGAGGTATTTTCA
*** * *
64379860 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCATGTTGAGG
1 ATTTCTGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG
*
64379925 TAATTTCA
66 TATTTTCA
* ** * * * * *
64379933 ATTTCTGCTTTTCAATTTATATCTTTCAAAAAAAATCA-ACT-C-ATACCGCGAGAGGTGAGTTG
1 ATTTCTG--TTT-AA---A-A-----AAAATCAACTCATATTGCGAGA--G-GTGAGTTGAG---
* * *
64379995 AGCCTCAGGACACGCTGAGGTAATTTCA
48 --CCTCAAGACACGTTGAGGTATTTTCA
* * ** * * *
64380023 ATCTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAGGACACGCTGAG
1 ATTTCTGTT-TAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
*
64380088 GTAATTTCA
65 GTATTTTCA
**
64380097 ATTTCTGTTTTCAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
1 ATTTCTG-TTT-AAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
*
64380162 AGGTAATTTCA
63 AGGTATTTTCA
* * * * * *
64380173 ATTTCTGTTTTCAAAATAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCT
1 ATTTCTG-TTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTT
64380237 GAGGTATTTTCA
62 GAGGTATTTTCA
*
64380249 ATTTCCGTCTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 ATTTCTGT-TT-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
64380299 TTCAGATCAC
Statistics
Matches: 728, Mismatches: 115, Indels: 122
0.75 0.12 0.13
Matches are distributed among these distances:
73 78 0.11
74 172 0.24
75 151 0.21
76 90 0.12
77 38 0.05
79 16 0.02
80 3 0.00
81 3 0.00
82 4 0.01
83 10 0.01
84 48 0.07
85 83 0.11
88 3 0.00
89 1 0.00
90 28 0.04
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (73 bp):
ATTTCTGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG
TATTTTCA
Found at i:64379822 original size:85 final size:85
Alignment explanation
Indices: 64379631--64379863 Score: 310
Period size: 85 Copynumber: 2.7 Consensus size: 85
64379621 CTGTTCAAAA
* *
64379631 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAGTTTCAA--TT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTCAATTTT
* *
64379694 TCTGTTCAATTTCTGTTTTTC
65 TCTGTTCAATATCTATTTTTC
** ** *
64379715 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGGCACGCTGAGGTATTGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATT-TCAATTTT
* *
64379780 TGTGTTTAA-ATCTATTTTTC
65 TCTGTTCAATATCTATTTTTC
*
64379800 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTT
64379864 CTGTTTGTCA
Statistics
Matches: 128, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
83 2 0.02
84 51 0.40
85 63 0.49
86 12 0.09
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (85 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTTT
CTGTTCAATATCTATTTTTC
Found at i:64380041 original size:76 final size:74
Alignment explanation
Indices: 64379942--64380303 Score: 449
Period size: 76 Copynumber: 4.8 Consensus size: 74
64379932 AATTTCTGCT
* * **
64379942 TTTCAATTTATATCTTTCAAAAAAAATCAACTCATACCGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGT-TTT-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
64380007 CGCTGAGGTAA
64 CGCTGAGGTAA
* ** *
64380018 TTTCAATCTCTGTTGTT-AAAAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAGGACAC
1 TTTCAATTTCTGTT-TTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
64380082 GCTGAGGTAA
65 GCTGAGGTAA
** *
64380092 TTTCAATTTCTGTTTTCAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
1 TTTCAATTTCTGTTTT-AAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
64380157 CGTTGAGGTAA
64 CGCTGAGGTAA
* * *
64380168 TTTCAATTTCTGTTTTCAAAATAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCAC
1 TTTCAATTTCTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---AC
* *
64380232 ATGCTGAGGTAT
63 ACGCTGAGGTAA
* * *
64380244 TTTCAATTTCCGTCTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 TTTCAATTTCTGT-TTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
64380304 ATCACACACT
Statistics
Matches: 250, Mismatches: 27, Indels: 16
0.85 0.09 0.05
Matches are distributed among these distances:
73 3 0.01
74 95 0.38
75 14 0.06
76 98 0.39
77 39 0.16
78 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (74 bp):
TTTCAATTTCTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTAA
Found at i:64380218 original size:150 final size:149
Alignment explanation
Indices: 64379942--64380298 Score: 475
Period size: 150 Copynumber: 2.4 Consensus size: 149
64379932 AATTTCTGCT
* * ** *
64379942 TTTCAATTTATATCTTTCAAAAAAAATCAACTCATACCGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGT-TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
64380007 CGCTGAGGTAATTTCAATCTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATAAGTTGAGC
65 CGCTGAGGTAATTTCAATCTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATAAGTTGAGC
64380072 CTCAGG-ACACGCTGAGGTAA
130 CTC-GGTACACGCTGAGGTAA
**
64380092 TTTCAATTTCTGTTTTCAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
1 TTTCAATTTCTGTTTTCAAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * * ** *
64380157 CGTTGAGGTAATTTCAATTTCTGTT-TTCAAAATAATCAACTTATATTGCGAGAGGTGAGTTGAG
65 CGCTGAGGTAATTTCAATCTCTGTTGTT-AAAAAAATCAACTCATATTGCGAGAAATAAGTTGAG
* *
64380221 CCTCGGTTCACATGCTGAGGTAT
129 CCTCGG-T-ACACGCTGAGGTAA
* * *
64380244 TTTCAATTTCCGTCTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTCAATTTCTGTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
64380299 TTCAGATCAC
Statistics
Matches: 181, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
149 16 0.09
150 103 0.57
151 28 0.15
152 34 0.19
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (149 bp):
TTTCAATTTCTGTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
GCTGAGGTAATTTCAATCTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATAAGTTGAGCC
TCGGTACACGCTGAGGTAA
Found at i:64381485 original size:11 final size:11
Alignment explanation
Indices: 64381469--64381503 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
64381459 CTTTTCCCCC
64381469 CTCCCTTCTCT
1 CTCCCTTCTCT
64381480 CTCCCTTCTCT
1 CTCCCTTCTCT
64381491 CTTCCC-TCTCT
1 C-TCCCTTCTCT
64381502 CT
1 CT
64381504 TTTTTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:64382018 original size:11 final size:11
Alignment explanation
Indices: 64381989--64382029 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
64381979 TTCTAATACG
64381989 TATATATA-T-
1 TATATATATTA
*
64381998 TATATGTATTA
1 TATATATATTA
64382009 TATATATATTA
1 TATATATATTA
*
64382020 TGTATATATT
1 TATATATATT
64382030 TTTTAATGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 7 0.26
10 1 0.04
11 19 0.70
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (11 bp):
TATATATATTA
Found at i:64387407 original size:75 final size:75
Alignment explanation
Indices: 64387303--64387476 Score: 226
Period size: 75 Copynumber: 2.3 Consensus size: 75
64387293 GCACACCCTC
* ** * * * *
64387303 TATATCTGTCAGTTTATTTGACCAGTGCTGGGCTCAA-TCTTCGTCAGTTTATCTGACTAGTGTA
1 TATATTTGTCAGTTTATCCGACTAATGCTGGGCACAACT-TTCGTCAGTTTATCTGACTAGTGCA
64387367 AGGCACAACAT
65 AGGCACAACAT
*
64387378 TATATTTGTC-GATTTATCCGACTAATGCTGGGCACAACTTTCGTTAGTTTATCTGACTAGTGCA
1 TATATTTGTCAG-TTTATCCGACTAATGCTGGGCACAACTTTCGTCAGTTTATCTGACTAGTGCA
* *
64387442 GGGCACACCAT
65 AGGCACAACAT
64387453 TATATTTGTCAGTTTATCCGACTA
1 TATATTTGTCAGTTTATCCGACTA
64387477 GCATTGGGTG
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
74 1 0.01
75 83 0.97
76 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (75 bp):
TATATTTGTCAGTTTATCCGACTAATGCTGGGCACAACTTTCGTCAGTTTATCTGACTAGTGCAA
GGCACAACAT
Found at i:64387412 original size:40 final size:40
Alignment explanation
Indices: 64387350--64387476 Score: 104
Period size: 40 Copynumber: 3.3 Consensus size: 40
64387340 TCTTCGTCAG
* * * *
64387350 TTTATCTGACTAGTGTAAGGCACAACATTATATTTGTCGA
1 TTTATCCGACTAATGCAGGGCACAACATTATATTTGTCGA
* ** *
64387390 TTTATCCGACTAATGCTGGGCACAAC-TT-T-CGT-TAG-
1 TTTATCCGACTAATGCAGGGCACAACATTATATTTGTCGA
* * *
64387425 TTTATCTGACTAGTGCAGGGCACACCATTATATTTGTC-A
1 TTTATCCGACTAATGCAGGGCACAACATTATATTTGTCGA
64387464 GTTTATCCGACTA
1 -TTTATCCGACTA
64387477 GCATTGGGTG
Statistics
Matches: 65, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
35 22 0.34
36 4 0.06
37 2 0.03
38 2 0.03
39 3 0.05
40 32 0.49
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (40 bp):
TTTATCCGACTAATGCAGGGCACAACATTATATTTGTCGA
Found at i:64387491 original size:75 final size:75
Alignment explanation
Indices: 64387342--64387538 Score: 238
Period size: 75 Copynumber: 2.6 Consensus size: 75
64387332 GGGCTCAATC
* *
64387342 TTCGTCAGTTTATCTGACTAGTGTAAGGCACAACATTATATTTGTC-GATTTATCCGACTAATGC
1 TTCGTTAGTTTATCTGACTAGTGTAGGGCACAACATTATATTTGTCAGATTTATCCGACTAAT-C
64387406 TGGGCACAACT
65 TGGGCACAACT
* *
64387417 TTCGTTAGTTTATCTGACTAGTGCAGGGCACACCATTATATTTGTCAG-TTTATCCGACTAGCAT
1 TTCGTTAGTTTATCTGACTAGTGTAGGGCACAACATTATATTTGTCAGATTTATCCGACTA--AT
**
64387481 -TGGGTGCAACT
64 CTGGGCACAACT
* * * ** *
64387492 TTCATTAGTTTATGTGACTAGTGTTGGGCACATTATTATAATTGTCA
1 TTCGTTAGTTTATCTGACTAGTGTAGGGCACAACATTATATTTGTCA
64387539 ATTATTTGAC
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
75 103 0.97
76 1 0.01
77 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.38
Consensus pattern (75 bp):
TTCGTTAGTTTATCTGACTAGTGTAGGGCACAACATTATATTTGTCAGATTTATCCGACTAATCT
GGGCACAACT
Found at i:64388589 original size:24 final size:24
Alignment explanation
Indices: 64388561--64388613 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
64388551 ATAAAAACTA
*
64388561 AACCCCGAAAACCCGAAAACAAAG
1 AACCCCGAAAACCAGAAAACAAAG
* *
64388585 AACCCCGAAAGCCAGAAAATAAAG
1 AACCCCGAAAACCAGAAAACAAAG
64388609 AACCC
1 AACCC
64388614 TCAAAACGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.53, C:0.32, G:0.13, T:0.02
Consensus pattern (24 bp):
AACCCCGAAAACCAGAAAACAAAG
Found at i:64392543 original size:61 final size:61
Alignment explanation
Indices: 64392477--64392644 Score: 169
Period size: 61 Copynumber: 2.7 Consensus size: 61
64392467 TTCAAAAATA
* * ** *
64392477 ATATTATTTTAATAGATTTAATATTAAATTTAATTTAATACTTATCTAT-TTTATTAATTTT
1 ATATTAATTTAATAGATTTAATATTAAATTTAATTTAATATTTATCT-TCTAAATAAATTTT
** * * * * *
64392538 ATATTAAAGTGAT-TATATTAATATTTAATTTAATTTAATTTTTGTCTTCTAAATAAATTTT
1 ATATTAATTTAATAGAT-TTAATATTAAATTTAATTTAATATTTATCTTCTAAATAAATTTT
* *
64392599 CTATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTTAT
1 ATATTAATTTAAT-AGATTTAATATTAAATTTAATTTAATATTTAT
64392645 ATTGATAAGT
Statistics
Matches: 82, Mismatches: 21, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
60 3 0.04
61 53 0.65
62 24 0.29
63 2 0.02
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (61 bp):
ATATTAATTTAATAGATTTAATATTAAATTTAATTTAATATTTATCTTCTAAATAAATTTT
Found at i:64394493 original size:16 final size:16
Alignment explanation
Indices: 64394469--64394499 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64394459 ATTAAAATAT
*
64394469 TAAGGACTAAAATGTA
1 TAAGAACTAAAATGTA
64394485 TAAGAACTAAAATGT
1 TAAGAACTAAAATGT
64394500 TGCTTTTGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.16, T:0.26
Consensus pattern (16 bp):
TAAGAACTAAAATGTA
Found at i:64400545 original size:24 final size:25
Alignment explanation
Indices: 64400476--64400549 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 25
64400466 TGTAAGCTTG
* *
64400476 TAACGGAAAGCTTATCTGG-GCTTAA
1 TAACAGAAAGCTTAT-AGGAGCTTAA
* *
64400501 TAACAGGAAGCTTATAAGAGCTTAA
1 TAACAGAAAGCTTATAGGAGCTTAA
* *
64400526 -ATCAGAAAGCTTATGGGAGCTTAA
1 TAACAGAAAGCTTATAGGAGCTTAA
64400550 CGGGTAACTC
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
24 21 0.52
25 19 0.47
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.26
Consensus pattern (25 bp):
TAACAGAAAGCTTATAGGAGCTTAA
Found at i:64406893 original size:15 final size:15
Alignment explanation
Indices: 64406873--64406903 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
64406863 ACACAAAGCC
64406873 TCATAAGGTGTCATT
1 TCATAAGGTGTCATT
64406888 TCATAAGGTGTCATT
1 TCATAAGGTGTCATT
64406903 T
1 T
64406904 GGATGATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (15 bp):
TCATAAGGTGTCATT
Found at i:64418324 original size:20 final size:20
Alignment explanation
Indices: 64418282--64418330 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
64418272 TCCCCCTTAA
* *
64418282 ATTGTTTTATTTATAAGATT
1 ATTGTTTTATTTATAAAAAT
64418302 ATTGTTTTATTTATAAAAAT
1 ATTGTTTTATTTATAAAAAT
*
64418322 ATTATTTTA
1 ATTGTTTTA
64418331 ATAATTAAAT
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:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (20 bp):
ATTGTTTTATTTATAAAAAT
Found at i:64425671 original size:11 final size:11
Alignment explanation
Indices: 64425657--64425702 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
64425647 AAATGGTAGC
64425657 AAAATAAGAAA
1 AAAATAAGAAA
* *
64425668 AAAACAATAAA
1 AAAATAAGAAA
64425679 AAAAT-AGCAAA
1 AAAATAAG-AAA
64425690 AAAA-AAGAAA
1 AAAATAAGAAA
64425700 AAA
1 AAA
64425703 GAAAACTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
10 7 0.24
11 22 0.76
ACGTcount: A:0.83, C:0.04, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAATAAGAAA
Found at i:64425682 original size:22 final size:21
Alignment explanation
Indices: 64425657--64425702 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
64425647 AAATGGTAGC
*
64425657 AAAATAAG-AAAAAAACAATAAA
1 AAAAT-AGCAAAAAAA-AAGAAA
64425679 AAAATAGCAAAAAAAAAGAAA
1 AAAATAGCAAAAAAAAAGAAA
64425700 AAA
1 AAA
64425703 GAAAACTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.83, C:0.04, G:0.07, T:0.07
Consensus pattern (21 bp):
AAAATAGCAAAAAAAAAGAAA
Found at i:64427081 original size:18 final size:17
Alignment explanation
Indices: 64427047--64427133 Score: 61
Period size: 18 Copynumber: 4.9 Consensus size: 17
64427037 AAATGGTAAC
*
64427047 AATTTATTTTAAATTTTG
1 AATTTA-TTTAATTTTTG
* *
64427065 AATATTATTTAGTTTTTTT
1 AAT-TTATTTA-ATTTTTG
* *
64427084 CATTTATGT-ATTTTT-
1 AATTTATTTAATTTTTG
*
64427099 AATTAATTTTAATTTTTG
1 AATTTA-TTTAATTTTTG
64427117 AATATTATTTAATTTTT
1 AAT-TTATTTAATTTTT
64427134 TTTTCATTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
15 4 0.08
16 7 0.13
17 6 0.11
18 25 0.47
19 11 0.21
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.64
Consensus pattern (17 bp):
AATTTATTTAATTTTTG
Found at i:64427109 original size:52 final size:54
Alignment explanation
Indices: 64427047--64427161 Score: 180
Period size: 54 Copynumber: 2.2 Consensus size: 54
64427037 AAATGGTAAC
* *
64427047 AATTTATTTTAAATTTTGAATATTATTT-A-GTTTTTTTCATTTATGTATTTTT
1 AATTAATTTTAAATTTTGAATATTATTTAATGTTTTTTTCATTTATGTAATTTT
* *
64427099 AATTAATTTTAATTTTTGAATATTATTTAATTTTTTTTTCATTTATGTAATTTT
1 AATTAATTTTAAATTTTGAATATTATTTAATGTTTTTTTCATTTATGTAATTTT
64427153 AATTAATTT
1 AATTAATTT
64427162 GTATTTTATA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
52 26 0.46
53 1 0.02
54 30 0.53
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (54 bp):
AATTAATTTTAAATTTTGAATATTATTTAATGTTTTTTTCATTTATGTAATTTT
Found at i:64428518 original size:31 final size:31
Alignment explanation
Indices: 64428480--64428545 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
64428470 CATCCAAGAG
*
64428480 TTAGCGTGCACCCCGGATTACATACCATGGT
1 TTAGCGTGCACCCCGAATTACATACCATGGT
* *
64428511 TTAGCGTGCACCCCGAATTATATGCCATGGT
1 TTAGCGTGCACCCCGAATTACATACCATGGT
64428542 TTAG
1 TTAG
64428546 GATCTATAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (31 bp):
TTAGCGTGCACCCCGAATTACATACCATGGT
Found at i:64428767 original size:18 final size:18
Alignment explanation
Indices: 64428744--64428780 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
64428734 TGCCAGGTGC
*
64428744 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
64428762 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
64428780 T
1 T
64428781 TTCTTTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.08, T:0.41
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:64437965 original size:53 final size:53
Alignment explanation
Indices: 64437907--64438031 Score: 250
Period size: 53 Copynumber: 2.4 Consensus size: 53
64437897 CATTTATAAC
64437907 CTAACAAATCACAATAAACCTTAAACAAATAATTAATTTAAACACAAAACTTA
1 CTAACAAATCACAATAAACCTTAAACAAATAATTAATTTAAACACAAAACTTA
64437960 CTAACAAATCACAATAAACCTTAAACAAATAATTAATTTAAACACAAAACTTA
1 CTAACAAATCACAATAAACCTTAAACAAATAATTAATTTAAACACAAAACTTA
64438013 CTAACAAATCACAATAAAC
1 CTAACAAATCACAATAAAC
64438032 AAAATAACTT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 72 1.00
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (53 bp):
CTAACAAATCACAATAAACCTTAAACAAATAATTAATTTAAACACAAAACTTA
Found at i:64438285 original size:27 final size:27
Alignment explanation
Indices: 64438255--64438328 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
64438245 AAATGGTACT
*
64438255 AGTGCCGCCTATCAGATATGGGTCACC
1 AGTGCCGCCTATCAGATAGGGGTCACC
*
64438282 AGTGCCGCCTATCAGATAGGGGTCACT
1 AGTGCCGCCTATCAGATAGGGGTCACC
*
64438309 GGTGCCGCCTATCAGATAGG
1 AGTGCCGCCTATCAGATAGG
64438329 CACGATACCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.22, C:0.27, G:0.30, T:0.22
Consensus pattern (27 bp):
AGTGCCGCCTATCAGATAGGGGTCACC
Found at i:64442131 original size:26 final size:25
Alignment explanation
Indices: 64442081--64442132 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
64442071 GATGATTATT
*
64442081 ATTATTGTTATTAAATTTTAATAAA
1 ATTATTGTTAATAAATTTTAATAAA
* *
64442106 ATTATTGTTAAATATATTTTATTAAA
1 ATTATTGTT-AATAAATTTTAATAAA
64442132 A
1 A
64442133 AATAATAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
ATTATTGTTAATAAATTTTAATAAA
Found at i:64444117 original size:91 final size:91
Alignment explanation
Indices: 64443957--64444139 Score: 339
Period size: 91 Copynumber: 2.0 Consensus size: 91
64443947 ATTTATGATA
* *
64443957 TTCGATTCATCGTCATCTATCACATTACTAGGTAATCCTTCTCCCAACTCCTCTTCAATAGGAGA
1 TTCGATTCATCGTCATCTATCACAGTACTAGGTAATCCTTCTCCCAACTCCGCTTCAATAGGAGA
64444022 AAGACTCATATAAGTTCGAATAAAAT
66 AAGACTCATATAAGTTCGAATAAAAT
*
64444048 TTCGGTTCATCGTCATCTATCACAGTACTAGGTAATCCTTCTCCCAACTCCGCTTCAATAGGAGA
1 TTCGATTCATCGTCATCTATCACAGTACTAGGTAATCCTTCTCCCAACTCCGCTTCAATAGGAGA
64444113 AAGACTCATATAAGTTCGAATAAAAT
66 AAGACTCATATAAGTTCGAATAAAAT
64444139 T
1 T
64444140 ATGGAGCAAA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (91 bp):
TTCGATTCATCGTCATCTATCACAGTACTAGGTAATCCTTCTCCCAACTCCGCTTCAATAGGAGA
AAGACTCATATAAGTTCGAATAAAAT
Found at i:64446681 original size:18 final size:18
Alignment explanation
Indices: 64446658--64446694 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
64446648 ATAAAACAAG
*
64446658 ACCTCCTCTAATCTATCA
1 ACCTCCTCTAATCCATCA
64446676 ACCTCCTCTAATCCATCA
1 ACCTCCTCTAATCCATCA
64446694 A
1 A
64446695 TTATTAGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.41, G:0.00, T:0.30
Consensus pattern (18 bp):
ACCTCCTCTAATCCATCA
Found at i:64448195 original size:21 final size:21
Alignment explanation
Indices: 64448169--64448209 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
64448159 TCATTTAGGC
64448169 ACAATTTGCTTTGCTAGTTTT
1 ACAATTTGCTTTGCTAGTTTT
64448190 ACAATTTGCTTTGCTAGTTT
1 ACAATTTGCTTTGCTAGTTT
64448210 ATATCCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.51
Consensus pattern (21 bp):
ACAATTTGCTTTGCTAGTTTT
Found at i:64469539 original size:34 final size:34
Alignment explanation
Indices: 64469494--64469558 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
64469484 TTCAGTACAT
*
64469494 AATGGGCTGTACAAGCTTAACCTAATTAACTGTC
1 AATGGGCTGTACAAGCTTAACCTAACTAACTGTC
*
64469528 AATGGGTTGTACAAGCTTAACCTAACTAACT
1 AATGGGCTGTACAAGCTTAACCTAACTAACT
64469559 CGTCCTACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (34 bp):
AATGGGCTGTACAAGCTTAACCTAACTAACTGTC
Found at i:64472432 original size:30 final size:30
Alignment explanation
Indices: 64472397--64472454 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
64472387 CACGTCCATG
* *
64472397 ACACACGGGCGTGTAG-TCTACCCGTGTGTC
1 ACACACGGGCATGTGGCTC-ACCCGTGTGTC
64472427 ACACACGGGCATGTGGCTCACCCGTGTG
1 ACACACGGGCATGTGGCTCACCCGTGTG
64472455 GAAGTGCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.17, C:0.31, G:0.31, T:0.21
Consensus pattern (30 bp):
ACACACGGGCATGTGGCTCACCCGTGTGTC
Found at i:64486503 original size:205 final size:205
Alignment explanation
Indices: 64486126--64486609 Score: 711
Period size: 205 Copynumber: 2.4 Consensus size: 205
64486116 GGGAACATCC
* * * * * *
64486126 GAAAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAGATCC-TATTG
1 GAAAGCCAAATCAGCTATGCCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCA-AACCATCTTG
* * * ** *
64486190 GATCTAGCTTCAATATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGG
65 GATC-AGCTTCAACATAAACATCCGAAGGTCAGATCTACTATGTATCTGCTCTCCATCAAAGTGA
* *
64486255 AGATGCCAGACTTCGATTTGTTCTCTGAAAATACAGAGACGACAAATCATCTTAGATTTGCTTCA
129 AGATGCCAAACTTCGATTCGTTCTCTGAAAATACAGAGACGACAAATCATCTTAGATTTGCTTCA
64486320 TCGTAAGTATGT
194 TCGTAAGTATGT
* *
64486332 GAAAGCCAAATCAGCTGTGCCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGCCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGG
* * * *
64486397 ATCCGCTTCAGCATAAACATCCGAAGG-CGAGATCTACTATGTGTTTGCTCTCCATCAAAGTGAA
66 ATCAGCTTCAACATAAACATCCGAAGGTC-AGATCTACTATGTATCTGCTCTCCATCAAAGTGAA
* *
64486461 GATGCCAAACTTTGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAT
130 GATGCCAAACTTCGATTCGTTCTCTGAAAATACAGAGACGACAAATCATCTTAGATTTGCTTCAT
64486526 CGTAAGTATGT
195 CGTAAGTATGT
*
64486537 GAAAGCCAAATCAGCTATGCCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGG
1 GAAAGCCAAATCAGCTATGCCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGG
*
64486602 ATCTGCTT
66 ATCAGCTT
64486610 TAACCAGATC
Statistics
Matches: 250, Mismatches: 26, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
204 1 0.00
205 193 0.77
206 56 0.22
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (205 bp):
GAAAGCCAAATCAGCTATGCCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGG
ATCAGCTTCAACATAAACATCCGAAGGTCAGATCTACTATGTATCTGCTCTCCATCAAAGTGAAG
ATGCCAAACTTCGATTCGTTCTCTGAAAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
GTAAGTATGT
Found at i:64486823 original size:87 final size:86
Alignment explanation
Indices: 64486727--64486969 Score: 297
Period size: 88 Copynumber: 2.8 Consensus size: 86
64486717 CAACCTATTA
* **
64486727 CCCTACTGCTTAGGGATTTAAGGTCTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAA
1 CCCTACTGCTTAGGG-TTTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAA
* * *
64486792 GCTCATTATCTTTGATCTGTTT
65 GCTCATCACCTTCGATCTGTTT
* * *
64486814 CCCTACTGCTTAGGGTGATAAGATCTATGAACTTCAGCTTGTTACCCTACTGCTTAGGGGGTTAA
1 CCCTACTGCTTAGGGT-TTAAGATCTGT-AAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAA
* *
64486879 AGCTCGTCGCCTTCGATCTGTTT
64 AGCTCATCACCTTCGATCTGTTT
* * * * * *
64486902 CCCTATTGCCTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTCCTGCTTAGGGGGTTAAA
1 CCCTACTGCTTA-GGGTTTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAA
64486967 GCT
65 GCT
64486970 TGGTGAATTC
Statistics
Matches: 133, Mismatches: 20, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
86 1 0.01
87 59 0.44
88 70 0.53
89 3 0.02
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (86 bp):
CCCTACTGCTTAGGGTTTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAAG
CTCATCACCTTCGATCTGTTT
Found at i:64486960 original size:43 final size:43
Alignment explanation
Indices: 64486678--64486965 Score: 177
Period size: 44 Copynumber: 6.6 Consensus size: 43
64486668 CGCATTTGAT
* * ** *
64486678 CTGTTTCCCTATTGCTTAGGGGGTTTTGAT-TCGTACATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-GTAAATTCAAC
* ** * ***
64486721 CTATTACCCTACTGCTTAGGGATTTAAGGTCTGTAAATTTGGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAAC
* * ** ** *
64486764 TTGTTACCCTACTGCTTAGGGGGTTAAAGCTCAT-TATCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTT-AAGATC-TGTAAATTCAAC
* * * * * *
64486808 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTATGAACTTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCAAC
* * *** * *
64486852 TTGTTACCCTACTGCTTAGGGGGTTAA-AGCTCGTCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-GT-AAATTCAAC
* * *
64486896 CTGTTTCCCTATTGCCTAGGGGGTTAAGATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAAC
*
64486939 CTGTTACCCTCCTGCTTAGGGGGTTAA
1 CTGTTACCCTACTGCTTAGGGGGTTAA
64486966 AGCTTGGTGA
Statistics
Matches: 181, Mismatches: 57, Indels: 14
0.72 0.23 0.06
Matches are distributed among these distances:
42 1 0.01
43 86 0.48
44 90 0.50
45 4 0.02
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAAC
Found at i:64498779 original size:22 final size:20
Alignment explanation
Indices: 64498738--64498780 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
64498728 GATAATAGAT
*
64498738 ATAAAATTTTAAAGTAAATA
1 ATAAAATTTTAAAATAAATA
*
64498758 ATAAAATGATTTAAAATGAATA
1 ATAAAAT--TTTAAAATAAATA
64498780 A
1 A
64498781 CACATAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (20 bp):
ATAAAATTTTAAAATAAATA
Found at i:64512792 original size:45 final size:45
Alignment explanation
Indices: 64512738--64512899 Score: 197
Period size: 45 Copynumber: 3.7 Consensus size: 45
64512728 CTGATGTCTT
64512738 AGACATGGTCTTACACGTAACCACATATATCGATGCCAACGTCCC
1 AGACATGGTCTTACACGTAACCACATATATCGATGCCAACGTCCC
* * * * * * *
64512783 AGACGTGGTCTTACACG-AATC-GA-ATA-CGATACCGATGTCTC
1 AGACATGGTCTTACACGTAACCACATATATCGATGCCAACGTCCC
*
64512824 AGACATGGTCTTACACGTAACCACATATATCGATGCCAACGTCCT
1 AGACATGGTCTTACACGTAACCACATATATCGATGCCAACGTCCC
* * *
64512869 AGACATGGTCTTACATGAAATCACATATATC
1 AGACATGGTCTTACACGTAACCACATATATC
64512900 AAAATCCTAT
Statistics
Matches: 95, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
41 27 0.28
42 6 0.06
43 2 0.02
44 6 0.06
45 54 0.57
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (45 bp):
AGACATGGTCTTACACGTAACCACATATATCGATGCCAACGTCCC
Found at i:64512803 original size:86 final size:86
Alignment explanation
Indices: 64512678--64512883 Score: 308
Period size: 86 Copynumber: 2.4 Consensus size: 86
64512668 ATGCTATCTC
* * * * * *
64512678 ATATCGATGTC-ACTGTCCCAGACAG-GGTCTTACATGAATCGAATTCGATGCTGATGTCTTAGA
1 ATATCGATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAATCGAATACGATACCGATGTCTCAGA
64512741 CATGGTCTTACACGTAACCACAT
64 CATGGTCTTACACGTAACCACAT
64512764 ATATCGATGCCAACGTCCCAGACGTGGTCTTACACGAATCGAATACGATACCGATGTCTCAGACA
1 ATATCGATGCCAACGTCCCAGACGTGGTCTTACACGAATCGAATACGATACCGATGTCTCAGACA
64512829 TGGTCTTACACGTAACCACAT
66 TGGTCTTACACGTAACCACAT
* *
64512850 ATATCGATGCCAACGTCCTAGACATGGTCTTACA
1 ATATCGATGCCAACGTCCCAGACGTGGTCTTACA
64512884 TGAAATCACA
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
85 1 0.01
86 107 0.97
87 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (86 bp):
ATATCGATGCCAACGTCCCAGACGTGGTCTTACACGAATCGAATACGATACCGATGTCTCAGACA
TGGTCTTACACGTAACCACAT
Found at i:64512835 original size:41 final size:41
Alignment explanation
Indices: 64512691--64512883 Score: 152
Period size: 45 Copynumber: 4.5 Consensus size: 41
64512681 TCGATGTCAC
* * * *
64512691 TGTCCCAGACAGGGTCTTACATGAATCGAATTCGATGCTGA
1 TGTCCCAGACATGGTCTTACACGAATCGAATACGATGCCGA
** * * *
64512732 TGTCTTAGACATGGTCTTACACGTAACCACATATATCGATGCCAA
1 TGTCCCAGACATGGTCTTACACG-AATC-GA-ATA-CGATGCCGA
* * *
64512777 CGTCCCAGACGTGGTCTTACACGAATCGAATACGATACCGA
1 TGTCCCAGACATGGTCTTACACGAATCGAATACGATGCCGA
* * * *
64512818 TGTCTCAGACATGGTCTTACACGTAACCACATATATCGATGCCAA
1 TGTCCCAGACATGGTCTTACACG-AATC-GA-ATA-CGATGCCGA
* *
64512863 CGTCCTAGACATGGTCTTACA
1 TGTCCCAGACATGGTCTTACA
64512884 TGAAATCACA
Statistics
Matches: 117, Mismatches: 27, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
41 46 0.39
42 9 0.08
43 3 0.03
44 8 0.07
45 51 0.44
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (41 bp):
TGTCCCAGACATGGTCTTACACGAATCGAATACGATGCCGA
Found at i:64514013 original size:14 final size:15
Alignment explanation
Indices: 64513996--64514024 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
64513986 TCATGAAAAT
64513996 TTCACACAT-ATAAA
1 TTCACACATAATAAA
64514010 TTCACACATAATAAA
1 TTCACACATAATAAA
64514025 CACAGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:64514854 original size:15 final size:16
Alignment explanation
Indices: 64514827--64514863 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
64514817 ATCAATTAGC
*
64514827 CACATACCAAACAACT
1 CACATACCAAACAAAT
64514843 CACATA-CAAACAAAT
1 CACATACCAAACAAAT
64514858 CACATA
1 CACATA
64514864 TAGTAGACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.14
Consensus pattern (16 bp):
CACATACCAAACAAAT
Found at i:64515263 original size:36 final size:36
Alignment explanation
Indices: 64515213--64515291 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
64515203 CTACCTACAT
* * **
64515213 GGTCTGCACGATTTCACAAGATTGTGTGGCCCACAC
1 GGTCTACACAATTTCACAAGACCGTGTGGCCCACAC
* *
64515249 GGTCTACACAATTTCACACGACCGTGTGGTCCACAC
1 GGTCTACACAATTTCACAAGACCGTGTGGCCCACAC
64515285 GGTCTAC
1 GGTCTAC
64515292 CTACACAATC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (36 bp):
GGTCTACACAATTTCACAAGACCGTGTGGCCCACAC
Found at i:64517469 original size:3 final size:3
Alignment explanation
Indices: 64517461--64517510 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
64517451 CACATCTTTT
64517461 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
64517509 TA
1 TA
64517511 GTGATAATTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:64519549 original size:13 final size:13
Alignment explanation
Indices: 64519510--64519553 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
64519500 ATCCTAACAC
64519510 AATTTTAATTTTA
1 AATTTTAATTTTA
*
64519523 ATATTTTTATTTTA
1 A-ATTTTAATTTTA
*
64519537 AATTCTAATTTTA
1 AATTTTAATTTTA
64519550 AATT
1 AATT
64519554 GATAGATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
AATTTTAATTTTA
Found at i:64519623 original size:20 final size:21
Alignment explanation
Indices: 64519598--64519636 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
64519588 TTTATGGAAA
*
64519598 TTTAATTTA-AATAATATATT
1 TTTAATTTATAAAAATATATT
64519618 TTTAATTTATAAAAATATA
1 TTTAATTTATAAAAATATA
64519637 GTTTAAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAATTTATAAAAATATATT
Found at i:64519641 original size:20 final size:20
Alignment explanation
Indices: 64519598--64519642 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
64519588 TTTATGGAAA
* *
64519598 TTTAATTTAAATAATATATT
1 TTTAATTTAAAAAATATATG
64519618 TTTAATTTATAAAAATATA-G
1 TTTAATTTA-AAAAATATATG
64519638 TTTAA
1 TTTAA
64519643 AGTTCAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTAATTTAAAAAATATATG
Found at i:64520116 original size:10 final size:10
Alignment explanation
Indices: 64520103--64520128 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
64520093 TTTTTAAAAT
64520103 ATTTTTTATA
1 ATTTTTTATA
64520113 ATTTTTTATA
1 ATTTTTTATA
64520123 ATTTTT
1 ATTTTT
64520129 AAATTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:64534358 original size:18 final size:18
Alignment explanation
Indices: 64534337--64534379 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
64534327 CCTTCTCTGT
*
64534337 TTTTTTTCTATTCT-TTTC
1 TTTTATTCT-TTCTGTTTC
*
64534355 TTTTATTCTTTTTGTTTC
1 TTTTATTCTTTCTGTTTC
64534373 TTTTATT
1 TTTTATT
64534380 ATTTGTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (18 bp):
TTTTATTCTTTCTGTTTC
Found at i:64551006 original size:14 final size:14
Alignment explanation
Indices: 64550983--64551017 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
64550973 TGAGTTGATT
64550983 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
64550996 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
64551010 TTTGAAAA
1 TTTGAAAA
64551018 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:64551015 original size:86 final size:87
Alignment explanation
Indices: 64550914--64551073 Score: 189
Period size: 88 Copynumber: 1.8 Consensus size: 87
64550904 TGAATTAAAA
* * * * *
64550914 AAAAACAGAAATTG-AATAGCTC-AGCACGTAAGCCAAGGCTCAACTCACTTCTTGCAATATGAG
1 AAAAACAGAAATTGAAATACCTCGA-CACGTAACCCAAGGCTCAACTCACATATCGCAATATGAG
64550977 TTGATTTTTGAAAACAGAATTTG
65 TTGATTTTTGAAAACAGAATTTG
** * * * *
64551000 AAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATATCGCAATGTGAG
1 AAAAACAGAAATTG-AAATACCTCGACACGTAACCCAAGGCTCAACTCACATATCGCAATATGAG
64551065 TTGATTTTT
65 TTGATTTTT
64551074 TTGAAAAATA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
86 12 0.20
88 47 0.78
89 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (87 bp):
AAAAACAGAAATTGAAATACCTCGACACGTAACCCAAGGCTCAACTCACATATCGCAATATGAGT
TGATTTTTGAAAACAGAATTTG
Found at i:64551125 original size:79 final size:77
Alignment explanation
Indices: 64550996--64551252 Score: 266
Period size: 79 Copynumber: 3.3 Consensus size: 77
64550986 GAAAACAGAA
** ** * * * *
64550996 TTTGAAAAACAGATTTTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACATATCGCAAT
1 TTTGAAAAACAGAAATTGAAAATACCTCAG-CGCGTGAGCCAAGGCTCAACTCACTTCTCGCAAT
*
64551060 GTGAGTTGATTTT
65 ATGAGTTGATTTT
* * * * * *
64551073 TTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACTTCTCGCA
1 TTTGAAAAACAGAAATTG--AAAATACCTCAGCGCGTGAGC-CAAGGCTCAACTCACTTCTCGCA
64551137 ATATGAGTTGATTTT
63 ATATGAGTTGATTTT
* * *
64551152 TTTGAAAGACAGAAATTGAAAATAGCTCTGCGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATA
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATA
64551217 TGAGTTGATTTTTT
66 TGAGTTGA--TTTT
**
64551231 TTTGAAAGGCAGAAATTGAAAA
1 TTTGAAAAACAGAAATTGAAAA
64551253 ACGGAAATTG
Statistics
Matches: 151, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
76 2 0.01
77 60 0.40
79 87 0.58
80 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (77 bp):
TTTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATA
TGAGTTGATTTT
Found at i:64551317 original size:93 final size:93
Alignment explanation
Indices: 64551153--64551324 Score: 222
Period size: 93 Copynumber: 1.8 Consensus size: 93
64551143 GTTGATTTTT
* * * * * *
64551153 TTGAAAGACAGAAATTGAAAATAGCTCTGCGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCTGCGCGTGAGACAAGGCTCAACTCACCTCTCACAATAC
64551218 GAGTTGATTTTTTTTTGAAAGGCAGAAA
66 GAGTTGATTTTTTTTTGAAAGGCAGAAA
* * *
64551246 TTGAAAAACGGAAATTGAAAATACCTC-G-GCGTGTGACATGAGGCTCAACTCGCCTCTCACAAT
1 TTGAAAAACAGAAATTGAAAATACCTCTGCGCGTGAGACA--AGGCTCAACTCACCTCTCACAAT
*
64551309 ACGGGTTGATTTTTTT
64 ACGAGTTGATTTTTTT
64551325 GACAACAGAA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
91 8 0.12
92 1 0.01
93 58 0.87
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (93 bp):
TTGAAAAACAGAAATTGAAAATACCTCTGCGCGTGAGACAAGGCTCAACTCACCTCTCACAATAC
GAGTTGATTTTTTTTTGAAAGGCAGAAA
Found at i:64551326 original size:249 final size:243
Alignment explanation
Indices: 64550875--64551494 Score: 713
Period size: 244 Copynumber: 2.6 Consensus size: 243
64550865 AGAAATTAAA
* * **** *
64550875 AAGCTCAACTCACCTCTTGCAATATGAGTTGA-ATTAAAAAAAAACAGAAATTG--AATAGCTCA
1 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATAGCTCT
* * * *
64550937 GCACGTAAGCCAAGGCTCAACTCACTTCTTGCAATATGAGTTGA----TTTTTGAAAACAGAATT
66 GCGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAAT
** * * **
64550998 TGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATATCGCAATGTG
131 TGAAAAACAGAAATTGAAAATACCTCGACATGTGACACGAGGCTCAACTCACATATCACAATACG
* * * *
64551063 AGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTG
196 AGTTGATTTTTTTG-AAAACAGAAATTG--AAAATACCTCAGCGTGT--CCTG
* *
64551116 AAGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCT
1 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATAGCTCT
*
64551181 GCGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTGAAAGGCAGAAA
66 GCGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTGAAA-ACAGAAA
* * * * * * *
64551246 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACATGAGGCTCAACTCGCCTCTCACAATAC
130 TTGAAAAACAGAAATTGAAAATACCTCGACATGTGACACGAGGCTCAACTCACATATCACAATAC
* * *
64551311 GGGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTG
195 GAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTG
*
64551360 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATA-C-CT
1 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATAGCTCT
* * ** * *
64551423 -CAGCATG-TCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTTTTTGAAAAACAGA
66 GC-GCGTGAGC-CAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTG-AAAACAGA
64551486 AATTGAAAA
128 AATTGAAAA
64551495 TACCTAAGCA
Statistics
Matches: 324, Mismatches: 44, Indels: 21
0.83 0.11 0.05
Matches are distributed among these distances:
241 32 0.10
242 74 0.23
243 4 0.01
244 109 0.34
246 15 0.05
248 19 0.06
249 71 0.22
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (243 bp):
AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATAGCTCT
GCGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAAT
TGAAAAACAGAAATTGAAAATACCTCGACATGTGACACGAGGCTCAACTCACATATCACAATACG
AGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTG
Found at i:64551505 original size:77 final size:75
Alignment explanation
Indices: 64551246--64551598 Score: 435
Period size: 77 Copynumber: 4.7 Consensus size: 75
64551236 AAGGCAGAAA
* * * *** *
64551246 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACATGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTCACAATAT
*
64551311 GGGTTGATTTTT
64 GAGTTGATTTTT
* * * ** *
64551323 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
64551387 GTTGATTTTT
66 GTTGATTTTT
*
64551397 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
64551462 GTTGATTTTTTT
66 GTTGA--TTTTT
* * * * *
64551474 TTGAAAAACAGAAATTGAAAATACCTAAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
*
64551539 GTTGA--ATT
66 GTTGATTTTT
* *
64551547 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTAAGGCTCAACTCATTT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTT
64551599 TGAACAAAAA
Statistics
Matches: 247, Mismatches: 26, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
72 44 0.18
73 5 0.02
74 39 0.16
75 59 0.24
76 26 0.11
77 74 0.30
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
GTTGATTTTT
Found at i:64551571 original size:149 final size:148
Alignment explanation
Indices: 64551246--64551598 Score: 449
Period size: 149 Copynumber: 2.4 Consensus size: 148
64551236 AAGGCAGAAA
* * * ***
64551246 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACATGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTCACAATAC
* * * * * *
64551311 GGGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
64 GAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTAAGCATGTCCTGAGGCTCAACTAACCTC
*
64551376 TCGCAATATGAGTTGATTTTT
129 TCGCAATATGAGTTGA-TATT
* *
64551397 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATACGA
* **
64551462 GTTGATTTTTTTTTGAAAAACAGAAATTGAAAATACCTAAGCATGTCTTGAGGCTCAACTAATTT
66 GTTGA--TTTTTTTG-AAAACAGAAATTGAAAATACCTAAGCATGTCCTGAGGCTCAACTAACCT
*
64551527 CTCGCAATATGCGTTGA-ATT
128 CTCGCAATATGAGTTGATATT
* *
64551547 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTAAGGCTCAACTCATTT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTT
64551599 TGAACAAAAA
Statistics
Matches: 177, Mismatches: 22, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
149 76 0.43
150 5 0.03
151 39 0.22
152 57 0.32
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (148 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATACGA
GTTGATTTTTTTGAAAACAGAAATTGAAAATACCTAAGCATGTCCTGAGGCTCAACTAACCTCTC
GCAATATGAGTTGATATT
Found at i:64551618 original size:49 final size:49
Alignment explanation
Indices: 64551552--64551647 Score: 165
Period size: 49 Copynumber: 2.0 Consensus size: 49
64551542 GAATTTTGAA
* *
64551552 AACAGAAATTGAAATTACCTCAGCGTGTCTTAAGGCTCAACTCATTTTG
1 AACAAAAATTGAAATTACCTCAACGTGTCTTAAGGCTCAACTCATTTTG
*
64551601 AACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAAAAATTGAAATTACCTCAACGTGTCTTAAGGCTCAACTCATTT
64551648 CTCGCAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (49 bp):
AACAAAAATTGAAATTACCTCAACGTGTCTTAAGGCTCAACTCATTTTG
Found at i:64551633 original size:121 final size:121
Alignment explanation
Indices: 64551480--64551719 Score: 392
Period size: 121 Copynumber: 2.0 Consensus size: 121
64551470 TTTTTTGAAA
* *
64551480 AACAGAAATTGAAAATACCTAAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGCGTTGAA
1 AACAAAAATTGAAAATACCTAAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
*
64551545 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTAAGGCTCAACTCATTTTG
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTAAGGCTCAACTCATTTTG
* * *
64551601 AACAAAAATTGAAATTACCTCAA-CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AACAAAAATTGAAAATACCT-AAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGA
* *
64551665 ATTTTGAAAACAGAAATTTAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
65 ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTAAGGCTCAACTCATTT
64551720 CTCGCAATAT
Statistics
Matches: 110, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
121 108 0.98
122 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (121 bp):
AACAAAAATTGAAAATACCTAAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTAAGGCTCAACTCATTTTG
Found at i:64551710 original size:72 final size:72
Alignment explanation
Indices: 64551601--64551885 Score: 552
Period size: 72 Copynumber: 4.0 Consensus size: 72
64551591 ACTCATTTTG
*
64551601 AACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
64551666 TTTTGAA
66 TTTTGAA
*
64551673 AACAGAAATTTAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
64551738 TTTTGAA
66 TTTTGAA
64551745 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
64551810 TTTTGAA
66 TTTTGAA
64551817 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
64551882 TTTT
66 TTTT
64551886 NNNNNNNNNN
Statistics
Matches: 210, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 210 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:64551742 original size:193 final size:195
Alignment explanation
Indices: 64551403--64551791 Score: 604
Period size: 193 Copynumber: 2.0 Consensus size: 195
64551393 TTTTTTGAAA
* *
64551403 AACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAT
1 AACAAAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGA-
*
64551468 TTTTTTTTGAAAAACAGAAATTGAAAATACCTAAGCATGTCTTGAGGCTCAACTAATTTCTCGCA
65 --TATTTTGAAAAACAGAAATTGAAAATACCTAAGCATGTCTTGAGGCTCAACTAATTTCTCGCA
* *
64551533 ATATGCGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTAAGGCTCAACTCATT
128 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTAAGGCTCAACTCATT
64551598 TTG
193 TTG
* * *
64551601 AACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-
1 AACAAAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAT
* * * *
64551665 ATTTTG-AAAACAGAAATTTAAATTACCTCAA-CGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
66 ATTTTGAAAAACAGAAATTGAAAATACCT-AAGCATGTCTTGAGGCTCAACTAATTTCTCGCAAT
*
64551728 ATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
130 ATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTAAGGCTCAACTCATTT
64551792 CTCGCAATAT
Statistics
Matches: 177, Mismatches: 13, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
193 111 0.63
194 7 0.04
198 59 0.33
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (195 bp):
AACAAAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAT
ATTTTGAAAAACAGAAATTGAAAATACCTAAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATA
TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTAAGGCTCAACTCATTTTG
Found at i:64551814 original size:265 final size:269
Alignment explanation
Indices: 64551328--64551863 Score: 830
Period size: 265 Copynumber: 2.0 Consensus size: 269
64551318 TTTTTTTGAC
* *
64551328 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAAAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
* *
64551393 TTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAAT
65 TATTTTGAAAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAAT
*
64551458 ATGAGTTGATTTTTTTTTGAAAAACAGAAATTGAAAATACCTAAGCATGTCTTGAGGCTCAACTA
130 ATGAGTTGA---TATTTTGAAAAACAGAAATTGAAAATACCTAAGCATGTCTTGAGGCTCAACTA
* *
64551523 ATTTCTCGCAATATGCGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTAAGGC
192 ATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTAAGGC
64551588 TCAACTCATTTTG
257 TCAACTCATTTTG
* **
64551601 AACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-
1 AACAAAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * * *
64551665 ATTTTG-AAAACAGAAATTTAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
66 ATTTTGAAAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAATA
* * *
64551729 TGAGTTGA-ATTTTG-AAAACAGAAATTGAAATTACCTCAA-CGTGTCTTGAGGCTCAACTCATT
131 TGAGTTGATATTTTGAAAAACAGAAATTGAAAATACCT-AAGCATGTCTTGAGGCTCAACTAATT
*
64551791 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
195 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTAAGGCTCA
64551856 ACTCATTT
260 ACTCATTT
64551864 CTCGCAATAT
Statistics
Matches: 244, Mismatches: 18, Indels: 10
0.90 0.07 0.04
Matches are distributed among these distances:
265 112 0.46
266 7 0.03
270 61 0.25
271 5 0.02
273 59 0.24
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (269 bp):
AACAAAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
ATTTTGAAAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAATA
TGAGTTGATATTTTGAAAAACAGAAATTGAAAATACCTAAGCATGTCTTGAGGCTCAACTAATTT
CTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTAAGGCTCAA
CTCATTTTG
Found at i:64553250 original size:14 final size:14
Alignment explanation
Indices: 64553227--64553261 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
64553217 TGAGTTGATT
64553227 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
64553240 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
64553254 TTTGAAAA
1 TTTGAAAA
64553262 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:64563752 original size:25 final size:23
Alignment explanation
Indices: 64563718--64563769 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 23
64563708 GGTTTCTTGG
*
64563718 TTTTTTTTTTGGGGTTAGGTTTT
1 TTTTTTTTTTTGGGTTAGGTTTT
64563741 TCTTTTTTTTTTGGGTTAGGTTTT
1 T-TTTTTTTTTTGGGTTAGGTTTT
64563765 TTTTT
1 TTTTT
64563770 GGGGGGCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.04, C:0.02, G:0.21, T:0.73
Consensus pattern (23 bp):
TTTTTTTTTTTGGGTTAGGTTTT
Found at i:64564094 original size:21 final size:21
Alignment explanation
Indices: 64564068--64564108 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
64564058 TTACATGAAC
*
64564068 TAATTTTAAAT-TATTTGGTAG
1 TAATTTAAAATCTA-TTGGTAG
64564089 TAATTTAAAATCTATTGGTA
1 TAATTTAAAATCTATTGGTA
64564109 CATATGGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (21 bp):
TAATTTAAAATCTATTGGTAG
Found at i:64565914 original size:13 final size:13
Alignment explanation
Indices: 64565896--64565921 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64565886 ATTATTTCTT
64565896 ATTTTACATTAAA
1 ATTTTACATTAAA
64565909 ATTTTACATTAAA
1 ATTTTACATTAAA
64565922 TAATATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTTACATTAAA
Found at i:64574404 original size:18 final size:18
Alignment explanation
Indices: 64574377--64574411 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
64574367 CAAAATTGAA
* *
64574377 TCAAATTAATTATTTAAG
1 TCAAAATAATTAATTAAG
64574395 TCAAAATAATTAATTAA
1 TCAAAATAATTAATTAA
64574412 ATTAATTGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (18 bp):
TCAAAATAATTAATTAAG
Found at i:64575883 original size:16 final size:16
Alignment explanation
Indices: 64575862--64575892 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
64575852 CATGCCATAA
64575862 TTATATTTAAAATTTC
1 TTATATTTAAAATTTC
64575878 TTATATTTAAAATTT
1 TTATATTTAAAATTT
64575893 TAATACATTG
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:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATATTTAAAATTTC
Found at i:64576403 original size:26 final size:26
Alignment explanation
Indices: 64576367--64576417 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
64576357 CATCTGATGG
*
64576367 TTAACTTTAATAGTTGACCATTAAAC
1 TTAACTTTAATAGTTGACAATTAAAC
64576393 TTAACTTTAATAGTTGACAATTAAA
1 TTAACTTTAATAGTTGACAATTAAA
64576418 GCAGTTGACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (26 bp):
TTAACTTTAATAGTTGACAATTAAAC
Found at i:64576425 original size:16 final size:16
Alignment explanation
Indices: 64576404--64576434 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
64576394 TAACTTTAAT
64576404 AGTTGACAATTAAAGC
1 AGTTGACAATTAAAGC
64576420 AGTTGACAATTAAAG
1 AGTTGACAATTAAAG
64576435 TTAATTGTCC
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:0.45, C:0.10, G:0.19, T:0.26
Consensus pattern (16 bp):
AGTTGACAATTAAAGC
Found at i:64576574 original size:20 final size:20
Alignment explanation
Indices: 64576526--64576584 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
64576516 TAAAAATCAA
* *
64576526 TAAAAATT-ATAAAGATTAT
1 TAAAAATTAATAAAAAATAT
**
64576545 TAAATTTTAATAAAAAATAT
1 TAAAAATTAATAAAAAATAT
64576565 TAAAAATTAA-AAAAATATAT
1 TAAAAATTAATAAAAA-ATAT
64576585 ATATTGTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 11 0.34
20 21 0.66
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
TAAAAATTAATAAAAAATAT
Found at i:64576606 original size:28 final size:29
Alignment explanation
Indices: 64576575--64576642 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 29
64576565 TAAAAATTAA
64576575 AAAAATATATATATTGTA-AAAAAACCAT
1 AAAAATATATATATTGTATAAAAAACCAT
* * * *
64576603 AAAAATGTA-AAATTTTATAAAAAATCAT
1 AAAAATATATATATTGTATAAAAAACCAT
*
64576631 AAAAGTAT-TATA
1 AAAAATATATATA
64576643 AATTAAAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
27 6 0.19
28 25 0.81
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (29 bp):
AAAAATATATATATTGTATAAAAAACCAT
Found at i:64576981 original size:29 final size:30
Alignment explanation
Indices: 64576930--64577004 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 30
64576920 ATTTCCATAT
* * *
64576930 ATTTTATAATTTTT-TCTATTTTTACT-AA
1 ATTTAATAATTTTTATATTTTTTTACTAAA
* *
64576958 TTTTAA-ATATTTTTATATTTTTTTATTAAA
1 ATTTAATA-ATTTTTATATTTTTTTACTAAA
64576988 ATTTAATAATTTTTATA
1 ATTTAATAATTTTTATA
64577005 GCTTTTATTG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 1 0.03
28 10 0.27
29 9 0.24
30 16 0.43
31 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (30 bp):
ATTTAATAATTTTTATATTTTTTTACTAAA
Found at i:64577343 original size:16 final size:16
Alignment explanation
Indices: 64577292--64577343 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
64577282 ATTCAAAAAG
64577292 AATAATTT-AAAATTA
1 AATAATTTCAAAATTA
* *
64577307 TAAAAATACTCAAATATTA
1 -AATAAT-TTCAAA-ATTA
64577326 AATAATTTCAAAATTA
1 AATAATTTCAAAATTA
64577342 AA
1 AA
64577344 AAAAGTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
16 11 0.38
17 6 0.21
18 8 0.28
19 4 0.14
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAATTTCAAAATTA
Found at i:64577538 original size:25 final size:24
Alignment explanation
Indices: 64577500--64577560 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
64577490 TAACATTTTT
64577500 TTAAAAAT-TGAAAG-CCAAATTTAA
1 TTAAAAATAT-AAAGACCAAA-TTAA
*
64577524 CTTAAAAATATAAAGATCAAATTAA
1 -TTAAAAATATAAAGACCAAATTAA
64577549 TTAAAATATATA
1 TTAAAA-ATATA
64577561 TAAAAATTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 6 0.19
25 21 0.66
26 5 0.16
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.31
Consensus pattern (24 bp):
TTAAAAATATAAAGACCAAATTAA
Found at i:64586428 original size:26 final size:25
Alignment explanation
Indices: 64586399--64586447 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
64586389 AAATAATTTA
*
64586399 ATAAATAAAAATAAAATTCTAAAACT
1 ATAAATAAAAAT-AAAGTCTAAAACT
* *
64586425 ATAACTAAAACTAAAGTCTAAAA
1 ATAAATAAAAATAAAGTCTAAAA
64586448 GTCTAAACTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.24
Consensus pattern (25 bp):
ATAAATAAAAATAAAGTCTAAAACT
Found at i:64587290 original size:57 final size:58
Alignment explanation
Indices: 64587134--64587290 Score: 201
Period size: 58 Copynumber: 2.7 Consensus size: 58
64587124 TGCATGTTGT
* * *
64587134 TATAAATTGAATTAAAGTTGTTGTTTGAGTGTTTCAAATTGGGCATTTTCATACTGTC
1 TATAAATTGAATTAAAGTTGCTGTTTTAGTGTTTCAAATTGAGCATTTTCATACTGTC
* * * * *
64587192 TTAAAAATTGAA-TCAAGCTGCTATTTTAGTGTTTCAAATTGAGCATTTTCATCCTGTC
1 -TATAAATTGAATTAAAGTTGCTGTTTTAGTGTTTCAAATTGAGCATTTTCATACTGTC
* *
64587250 -ATAAATTGAATTAAAGTTGGTGTTTTAGTGTATCAAATTGA
1 TATAAATTGAATTAAAGTTGCTGTTTTAGTGTTTCAAATTGA
64587291 TCATGCTGCC
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
56 9 0.11
57 25 0.30
58 39 0.47
59 10 0.12
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.43
Consensus pattern (58 bp):
TATAAATTGAATTAAAGTTGCTGTTTTAGTGTTTCAAATTGAGCATTTTCATACTGTC
Found at i:64589967 original size:149 final size:149
Alignment explanation
Indices: 64589696--64589994 Score: 535
Period size: 149 Copynumber: 2.0 Consensus size: 149
64589686 TCATCATAAG
* **
64589696 AAGACATCAAAAAGATTGAAGAACAAATCCAAGAGCTTGACAAGATTGAAAATGGTATATTTATT
1 AAGACATCAAAAAGATTGAAGAACAAATCCAAGAGCTTCACAAGATTGAAAATGACATATTTATT
* *
64589761 GTTTTATTTTAATAGTTTCAATTTTTTTACCGTATCACTCCTACTTATTTAATTGATTCAATGTT
66 GTTTTATTTTAATAGTTTCAATTTTTTTACCATATCACTCCTACTTATTTAACTGATTCAATGTT
64589826 TAGACTTTTCTTGGAATGC
131 TAGACTTTTCTTGGAATGC
*
64589845 AAGACATCAAAAAGATTGAAGAACAAATCCAAGAGCTTCACTAGATTGAAAATGACATATTTATT
1 AAGACATCAAAAAGATTGAAGAACAAATCCAAGAGCTTCACAAGATTGAAAATGACATATTTATT
*
64589910 GTTTTATTTTATTAGTTTCAATTTTTTTACCATATCACTCCTACTTATTTAACTGATTCAATGTT
66 GTTTTATTTTAATAGTTTCAATTTTTTTACCATATCACTCCTACTTATTTAACTGATTCAATGTT
64589975 TAGACTTTTCTTGGAATGC
131 TAGACTTTTCTTGGAATGC
64589994 A
1 A
64589995 TCAGAGCCTA
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 143 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (149 bp):
AAGACATCAAAAAGATTGAAGAACAAATCCAAGAGCTTCACAAGATTGAAAATGACATATTTATT
GTTTTATTTTAATAGTTTCAATTTTTTTACCATATCACTCCTACTTATTTAACTGATTCAATGTT
TAGACTTTTCTTGGAATGC
Found at i:64590273 original size:17 final size:17
Alignment explanation
Indices: 64590253--64590313 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
64590243 ATTTCAAGAC
64590253 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
64590270 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
64590289 CTTATATAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
64590307 TTATGTA
1 TTATGTA
64590314 GTGATTCAAT
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
17 15 0.48
18 4 0.13
19 4 0.13
20 8 0.26
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:64590289 original size:37 final size:37
Alignment explanation
Indices: 64590248--64590322 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
64590238 TGTTAATTTC
*
64590248 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATATAATGTTTTTAATTATGTAGTGATTCA
64590285 AAGACTTATATAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATATAATGTTTTTAATTATGTAGTGATTCA
64590322 A
1 A
64590323 TTTGGTTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (37 bp):
AAGACTTATATAATGTTTTTAATTATGTAGTGATTCA
Found at i:64590358 original size:9 final size:9
Alignment explanation
Indices: 64590321--64590360 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
64590311 GTAGTGATTC
*
64590321 AATTTGGTT
1 AATTCGGTT
*
64590330 AATTCGGGT
1 AATTCGGTT
64590339 AATTCGGTT
1 AATTCGGTT
*
64590348 AATTCGATT
1 AATTCGGTT
64590357 AATT
1 AATT
64590361 TTTAACTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:64590359 original size:18 final size:18
Alignment explanation
Indices: 64590316--64590360 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
64590306 ATTATGTAGT
*
64590316 GATTCAATTTGGTTAATTC
1 GATT-AATTCGGTTAATTC
**
64590335 GGGTAATTCGGTTAATTC
1 GATTAATTCGGTTAATTC
64590353 GATTAATT
1 GATTAATT
64590361 TTTAACTAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (18 bp):
GATTAATTCGGTTAATTC
Found at i:64590668 original size:4 final size:4
Alignment explanation
Indices: 64590659--64590692 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
64590649 CTTTATACTG
*
64590659 TTTA TTTA TTTA TTTA TTCA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
64590693 ACTTCCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:64597900 original size:138 final size:138
Alignment explanation
Indices: 64597661--64597915 Score: 300
Period size: 138 Copynumber: 1.8 Consensus size: 138
64597651 AAAAATAACA
* * * *
64597661 AATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAATTATAAATCCCATACCCCTGAAGTTG
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAATGATAAATCCCATACCCCTGAAGTTG
* * * * * * *
64597726 CAGTGGGATGGATTGAAGTTATAATGGCGAATCTTATCTCCCTAAAGTTGCAATAGAGCAGATTG
66 CAGTAGGATGGATTCAAATTACAATAGCGAACCTTATATCCCTAAAGTTGCAATAGAGCAGATTG
64597791 AAGCCACT
131 AAGCCACT
* * **
64597799 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAATGATAAGTCCTATACCTTTGAAGTTG
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAATGATAAATCCCATACCCCTGAAGTTG
* * *
64597864 CAGTAGG-TCGGA-TCAAATCTACCATAGC-AAGCCTTATATCCTTGAAGTTGCA
66 CAGTAGGAT-GGATTCAAAT-TACAATAGCGAA-CCTTATATCCCTAAAGTTGCA
64597916 GTGGAATAGA
Statistics
Matches: 96, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
137 7 0.07
138 89 0.93
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (138 bp):
AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAATGATAAATCCCATACCCCTGAAGTTG
CAGTAGGATGGATTCAAATTACAATAGCGAACCTTATATCCCTAAAGTTGCAATAGAGCAGATTG
AAGCCACT
Found at i:64598048 original size:45 final size:44
Alignment explanation
Indices: 64597941--64598050 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
64597931 GCTACAAGCT
* * * * *
64597941 ACAAATCTTTTCTCCCTAAAGTTGTAGTGGGGTGGGTTAAAGTC
1 ACAAATCTTATCTCCCTAAAGTTGTAGTGGAGTGGATAAAAATC
* * *
64597985 ACAAACCTTATCTACCTAAATTTGTAGTGGAGTAGGATAAAAATC
1 ACAAATCTTATCTCCCTAAAGTTGTAGTGGAGT-GGATAAAAATC
*
64598030 ACAAATCTCATCTCCCTAAAG
1 ACAAATCTTATCTCCCTAAAG
64598051 CTGCAGGGGA
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
44 28 0.53
45 25 0.47
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTAAAGTTGTAGTGGAGTGGATAAAAATC
Found at i:64599597 original size:20 final size:19
Alignment explanation
Indices: 64599574--64599616 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
64599564 CTTTATACTG
64599574 TTTATTTATT-CATTCATTT
1 TTTATTTATTAC-TTCATTT
64599593 ATTTATTTATTACTTCATTT
1 -TTTATTTATTACTTCATTT
64599613 TTTA
1 TTTA
64599617 CACTTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.18
20 17 0.77
21 1 0.05
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATTTATTACTTCATTT
Found at i:64599855 original size:25 final size:24
Alignment explanation
Indices: 64599798--64599847 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
64599788 TTACCTTATT
* *
64599798 TATTTTATTATTATAATCATATTA
1 TATTTTATTATTATTATCATAGTA
64599822 TATTATTATTATTATTATCATAGTA
1 TATT-TTATTATTATTATCATAGTA
64599847 T
1 T
64599848 TCCTTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (24 bp):
TATTTTATTATTATTATCATAGTA
Found at i:64603610 original size:29 final size:29
Alignment explanation
Indices: 64603578--64603641 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
64603568 GGGTAGATTG
* *
64603578 AAAGATTGAAGATTT-AAAGTTGGCTTGAT
1 AAAGATTAAAGATTTGAAA-TTGGCTGGAT
64603607 AAAGATTAAAGATTTGAAATTGGCTGGAT
1 AAAGATTAAAGATTTGAAATTGGCTGGAT
64603636 AAAGAT
1 AAAGAT
64603642 CAAATTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 29 0.91
30 3 0.09
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.31
Consensus pattern (29 bp):
AAAGATTAAAGATTTGAAATTGGCTGGAT
Found at i:64605517 original size:6 final size:6
Alignment explanation
Indices: 64605487--64605611 Score: 78
Period size: 6 Copynumber: 20.3 Consensus size: 6
64605477 AAGAAACATT
* * *
64605487 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * * *
64605536 ATCAGA ATCAGA ATTAGA ATCAGA ATTAG- GTGACAGA ATCAAA ACCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
64605585 ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
64605612 GTGAATGCAA
Statistics
Matches: 90, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
5 5 0.06
6 73 0.81
7 9 0.10
8 3 0.03
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:64605537 original size:19 final size:19
Alignment explanation
Indices: 64605513--64605576 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
64605503 AAATGAGAAT
64605513 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTGA
*
64605532 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGGTGA
* *
64605549 TTAGAATCAGAATTAGGTGA
1 -CAGAATCAGAATCAGGTGA
64605569 CAGAATCA
1 CAGAATCA
64605577 AAACCAGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 1 0.03
18 13 0.35
19 22 0.59
20 1 0.03
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.19
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTGA
Done.