Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 136 of 325
Found at i:42505382 original size:19 final size:19
Alignment explanation
Indices: 42505358--42505394 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
42505348 TCCAAACACC
42505358 AGAAAAGTAAATCATTTTT
1 AGAAAAGTAAATCATTTTT
42505377 AGAAAAGTAAATCATTTT
1 AGAAAAGTAAATCATTTT
42505395 CCAGAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (19 bp):
AGAAAAGTAAATCATTTTT
Found at i:42505404 original size:14 final size:14
Alignment explanation
Indices: 42505385--42505422 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
42505375 TTAGAAAAGT
42505385 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
42505399 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
42505413 AAAGCATTTT
1 AAATCATTTT
42505423 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:42511754 original size:6 final size:6
Alignment explanation
Indices: 42511722--42511765 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
42511712 ACAGTACCTA
* *
42511722 AACAGT AATCAGT AACGGT AGCAGT AACAGT AACAGT AACAGT A
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT A
42511766 TTCAACACAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.18
Consensus pattern (6 bp):
AACAGT
Found at i:42511841 original size:45 final size:45
Alignment explanation
Indices: 42511745--42511855 Score: 127
Period size: 45 Copynumber: 2.5 Consensus size: 45
42511735 AACGGTAGCA
*
42511745 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCT
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCT
** * * *
42511790 ACAACAGTTACGGTAACAGTATTCGACATACAAAGTG-TCGAAT-T
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGCT-GAATCT
*
42511834 GGTAACAGTAATGGTAACAGTA
1 -GTAACAGTAACGGTAACAGTA
42511856 ACAGTAGTCA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
44 2 0.04
45 52 0.96
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCT
Found at i:42512112 original size:40 final size:40
Alignment explanation
Indices: 42512063--42512149 Score: 120
Period size: 40 Copynumber: 2.2 Consensus size: 40
42512053 ATTCGTTTCA
* * *
42512063 TCAGAAATTTTACAGTTCAATGCAGTATACATAACAATAT
1 TCAGTAATTTCACAGTTCAATGCAGTATACAAAACAATAT
* * *
42512103 TCAGTAATTTCACAGTTCAATTCGGTATTCAAAACAATAT
1 TCAGTAATTTCACAGTTCAATGCAGTATACAAAACAATAT
42512143 TCAGTAA
1 TCAGTAA
42512150 CCTATAATCC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.33
Consensus pattern (40 bp):
TCAGTAATTTCACAGTTCAATGCAGTATACAAAACAATAT
Found at i:42512977 original size:18 final size:18
Alignment explanation
Indices: 42512956--42512998 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
42512946 TATTAACTTA
42512956 ATAATAATAATTATTATT
1 ATAATAATAATTATTATT
*
42512974 ATAATAATTATTATTATT
1 ATAATAATAATTATTATT
42512992 ATAATAA
1 ATAATAA
42512999 ATATCTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAATAATAATTATTATT
Found at i:42512979 original size:15 final size:15
Alignment explanation
Indices: 42512959--42512996 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
42512949 TAACTTAATA
42512959 ATAATAATTATTATT
1 ATAATAATTATTATT
42512974 ATAATAATTATTATT
1 ATAATAATTATTATT
*
42512989 ATTATAAT
1 ATAATAAT
42512997 AAATATCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATAATAATTATTATT
Found at i:42513253 original size:3 final size:3
Alignment explanation
Indices: 42513245--42513320 Score: 59
Period size: 3 Copynumber: 25.7 Consensus size: 3
42513235 AATTTATTTT
* * * *
42513245 TAA TAA TAA TAA TCA TAA T-T TAA TAT TAA TAC TAA TAA TAA CTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* *
42513290 TAA TTA TAA TAA TCAA TTA T-A TAA T-A TAA TA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TA
42513321 TATATAATCT
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
2 5 0.09
3 46 0.81
4 6 0.11
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:42513273 original size:26 final size:26
Alignment explanation
Indices: 42513234--42513283 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
42513224 GTCTTTATTT
* *
42513234 TAATTTATTTTTAATAATAATAATCA
1 TAATTTAATATTAATAATAATAATCA
*
42513260 TAATTTAATATTAATACTAATAAT
1 TAATTTAATATTAATAATAATAAT
42513284 AACTAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (26 bp):
TAATTTAATATTAATAATAATAATCA
Found at i:42513282 original size:20 final size:20
Alignment explanation
Indices: 42513243--42513302 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
42513233 TTAATTTATT
*
42513243 TTTAATAATAATAATCATAA
1 TTTAATAATAATAATAATAA
* *
42513263 TTTAATATTAATACTAATAA
1 TTTAATAATAATAATAATAA
*
42513283 --TAACTAATAATTATAATAA
1 TTTAA-TAATAATAATAATAA
42513302 T
1 T
42513303 CAATTATATA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
18 3 0.09
19 12 0.38
20 17 0.53
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTAATAATAATAATAATAA
Found at i:42515902 original size:13 final size:13
Alignment explanation
Indices: 42515884--42515908 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42515874 ATAAAAGAAC
42515884 ATATAGAATACCA
1 ATATAGAATACCA
42515897 ATATAGAATACC
1 ATATAGAATACC
42515909 CAGAAGAGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (13 bp):
ATATAGAATACCA
Found at i:42521033 original size:15 final size:15
Alignment explanation
Indices: 42521013--42521044 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
42521003 ATTATAGGTA
*
42521013 TATCATGACCTTTTC
1 TATCATGACCTCTTC
42521028 TATCATGACCTCTTC
1 TATCATGACCTCTTC
42521043 TA
1 TA
42521045 AATAAAGCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.28, G:0.06, T:0.44
Consensus pattern (15 bp):
TATCATGACCTCTTC
Found at i:42523005 original size:39 final size:38
Alignment explanation
Indices: 42522936--42523070 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 38
42522926 ACCAATATGG
* * *
42522936 CACCCAGTGCCTCATCGGATAGTTCAAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGTAATAGTTGA
* *
42522975 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGTAATAGTTGA
* * * * *
42523013 TACCCAGTACCTCATCGAATCTATCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGTAATAGT--TGA
*
42523054 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
42523071 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGTAATAGTTGA
Found at i:42524796 original size:8 final size:8
Alignment explanation
Indices: 42524783--42524808 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
42524773 AAAAAATCTC
42524783 ATAATTTA
1 ATAATTTA
42524791 ATAATTTA
1 ATAATTTA
42524799 ATAATTTA
1 ATAATTTA
42524807 AT
1 AT
42524809 TAACAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATAATTTA
Found at i:42524980 original size:21 final size:20
Alignment explanation
Indices: 42524954--42525013 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
42524944 TTAAGTAATC
42524954 ATAATAATTTAATATAAAACT
1 ATAATAATTTAATATAAAA-T
* * *
42524975 ATAATAATAATCATTATAATAT
1 ATAATAAT--TTAATATAAAAT
42524997 ATATATAATTTAATATA
1 ATA-ATAATTTAATATA
42525014 TAAAACCTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 14 0.45
22 4 0.13
23 13 0.42
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAATAATTTAATATAAAAT
Found at i:42528954 original size:16 final size:16
Alignment explanation
Indices: 42528933--42528963 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42528923 TTTTGTATTA
*
42528933 TTTTAATATTAAATAT
1 TTTTAAAATTAAATAT
42528949 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
42528964 ATACTAATAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAATTAAATAT
Found at i:42529718 original size:107 final size:108
Alignment explanation
Indices: 42529511--42529738 Score: 336
Period size: 107 Copynumber: 2.1 Consensus size: 108
42529501 TAAAAAAGAG
* * *
42529511 ATACAAAT-AACATGAAGTTACTATTTTATACAATTATTTCCCTATGCATTTATGCCATAAATGG
1 ATACAAATAAACATG-AGTTACTATTTCATACAATTATTACCCTATGCATTCATGCCATAAATGG
42529575 AATACAACGTGCTTTAAGTATTTATTCACGCAGATTTGAAATTA
65 AATACAACGTGCTTTAAGTATTTATTCACGCAGATTTGAAATTA
*
42529619 ATACAAATAAACATG-GTTATTATTTCATACAATTATTACCCTATGCATTCATGCCATAAATGGA
1 ATACAAATAAACATGAGTTACTATTTCATACAATTATTACCCTATGCATTCATGCCATAAATGGA
* * * *
42529683 ATCCAACGTGCTTT-AGCTATTTATTCTCGCGGATTTGGAATTA
66 ATACAACGTGCTTTAAG-TATTTATTCACGCAGATTTGAAATTA
*
42529726 ATGCAAATAAACA
1 ATACAAATAAACA
42529739 ACATAACCGA
Statistics
Matches: 109, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
106 2 0.02
107 93 0.85
108 8 0.07
109 6 0.06
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (108 bp):
ATACAAATAAACATGAGTTACTATTTCATACAATTATTACCCTATGCATTCATGCCATAAATGGA
ATACAACGTGCTTTAAGTATTTATTCACGCAGATTTGAAATTA
Found at i:42530342 original size:21 final size:21
Alignment explanation
Indices: 42530308--42530351 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
42530298 AAATTTCTAC
*
42530308 AATTTCTCCCTAAAGCTCTCA
1 AATTTCTCACTAAAGCTCTCA
* **
42530329 AATTTCTCATTAAATTTCTCA
1 AATTTCTCACTAAAGCTCTCA
42530350 AA
1 AA
42530352 GCTCTTTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCTCACTAAAGCTCTCA
Found at i:42533662 original size:7 final size:7
Alignment explanation
Indices: 42533652--42533676 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
42533642 ATTCATTTCA
42533652 TATTTAG
1 TATTTAG
42533659 TATTTAG
1 TATTTAG
42533666 TATTTAG
1 TATTTAG
42533673 TATT
1 TATT
42533677 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:42537573 original size:30 final size:30
Alignment explanation
Indices: 42537517--42537573 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
42537507 ACGGCCATGA
* *
42537517 CACATGGGCGTGTGGTCTGCCGATGTGCCT
1 CACATGGGCGTGTGGTCTACCCATGTGCCT
*
42537547 CACATGGGCGTGTGGTTTACCCATGTG
1 CACATGGGCGTGTGGTCTACCCATGTG
42537574 GAAGTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.25, G:0.35, T:0.28
Consensus pattern (30 bp):
CACATGGGCGTGTGGTCTACCCATGTGCCT
Found at i:42539636 original size:125 final size:126
Alignment explanation
Indices: 42539138--42539640 Score: 731
Period size: 125 Copynumber: 4.0 Consensus size: 126
42539128 GGCCAATCAT
** * * *
42539138 GAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAATGCATC
* * * *
42539203 CTGCTTGAAGCATTTTTGACACTAGTTGTTCAGAAACATCTTCTCAAAATTATATTTTCAA
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * *
42539264 GAACTACTGTAGAATAAGAGCGTCCACGTGGGAGCTTTTTTCTGTAAGTTTACTGACAATGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAATGCATC
* * *
42539329 CTGCTTGAAGTGTTTTTGACACTATTTGTTAAGAAACATCTTCTCAAAATTA-TTTTTCAT
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * *
42539389 GAACTACTGTAGAAAAAGAGCATCCACATGGTAGTTTTTTTCCGTAATTTTGCTGACAATGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAATGCATC
* *
42539454 CTGCTTGAAGCTTTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * *
42539515 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAG-TTTTTTTTGTATTTTTGCTGATAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAATGCATC
* * *
42539579 TTGCTTGAAGCGTTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
42539640 G
1 G
42539641 GTACAAAATA
Statistics
Matches: 338, Mismatches: 38, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
125 193 0.57
126 145 0.43
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAATGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
Found at i:42539638 original size:251 final size:251
Alignment explanation
Indices: 42539134--42539635 Score: 763
Period size: 251 Copynumber: 2.0 Consensus size: 251
42539124 CTAAGGCCAA
** * *
42539134 TCATGAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTG
1 TCATGAACTACTGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTCAGAAATTTTGCTGACAATG
42539199 CATCCTGCTTGAAGCATTTTTGACACTAGTTGTTCAGAAACATCTTCTCAAAATTATATTTTCAA
66 CATCCTGCTTGAAGCATTTTTGACACTAGTTGTTCAGAAACATCTTCTCAAAATTATATTTTCAA
* *
42539264 GAACTACTGTAGAATAAGAGCGTCCACGTGGGAGCTTTTTTCTGTAAGTTTACTGACAATGCATC
131 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAAGTTTACTGACAATGCATC
* *
42539329 CTGCTTGAAGTGTTTTTGACACTATTTGTTAAGAAACATCTTCTCAAAATTATTTT
196 CTGCTTGAAGCGTTTTTGACACTATTTATTAAGAAACATCTTCTCAAAATTATTTT
* * * *
42539385 TCATGAACTACTGTAGAAAAAGAGCATCCACATGGTAGTTTTTTTCCGTAATTTTGCTGACAATG
1 TCATGAACTACTGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTCAGAAATTTTGCTGACAATG
* * * * *
42539450 CATCCTGCTTGAAGCTTTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATTATTTTTTCAG
66 CATCCTGCTTGAAGCATTTTTGACACTAGTTGTTCAGAAACATCTTCTCAAAATTATATTTTCAA
* ** * * *
42539515 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAG-TTTTTTTTGTATTTTTGCTGATAGTGCATC
131 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAAGTTTACTGACAATGCATC
* * *
42539579 TTGCTTGAAGCGTTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTT
196 CTGCTTGAAGCGTTTTTGACACTATTTATTAAGAAACATCTTCTCAAAATTATTTT
42539635 T
1 T
42539636 TCAGGGTACA
Statistics
Matches: 225, Mismatches: 26, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
250 76 0.34
251 149 0.66
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (251 bp):
TCATGAACTACTGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTCAGAAATTTTGCTGACAATG
CATCCTGCTTGAAGCATTTTTGACACTAGTTGTTCAGAAACATCTTCTCAAAATTATATTTTCAA
GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAAGTTTACTGACAATGCATC
CTGCTTGAAGCGTTTTTGACACTATTTATTAAGAAACATCTTCTCAAAATTATTTT
Found at i:42539780 original size:34 final size:33
Alignment explanation
Indices: 42539742--42539805 Score: 110
Period size: 34 Copynumber: 1.9 Consensus size: 33
42539732 AAACCCTAAT
42539742 TTAATTTATTTAAAACCATAAAACCCTAATTTAC
1 TTAATTTATTTAAAACCAT-AAACCCTAATTTAC
*
42539776 TTAATTTATTTAAAACCATACACCCTAATT
1 TTAATTTATTTAAAACCATAAACCCTAATT
42539806 ATTTAATACC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 10 0.34
34 19 0.66
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (33 bp):
TTAATTTATTTAAAACCATAAACCCTAATTTAC
Found at i:42539808 original size:57 final size:61
Alignment explanation
Indices: 42539743--42539946 Score: 210
Period size: 66 Copynumber: 3.3 Consensus size: 61
42539733 AACCCTAATT
*
42539743 TAATTTATTTAAAACCATAAAACCCTAATTTACTTAATTTATTT-AAAACCATA-C-ACCC
1 TAATTTATTTAAAACCCTAAAACCCTAATTTACTTAATTTATTTAAAAACCATACCAACCC
*
42539801 TAA-TTATTTAATACCCT-AAACCCT-A---ACTTAATTTATTTAAAAACCATAAATCCTAAACC
1 TAATTTATTTAAAACCCTAAAACCCTAATTTACTTAATTTATTTAAAAACCAT--A-CC--AACC
42539860 C
61 C
* * *
42539861 TAATTTATTTAAAACCCTAGAACACTAATTTACTTCATTTATTTAAAAACCATAAACTCTAAACC
1 TAATTTATTTAAAACCCTAAAACCCTAATTTACTTAATTTATTTAAAAACCAT--AC-C--AACC
42539926 C
61 C
42539927 TAATTTATTTAAAACCCTAA
1 TAATTTATTTAAAACCCTAA
42539947 CTTAATTTAT
Statistics
Matches: 124, Mismatches: 7, Indels: 22
0.81 0.05 0.14
Matches are distributed among these distances:
52 13 0.10
53 8 0.06
55 2 0.02
56 7 0.06
57 13 0.10
58 3 0.02
60 7 0.06
61 13 0.10
62 5 0.04
63 1 0.01
65 1 0.01
66 51 0.41
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.35
Consensus pattern (61 bp):
TAATTTATTTAAAACCCTAAAACCCTAATTTACTTAATTTATTTAAAAACCATACCAACCC
Found at i:42539810 original size:23 final size:24
Alignment explanation
Indices: 42539781--42539835 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
42539771 TTTACTTAAT
*
42539781 TTATTTAAAACCATACACCCTAA-
1 TTATTTAAAACCATAAACCCTAAC
* *
42539804 TTATTTAATACCCTAAACCCTAAC
1 TTATTTAAAACCATAAACCCTAAC
42539828 TTAATTTA
1 TT-ATTTA
42539836 TTTAAAAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 20 0.74
24 2 0.07
25 5 0.19
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (24 bp):
TTATTTAAAACCATAAACCCTAAC
Found at i:42539868 original size:32 final size:32
Alignment explanation
Indices: 42539797--42539940 Score: 122
Period size: 32 Copynumber: 4.6 Consensus size: 32
42539787 AAAACCATAC
* * *
42539797 ACCCTAA-TTATTT-AATACCCTAAACCCT-A
1 ACCCTAATTTATTTAAAAACCATAAACACTAA
*
42539826 A-CTTAATTTATTTAAAAACCATAAATC-CTAA
1 ACCCTAATTTATTTAAAAACCATAAA-CACTAA
*
42539857 ACCCTAATTTATTT-AAAACCCTAGAACACTAA
1 ACCCTAATTTATTTAAAAACCATA-AACACTAA
* * *
42539889 TTTA-CTTCATTTATTTAAAAACCATAAACTCTAA
1 ---ACCCTAATTTATTTAAAAACCATAAACACTAA
42539923 ACCCTAATTTATTTAAAA
1 ACCCTAATTTATTTAAAA
42539941 CCCTAACTTA
Statistics
Matches: 92, Mismatches: 11, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
28 4 0.04
29 7 0.08
30 11 0.12
31 13 0.14
32 31 0.34
34 17 0.18
35 9 0.10
ACGTcount: A:0.43, C:0.22, G:0.01, T:0.35
Consensus pattern (32 bp):
ACCCTAATTTATTTAAAAACCATAAACACTAA
Found at i:42539955 original size:22 final size:23
Alignment explanation
Indices: 42539927--42540006 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 23
42539917 CTCTAAACCC
42539927 TAATTTATTTAAAACCCT-AACT
1 TAATTTATTTAAAACCCTAAACT
*
42539949 TAATTTATTTAAACCCCTAAAAACT
1 TAATTTATTTAAAACCCT--AAACT
*
42539974 CTAATTTACTTAAAAACCCTAAACCT
1 -TAATTTA-TTTAAAACCCTAAA-CT
42540000 TAATTTA
1 TAATTTA
42540007 AATAATTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
22 17 0.35
25 14 0.29
26 9 0.18
27 9 0.18
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (23 bp):
TAATTTATTTAAAACCCTAAACT
Found at i:42544814 original size:59 final size:61
Alignment explanation
Indices: 42544747--42544863 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
42544737 ATCACTTTAA
* * * * *
42544747 TATTAAATTAATATAATATTTA-T-CAATATAAATATTAGATTGAATTTAATATTAAATCT
1 TATTAAATTAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
42544806 TATTAAATTAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAATTAATAGAATATTTA-CTACAAGATAAACATTAAATTAAATTTAATATTAA
42544864 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 21 0.42
61 1 0.02
62 28 0.56
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (61 bp):
TATTAAATTAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:42544889 original size:20 final size:18
Alignment explanation
Indices: 42544842--42544890 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
42544832 CAAGATAAAC
42544842 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
42544859 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
42544879 ATTAAATTAATA
1 ATTAAATTAATA
42544891 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:42545375 original size:94 final size:94
Alignment explanation
Indices: 42545214--42545402 Score: 315
Period size: 94 Copynumber: 2.0 Consensus size: 94
42545204 AGTTCAATCA
* * * *
42545214 CCCATTGAGCCAATTGTCTGACTTAAAAATTAGTTTCTAAAAACATCTTATTAATTTGATTAATT
1 CCCATTGAGCCAATTGTCTGACTTAAAAATTAATTTCCAAAAACATATTATTAATCTGATTAATT
42545279 TAATTTTACTTTATCAAAATTAATTTTCC
66 TAATTTTACTTTATCAAAATTAATTTTCC
* * *
42545308 CCCATTGGGCCAATTGTCTGACTTAAAAATTAATTTCCAAAAATATATTATTAATCTGCTTAATT
1 CCCATTGAGCCAATTGTCTGACTTAAAAATTAATTTCCAAAAACATATTATTAATCTGATTAATT
42545373 TAATTTTACTTTATCAAAATTAATTTTCC
66 TAATTTTACTTTATCAAAATTAATTTTCC
42545402 C
1 C
42545403 AAAAATCATT
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 88 1.00
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (94 bp):
CCCATTGAGCCAATTGTCTGACTTAAAAATTAATTTCCAAAAACATATTATTAATCTGATTAATT
TAATTTTACTTTATCAAAATTAATTTTCC
Found at i:42547142 original size:57 final size:58
Alignment explanation
Indices: 42547062--42547181 Score: 161
Period size: 57 Copynumber: 2.1 Consensus size: 58
42547052 AAATTGGTGA
* * * * *
42547062 AAAATGGATAAATGAGAAACATTTGGAAATGATTATGGTTTTATCCAAAATGAAAATG
1 AAAATAGAGAAATGAGAAACATTTGAAAATGAATATGGTTTTATCCAAAATAAAAATG
* * *
42547120 AAAATAGAGAAATG-GAATCATTTGAAAATGAATGTGGTTTTCTCCAAAATAAAAATG
1 AAAATAGAGAAATGAGAAACATTTGAAAATGAATATGGTTTTATCCAAAATAAAAATG
42547177 AAAAT
1 AAAAT
42547182 GACCTGGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
57 42 0.78
58 12 0.22
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.28
Consensus pattern (58 bp):
AAAATAGAGAAATGAGAAACATTTGAAAATGAATATGGTTTTATCCAAAATAAAAATG
Found at i:42548510 original size:21 final size:21
Alignment explanation
Indices: 42548484--42548534 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
42548474 GAAGCTCAAA
* * *
42548484 AGCTGAATAGAAGCTCGTAGG
1 AGCTGAACAGAAACTCGTAAG
42548505 AGCTGAACAGAAACTCGTAAG
1 AGCTGAACAGAAACTCGTAAG
*
42548526 AGTTGAACA
1 AGCTGAACA
42548535 AAAAATAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.18
Consensus pattern (21 bp):
AGCTGAACAGAAACTCGTAAG
Found at i:42548696 original size:17 final size:16
Alignment explanation
Indices: 42548676--42548714 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
42548666 AAATCCAATT
42548676 CAATATTATAATTCCAA
1 CAATATT-TAATTCCAA
42548693 CAATAATTTAATTCCAA
1 CAAT-ATTTAATTCCAA
*
42548710 TAATA
1 CAATA
42548715 GAATAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 16 0.80
18 3 0.15
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (16 bp):
CAATATTTAATTCCAA
Found at i:42555433 original size:17 final size:17
Alignment explanation
Indices: 42555392--42555473 Score: 57
Period size: 17 Copynumber: 4.8 Consensus size: 17
42555382 AATTCAATTT
42555392 TAATATAAAT-ATTC-A
1 TAATATAAATAATTCAA
42555407 -AATGACTAAATAATTCAA
1 TAAT-A-TAAATAATTCAA
42555425 TAATATAAATAATAT-AA
1 TAATATAAATAAT-TCAA
* *
42555442 -AATGTGAAATTTAATTTAA
1 TAATAT-AAA--TAATTCAA
42555461 TAATATAAATAAT
1 TAATATAAATAAT
42555474 AGATATAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
14 3 0.06
15 1 0.02
16 9 0.17
17 21 0.39
18 4 0.07
19 12 0.22
20 4 0.07
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Found at i:42559236 original size:23 final size:21
Alignment explanation
Indices: 42559204--42559245 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
42559194 ACATATAACA
42559204 CTCATACTCATATCACAATATAC
1 CTCATACTCATA-C-CAATATAC
*
42559227 CTCATTCTCATACCAATAT
1 CTCATACTCATACCAATAT
42559246 GTAAGTTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (21 bp):
CTCATACTCATACCAATATAC
Found at i:42559738 original size:21 final size:21
Alignment explanation
Indices: 42559698--42559762 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
42559688 CAAATATGCC
*
42559698 AACAGAAGTTCG-AA-AGCTG
1 AACAGAAGCTCGTAAGAGCTG
42559717 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
*
42559738 AACAGAAGCTTGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
42559759 AACA
1 AACA
42559763 TAAAGTAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
19 11 0.26
20 2 0.05
21 29 0.69
ACGTcount: A:0.42, C:0.17, G:0.26, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:42562988 original size:17 final size:18
Alignment explanation
Indices: 42562957--42562990 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42562947 TAAAATTTTT
*
42562957 AATTTTTTTGGAAAAATC
1 AATTTTTTTGCAAAAATC
42562975 AATTTTTTT-CAAAAAT
1 AATTTTTTTGCAAAAAT
42562991 AAGGAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
AATTTTTTTGCAAAAATC
Found at i:42568591 original size:22 final size:22
Alignment explanation
Indices: 42568566--42568633 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
42568556 GTAAAAAAAT
42568566 TAAAATCCTTGAAATAAAAGTA
1 TAAAATCCTTGAAATAAAAGTA
* * *
42568588 TAAAA---ATAAAATAAAA-AA
1 TAAAATCCTTGAAATAAAAGTA
42568606 TTAAAATCCTTGAAATAAAAGTA
1 -TAAAATCCTTGAAATAAAAGTA
42568629 TAAAA
1 TAAAA
42568634 ACTAAATTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
18 1 0.03
19 14 0.40
22 19 0.54
23 1 0.03
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.25
Consensus pattern (22 bp):
TAAAATCCTTGAAATAAAAGTA
Found at i:42568604 original size:41 final size:42
Alignment explanation
Indices: 42568559--42568639 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 42
42568549 CTGAAAAGTA
42568559 AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAA-TAAAAT
1 AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAACTAAAAT
42568600 AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAACTAAA
1 AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAACTAAA
42568640 TTCTAAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
41 35 0.90
42 4 0.10
ACGTcount: A:0.65, C:0.06, G:0.05, T:0.23
Consensus pattern (42 bp):
AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAACTAAAAT
Found at i:42573043 original size:33 final size:32
Alignment explanation
Indices: 42572957--42573084 Score: 89
Period size: 33 Copynumber: 3.9 Consensus size: 32
42572947 CGTTTTCTTG
** *
42572957 ATGCCATAGTCCAGCTATGGTCTTACAC-AAA
1 ATGCCATAACCCAGCTATGGTCTTACACTAGA
** * *
42572988 TATTGCCATGGCCCTA-CCATGGTCTTACACTCGTA
1 -A-TGCCATAACCC-AGCTATGGTCTTACACTAG-A
* * *
42573023 ATGCCATAACCCAGTTATGGTCTTATCATTAGG
1 ATGCCATAACCCAGCTATGGTCTTA-CACTAGA
* *
42573056 ATGCTATAGCCCAGCTATGGTCTTACACT
1 ATGCCATAACCCAGCTATGGTCTTACACT
42573085 TATACATATA
Statistics
Matches: 74, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
32 5 0.07
33 62 0.84
34 6 0.08
35 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (32 bp):
ATGCCATAACCCAGCTATGGTCTTACACTAGA
Found at i:42573145 original size:105 final size:105
Alignment explanation
Indices: 42573023--42573292 Score: 461
Period size: 105 Copynumber: 2.6 Consensus size: 105
42573013 TACACTCGTA
* * * * * *
42573023 ATGCCATAACCCAGTTATGGTCTTATCA-TTAGGATGCTATAGCCCAGCTATGGTCTTACACTTA
1 ATGCTATAACCTAGTTATGGTCTTTTCACTGA-AATGCCATAGCCCAGCTATGGTCTTACACTTA
42573087 TACATATACTGTCGTGGTTCAATCATGGTCTTACGTTCACG
65 TACATATACTGTCGTGGTTCAATCATGGTCTTACGTTCACG
*
42573128 ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCTCAGCTATGGTCTTACACTTAT
1 ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCCCAGCTATGGTCTTACACTTAT
42573193 ACATATACTGTCGTGGTTCAATCATGGTCTTACGTTCACG
66 ACATATACTGTCGTGGTTCAATCATGGTCTTACGTTCACG
42573233 ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCCCAGCTATGGTCTTACA
1 ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCCCAGCTATGGTCTTACA
42573293 TTTAACACTT
Statistics
Matches: 156, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
105 154 0.99
106 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (105 bp):
ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCCCAGCTATGGTCTTACACTTAT
ACATATACTGTCGTGGTTCAATCATGGTCTTACGTTCACG
Found at i:42574436 original size:38 final size:38
Alignment explanation
Indices: 42574389--42574464 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
42574379 ATCAAAATGT
42574389 TAAAATTTTCTAACGAAACTTTAATACTAATTCACTAA
1 TAAAATTTTCTAACGAAACTTTAATACTAATTCACTAA
42574427 TAAAATTTTCTAACGAAACTTTAATACTAATTCACTAA
1 TAAAATTTTCTAACGAAACTTTAATACTAATTCACTAA
42574465 CACTTCGTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.37
Consensus pattern (38 bp):
TAAAATTTTCTAACGAAACTTTAATACTAATTCACTAA
Found at i:42577275 original size:56 final size:56
Alignment explanation
Indices: 42577186--42577335 Score: 237
Period size: 56 Copynumber: 2.7 Consensus size: 56
42577176 AGGGTGTTAA
*
42577186 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTATTAGGATATTATAG
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTATAG
* ** * *
42577242 GATATTATTATGAGATATTATCTCATAGAAATTTGATTCCTAATGGGATATTATAG
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTATAG
*
42577298 AATATTATTATGGGATATTATCTTTTAGCAATTTGATT
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATT
42577336 TCTACGTAAC
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 83 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (56 bp):
GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTATAG
Found at i:42580302 original size:39 final size:39
Alignment explanation
Indices: 42580051--42580307 Score: 399
Period size: 39 Copynumber: 6.6 Consensus size: 39
42580041 GCTCTGATGA
* *
42580051 GCTTCACTTAGCCTTCTGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
42580090 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
42580129 GCTTCAGTTAGCATTCGGGCTTTCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
42580168 GCTTCAGTTAGCC-TCTGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTC-GGGCTTCCGTTTAGCACTTATGT
* *
42580207 GCTTCAGTTAGCCTCCGGGATTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
42580246 GCTTCAGTTAGCCTTCGGGCTTCCGTTAAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* **
42580285 GCTTCAGCTAGATTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
42580308 AGATCACGAT
Statistics
Matches: 200, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
38 2 0.01
39 197 0.99
40 1 0.00
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:42583466 original size:24 final size:24
Alignment explanation
Indices: 42583413--42583458 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
42583403 TCTTTCTAGA
* * *
42583413 ATATTTAGTATTTATTAGTATAAT
1 ATATTTAGCATGTATTAGCATAAT
42583437 ATATTTAGCATGTATTAGCATA
1 ATATTTAGCATGTATTAGCATA
42583459 GTTTATTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (24 bp):
ATATTTAGCATGTATTAGCATAAT
Found at i:42585434 original size:24 final size:24
Alignment explanation
Indices: 42585381--42585426 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
42585371 TCTTTCTAGA
* *
42585381 ATATTTAGTATTTATTAGTATAAT
1 ATATTTAGCATTTATTAGCATAAT
42585405 ATATTTAGCATTTATTAGCATA
1 ATATTTAGCATTTATTAGCATA
42585427 GTTTATTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (24 bp):
ATATTTAGCATTTATTAGCATAAT
Found at i:42603086 original size:22 final size:22
Alignment explanation
Indices: 42603058--42603099 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
42603048 GGGACGAAAC
*
42603058 AGGGTGTGCGTGTTGCGACACA
1 AGGGTGTGCGTGTTACGACACA
*
42603080 AGGGTGTGTGTGTTACGACA
1 AGGGTGTGCGTGTTACGACA
42603100 TAGACACCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.14, G:0.40, T:0.26
Consensus pattern (22 bp):
AGGGTGTGCGTGTTACGACACA
Found at i:42608932 original size:40 final size:40
Alignment explanation
Indices: 42608895--42609119 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
42608885 GCTACTCGTT
* *
42608895 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
42608935 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
42608975 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
42609015 CAAATCCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
42609054 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
42609095 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
42609120 CATCATTCAA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42609079 original size:119 final size:120
Alignment explanation
Indices: 42608895--42609119 Score: 287
Period size: 119 Copynumber: 1.9 Consensus size: 120
42608885 GCTACTCGTT
* *
42608895 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATCCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
42608960 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
* * **
42609015 CAAATCCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATCCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
42609077 GGATATGGTCACTTAGCACAAAGCCTTCAGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCAGGACTTAACCCGGA
42609120 CATCATTCAA
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
118 4 0.04
119 65 0.72
120 21 0.23
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
CAAATCCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42616205 original size:40 final size:40
Alignment explanation
Indices: 42616168--42616392 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
42616158 GCTACTCGTT
* *
42616168 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
42616208 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
42616248 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
42616288 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
42616327 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
42616368 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
42616393 CATCATTCAA
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 119 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42616352 original size:119 final size:120
Alignment explanation
Indices: 42616168--42616392 Score: 305
Period size: 119 Copynumber: 1.9 Consensus size: 120
42616158 GCTACTCGTT
*
42616168 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
42616233 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
42616288 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
42616350 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
42616393 CATCATTCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
118 4 0.04
119 66 0.72
120 22 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42619224 original size:10 final size:9
Alignment explanation
Indices: 42619159--42619226 Score: 56
Period size: 9 Copynumber: 7.7 Consensus size: 9
42619149 TTATTACTAG
42619159 TATTA-GTA
1 TATTATGTA
42619167 TCATTAT-TCA
1 T-ATTATGT-A
42619177 TATTA-GTA
1 TATTATGTA
42619185 TATATATGT-
1 TAT-TATGTA
*
42619194 TATTATATA
1 TATTATGTA
42619203 TA-TATGTA
1 TATTATGTA
42619211 TATTATGTA
1 TATTATGTA
42619220 GTATTAT
1 -TATTAT
42619227 CTTTTTCTAC
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
8 16 0.33
9 23 0.47
10 10 0.20
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (9 bp):
TATTATGTA
Found at i:42631956 original size:65 final size:66
Alignment explanation
Indices: 42631850--42631984 Score: 191
Period size: 65 Copynumber: 2.1 Consensus size: 66
42631840 TTTTTCAAAA
* * * * *
42631850 TCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGCCGAGGTATTTTCAATTTCTGTT-
1 TCAACTCATATGGCGAGAAGTGAGTTGAACCTCAGGGCACGCCGAGGTATTTTCAAATTCTCTTG
42631914 T
66 T
* * *
42631915 TCAACTCATGTGGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCTCTTG
1 TCAACTCATATGGCGAGAAGTGAGTTGAACCTCAGGGCACGCCGAGGTATTTTCAAATTCTCTTG
42631980 T
66 T
42631981 TCAA
1 TCAA
42631985 ATCCTGTCTT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
65 56 0.92
66 5 0.08
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (66 bp):
TCAACTCATATGGCGAGAAGTGAGTTGAACCTCAGGGCACGCCGAGGTATTTTCAAATTCTCTTG
T
Found at i:42632267 original size:73 final size:74
Alignment explanation
Indices: 42632011--42632305 Score: 407
Period size: 73 Copynumber: 3.9 Consensus size: 74
42632001 TTACTTTTCC
* * *
42632011 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC-CACACGCTGAGGTATTTTCAATTT
* *
42632076 CTGTTCGTAAAAA
65 CTGTTTGT---CA
*
42632089 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTTAAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCCACACGCTGAGGTA-TTTTCAATT
*
42632152 TCTGTTTTTCA
64 TCTGTTTGTCA
* *
42632163 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GACACGCTGAGGTAATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCCACACGCTGAGGTATTTTCAATTTC
42632227 TGTTTGTCA
66 TGTTTGTCA
* *
42632236 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC-CACACGCTGAGGTATTTTCAATTT
42632301 CTGTT
65 CTGTT
42632306 CTTCAATTTC
Statistics
Matches: 198, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
73 58 0.29
74 51 0.26
75 25 0.13
76 11 0.06
77 15 0.08
78 36 0.18
79 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCCACACGCTGAGGTATTTTCAATTTC
TGTTTGTCA
Found at i:42632296 original size:225 final size:229
Alignment explanation
Indices: 42632011--42632437 Score: 718
Period size: 237 Copynumber: 1.8 Consensus size: 229
42632001 TTACTTTTCC
42632011 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTT
1 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTT
42632076 CTGTTCGT-A-A-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
66 CTGTTCGTAATATAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
42632138 GGTATTTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
131 GGTATTTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
42632202 GACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
196 GACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
*
42632236 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTT
1 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTT
*
42632301 CTGTTCTTCAATTTCTATTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
66 CTGTTCGT-AA----TA----TAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
42632366 ACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
122 ACACGCTGAGGTATTTTTAAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGT
42632431 TGAGCCT
186 TGAGCCT
42632438 TTCAATTTAT
Statistics
Matches: 186, Mismatches: 2, Indels: 14
0.92 0.01 0.07
Matches are distributed among these distances:
225 71 0.38
227 1 0.01
232 1 0.01
237 76 0.41
239 37 0.20
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.32
Consensus pattern (229 bp):
AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTT
CTGTTCGTAATATAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTATTTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
GACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
Found at i:42632591 original size:54 final size:54
Alignment explanation
Indices: 42632380--42632659 Score: 384
Period size: 54 Copynumber: 5.0 Consensus size: 54
42632370 GCTGAGGTAT
*
42632380 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTT-AATTTTTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
42632437 TTTCAATTTATATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTT-T-TGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
42632494 TTTTAATTTCTGTTTTTTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGCA-CC
1 TTTTAA-TT-T-TTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCC
*
42632551 TTTTAATTTTTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGTA-CC
1 TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCC
*
42632605 TTTTAATTTTTGTTTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
42632659 T
1 T
42632660 CGGGGCACGC
Statistics
Matches: 204, Mismatches: 13, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
53 1 0.00
54 92 0.45
55 1 0.00
56 7 0.03
57 84 0.41
58 17 0.08
59 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (54 bp):
TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:42632619 original size:111 final size:111
Alignment explanation
Indices: 42632380--42632659 Score: 399
Period size: 114 Copynumber: 2.5 Consensus size: 111
42632370 GCTGAGGTAT
42632380 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATT
1 TTTT-AATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATT
42632445 TATATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
63 TATATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
42632494 TTTTAATTTCTGTTTTTTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGCA-CCTTTTAAT
1 TTTTAATTTCTG---TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTCAAT
* *
42632558 TT-T-TGTTTTTC-AAAAATCGACTCATATTGCGAGAGGTGAGTTGTA-CC
62 TTATATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCC
* *
42632605 TTTTAATTTTTGTTTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
42632660 CGGGGCACGC
Statistics
Matches: 153, Mismatches: 7, Indels: 18
0.86 0.04 0.10
Matches are distributed among these distances:
107 1 0.01
108 39 0.25
111 44 0.29
112 8 0.05
113 9 0.06
114 45 0.29
115 1 0.01
116 6 0.04
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (111 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTAT
ATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:42632758 original size:309 final size:309
Alignment explanation
Indices: 42632385--42633122 Score: 1334
Period size: 309 Copynumber: 2.4 Consensus size: 309
42632375 GGTATTTTTA
* *
42632385 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATAT
1 AATTCCTGTTTTTC--AACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATAT
42632450 ATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTTTTC
64 ATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTTTTC
*
42632515 AAAAAGCAACTCATATTGCGAGAGGTGAGTTGCACCTTTTAATTTTTGTTTTTCAAAAATCGACT
129 AAAAAGCAACTCATATTGCGAGAGGTGAGTTGCACCTTTTAATTTTTGTTTTTCAAAAATCAACT
**
42632580 CATATTGCGAGAGGTGAGTTGTACCTTTTAATTTTTGTTTTTCAAAAATCAATTCATATTGCGAG
194 CATATTGCGAGAGGTGAGTTGTACCTTTTAATTTTTGTTTTTCAAAAATCAACCCATATTGCGAG
*
42632645 AGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTACTTTCC
259 AAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTACTTTCC
42632696 AATTCCTGTTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATAT
1 AATTCCTGTTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATAT
*
42632761 TTTTCAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTTTTCAA
66 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTTTTCAA
42632826 AAAGCAACTCATATTGCGAGAGGTGAGTTGCACCTTTTAATTTTTGTTTTTCAAAAATCAACTCA
131 AAAGCAACTCATATTGCGAGAGGTGAGTTGCACCTTTTAATTTTTGTTTTTCAAAAATCAACTCA
*
42632891 TATTGTGAGAGGTGAGTTGTACCTTTTAATTTTTGTTTTTCAAAAATCAACCCATATTGCGAGAA
196 TATTGCGAGAGGTGAGTTGTACCTTTTAATTTTTGTTTTTCAAAAATCAACCCATATTGCGAGAA
42632956 GTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTACTTTCC
261 GTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTACTTTCC
* *
42633005 AAATCCCGTTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATAT
1 AATTCCTGTTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATAT
42633070 TTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGTA-CCTTTTAATTT
66 TTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTTAATTT
42633123 TTGTCTTTCA
Statistics
Matches: 413, Mismatches: 11, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
309 356 0.86
311 56 0.14
312 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (309 bp):
AATTCCTGTTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATAT
TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTTTTCAA
AAAGCAACTCATATTGCGAGAGGTGAGTTGCACCTTTTAATTTTTGTTTTTCAAAAATCAACTCA
TATTGCGAGAGGTGAGTTGTACCTTTTAATTTTTGTTTTTCAAAAATCAACCCATATTGCGAGAA
GTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTACTTTCC
Found at i:42632781 original size:57 final size:54
Alignment explanation
Indices: 42632702--42632968 Score: 367
Period size: 54 Copynumber: 4.8 Consensus size: 54
42632692 TTCCAATTCC
* *
42632702 TGTTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTAT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTT-T
* *
42632757 ATATTTTTCAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGT
1 -TGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA-TT-T-T
* *
42632816 TTTTTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGCA-CCTTTTAATTTT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTTAATTTT
*
42632870 TGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGTA-CCTTTTAATTTT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTTAATTTT
* *
42632924 TGTTTTTCAAAAATCAACCCATATTGCGAGAAGTGAGTTGAGCCT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
42632969 CGGGGCACGC
Statistics
Matches: 191, Mismatches: 15, Indels: 12
0.88 0.07 0.06
Matches are distributed among these distances:
53 1 0.01
54 91 0.48
55 1 0.01
56 9 0.05
57 77 0.40
58 10 0.05
59 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (54 bp):
TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTT
Found at i:42632917 original size:111 final size:111
Alignment explanation
Indices: 42632702--42632968 Score: 373
Period size: 114 Copynumber: 2.4 Consensus size: 111
42632692 TTCCAATTCC
*
42632702 TGTTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATATTTTTCA
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATATTTTTCA
*
42632767 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGT
66 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA-TT-T-T
* * * *
42632816 TTTTTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGCA-CCTTTTAATTT-T-TGTTTTTC
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTCAATTTATATATTTTTC
*
42632878 -AAAAATCAACTCATATTGTGAGAGGTGAGTTGTA-CCTTTTAATTTT
65 AAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTTAATTTT
* *
42632924 TGTTTTTCAAAAATCAACCCATATTGCGAGAAGTGAGTTGAGCCT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
42632969 CGGGGCACGC
Statistics
Matches: 139, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
107 1 0.01
108 40 0.29
109 1 0.01
110 2 0.01
111 38 0.27
112 8 0.06
113 1 0.01
114 47 0.34
115 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (111 bp):
TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATATTTTTCA
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTT
Found at i:42634522 original size:23 final size:23
Alignment explanation
Indices: 42634496--42634539 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
42634486 AAATATAGTA
42634496 AAATAATAAAATAAAA-ATAACAC
1 AAATAATAAAA-AAAATATAACAC
42634519 AAATAATAAAAAAAATATAAC
1 AAATAATAAAAAAAATATAAC
42634540 TTTTTAGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (23 bp):
AAATAATAAAAAAAATATAACAC
Found at i:42635339 original size:10 final size:9
Alignment explanation
Indices: 42635272--42635341 Score: 58
Period size: 9 Copynumber: 7.7 Consensus size: 9
42635262 TTATTACTAG
42635272 TATTA-GTA
1 TATTATGTA
42635280 TCATTAT-TCA
1 T-ATTATGT-A
42635290 TATTA-GTA
1 TATTATGTA
42635298 TATATATGT-
1 TAT-TATGTA
*
42635307 TATTATATA
1 TATTATGTA
42635316 TATATATGTA
1 TAT-TATGTA
42635326 TATTATGTA
1 TATTATGTA
42635335 GTATTAT
1 -TATTAT
42635342 CTTTTTCTAC
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
8 9 0.18
9 24 0.47
10 18 0.35
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.53
Consensus pattern (9 bp):
TATTATGTA
Found at i:42635393 original size:3 final size:3
Alignment explanation
Indices: 42635385--42635419 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
42635375 TTACTTTCAC
42635385 TAT TAT TAT TAT TAT TAT TAT TAT GT-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TA
42635420 ATAGGCACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 1 0.03
3 28 0.93
4 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:42638516 original size:14 final size:15
Alignment explanation
Indices: 42638497--42638525 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
42638487 AAATAAAGGC
42638497 AAGATTAAAT-AAAA
1 AAGATTAAATCAAAA
42638511 AAGATTAAATCAAAA
1 AAGATTAAATCAAAA
42638526 CCATAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.21
Consensus pattern (15 bp):
AAGATTAAATCAAAA
Found at i:42640460 original size:144 final size:144
Alignment explanation
Indices: 42640187--42640887 Score: 332
Period size: 144 Copynumber: 4.9 Consensus size: 144
42640177 TTCTAGTTTC
* * *
42640187 AATCCAACCCACTGCAACTTCAAGAGTATAAGATTTGTAGCTTCGTCTTGCTCCACTGCAACTTT
1 AATCCAACCCACTGCAACTTCAAGAGTATAAGACTTGTAGCTTCATCTTGCTCCACTGCAACTTC
* * * ** * * * *
42640252 AGGGAGATAAGCTTCATCATTATAGTTTCATTTCGACTCACTGTAACTTCAGAGAGATAAGATTT
66 AGGGAGATAAGATTCACCATGATAACTTCATCTCAACCCACTGCAACTTCAGAGAGATAAGATTT
42640317 GCTATGATAACTTG
131 GCTATGATAACTTG
* * * * * * *
42640331 AATCCAACCCATTGCAACTTTAGGGGTATAGGACTTGTAGTTTTATCTTGCTCCACTGCAACTTC
1 AATCCAACCCACTGCAACTTCAAGAGTATAAGACTTGTAGCTTCATCTTGCTCCACTGCAACTTC
* * * * *
42640396 AGGGAGATAAGATTCCCCATGGTAACTTCAATCT-AACCCACTGCAACTTTAG-GGGTATAGGAT
66 AGGGAGATAAGATTCACCATGATAACTTC-ATCTCAACCCACTGCAACTTCAGAGAG-ATAAGAT
42640459 TTG-TA-G----CTT-
129 TTGCTATGATAACTTG
** *** * * *
42640468 TTTCTTGCCCTACTACAACTTCATAGAG-ATAAGAATCGTTATGGTAACTTCAATC-TGATCCAC
1 AATCCAACCC-ACTGCAACTTCA-AGAGTATAAG-A-C--T-T-GTAGCTTC-ATCTTGCTCCAC
* * * * * * * * ** * *
42640531 TACAACTTTAAGGATACAGGATT-----TG-TAGCTTTATCT-TGCTCCACTCCAACTTCAAAGA
57 TGCAACTTCAGGGAGATAAGATTCACCATGATAACTTCATCTCAAC-CCACTGCAACTTCAGAGA
** * *
42640589 GATAAGATTCACTATGGTAACTTC
121 GATAAGATTTGCTATGATAACTTG
** * * * * * * *
42640613 AATCTGACCCACTGCAACTTCAGGGGAATAGGATTTGTCA-CTTTATCTTTCTCCACTGCAACTT
1 AATCCAACCCACTGCAACTTCAAGAGTATAAGACTTGT-AGCTTCATCTTGCTCCACTGCAACTT
* * * * * * *
42640677 CAGGAAGGTAAGATTCACTATGGTAACTTCAATCT-GACCCACTGCAACTTCAG-GGGTATAGGA
65 CAGGGAGATAAGATTCACCATGATAACTTC-ATCTCAACCCACTGCAACTTCAGAGAG-ATAAGA
* ** *
42640740 TTAGCTATGGCAACTTC
128 TTTGCTATGATAACTTG
* * * * * * * * *
42640757 AATCCGACCCACTGTAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGTAACTTT
1 AATCCAACCCACTGCAACTTCAAGAGTATAAGACTTGTAGCTTCATCTTGCTCCACTGCAACTTC
* * * * * * *
42640822 AAGGAGATAAGATT-AGCTATGGTAACTTCAATCT-GACCAACTACAACTTCAGGGAGATAAGAT
66 AGGGAGATAAGATTCA-CCATGATAACTTC-ATCTCAACCCACTGCAACTTCAGAGAGATAAGAT
42640885 TTG
129 TTG
42640888 TAGCTTCATC
Statistics
Matches: 420, Mismatches: 103, Indels: 68
0.71 0.17 0.12
Matches are distributed among these distances:
137 13 0.03
138 66 0.16
139 11 0.03
140 3 0.01
142 2 0.00
143 14 0.03
144 292 0.70
145 19 0.05
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (144 bp):
AATCCAACCCACTGCAACTTCAAGAGTATAAGACTTGTAGCTTCATCTTGCTCCACTGCAACTTC
AGGGAGATAAGATTCACCATGATAACTTCATCTCAACCCACTGCAACTTCAGAGAGATAAGATTT
GCTATGATAACTTG
Found at i:42640740 original size:94 final size:93
Alignment explanation
Indices: 42640290--42640741 Score: 539
Period size: 94 Copynumber: 4.8 Consensus size: 93
42640280 CATTTCGACT
* ** * * ** *
42640290 CACTGTAACTTCAGAGAGATAAGATTTGCTATGATAACTTGAATCCAACCCATTGCAACTTTAGG
1 CACTGCAACTTCAGA-AGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTTAGG
* *
42640355 GGTATAGGACTTGTAGTTTTATCTTGCTC
65 GGTATAGGATTTGTAGCTTTATCTTGCTC
* * * *
42640384 CACTGCAACTTCAGGGAGATAAGATTCCCCATGGTAACTTCAATCTAACCCACTGCAACTTTAGG
1 CACTGCAACTTCA-GAAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTTAGG
*
42640449 GGTATAGGATTTGTAGCTTTTTCTTGC-C
65 GGTATAGGATTTGTAGCTTTATCTTGCTC
* * * ** * * *
42640477 CTACTACAACTTCATAGAGATAAGAATCGTTATGGTAACTTCAATCTGATCCACTACAACTTTAA
1 C-ACTGCAACTTCAGA-AGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTTAG
* *
42640542 GGATACAGGATTTGTAGCTTTATCTTGCTC
64 GGGTATAGGATTTGTAGCTTTATCTTGCTC
* * *
42640572 CACTCCAACTTCAAAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAGG
1 CACTGCAACTTCAGA-AGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTTAGG
* *
42640637 GGAATAGGATTTGTCA-CTTTATCTTTCTC
65 GGTATAGGATTTGT-AGCTTTATCTTGCTC
* *
42640666 CACTGCAACTTCAGGAAGGTAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAGG
1 CACTGCAACTTCA-GAAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTTAGG
42640731 GGTATAGGATT
65 GGTATAGGATT
42640742 AGCTATGGCA
Statistics
Matches: 309, Mismatches: 43, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
93 2 0.01
94 302 0.98
95 5 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (93 bp):
CACTGCAACTTCAGAAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTTAGGG
GTATAGGATTTGTAGCTTTATCTTGCTC
Found at i:42640801 original size:94 final size:93
Alignment explanation
Indices: 42640715--42640929 Score: 288
Period size: 94 Copynumber: 2.3 Consensus size: 93
42640705 TCAATCTGAC
* * ** *
42640715 CCACTGCAACTTCAGGGGTATAGGATTAGCTATGGCAACTTCAATCCGACCCACTGTAACTTTAG
1 CCACTGCAACTTCAGGGG-ATAAGATTAGCTATGGCAACTTCAATCCGACCAACTACAACTTCAG
*
42640780 GG-GTATAGGATTTGTAGCTTCATCTTGCT
65 GGAG-ATAAGATTTGTAGCTTCATCTTGCT
* * * * *
42640809 CCACTGTAACTTTAAGGAGATAAGATTAGCTATGGTAACTTCAATCTGACCAACTACAACTTCAG
1 CCACTGCAAC-TTCAGGGGATAAGATTAGCTATGGCAACTTCAATCCGACCAACTACAACTTCAG
42640874 GGAGATAAGATTTGTAGCTTCATCTTGCT
65 GGAGATAAGATTTGTAGCTTCATCTTGCT
42640903 CCACTGCAACTTCAGGGAGATAAGATT
1 CCACTGCAACTTCAGGG-GATAAGATT
42640930 TGCCCTCGTA
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
93 5 0.05
94 92 0.88
95 7 0.07
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (93 bp):
CCACTGCAACTTCAGGGGATAAGATTAGCTATGGCAACTTCAATCCGACCAACTACAACTTCAGG
GAGATAAGATTTGTAGCTTCATCTTGCT
Found at i:42640878 original size:50 final size:49
Alignment explanation
Indices: 42640383--42640929 Score: 245
Period size: 50 Copynumber: 11.6 Consensus size: 49
42640373 TTATCTTGCT
* * *
42640383 CCACTGCAACTTCAGGGAGATAAGATTCCCCATGGTAACTTCAATCTAAC
1 CCACTGCAACTTCAGGGAGATAAGATT-ACTATGGTAACTTCAATCTGAC
* * * **
42640433 CCACTGCAACTTTAGGG-GTATAGGA-T--T-T-GTAGCTT-TTTCTTG-C
1 CCACTGCAACTTCAGGGAG-ATAAGATTACTATGGTAACTTCAATC-TGAC
* ** * *
42640476 CCTACTACAACTTCATAGAGATAAGAAT-CGTTATGGTAACTTCAATCTGAT
1 CC-ACTGCAACTTCAGGGAGATAAGATTAC--TATGGTAACTTCAATCTGAC
* * * * * * * *
42640527 CCACTACAACTTTAAGGATACAGGA-T--T-T-GTAGCTT-TATCTTG-C
1 CCACTGCAACTTCAGGGAGATAAGATTACTATGGTAACTTCAATC-TGAC
* **
42640570 TCCACTCCAACTTCAAAGAGATAAGATTCACTATGGTAACTTCAATCTGAC
1 -CCACTGCAACTTCAGGGAGATAAGATT-ACTATGGTAACTTCAATCTGAC
* * * **
42640621 CCACTGCAACTTCAGGG-GAATAGGA-T--T-T-GTCACTT-TATCTTTC
1 CCACTGCAACTTCAGGGAG-ATAAGATTACTATGGTAACTTCAATCTGAC
* *
42640664 TCCACTGCAACTTCAGGAAGGTAAGATTCACTATGGTAACTTCAATCTGAC
1 -CCACTGCAACTTCAGGGAGATAAGATT-ACTATGGTAACTTCAATCTGAC
* * *
42640715 CCACTGCAACTTCAGGG-GTATAGGATTAGCTATGGCAACTTCAATCCGAC
1 CCACTGCAACTTCAGGGAG-ATAAGATTA-CTATGGTAACTTCAATCTGAC
* * * *
42640765 CCACTGTAACTTTAGGG-GTATAGGA-T--T-T-GTAGCTTC-ATCTTG-C
1 CCACTGCAACTTCAGGGAG-ATAAGATTACTATGGTAACTTCAATC-TGAC
* * *
42640808 TCCACTGTAACTTTAAGGAGATAAGATTAGCTATGGTAACTTCAATCTGAC
1 -CCACTGCAACTTCAGGGAGATAAGATTA-CTATGGTAACTTCAATCTGAC
* * *
42640859 CAACTACAACTTCAGGGAGATAAGA-T--T-T-GTAGCTTC-ATCTTG-C
1 CCACTGCAACTTCAGGGAGATAAGATTACTATGGTAACTTCAATC-TGAC
42640902 TCCACTGCAACTTCAGGGAGATAAGATT
1 -CCACTGCAACTTCAGGGAGATAAGATT
42640930 TGCCCTCGTA
Statistics
Matches: 380, Mismatches: 69, Indels: 101
0.69 0.13 0.18
Matches are distributed among these distances:
43 21 0.06
44 136 0.36
45 13 0.03
46 4 0.01
48 4 0.01
49 13 0.03
50 172 0.45
51 17 0.04
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (49 bp):
CCACTGCAACTTCAGGGAGATAAGATTACTATGGTAACTTCAATCTGAC
Found at i:42640951 original size:94 final size:94
Alignment explanation
Indices: 42640715--42640966 Score: 274
Period size: 94 Copynumber: 2.7 Consensus size: 94
42640705 TCAATCTGAC
* * * * * * * ** *
42640715 CCACTGCAACTTC-AGGGGTATAGGATTAGCTATGGCAACTTCAATCCGACCCACTGTAACTTTA
1 CCACTGCAACTTCAAGGAG-ATAAGATTAGCCATCGTAACTTCAATCTGACCAACTACAACTTCA
*
42640779 GGG-GTATAGGATTTGTAGCTTCATCTTGCT
65 GGGAG-ATAAGATTTGTAGCTTCATCTTGCT
* * * *
42640809 CCACTGTAACTTTAAGGAGATAAGATTAGCTATGGTAACTTCAATCTGACCAACTACAACTTCAG
1 CCACTGCAACTTCAAGGAGATAAGATTAGCCATCGTAACTTCAATCTGACCAACTACAACTTCAG
42640874 GGAGATAAGATTTGTAGCTTCATCTTGCT
66 GGAGATAAGATTTGTAGCTTCATCTTGCT
* * * ** * *
42640903 CCACTGCAACTTCAGGGAGATAAGATTTGCCCTCGTAGTTTCATTCTGACCCACTACAACTTCA
1 CCACTGCAACTTCAAGGAGATAAGATTAGCCATCGTAACTTCAATCTGACCAACTACAACTTCA
42640967 AAGGTATAAG
Statistics
Matches: 134, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
94 129 0.96
95 5 0.04
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (94 bp):
CCACTGCAACTTCAAGGAGATAAGATTAGCCATCGTAACTTCAATCTGACCAACTACAACTTCAG
GGAGATAAGATTTGTAGCTTCATCTTGCT
Found at i:42640953 original size:238 final size:238
Alignment explanation
Indices: 42640507--42640966 Score: 611
Period size: 238 Copynumber: 1.9 Consensus size: 238
42640497 TAAGAATCGT
* * * *
42640507 TATGGTAACTTCAATCTGATCCACTACAACTTTAAGGATACAGGATTTGTAGCTTTATCTTGCTC
1 TATGGCAACTTCAATCCGACCCACTACAACTTTAAGGATACAGGATTTGTAGCTTCATCTTGCTC
* *
42640572 CACTCCAACTTCAAAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAGG
66 CACTCCAACTTCAAAGAGATAAGATTCACTATGGTAACTTCAATCTGACCAACTACAACTTCAGG
* * * * * *
42640637 GGAATAGGATTTGTCACTTTATCTTTCTCCACTGCAACTTCAGGAAGGTAAGATTCACTATGGTA
131 GGAATAAGATTTGTCACTTCATCTTGCTCCACTGCAACTTCAGGAAGATAAGATTCACCATCGTA
*
42640702 ACTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTAGC
196 ACTTCAATCTGACCCACTACAACTTCAGGGGTATAGGATTAGC
** * * *
42640745 TATGGCAACTTCAATCCGACCCACTGTAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTC
1 TATGGCAACTTCAATCCGACCCACTACAACTTTAAGGATACAGGATTTGTAGCTTCATCTTGCTC
** * *
42640810 CACTGTAACTTTAAGGAGATAAGATT-AGCTATGGTAACTTCAATCTGACCAACTACAACTTCA-
66 CACTCCAACTTCAAAGAGATAAGATTCA-CTATGGTAACTTCAATCTGACCAACTACAACTTCAG
* ** *
42640873 GGGAGATAAGATTTGT-AGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCCTC
130 GGGA-ATAAGATTTGTCA-CTTCATCTTGCTCCACTGCAACTTCAGGAAGATAAGATTCACCATC
** *
42640937 GTAGTTTCATTCTGACCCACTACAACTTCA
193 GTAACTTCAATCTGACCCACTACAACTTCA
42640967 AAGGTATAAG
Statistics
Matches: 190, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
237 6 0.03
238 184 0.97
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (238 bp):
TATGGCAACTTCAATCCGACCCACTACAACTTTAAGGATACAGGATTTGTAGCTTCATCTTGCTC
CACTCCAACTTCAAAGAGATAAGATTCACTATGGTAACTTCAATCTGACCAACTACAACTTCAGG
GGAATAAGATTTGTCACTTCATCTTGCTCCACTGCAACTTCAGGAAGATAAGATTCACCATCGTA
ACTTCAATCTGACCCACTACAACTTCAGGGGTATAGGATTAGC
Found at i:42640957 original size:50 final size:43
Alignment explanation
Indices: 42640847--42640931 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 43
42640837 GCTATGGTAA
*
42640847 CTTCAATCTGACCAACTACAACTTCAGGGAGATAAGATTTGTAG
1 CTTC-ATCTGACCCACTACAACTTCAGGGAGATAAGATTTGTAG
*
42640891 CTTCATCTTG-CTCCACTGCAACTTCAGGGAGATAAGATTTG
1 CTTCATC-TGAC-CCACTACAACTTCAGGGAGATAAGATTTG
42640932 CCCTCGTAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
43 4 0.11
44 33 0.89
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (43 bp):
CTTCATCTGACCCACTACAACTTCAGGGAGATAAGATTTGTAG
Found at i:42653144 original size:5 final size:5
Alignment explanation
Indices: 42653133--42653204 Score: 76
Period size: 5 Copynumber: 14.6 Consensus size: 5
42653123 AAATAGAAAG
* * *
42653133 ATTTT GTTTT GTTTT ATTTT ATTTT ATTTT ATTTT ATTTT -TATT A-TTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
* *
42653181 ATTTTT ATTTG ATTTG ATTTT ATT
1 A-TTTT ATTTT ATTTT ATTTT ATT
42653205 AATTTAGGTT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
4 6 0.10
5 48 0.83
6 4 0.07
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:42653186 original size:29 final size:28
Alignment explanation
Indices: 42653150--42653210 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
42653140 TTTGTTTTAT
* *
42653150 TTTATTTTATTTTATTTTATTTTTATT-A
1 TTTATTTTATTTGATTTGA-TTTTATTAA
42653178 TTTATTTTTATTTGATTTGATTTTATTAA
1 TTTA-TTTTATTTGATTTGATTTTATTAA
42653207 TTTA
1 TTTA
42653211 GGTTAAGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 11 0.38
29 18 0.62
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (28 bp):
TTTATTTTATTTGATTTGATTTTATTAA
Found at i:42661391 original size:5 final size:5
Alignment explanation
Indices: 42661370--42661425 Score: 67
Period size: 5 Copynumber: 10.6 Consensus size: 5
42661360 AAATAGAAAG
* *
42661370 ATTTT ATGTT GTTTT ATTTT ATTTT ATTATTT ATTTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT A-T-TTT A-TTTT ATTTT ATTTT
42661418 ATTTT ATT
1 ATTTT ATT
42661426 AATTTAGGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
5 34 0.76
6 5 0.11
7 6 0.13
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:42661409 original size:18 final size:17
Alignment explanation
Indices: 42661382--42661425 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
42661372 TTTATGTTGT
42661382 TTTATTTTATTTTATTA
1 TTTATTTTATTTTATTA
42661399 TTTATTTTTATTTTA-T-
1 TTTA-TTTTATTTTATTA
42661415 TTTATTTTATT
1 TTTATTTTATT
42661426 AATTTAGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.27
16 4 0.15
17 5 0.19
18 10 0.38
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTATTTTATTTTATTA
Found at i:42671876 original size:21 final size:21
Alignment explanation
Indices: 42671850--42671891 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
42671840 CAAGGAGGAG
42671850 AATGACTTACATGCTCTCAAC
1 AATGACTTACATGCTCTCAAC
42671871 AATGACTTACATGCTCTCAAC
1 AATGACTTACATGCTCTCAAC
42671892 CGCCACATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.10, T:0.29
Consensus pattern (21 bp):
AATGACTTACATGCTCTCAAC
Found at i:42676277 original size:93 final size:93
Alignment explanation
Indices: 42676165--42676335 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
42676155 GCCCATAAGC
*
42676165 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42676229 ACGAGTTCGGATGCCTAGTTACATCTCAT
65 ACGAGTTCGGATGCCTAGTTACATCTCAT
*
42676258 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42676323 CGAGTTCGGATGC
66 CGAGTTCGGATGC
42676336 TCAATCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAT
Found at i:42676330 original size:46 final size:46
Alignment explanation
Indices: 42676157--42676332 Score: 218
Period size: 46 Copynumber: 3.8 Consensus size: 46
42676147 TGTAACCCGC
* * *
42676157 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
*
42676203 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
42676253 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
42676296 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
42676333 TGCTCAATCA
Statistics
Matches: 113, Mismatches: 7, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 62 0.55
47 30 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:42679259 original size:27 final size:27
Alignment explanation
Indices: 42679229--42679406 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
42679219 ATATTGAGTC
* * * *
42679229 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
42679256 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42679283 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
42679311 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
42679338 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
42679365 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42679392 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42679407 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:42679368 original size:82 final size:81
Alignment explanation
Indices: 42679250--42679405 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
42679240 TGCTATATAA
* *
42679250 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
42679315 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
42679332 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
42679396 CACTTAGTGC
65 CACTTAGTGC
42679406 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:42684380 original size:28 final size:28
Alignment explanation
Indices: 42684333--42684421 Score: 99
Period size: 28 Copynumber: 3.1 Consensus size: 28
42684323 ATTGAGTCCG
*
42684333 CACACTCAGTGCTATATAATCAACTCGCA
1 CACACT-AGTGCTACATAATCAACTCGCA
* *
42684362 CACACTAGTGCTACGTAATCAAATCGCA
1 CACACTAGTGCTACATAATCAACTCGCA
* *
42684390 CAC-TTAGTTGCTACATAGTCAAACTCGCA
1 CACACTAG-TGCTACATAATC-AACTCGCA
42684419 CAC
1 CAC
42684422 TTAGTGCCGG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
27 3 0.06
28 32 0.63
29 16 0.31
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.24
Consensus pattern (28 bp):
CACACTAGTGCTACATAATCAACTCGCA
Found at i:42684483 original size:27 final size:27
Alignment explanation
Indices: 42684385--42684510 Score: 119
Period size: 27 Copynumber: 4.6 Consensus size: 27
42684375 CGTAATCAAA
* **
42684385 TCGCACACTTAGTTGCTACATAGTCAAAC
1 TCGCACACTTAG-TGCAACATAGTC-ATT
** *
42684414 TCGCACACTTAGTGCCGGCATGGTCAATT
1 TCGCACACTTAGTG-CAACATAGTC-ATT
* *
42684443 TCG-ACACTTAGTGCATCATATTCATT
1 TCGCACACTTAGTGCAACATAGTCATT
**
42684469 TCGCACACTTAGTGCAACATAGTCAAA
1 TCGCACACTTAGTGCAACATAGTCATT
42684496 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
42684511 TGTACAATTT
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 6 0.07
27 40 0.49
28 12 0.15
29 24 0.29
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (27 bp):
TCGCACACTTAGTGCAACATAGTCATT
Found at i:42690895 original size:27 final size:27
Alignment explanation
Indices: 42690865--42691042 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
42690855 ATATTGAGTC
* * * *
42690865 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
42690892 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42690919 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
42690947 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
42690974 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
42691001 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42691028 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42691043 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:42691004 original size:82 final size:81
Alignment explanation
Indices: 42690886--42691041 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
42690876 TGCTATATAA
* *
42690886 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
42690951 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
42690968 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
42691032 CACTTAGTGC
65 CACTTAGTGC
42691042 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:42700669 original size:57 final size:57
Alignment explanation
Indices: 42700598--42700712 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
42700588 AAAACACTCT
42700598 TGGCTGGCAGAGCAGTAAATAGCAGAAAAGCGGAACTACAGTTAATTTATGGCCCTA
1 TGGCTGGCAGAGCAGTAAATAGCAGAAAAGCGGAACTACAGTTAATTTATGGCCCTA
*
42700655 TGGCTGGCAGAGCAGTAAATAGCAGAATAGCGGAACTACAGTTAATTTATGGCCCTA
1 TGGCTGGCAGAGCAGTAAATAGCAGAAAAGCGGAACTACAGTTAATTTATGGCCCTA
42700712 T
1 T
42700713 ATGTAGGAGG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (57 bp):
TGGCTGGCAGAGCAGTAAATAGCAGAAAAGCGGAACTACAGTTAATTTATGGCCCTA
Found at i:42701346 original size:41 final size:40
Alignment explanation
Indices: 42701270--42701355 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
42701260 CAAATACATT
*
42701270 TAAAACAACTATTAAAACAAGAAACAAATAAAAAATGATAC
1 TAAAACAACTATTAAAACAAGAAACAAATAAAAAAT-ATAA
* * * * **
42701311 TAAAACAATTGTTAAAACAATACACAAATTGAAAATATAA
1 TAAAACAACTATTAAAACAAGAAACAAATAAAAAATATAA
42701351 TAAAA
1 TAAAA
42701356 AGTTATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.64, C:0.10, G:0.05, T:0.21
Consensus pattern (40 bp):
TAAAACAACTATTAAAACAAGAAACAAATAAAAAATATAA
Found at i:42701406 original size:28 final size:27
Alignment explanation
Indices: 42701342--42701406 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
42701332 ACACAAATTG
* * *
42701342 AAAATATAATAAAAAGTTATTATATTA
1 AAAATAAAATAAAAAGTAAATATATTA
* *
42701369 AAATTGAAAATAAAATGTAAATATGATTA
1 AAAAT-AAAATAAAAAGTAAATAT-ATTA
42701398 AAAATAAAA
1 AAAATAAAA
42701407 AATATAAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 4 0.13
28 18 0.60
29 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (27 bp):
AAAATAAAATAAAAAGTAAATATATTA
Found at i:42703005 original size:21 final size:21
Alignment explanation
Indices: 42702957--42703005 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
42702947 CAATTTAATA
*
42702957 TTAATTATCATATTTTTAAAT
1 TTAATTATCATATTATTAAAT
*
42702978 TTAAATTAT-ATATTATTATGAT
1 TT-AATTATCATATTATTA-AAT
42703000 TTAATT
1 TTAATT
42703006 TCGTAACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TTAATTATCATATTATTAAAT
Found at i:42705241 original size:142 final size:142
Alignment explanation
Indices: 42705040--42705323 Score: 514
Period size: 142 Copynumber: 2.0 Consensus size: 142
42705030 ATGTTGATAT
42705040 TATTATTTGAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAAAAATTATATG
1 TATTATTTGAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAAAAATTATATG
**
42705105 TATTTGAAATGAATTATATTATTATAAGGTATGCAAATGACCATGTTGAGTATGGTGCTATATTG
66 TATTTGAAATGAATTATATTATTATAAGGTATGCAAATGACCATGTTGAGTATGGCACTATATTG
*
42705170 TATAGTAGAAAA
131 TAAAGTAGAAAA
*
42705182 TATTATTTGAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAGAAATTATATG
1 TATTATTTGAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAAAAATTATATG
*
42705247 TATTTGAAATGAATTATATTATTATAAGGTATGCTAATGACCATGTTGAGTATGGCACTATATTG
66 TATTTGAAATGAATTATATTATTATAAGGTATGCAAATGACCATGTTGAGTATGGCACTATATTG
*
42705312 TAAAGTTGAAAA
131 TAAAGTAGAAAA
42705324 GAATATGGGA
Statistics
Matches: 136, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 136 1.00
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (142 bp):
TATTATTTGAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAAAAATTATATG
TATTTGAAATGAATTATATTATTATAAGGTATGCAAATGACCATGTTGAGTATGGCACTATATTG
TAAAGTAGAAAA
Found at i:42708065 original size:46 final size:45
Alignment explanation
Indices: 42707960--42708179 Score: 183
Period size: 46 Copynumber: 4.7 Consensus size: 45
42707950 GGGTATAATA
* * * *
42707960 CCGATGCCATGCCCCAGACATGGTCTTACACTGACTTTAACATATCCG-TG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-TT--CGTAT-CGAGG
* * * *
42708010 CCGATGCATGTCTCAAACATGTCTTACACTGGCTTACATCTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTATCGAGG
* * * *
42708056 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTTTCCATG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCT-TCGTATCGAGG
* *
42708102 CCGATGCCATGTCCCAGACATGGTCTTATACTGGCTTTCGTAAT-GTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-TTCGT-ATCGAGG
*
42708150 TCGATGCATGTCCCAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
42708180 AGCACACAAT
Statistics
Matches: 143, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
45 2 0.01
46 58 0.41
47 31 0.22
48 33 0.23
49 13 0.09
50 6 0.04
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.29
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTATCGAGG
Found at i:42708128 original size:94 final size:92
Alignment explanation
Indices: 42708008--42708182 Score: 244
Period size: 94 Copynumber: 1.9 Consensus size: 92
42707998 AACATATCCG
* *
42708008 TGCCGATGCATGTCTCAAACATGTCTTACACTGGCTTACAT-CTCGAGGCCGATGCATGTCCCAG
1 TGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATAAT-GAGGCCGATGCATGTCCCAG
42708072 ACATGTCTTACACTAGCTCTCGTTTCCA
65 ACATGTCTTACACTAGCTCTCGTTTCCA
* * * * * *
42708100 TGCCGATGCCATGTCCCAGACATGGTCTTATACTGGCTTTCGTAATGTGGTCGATGCATGTCCCA
1 TGCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACATAATGAGGCCGATGCATGTCCCA
42708165 GACATGTCTTACACTAGC
64 GACATGTCTTACACTAGC
42708183 ACACAATTAA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
92 8 0.11
93 12 0.17
94 51 0.71
95 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.30
Consensus pattern (92 bp):
TGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATAATGAGGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCTCTCGTTTCCA
Found at i:42727937 original size:43 final size:42
Alignment explanation
Indices: 42727909--42728024 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 42
42727899 CAATACGTAT
* *
42727909 CAATGCCATTGTCCCAGACAGGGTCTTACACGAAATCATAATA
1 CAATGCCAATGTCCCAGACAGGGTCTTACACGCAATC-TAATA
* *
42727952 CGATGCCAATGTCTCAGAC-GTGGTCTTACACGCAATCTCAATA
1 CAATGCCAATGTCCCAGACAG-GGTCTTACACGCAATCT-AATA
*
42727995 CAATGCCAATGTCCCAGACATGGTCTTACA
1 CAATGCCAATGTCCCAGACAGGGTCTTACA
42728025 TGTAATCACA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
42 2 0.03
43 61 0.97
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (42 bp):
CAATGCCAATGTCCCAGACAGGGTCTTACACGCAATCTAATA
Found at i:42744093 original size:12 final size:12
Alignment explanation
Indices: 42744078--42744108 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
42744068 AACCACACGC
42744078 CCGTGTGCCAAG
1 CCGTGTGCCAAG
42744090 CCGTGTGCCAAG
1 CCGTGTGCCAAG
42744102 CCGTGTG
1 CCGTGTG
42744109 AAATCTAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.32, G:0.35, T:0.19
Consensus pattern (12 bp):
CCGTGTGCCAAG
Found at i:42745325 original size:43 final size:42
Alignment explanation
Indices: 42745211--42745367 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 42
42745201 AGCTCGTACA
* *
42745211 ATGCC-ATATCCCAGATATGGTCTTACATGTAAATACGT-AT-CG
1 ATGCCAATATCCCAGACATGGTCTTACACG-AAAT-C-TAATACG
* *
42745253 ATGCCACTGTCCCAAGACATGGTCTTACACGAAATCATAATACG
1 ATGCCAATATCCC-AGACATGGTCTTACACGAAATC-TAATACG
*
42745297 ATGCCAATATCCCAGACATGGTCTTACAC-ACAATCTCAATACA
1 ATGCCAATATCCCAGACATGGTCTTACACGA-AATCT-AATACG
* *
42745340 ATACCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATATCCCAGACATGGTCTTACA
42745368 TGTAATCACA
Statistics
Matches: 99, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
42 9 0.09
43 62 0.63
44 28 0.28
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (42 bp):
ATGCCAATATCCCAGACATGGTCTTACACGAAATCTAATACG
Found at i:42745956 original size:27 final size:27
Alignment explanation
Indices: 42745926--42745982 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
42745916 TTCATCAAAA
42745926 ATCCCAATAGAAAACATATTAACACAT
1 ATCCCAATAGAAAACATATTAACACAT
42745953 ATCCCAATAGAAAACATATTAACACAT
1 ATCCCAATAGAAAACATATTAACACAT
42745980 ATC
1 ATC
42745983 TTTCATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.51, C:0.23, G:0.04, T:0.23
Consensus pattern (27 bp):
ATCCCAATAGAAAACATATTAACACAT
Found at i:42747446 original size:30 final size:30
Alignment explanation
Indices: 42747408--42747473 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
42747398 CTTGGGTCAT
**
42747408 ACGCCCATGTATGTTGCTTGTGTGTGACAC
1 ACGCCCATGTATGTTGCCCGTGTGTGACAC
* *
42747438 ATGCCCATGTGTGTTGCCCGTGTGTGACAC
1 ACGCCCATGTATGTTGCCCGTGTGTGACAC
42747468 ACGCCC
1 ACGCCC
42747474 GTGTGGCCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.15, C:0.29, G:0.27, T:0.29
Consensus pattern (30 bp):
ACGCCCATGTATGTTGCCCGTGTGTGACAC
Found at i:42752021 original size:47 final size:47
Alignment explanation
Indices: 42751963--42752087 Score: 135
Period size: 46 Copynumber: 2.7 Consensus size: 47
42751953 GTGTGAATAA
* * * *
42751963 TACCTTGATTTGGCTATGGGCCATGATATAGGCATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGCACTCTGAGAGAAGT
* * ** * * * *
42752010 TATCTTGATTTGGCTACGAGTAATGGTA-AGGTACTCTGTGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGCACTCTGAGAGAAGT
42752056 TACCTTGATTTGGCTACGGGCCATGATATAGG
1 TACCTTGATTTGGCTACGGGCCATGATATAGG
42752088 TACTTATCAA
Statistics
Matches: 60, Mismatches: 17, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
46 35 0.58
47 25 0.42
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGATATAGGCACTCTGAGAGAAGT
Found at i:42756581 original size:15 final size:15
Alignment explanation
Indices: 42756561--42756592 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
42756551 CATTTCACTA
*
42756561 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
42756576 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
42756591 TT
1 TT
42756593 TTCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:42758365 original size:20 final size:20
Alignment explanation
Indices: 42758342--42758379 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
42758332 TTTTATTAAA
42758342 TTAATATTAAAGTGATTATC
1 TTAATATTAAAGTGATTATC
42758362 TTAATATTAAAGTGATTA
1 TTAATATTAAAGTGATTA
42758380 AGTTTAATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (20 bp):
TTAATATTAAAGTGATTATC
Found at i:42759534 original size:30 final size:33
Alignment explanation
Indices: 42759500--42759563 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 33
42759490 AATATTAAAA
* *
42759500 TAAATCTT-TTTTATCTTAA-ATTTA-ATTATT
1 TAAATCTTATTTTATCATAATATTCATATTATT
*
42759530 TAAATTTTATTTTATCATAATATTCATATTATT
1 TAAATCTTATTTTATCATAATATTCATATTATT
42759563 T
1 T
42759564 TACCTAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 7 0.25
31 10 0.36
32 4 0.14
33 7 0.25
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (33 bp):
TAAATCTTATTTTATCATAATATTCATATTATT
Found at i:42760202 original size:16 final size:17
Alignment explanation
Indices: 42760170--42760210 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
42760160 TGTGAAATAA
*
42760170 AATTT-TAATTTTTTAT
1 AATTTATAATTTTATAT
42760186 AATTTATAA-TTTATAT
1 AATTTATAATTTTATAT
*
42760202 ATTTTATAA
1 AATTTATAA
42760211 AATTAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AATTTATAATTTTATAT
Found at i:42761119 original size:2 final size:2
Alignment explanation
Indices: 42761107--42761152 Score: 67
Period size: 2 Copynumber: 22.5 Consensus size: 2
42761097 ATCATTTAAC
42761107 AT AT AT CAT AT AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT -AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42761150 AT A
1 AT A
42761153 ATTAAGGTAC
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 1 0.02
2 36 0.88
3 4 0.10
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42761756 original size:21 final size:22
Alignment explanation
Indices: 42761701--42761756 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
42761691 TTATGAATTG
*
42761701 TTAAAATATAATTAAAAATGTT
1 TTAAAACATAATTAAAAATGTT
*
42761723 TTAAAACATAATTAATAGA-GTT
1 TTAAAACATAATTAA-AAATGTT
42761745 TTAAAA-ATAATT
1 TTAAAACATAATT
42761757 TATTTCTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 6 0.19
22 23 0.74
23 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (22 bp):
TTAAAACATAATTAAAAATGTT
Found at i:42762435 original size:17 final size:19
Alignment explanation
Indices: 42762415--42762451 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
42762405 ATTTGAAATC
42762415 TTTAAAA-AT-ATATAAAA
1 TTTAAAACATAATATAAAA
42762432 TTTAAAACATAATATAAAA
1 TTTAAAACATAATATAAAA
42762451 T
1 T
42762452 CAAATATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 2 0.11
19 9 0.50
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
TTTAAAACATAATATAAAA
Found at i:42768551 original size:18 final size:18
Alignment explanation
Indices: 42768515--42768640 Score: 200
Period size: 18 Copynumber: 6.9 Consensus size: 18
42768505 AATCATATAT
*
42768515 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
42768534 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
42768552 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
42768569 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
42768587 TATAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
42768605 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
42768623 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
42768641 TGAAGATTAT
Statistics
Matches: 100, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
17 16 0.16
18 68 0.68
19 16 0.16
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:42768594 original size:53 final size:55
Alignment explanation
Indices: 42768515--42768640 Score: 211
Period size: 53 Copynumber: 2.3 Consensus size: 55
42768505 AATCATATAT
* * *
42768515 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCATATCATATATAAGATTGCAATCATATCTAAGATTGCAATCATA
42768569 TCTAAGATTGCA-ATCATATATAAGATTGCAATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCATATCATATATAAGATTGCAATCATATCTAAGATTGCAATCATA
42768623 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
42768641 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
53 33 0.49
54 29 0.43
55 5 0.07
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (55 bp):
TCTAAGATTGCATATCATATATAAGATTGCAATCATATCTAAGATTGCAATCATA
Found at i:42769244 original size:83 final size:83
Alignment explanation
Indices: 42769024--42769376 Score: 616
Period size: 83 Copynumber: 4.2 Consensus size: 83
42769014 TTCGATTTGT
* * *
42769024 AAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
*
42769089 CTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* *
42769107 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTAAGAGTCATGTCTGCAAGGTCCTCG
1 AAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCG
42769172 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
*
42769191 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
42769256 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* *
42769274 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
42769339 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
42769357 AAGGATGCCAAACCATCTTG
1 AAGGATGCCAAACCATCTTG
42769377 GATATGCTTC
Statistics
Matches: 259, Mismatches: 10, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
83 181 0.70
84 78 0.30
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:42769511 original size:119 final size:119
Alignment explanation
Indices: 42769300--42769896 Score: 1011
Period size: 119 Copynumber: 5.0 Consensus size: 119
42769290 CTTGAGTCTG
* * * * * * * *
42769300 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
42769365 CAAACCATCTTGGATATGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
42769419 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * *
42769484 CAAATAATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
42769538 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
42769603 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGTTAGATCTGC--TA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
42769655 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAA-AATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
42769719 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
42769773 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
42769838 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
42769892 TTTGA
1 TTTGA
42769897 TCTGTTCCCT
Statistics
Matches: 453, Mismatches: 22, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
116 54 0.12
117 61 0.13
118 60 0.13
119 278 0.61
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:42769796 original size:235 final size:236
Alignment explanation
Indices: 42769300--42769890 Score: 1013
Period size: 235 Copynumber: 2.5 Consensus size: 236
42769290 CTTGAGTCTG
* * * * * * *
42769300 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
* *
42769365 CAAACCATCTTGGATATGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGC--TATTTGAGAACGT
*
42769430 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATAATCTT
129 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATAATCTT
*
42769495 GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
194 GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
42769538 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
42769603 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGTTAGATCTGCTATTTGAGAACGTCT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATTTGAGAACGTCT
*
42769668 GAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAA-AATACCAAATCATCTTGG
131 GAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATAATCTTGG
* *
42769732 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
196 ATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
42769773 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
42769838 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
42769891 CTTTGATCTG
Statistics
Matches: 335, Mismatches: 18, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
235 171 0.51
236 60 0.18
238 104 0.31
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (236 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATTTGAGAACGTCT
GAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATAATCTTGG
ATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:42769930 original size:44 final size:44
Alignment explanation
Indices: 42769882--42770076 Score: 166
Period size: 44 Copynumber: 4.4 Consensus size: 44
42769872 TGAAGGTTAG
42769882 ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCAA
* * *
42769926 ATCTGCTATC-TTCAACTTGTTCCCTATAAACACAGGGATTCC--
1 ATCTGCTATCTTTGATC-TGTTCCCTATAAACACAGGGATGCCAA
** ** * * * * *
42769968 ATGCTGAAATCTTCAATCTGCTTCGC-AGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTTGATCTG-TTCCCTA-TAAACACAGGGATGCCAA
* * *
42770014 ATCTACTATCTTCGATCTGTTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCAA
*
42770058 ATCTTG-TTTCTTTGATCTG
1 ATC-TGCTATCTTTGATCTG
42770077 CATTGTCCCA
Statistics
Matches: 116, Mismatches: 26, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
42 2 0.02
43 13 0.11
44 84 0.72
45 15 0.13
46 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (44 bp):
ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:42770953 original size:1 final size:1
Alignment explanation
Indices: 42770937--42770997 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
42770927 GGCCTCTCCA
* * * * * * * *
42770937 TTTTTTCTTTTCTTTTTTCTCTTTTTTTCTTTTTCTTTTTCTTTTCTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
42770998 GAAATAGAAG
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:42770953 original size:6 final size:6
Alignment explanation
Indices: 42770938--42770997 Score: 60
Period size: 5 Copynumber: 10.8 Consensus size: 6
42770928 GCCTCTCCAT
*
42770938 TTTTTC -TTTTC TTTTT- TCTCTT- TTTTTC TTTTTC TTTTTC -TTTTC
1 TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TTTTTC
42770983 TTTTT- TTTTT- TTTTT
1 TTTTTC TTTTTC TTTTT
42770998 GAAATAGAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
5 24 0.50
6 24 0.50
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTC
Found at i:42770962 original size:22 final size:20
Alignment explanation
Indices: 42770937--42770996 Score: 77
Period size: 22 Copynumber: 2.9 Consensus size: 20
42770927 GGCCTCTCCA
42770937 TTTTTTCTTTTCTTTTTTCTCT
1 TTTTTTCTTTT-TTTTTTCT-T
42770959 TTTTTTCTTTTTCTTTTTCTT
1 TTTTTTCTTTTT-TTTTTCTT
42770980 TTCTTTT-TTTTTTTTTT
1 TT-TTTTCTTTTTTTTTT
42770997 TGAAATAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.14
21 9 0.25
22 22 0.61
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (20 bp):
TTTTTTCTTTTTTTTTTCTT
Found at i:42770966 original size:17 final size:16
Alignment explanation
Indices: 42770939--42770996 Score: 66
Period size: 16 Copynumber: 3.5 Consensus size: 16
42770929 CCTCTCCATT
42770939 TTTTCTTTTCTTTTTTC
1 TTTT-TTTTCTTTTTTC
42770956 TCTTTTTTTC-TTTTTC
1 T-TTTTTTTCTTTTTTC
42770972 TTTTTCTTTTCTTTTTT-
1 -TTTT-TTTTCTTTTTTC
42770989 TTTTTTTT
1 TTTTTTTT
42770997 TGAAATAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.11
16 13 0.35
17 12 0.32
18 8 0.22
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTTTTCTTTTTTC
Found at i:42776744 original size:17 final size:17
Alignment explanation
Indices: 42776686--42776744 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
42776676 TAATAAATTT
42776686 AAAATATAA-TATATAA
1 AAAATATAATTATATAA
42776702 TAAAA-ATATATT-TAT-A
1 -AAAATATA-ATTATATAA
*
42776718 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
42776736 AAAATATAA
1 AAAATATAA
42776745 AATATATTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
15 3 0.09
16 7 0.21
17 18 0.53
18 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:42777264 original size:18 final size:18
Alignment explanation
Indices: 42777224--42777348 Score: 182
Period size: 18 Copynumber: 6.9 Consensus size: 18
42777214 AATCATATCT
*
42777224 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
*
42777243 TCTAAGATTGCAATCGTA
1 TCTAAGATTGCAATCATA
*
42777261 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
42777278 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
42777296 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
42777314 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
42777331 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
42777349 TGAAGATTAT
Statistics
Matches: 96, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
17 31 0.32
18 49 0.51
19 16 0.17
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:42777282 original size:35 final size:36
Alignment explanation
Indices: 42777224--42777348 Score: 184
Period size: 35 Copynumber: 3.5 Consensus size: 36
42777214 AATCATATCT
*
42777224 TCTAAGATTGTATATCATATCTAAGATTGCAATCGTA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
42777261 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
*
42777296 TCTAAGATTGCA-ATCATATCTAAGATTG-TATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
42777331 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
42777349 TGAAGATTAT
Statistics
Matches: 83, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
35 52 0.63
36 21 0.25
37 10 0.12
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATA
Found at i:42777299 original size:53 final size:54
Alignment explanation
Indices: 42777224--42777348 Score: 225
Period size: 53 Copynumber: 2.3 Consensus size: 54
42777214 AATCATATCT
* *
42777224 TCTAAGATTGTATATCATATCTAAGATTGCAATCGTATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
42777278 TCTAAGATTGCA-ATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
42777331 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
42777349 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
53 52 0.76
54 16 0.24
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:42785828 original size:5 final size:5
Alignment explanation
Indices: 42785818--42785856 Score: 69
Period size: 5 Copynumber: 7.6 Consensus size: 5
42785808 CTGTGTGTTC
42785818 TTTAT TTTAT TTTATT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT TTT
42785857 CACAACTACC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:42785999 original size:5 final size:5
Alignment explanation
Indices: 42785989--42786026 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
42785979 CTGTGTGTTC
42785989 TTTAT TTTAT TTT-T TATTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT T-TTAT TTTAT TTTAT TTTAT TTT
42786027 CACAACTACC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 2 0.06
5 27 0.87
6 2 0.06
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Done.