Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 92 of 203
Found at i:29026849 original size:41 final size:41
Alignment explanation
Indices: 29026794--29026981 Score: 177
Period size: 41 Copynumber: 4.5 Consensus size: 41
29026784 ATCCTGGTGA
*
29026794 AATCAGCACTTAGCAACCACC-TTATAATCAATGATATGGGG
1 AATCAGCACATAGCAACC-CCTTTATAATCAATGATATGGGG
* * *
29026835 AATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGGTGG
1 AATCAGCACATAGCAACCCCTTT-ATAATCAATGATATGG-GG
** *
29026878 AATCAGCAGTTAGCAACCACC-TTATAATGAATGATACT-GGG
1 AATCAGCACATAGCAACC-CCTTTATAATCAATGATA-TGGGG
* *
29026919 AATCAGCACATAGCAACCCCTTTTTGATCAATGAT-TCGGGG
1 AATCAGCACATAGCAACCCCTTTATAATCAATGATAT-GGGG
* ** *
29026960 AATCTGCATTTAACAACCCCTT
1 AATCAGCACATAGCAACCCCTT
29026982 ACATTCAAGT
Statistics
Matches: 120, Mismatches: 19, Indels: 16
0.77 0.12 0.10
Matches are distributed among these distances:
39 1 0.01
40 4 0.03
41 69 0.57
42 24 0.20
43 20 0.17
44 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (41 bp):
AATCAGCACATAGCAACCCCTTTATAATCAATGATATGGGG
Found at i:29026900 original size:84 final size:85
Alignment explanation
Indices: 29026780--29026941 Score: 265
Period size: 84 Copynumber: 1.9 Consensus size: 85
29026770 CTCATGTTCA
*
29026780 AAGGATCCTGGTGAAATCAGCACTTAGCAACCACCTTATAATCAATGATA-TGGGGAATCAGCAC
1 AAGGATACTGGTGAAATCAGCACTTAGCAACCACCTTATAATCAATGATACT-GGGAATCAGCAC
29026844 ATAGCAACCCCTTTCACAATC
65 ATAGCAACCCCTTTCACAATC
* * *
29026865 AAGGATAC-GGTGGAATCAGCAGTTAGCAACCACCTTATAATGAATGATACTGGGAATCAGCACA
1 AAGGATACTGGTGAAATCAGCACTTAGCAACCACCTTATAATCAATGATACTGGGAATCAGCACA
29026929 TAGCAACCCCTTT
66 TAGCAACCCCTTT
29026942 TTGATCAATG
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
84 64 0.89
85 8 0.11
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (85 bp):
AAGGATACTGGTGAAATCAGCACTTAGCAACCACCTTATAATCAATGATACTGGGAATCAGCACA
TAGCAACCCCTTTCACAATC
Found at i:29027842 original size:16 final size:17
Alignment explanation
Indices: 29027800--29027836 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
29027790 CCAAATTACC
29027800 AAAATA-CCC-AACTTA
1 AAAATACCCCTAACTTA
29027815 AAAATACCCCTAACTTA
1 AAAATACCCCTAACTTA
29027832 AAAAT
1 AAAAT
29027837 TTCCTATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.30
16 3 0.15
17 11 0.55
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAATACCCCTAACTTA
Found at i:29029909 original size:42 final size:42
Alignment explanation
Indices: 29029829--29029909 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
29029819 CATTTTCTCT
* **
29029829 ATGTCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGTCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
29029871 ATGTCATAGCCCAGCTATGGTCTTACACAGTA-GCACATA
1 ATGTCATAGCCCAACTATGGTCTTACACA-TATGCACATA
29029910 CCACACCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGTCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:29032665 original size:41 final size:40
Alignment explanation
Indices: 29032608--29032881 Score: 244
Period size: 41 Copynumber: 6.6 Consensus size: 40
29032598 GACCCCGGTC
*
29032608 GAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGG
1 GAATCAGCACATAGCAACC-CCTTATAATCAATGATACGGG
* * * *
29032649 GAATCAACACATAGCAACCCCTTTCACAATCAAGGATACTGTG
1 GAATCAGCACATAGCAACCCC-TT-ATAATCAATGATAC-GGG
* * *
29032692 GAATTAGCACTTAGCAACCACCTTATAATCAATGATTTC-GG
1 GAATCAGCACATAGCAACC-CCTTATAATCAATGA-TACGGG
* * *
29032733 GAATCAACACATAGCAACCCCTTTCACAATCAAGGATACGGTG
1 GAATCAGCACATAGCAACCCC-TT-ATAATCAATGATACGG-G
* *
29032776 GAATCGGCACTTAGCAACCACCTTATAATCAATGATACGGG
1 GAATCAGCACATAGCAACC-CCTTATAATCAATGATACGGG
* * * * *
29032817 GAATCAGCACATAGTAACCCCTTTTTGATCAATGATTCGAG
1 GAATCAGCACATAGCAACCCC-TTATAATCAATGATACGGG
** * *
29032858 GAATTTGCACTTAGTAACCCCTTA
1 GAATCAGCACATAGCAACCCCTTA
29032882 CATTCAAATA
Statistics
Matches: 188, Mismatches: 34, Indels: 23
0.77 0.14 0.09
Matches are distributed among these distances:
40 8 0.04
41 90 0.48
42 45 0.24
43 41 0.22
44 4 0.02
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (40 bp):
GAATCAGCACATAGCAACCCCTTATAATCAATGATACGGG
Found at i:29032720 original size:84 final size:84
Alignment explanation
Indices: 29032603--29032840 Score: 397
Period size: 84 Copynumber: 2.8 Consensus size: 84
29032593 CAAAGGACCC
*
29032603 CGGTCGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
29032668 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
* * *
29032687 CTGTGGAATTAGCACTTAGCAACCACCTTATAATCAATGATTTC-GGGAATCAACACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGA-TACGGGGAATCAACACATAGCAAC
29032751 CCCTTTCACAATCAAGGATA
65 CCCTTTCACAATCAAGGATA
* * *
29032771 CGGTGGAATCGGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGTAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
29032836 CCTTT
66 CCTTT
29032841 TTGATCAATG
Statistics
Matches: 142, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
83 2 0.01
84 138 0.97
85 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:29032880 original size:125 final size:126
Alignment explanation
Indices: 29032608--29032861 Score: 279
Period size: 125 Copynumber: 2.0 Consensus size: 126
29032598 GACCCCGGTC
* * * *
29032608 GAATCAGCACTTAGCAACCACC-TT-ATAATCAATGATACGGGGAATCAACACATAGCAACCCCT
1 GAATCAACACATAGCAACC-CCTTTCACAATCAAGGATACGGGGAATCAACACATAGCAACCCCT
* * *
29032671 TTCACAATCAAGGATACTGTGGAATTAGCACTTAGCAACCACCTTATAATCAATGATTTCGG
65 TTCACAATCAAGGATACTGGGGAATCAGCACATAGCAACCACCTTATAATCAATGATTTCGG
** *
29032733 GAATCAACACATAGCAACCCCTTTCACAATCAAGGATACGGTGGAATCGGCACTTAGCAACCACC
1 GAATCAACACATAGCAACCCCTTTCACAATCAAGGATACGG-GGAATCAACACATAGCAACC-CC
* * * * *
29032798 -TT-ATAATCAATGATAC-GGGGAATCAGCACATAGTAACC-CCTTTTTGATCAATGA-TTCGAG
64 TTTCACAATCAAGGATACTGGGGAATCAGCACATAGCAACCACC-TTATAATCAATGATTTCG-G
29032858 GAAT
1 GAAT
29032862 TTGCACTTAG
Statistics
Matches: 108, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
124 8 0.07
125 53 0.49
126 26 0.24
127 19 0.18
128 2 0.02
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (126 bp):
GAATCAACACATAGCAACCCCTTTCACAATCAAGGATACGGGGAATCAACACATAGCAACCCCTT
TCACAATCAAGGATACTGGGGAATCAGCACATAGCAACCACCTTATAATCAATGATTTCGG
Found at i:29035577 original size:53 final size:52
Alignment explanation
Indices: 29035487--29035749 Score: 301
Period size: 53 Copynumber: 4.9 Consensus size: 52
29035477 AAAACTAAAT
* * * * *
29035487 TTCCTCATATGATTCCATAACCCACCAATTATGGTTTTACATGATATGGGCTTC
1 TTCC-CATATGATGCCATAACCCACCAGTTA-CGTCTTACATGATATGGTCTTC
* * *
29035541 TTCCCATATGATGCCATAACCCACCAGTTATAGTTTTACATGATATGGTTTTC
1 TTCCCATATGATGCCATAACCCACCAGTTA-CGTCTTACATGATATGGTCTTC
* * * * *
29035594 TTCTCATATGATGTCATGACCCACCAGTTACGATCTTACACGATATGGTATTC
1 TTCCCATATGATGCCATAACCCACCAGTTACG-TCTTACATGATATGGTCTTC
* * *
29035647 TTTCCATATGATGCCATAACCGACTAGTTACGGTCTTACATGATATGGTCTTC
1 TTCCCATATGATGCCATAACCCACCAGTTAC-GTCTTACATGATATGGTCTTC
* * *
29035700 TTCCCTTATGATGTCATAACTCACCAGTTACGATCTTACATGATATGGTC
1 TTCCCATATGATGCCATAACCCACCAGTTACG-TCTTACATGATATGGTC
29035750 CTTAAATGTC
Statistics
Matches: 180, Mismatches: 26, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
52 2 0.01
53 173 0.96
54 5 0.03
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (52 bp):
TTCCCATATGATGCCATAACCCACCAGTTACGTCTTACATGATATGGTCTTC
Found at i:29035676 original size:106 final size:106
Alignment explanation
Indices: 29035490--29035748 Score: 340
Period size: 106 Copynumber: 2.4 Consensus size: 106
29035480 ACTAAATTTC
* * * * **
29035490 CTCATATGAT-TCCATAACCCACCAATTATGGTTTTACATGATATGGGCTTCTTCCCATATGATG
1 CTCATATGATGT-CATAACCCACCAGTTACGATCTTACATGATATGGTATTCTTCCCATATGATG
* * *
29035554 CCATAACCCACCAGTTATAGTTTTACATGATATGGTTTTCTT
65 CCATAACCCACCAGTTACAGTCTTACATGATATGGTCTTCTT
* * *
29035596 CTCATATGATGTCATGACCCACCAGTTACGATCTTACACGATATGGTATTCTTTCCATATGATGC
1 CTCATATGATGTCATAACCCACCAGTTACGATCTTACATGATATGGTATTCTTCCCATATGATGC
* * *
29035661 CATAACCGACTAGTTACGGTCTTACATGATATGGTCTTCTT
66 CATAACCCACCAGTTACAGTCTTACATGATATGGTCTTCTT
* * *
29035702 CCCTTATGATGTCATAACTCACCAGTTACGATCTTACATGATATGGT
1 CTCATATGATGTCATAACCCACCAGTTACGATCTTACATGATATGGT
29035749 CCTTAAATGT
Statistics
Matches: 132, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
106 131 0.99
107 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (106 bp):
CTCATATGATGTCATAACCCACCAGTTACGATCTTACATGATATGGTATTCTTCCCATATGATGC
CATAACCCACCAGTTACAGTCTTACATGATATGGTCTTCTT
Found at i:29038111 original size:15 final size:15
Alignment explanation
Indices: 29038091--29038140 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
29038081 CCGCTTCCTC
29038091 CATTCAATTGTTTAT
1 CATTCAATTGTTTAT
*
29038106 CATTC-A--GTTTCCT
1 CATTCAATTGTTT-AT
29038119 CCATTCAATTGTTTAT
1 -CATTCAATTGTTTAT
29038135 CATTCA
1 CATTCA
29038141 TTATTTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
12 4 0.14
13 1 0.04
14 6 0.21
15 12 0.43
16 1 0.04
17 4 0.14
ACGTcount: A:0.24, C:0.22, G:0.06, T:0.48
Consensus pattern (15 bp):
CATTCAATTGTTTAT
Found at i:29038127 original size:29 final size:29
Alignment explanation
Indices: 29038085--29038140 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
29038075 CTTCTTCCGC
29038085 TTCCTCCATTCAATTGTTTATCATTCAGT
1 TTCCTCCATTCAATTGTTTATCATTCAGT
29038114 TTCCTCCATTCAATTGTTTATCATTCA
1 TTCCTCCATTCAATTGTTTATCATTCA
29038141 TTATTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.25, G:0.05, T:0.48
Consensus pattern (29 bp):
TTCCTCCATTCAATTGTTTATCATTCAGT
Found at i:29045636 original size:33 final size:33
Alignment explanation
Indices: 29045599--29045875 Score: 137
Period size: 33 Copynumber: 8.3 Consensus size: 33
29045589 TGGCCCTGTC
* *
29045599 ATGGTCTTACGTTCATAGTGCCATAACCCAGTT
1 ATGGTCTTACGTTCATAATGCCATAACCCAGCT
** * * *
29045632 ATGGTCTTACCATCAGAATGTCATAGCCCAGCT
1 ATGGTCTTACGTTCATAATGCCATAACCCAGCT
** *** * *
29045665 ATGGTCTTATATAT-ATACACTGCCATGGTCCAACC
1 ATGGTCTTACGT-TCATA-A-TGCCATAACCCAGCT
* * * *
29045700 ATGGTCTTACGTTTATAGTGCCATAACCCGGTT
1 ATGGTCTTACGTTCATAATGCCATAACCCAGCT
* * *
29045733 ATGGTCTTAC-TATCAGAATGTCATAGCCCAGCT
1 ATGGTCTTACGT-TCATAATGCCATAACCCAGCT
** * ** * *
29045766 ATGGTCTTATATAT-ATACACTGCCATGATGCAACC
1 ATGGTCTTACGT-TCATA-A-TGCCATAACCCAGCT
* * ** *
29045801 ATGGTCTTATGTTCATAGTGCCATAACCTGGTT
1 ATGGTCTTACGTTCATAATGCCATAACCCAGCT
** * *
29045834 ATGGTCTTACCATCAGAATGCCATAGCCCAGCT
1 ATGGTCTTACGTTCATAATGCCATAACCCAGCT
29045867 ATGGTCTTA
1 ATGGTCTTA
29045876 TATAAATGAA
Statistics
Matches: 174, Mismatches: 61, Indels: 18
0.69 0.24 0.07
Matches are distributed among these distances:
32 1 0.01
33 120 0.69
34 8 0.05
35 45 0.26
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACGTTCATAATGCCATAACCCAGCT
Found at i:29045759 original size:101 final size:101
Alignment explanation
Indices: 29045598--29045879 Score: 492
Period size: 101 Copynumber: 2.8 Consensus size: 101
29045588 ATGGCCCTGT
*
29045598 CATGGTCTTACGTTCATAGTGCCATAACCCAGTTATGGTCTTACCATCAGAATGTCATAGCCCAG
1 CATGGTCTTACGTTCATAGTGCCATAACCCGGTTATGGTCTTACCATCAGAATGTCATAGCCCAG
*
29045663 CTATGGTCTTATATATATACACTGCCATGGTCCAAC
66 CTATGGTCTTATATATATACACTGCCATGATCCAAC
* *
29045699 CATGGTCTTACGTTTATAGTGCCATAACCCGGTTATGGTCTTACTATCAGAATGTCATAGCCCAG
1 CATGGTCTTACGTTCATAGTGCCATAACCCGGTTATGGTCTTACCATCAGAATGTCATAGCCCAG
*
29045764 CTATGGTCTTATATATATACACTGCCATGATGCAAC
66 CTATGGTCTTATATATATACACTGCCATGATCCAAC
* * *
29045800 CATGGTCTTATGTTCATAGTGCCATAACCTGGTTATGGTCTTACCATCAGAATGCCATAGCCCAG
1 CATGGTCTTACGTTCATAGTGCCATAACCCGGTTATGGTCTTACCATCAGAATGTCATAGCCCAG
29045865 CTATGGTCTTATATA
66 CTATGGTCTTATATA
29045880 AATGAAAACA
Statistics
Matches: 171, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 171 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (101 bp):
CATGGTCTTACGTTCATAGTGCCATAACCCGGTTATGGTCTTACCATCAGAATGTCATAGCCCAG
CTATGGTCTTATATATATACACTGCCATGATCCAAC
Found at i:29047417 original size:13 final size:13
Alignment explanation
Indices: 29047401--29047425 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29047391 CCCTTTATGT
29047401 TTCTCCTTAAATG
1 TTCTCCTTAAATG
29047414 TTCTCCTTAAAT
1 TTCTCCTTAAAT
29047426 AACAAATGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.04, T:0.48
Consensus pattern (13 bp):
TTCTCCTTAAATG
Found at i:29048820 original size:21 final size:21
Alignment explanation
Indices: 29048779--29048821 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
29048769 TATGGTCAAG
*
29048779 TATCGATACTAAATGCTAAAA
1 TATCGATACTAAATGCCAAAA
*
29048800 TATCGATACCT-AATTCCAAAA
1 TATCGATA-CTAAATGCCAAAA
29048821 T
1 T
29048822 GGAAAAACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (21 bp):
TATCGATACTAAATGCCAAAA
Found at i:29049606 original size:45 final size:44
Alignment explanation
Indices: 29049535--29049664 Score: 129
Period size: 45 Copynumber: 2.9 Consensus size: 44
29049525 TAATTCATCG
* * * * *
29049535 TTCCAAAG-AATGTCATGGCATTTTTCAACCATGGTCTTATGCAT
1 TTCCAAAGTAGTGTCATAGTATCTTTCAACTATGGTCTTAT-CAT
29049579 TTCCAAAGTAGTGTCATAGTATCTTTCAACTATGGTCTTGATCAT
1 TTCCAAAGTAGTGTCATAGTATCTTTCAACTATGGTCTT-ATCAT
* * * * *
29049624 TACCGATGT-GATGCCATAATATCTTTCAACTATGGTCTTAT
1 TTCCAAAGTAG-TGTCATAGTATCTTTCAACTATGGTCTTAT
29049665 TTGTATCAGA
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
44 11 0.15
45 60 0.82
46 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (44 bp):
TTCCAAAGTAGTGTCATAGTATCTTTCAACTATGGTCTTATCAT
Found at i:29049687 original size:45 final size:44
Alignment explanation
Indices: 29049557--29049709 Score: 141
Period size: 45 Copynumber: 3.4 Consensus size: 44
29049547 TCATGGCATT
* * * * *
29049557 TTTCAACCATGGTCTTATGCATTTCCA-AAGTAGTGTCATAGTATC
1 TTTCAACTATGGTCTTAT-CA-TTACAGATGTAATGTCATAATATC
* * *
29049602 TTTCAACTATGGTCTTGATCATTACCGATGTGATGCCATAATATC
1 TTTCAACTATGGTCTT-ATCATTACAGATGTAATGTCATAATATC
*
29049647 TTTCAACTATGGTCTTAT-TTGTATCAGAT-TCAATGTCATAATATC
1 TTTCAACTATGGTCTTATCAT-TA-CAGATGT-AATGTCATAATATC
*
29049692 TTTCAACTATAGTCTTAT
1 TTTCAACTATGGTCTTAT
29049710 ATAGTTTTTA
Statistics
Matches: 90, Mismatches: 13, Indels: 10
0.80 0.12 0.09
Matches are distributed among these distances:
43 1 0.01
44 8 0.09
45 79 0.88
46 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.41
Consensus pattern (44 bp):
TTTCAACTATGGTCTTATCATTACAGATGTAATGTCATAATATC
Found at i:29056944 original size:22 final size:22
Alignment explanation
Indices: 29056917--29056958 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
29056907 TTCTTTCTCC
29056917 TTCCTTCATTATTCTTTTTGTT
1 TTCCTTCATTATTCTTTTTGTT
** *
29056939 TTCCTTTGTTTTTCTTTTTG
1 TTCCTTCATTATTCTTTTTG
29056959 GTTGGAGTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.05, C:0.17, G:0.07, T:0.71
Consensus pattern (22 bp):
TTCCTTCATTATTCTTTTTGTT
Found at i:29057611 original size:22 final size:22
Alignment explanation
Indices: 29057581--29057638 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 22
29057571 TGTAACTCAC
29057581 TCACACGGGCGTGTGCATCTTAT
1 TCACACGGGCGTGTGCATCTT-T
*
29057604 T-ACACGGGCGTGTGCCTCTTT
1 TCACACGGGCGTGTGCATCTTT
29057625 TCACACGGGCGTGT
1 TCACACGGGCGTGT
29057639 AGACCTCCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 2 0.06
22 30 0.91
23 1 0.03
ACGTcount: A:0.14, C:0.28, G:0.29, T:0.29
Consensus pattern (22 bp):
TCACACGGGCGTGTGCATCTTT
Found at i:29061357 original size:6 final size:6
Alignment explanation
Indices: 29061348--29061382 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
29061338 GTCTAAGAAA
29061348 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAA
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAA
29061383 ATGAAAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
ATAAAT
Found at i:29061535 original size:31 final size:31
Alignment explanation
Indices: 29061492--29061589 Score: 81
Period size: 31 Copynumber: 3.4 Consensus size: 31
29061482 TAAATTAAAT
29061492 TAAAATTAAAATATAAGCATAAGAATAAAAAA
1 TAAAA-TAAAATATAAGCATAAGAATAAAAAA
*
29061524 TAAAAT-AAA-AT-AG-ATTAG--T--AAAA
1 TAAAATAAAATATAAGCATAAGAATAAAAAA
*
29061547 TAAAATAAATAATATAA-CA-AATAATAAAAAA
1 TAAAAT-AA-AATATAAGCATAAGAATAAAAAA
29061578 TAAAATAAAATA
1 TAAAATAAAATA
29061590 AAGGAAATGA
Statistics
Matches: 53, Mismatches: 3, Indels: 23
0.67 0.04 0.29
Matches are distributed among these distances:
23 10 0.19
25 2 0.04
26 2 0.04
27 7 0.13
28 4 0.08
29 7 0.13
30 5 0.09
31 11 0.21
32 5 0.09
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.23
Consensus pattern (31 bp):
TAAAATAAAATATAAGCATAAGAATAAAAAA
Found at i:29061601 original size:5 final size:5
Alignment explanation
Indices: 29061479--29061591 Score: 59
Period size: 5 Copynumber: 20.4 Consensus size: 5
29061469 TAAATAGCAT
* *
29061479 AAATA AATTA AATTA AAATTA AAATA TAAGCATA AGAATAAA AAATA AAATA
1 AAATA AAATA AAATA AAA-TA AAATA -AA--ATA A-AAT--A AAATA AAATA
* *
29061531 AAATA GATTAGTA AAATA AAAT- AAATA ATATAA CAAATA ATAA-A AAATA
1 AAATA -A--AATA AAATA AAATA AAATA AAAT-A -AAATA A-AATA AAATA
29061580 AAATA AAATA AA
1 AAATA AAATA AA
29061592 GGAAATGAAA
Statistics
Matches: 87, Mismatches: 6, Indels: 30
0.71 0.05 0.24
Matches are distributed among these distances:
4 6 0.07
5 50 0.57
6 14 0.16
7 8 0.09
8 9 0.10
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (5 bp):
AAATA
Found at i:29061970 original size:51 final size:51
Alignment explanation
Indices: 29061892--29062000 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 51
29061882 TGAGTCTAGG
* * *
29061892 CCGTGTGTGATTTCCTTCGCTTTTCCCACGTTCGTGTG-GAATCCCACACGC
1 CCGTGTGTGATTTCCTTCGCTTCTCCCACGTACATGTGAG-ATCCCACACGC
* *
29061943 CCGTGTGTGATTTCCTTTGCTTCTCCCACGTACATGTGAGATCCTACACGC
1 CCGTGTGTGATTTCCTTCGCTTCTCCCACGTACATGTGAGATCCCACACGC
*
29061994 CCATGTG
1 CCGTGTG
29062001 GCTCGATCGT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
51 50 0.98
52 1 0.02
ACGTcount: A:0.14, C:0.32, G:0.21, T:0.33
Consensus pattern (51 bp):
CCGTGTGTGATTTCCTTCGCTTCTCCCACGTACATGTGAGATCCCACACGC
Found at i:29072671 original size:12 final size:12
Alignment explanation
Indices: 29072654--29072683 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
29072644 CCTCACGCGC
29072654 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
29072666 CCGTGTGCTAGG
1 CCGTGTGCCAGG
29072678 CCGTGT
1 CCGTGT
29072684 AACAACCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:29073777 original size:30 final size:30
Alignment explanation
Indices: 29073743--29073813 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
29073733 TCGACAGTCA
* * *
29073743 AAGCTATCCCTTACCATAATTTGATAGCTG
1 AAGCTATCCCTTACCATAAATCGATAGCCG
* **
29073773 AAGCTATCCTTTTTCATAAATCGATAGCCG
1 AAGCTATCCCTTACCATAAATCGATAGCCG
*
29073803 AAGCCATCCCT
1 AAGCTATCCCT
29073814 CTTCAAAGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.31
Consensus pattern (30 bp):
AAGCTATCCCTTACCATAAATCGATAGCCG
Found at i:29081903 original size:15 final size:15
Alignment explanation
Indices: 29081883--29081959 Score: 59
Period size: 15 Copynumber: 5.1 Consensus size: 15
29081873 TTATGGAAAG
*
29081883 TCAAATATATGGTTA
1 TCAAATATATGGATA
*
29081898 TCAAATA-ATGGAAA
1 TCAAATATATGGATA
* *
29081912 GTCAAAGATATGGGTA
1 -TCAAATATATGGATA
*
29081928 TCAAATAT-TGGAAAA
1 TCAAATATATGG-ATA
* *
29081943 TCAAAGATATGGGTA
1 TCAAATATATGGATA
29081958 TC
1 TC
29081960 GAGATATTGG
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (15 bp):
TCAAATATATGGATA
Found at i:29081911 original size:30 final size:30
Alignment explanation
Indices: 29081875--29081959 Score: 134
Period size: 30 Copynumber: 2.8 Consensus size: 30
29081865 ATCTGTATTT
* *
29081875 ATGGAAAGTCAAATATATGGTTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
29081905 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
29081935 TTGGAAAATCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
29081960 GAGATATTGG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.27
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:29086299 original size:15 final size:15
Alignment explanation
Indices: 29086279--29086350 Score: 58
Period size: 15 Copynumber: 4.8 Consensus size: 15
29086269 TTATGGAAAG
*
29086279 TCAAATATATGGTTA
1 TCAAATATATGGATA
*
29086294 TCAAATA-ATGGAAA
1 TCAAATATATGGATA
* *
29086308 GTCAAAGATATGGGTA
1 -TCAAATATATGGATA
*
29086324 TCAAATAT-TGGAAAA
1 TCAAATATATGG-ATA
*
29086339 TCAAAGATATGG
1 TCAAATATATGG
29086351 GTATTGAGAT
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
14 8 0.18
15 28 0.64
16 8 0.18
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (15 bp):
TCAAATATATGGATA
Found at i:29086307 original size:30 final size:30
Alignment explanation
Indices: 29086271--29086354 Score: 132
Period size: 30 Copynumber: 2.8 Consensus size: 30
29086261 ATCCGTATTT
* *
29086271 ATGGAAAGTCAAATATATGGTTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
29086301 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
29086331 TTGGAAAATCAAAGATATGGGTAT
1 ATGGAAAGTCAAAGATATGGGTAT
29086355 TGAGATATTG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.27
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:29092659 original size:35 final size:35
Alignment explanation
Indices: 29092577--29092645 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
29092567 GCGCTGGCCG
* * *
29092577 GTAATATCGACAATAAATATGTCTAGCACTAGTCA
1 GTAAAATCGACAATAAACATGTCCAGCACTAGTCA
*
29092612 GTAAAATCGACAATAAACGTGTCCAGCACTAGTC
1 GTAAAATCGACAATAAACATGTCCAGCACTAGTC
29092646 GGTATAACTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (35 bp):
GTAAAATCGACAATAAACATGTCCAGCACTAGTCA
Found at i:29095374 original size:16 final size:16
Alignment explanation
Indices: 29095353--29095383 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29095343 TTTTTTATTA
*
29095353 TTTTAATATTAAATAT
1 TTTTAAAATTAAATAT
29095369 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
29095384 ACATTAATAT
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:29106353 original size:21 final size:21
Alignment explanation
Indices: 29106329--29106368 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
29106319 AAGAAAAAAC
29106329 AAAA-AGCAACAGAAAAAGAGA
1 AAAATAGC-ACAGAAAAAGAGA
*
29106350 AAAATAGCAGAGAAAAAGA
1 AAAATAGCACAGAAAAAGA
29106369 TATTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.70, C:0.07, G:0.20, T:0.03
Consensus pattern (21 bp):
AAAATAGCACAGAAAAAGAGA
Found at i:29110971 original size:21 final size:22
Alignment explanation
Indices: 29110945--29110985 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
29110935 ATAAAACTCA
29110945 AAAAAAAGTT-TAAAT-TATTTC
1 AAAAAAA-TTATAAATATATTTC
29110966 AAAAAAATTATAAATATATT
1 AAAAAAATTATAAATATATT
29110986 CAACTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 12 0.67
22 4 0.22
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
AAAAAAATTATAAATATATTTC
Found at i:29116350 original size:18 final size:18
Alignment explanation
Indices: 29116318--29116352 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29116308 TTGTTTATGG
**
29116318 CTCCAAAAGTGCTTTTGT
1 CTCCAAAAGAACTTTTGT
29116336 CTCCAAAAGAACTTTTG
1 CTCCAAAAGAACTTTTG
29116353 AAACGCAATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (18 bp):
CTCCAAAAGAACTTTTGT
Found at i:29121297 original size:11 final size:11
Alignment explanation
Indices: 29121277--29121308 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
29121267 TGAAATTTCA
29121277 CATCATCCTCG
1 CATCATCCTCG
*
29121288 CATTATCCTCG
1 CATCATCCTCG
29121299 CATCATCCTC
1 CATCATCCTC
29121309 ATTAACTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.44, G:0.06, T:0.31
Consensus pattern (11 bp):
CATCATCCTCG
Found at i:29126377 original size:33 final size:33
Alignment explanation
Indices: 29126335--29126419 Score: 98
Period size: 33 Copynumber: 2.5 Consensus size: 33
29126325 TGCTCTATGT
* *
29126335 TTGGCGTGTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCGTATGAGCA
** * *
29126368 TTGGTGTGTTGGAGGGATTGGCTCGTGTGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCGTATGAGCA
29126401 TCTGGTGTGTTTGGTTGGA
1 T-TGGTGTG-TTGGTTGGA
29126420 ATGATGATGT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 28 0.67
34 7 0.17
35 7 0.17
ACGTcount: A:0.12, C:0.09, G:0.40, T:0.39
Consensus pattern (33 bp):
TTGGTGTGTTGGTTGGATTAGCTCGTATGAGCA
Found at i:29129927 original size:20 final size:22
Alignment explanation
Indices: 29129890--29129929 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
29129880 TAGAAGGTTT
*
29129890 TTAAAAATATTTTAAAGTTTCG
1 TTAAAAATATCTTAAAGTTTCG
29129912 TTAAAAAT-TCTT-AAGTTT
1 TTAAAAATATCTTAAAGTTT
29129930 TAATGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 3 0.18
22 8 0.47
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (22 bp):
TTAAAAATATCTTAAAGTTTCG
Found at i:29131041 original size:39 final size:39
Alignment explanation
Indices: 29130998--29131096 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
29130988 AACATGTTTT
* * **
29130998 TGAGTATTGCAATATATGCTTGAACGTTATGTGATTATA
1 TGAGTATTGCGATATATGCTTGAACATTATGCAATTATA
* * *
29131037 TGAGTATTGCGGTTTGTGCTTGAACATTATGCAATTATA
1 TGAGTATTGCGATATATGCTTGAACATTATGCAATTATA
* * *
29131076 TGTGTAATGTGATATATGCTT
1 TGAGTATTGCGATATATGCTT
29131097 AAAAGTGAAT
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.42
Consensus pattern (39 bp):
TGAGTATTGCGATATATGCTTGAACATTATGCAATTATA
Found at i:29145869 original size:28 final size:28
Alignment explanation
Indices: 29145806--29146043 Score: 372
Period size: 28 Copynumber: 8.5 Consensus size: 28
29145796 ATATTAAGTC
*
29145806 CGCACACTCAGTGCTA-AGTAATC-AACT
1 CGCACACTTAGTGCTATA-TAATCAAACT
29145833 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
29145861 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
29145889 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
29145917 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
29145945 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
29145973 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
29146001 CGCACACTTAGTGCTGTGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
29146030 CGCACACTTAGTGC
1 CGCACACTTAGTGC
29146044 CAATCTCATG
Statistics
Matches: 200, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
27 20 0.10
28 161 0.81
29 19 0.09
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:29148186 original size:36 final size:36
Alignment explanation
Indices: 29148130--29148257 Score: 107
Period size: 36 Copynumber: 3.5 Consensus size: 36
29148120 ACATTGATAT
* * *
29148130 TCCAACCAAAACACATCAGATGCTTATACGAGCTAA
1 TCCAACCGAAACACACCAGATGCTTATAAGAGCTAA
* * * *
29148166 TCCATCCGAAACACACCAGATGCTCATATGAGAC-AG
1 TCCAACCGAAACACACCAGATGCTTATAAGAG-CTAA
* **
29148202 TCCACCCGATAACACACCA-ATGGCTTCGAAGAGCTAA
1 TCCAACCGA-AACACACCAGAT-GCTTATAAGAGCTAA
*
29148239 TCTAACCGAAGACACACCA
1 TCCAACCGAA-ACACACCA
29148258 AAGCAAGAAG
Statistics
Matches: 73, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
36 40 0.55
37 33 0.45
ACGTcount: A:0.38, C:0.31, G:0.14, T:0.16
Consensus pattern (36 bp):
TCCAACCGAAACACACCAGATGCTTATAAGAGCTAA
Found at i:29151782 original size:28 final size:28
Alignment explanation
Indices: 29151750--29151826 Score: 127
Period size: 28 Copynumber: 2.8 Consensus size: 28
29151740 AGTACAATGA
*
29151750 GGGCCTTAGCCCAATTCAGTAGCAGTGT
1 GGGCCTTAGCCCAATACAGTAGCAGTGT
* *
29151778 GGGCCTTAGCCCAATACAATATCAGTGT
1 GGGCCTTAGCCCAATACAGTAGCAGTGT
29151806 GGGCCTTAGCCCAATACAGTA
1 GGGCCTTAGCCCAATACAGTA
29151827 ACATTACATT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (28 bp):
GGGCCTTAGCCCAATACAGTAGCAGTGT
Found at i:29152228 original size:27 final size:27
Alignment explanation
Indices: 29152197--29152500 Score: 344
Period size: 27 Copynumber: 11.3 Consensus size: 27
29152187 GGGTATAAAA
29152197 ATCATTTTACCCTAT-GGGGGTATTTCG
1 ATCATTTTACCCT-TCGGGGGTATTTCG
* *
29152224 GTCATTTTACCCTTC-GGGGTATTT-T
1 ATCATTTTACCCTTCGGGGGTATTTCG
* *
29152249 AGTTATTTTACCCTTCAGGGGTATTTCG
1 A-TCATTTTACCCTTCGGGGGTATTTCG
* * *
29152277 GTCATTTTACCCTTCGAGGGTATTTTG
1 ATCATTTTACCCTTCGGGGGTATTTCG
* *
29152304 ATCATTTTATCCTTCGAGGGTATTTCG
1 ATCATTTTACCCTTCGGGGGTATTTCG
* *
29152331 ATCATTTTACCCTTTGGAGGTATTTCG
1 ATCATTTTACCCTTCGGGGGTATTTCG
* * *
29152358 GTCATTTTACCCTTTGAGGGTATTTCG
1 ATCATTTTACCCTTCGGGGGTATTTCG
* *
29152385 ATCATTTTACCCTTCGAGGGTATTTTG
1 ATCATTTTACCCTTCGGGGGTATTTCG
* ** *
29152412 GTCATTTTACCCTTCAAGGATATTTCG
1 ATCATTTTACCCTTCGGGGGTATTTCG
* *
29152439 ATCATTTTACCCTTCAGGGGTATTTTG
1 ATCATTTTACCCTTCGGGGGTATTTCG
* * *
29152466 TTCATTTTGCGCTTCGGGGGTATTTCG
1 ATCATTTTACCCTTCGGGGGTATTTCG
29152493 ATCATTTT
1 ATCATTTT
29152501 TTCCATAAAT
Statistics
Matches: 236, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
26 23 0.10
27 213 0.90
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (27 bp):
ATCATTTTACCCTTCGGGGGTATTTCG
Found at i:29155706 original size:195 final size:195
Alignment explanation
Indices: 29155374--29155764 Score: 764
Period size: 195 Copynumber: 2.0 Consensus size: 195
29155364 TATTATATAT
29155374 ATAACACAAAAATCCATTAATATATATTATATATAAAATAAAGCCCATGTATATATTTTATAGGT
1 ATAACACAAAAATCCATTAATATATATTATATATAAAATAAAGCCCATGTATATATTTTATAGGT
*
29155439 TTATGCATTTTGCACTTTTAAAATCGCATAGTGTATATACTCAACGATTCAACCAAAATTGTAAG
66 TTATGCATTTTGCACTATTAAAATCGCATAGTGTATATACTCAACGATTCAACCAAAATTGTAAG
*
29155504 GATTTGCACAAGGAAGAGCTCGCAAGACACACTTCGACTTTTTAGATTTCGCAATTCATGCTAAA
131 GATTTGCACAAGGAAGAGCTCGCAAGACACACTTCGACTCTTTAGATTTCGCAATTCATGCTAAA
29155569 ATAACACAAAAATCCATTAATATATATTATATATAAAATAAAGCCCATGTATATATTTTATAGGT
1 ATAACACAAAAATCCATTAATATATATTATATATAAAATAAAGCCCATGTATATATTTTATAGGT
29155634 TTATGCATTTTGCACTATTAAAATCGCATAGTGTATATACTCAACGATTCAACCAAAATTGTAAG
66 TTATGCATTTTGCACTATTAAAATCGCATAGTGTATATACTCAACGATTCAACCAAAATTGTAAG
29155699 GATTTGCACAAGGAAGAGCTCGCAAGACACACTTCGACTCTTTAGATTTCGCAATTCATGCTAAA
131 GATTTGCACAAGGAAGAGCTCGCAAGACACACTTCGACTCTTTAGATTTCGCAATTCATGCTAAA
29155764 A
1 A
29155765 CATGGCATAC
Statistics
Matches: 194, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
195 194 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (195 bp):
ATAACACAAAAATCCATTAATATATATTATATATAAAATAAAGCCCATGTATATATTTTATAGGT
TTATGCATTTTGCACTATTAAAATCGCATAGTGTATATACTCAACGATTCAACCAAAATTGTAAG
GATTTGCACAAGGAAGAGCTCGCAAGACACACTTCGACTCTTTAGATTTCGCAATTCATGCTAAA
Found at i:29156894 original size:26 final size:25
Alignment explanation
Indices: 29156835--29156894 Score: 59
Period size: 27 Copynumber: 2.3 Consensus size: 25
29156825 ATACCATAAT
*
29156835 TATTTAATTTAATTATTATTTTTAC
1 TATTTAATCTAATTATTATTTTTAC
*
29156860 TATTATTAA-CTAATTATTTATTTTATCC
1 TA-T-TTAATCTAATTA-TTATTTT-TAC
29156888 TATTTAA
1 TATTTAA
29156895 ATTCCTATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
25 2 0.07
26 11 0.38
27 12 0.41
28 4 0.14
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (25 bp):
TATTTAATCTAATTATTATTTTTAC
Found at i:29157225 original size:13 final size:13
Alignment explanation
Indices: 29157207--29157232 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29157197 AATCCGAGTC
29157207 AAAAAAATATTTT
1 AAAAAAATATTTT
29157220 AAAAAAATATTTT
1 AAAAAAATATTTT
29157233 CTGTGTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAAAAATATTTT
Found at i:29162248 original size:5 final size:5
Alignment explanation
Indices: 29162238--29162262 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
29162228 GATATATTTA
29162238 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
29162263 TAATACTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:29164248 original size:33 final size:33
Alignment explanation
Indices: 29164206--29164351 Score: 105
Period size: 33 Copynumber: 4.4 Consensus size: 33
29164196 TGTATATATA
*
29164206 TAAGACCATAGCTGGGCTATGACATTCTAATGT
1 TAAGACCATAGCTGGGCTATGGCATTCTAATGT
* * * * * ***
29164239 TAAGACCATAACCGGGTTATGGCACTATAAACA
1 TAAGACCATAGCTGGGCTATGGCATTCTAATGT
* * * * *
29164272 TAAGACCAT-GATTGGACTATGGCAGTGTATATAT
1 TAAGACCATAG-CTGGGCTATGGCATTCTA-ATGT
* * *
29164306 ATAAGACCATAGCTTGTCTATGGCATTCTAATGG
1 -TAAGACCATAGCTGGGCTATGGCATTCTAATGT
29164340 TAAGACCATAGC
1 TAAGACCATAGC
29164352 CGAGTTATGG
Statistics
Matches: 83, Mismatches: 26, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
33 57 0.69
34 3 0.04
35 22 0.27
36 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCTATGGCATTCTAATGT
Found at i:29164316 original size:101 final size:99
Alignment explanation
Indices: 29164135--29164472 Score: 370
Period size: 101 Copynumber: 3.5 Consensus size: 99
29164125 ATAACGTAGT
* * * * * * * *
29164135 TGGTATGACCAAAACAGGGTTGTGACATTATGAACATAAGACCATGGTTGGACCATGGTAATGTA
1 TGGTAAGACCATAACCGGGTTATGGCACTATGAACATAAGACCAT-GTTGGA-CATGGCAGTGTA
* *
29164200 TATATATAAGACCATAGCTGGGCTATGACATTCTAA
64 TATATATAAGACCATAGCTAGGCTATGGCATTCTAA
* *
29164236 TGTTAAGACCATAACCGGGTTATGGCACTATAAACATAAGACCATGATTGGACTATGGCAGTGTA
1 TGGTAAGACCATAACCGGGTTATGGCACTATGAACATAAGACCATG-TTGGAC-ATGGCAGTGTA
* *
29164301 TATATATAAGACCATAGCTTGTCTATGGCATTCTAA
64 TATATATAAGACCATAGCTAGGCTATGGCATTCTAA
* * *
29164337 TGGTAAGACCATAGCCGAGTTATGGCACTATGAACGTAAGA-C--------CATGGCAGTGTATA
1 TGGTAAGACCATAACCGGGTTATGGCACTATGAACATAAGACCATGTTGGACATGGCAGTGTATA
**
29164393 TATATAAGACCATAGCTAGGCTATGGCATTCTGG
66 TATATAAGACCATAGCTAGGCTATGGCATTCTAA
* * * *
29164427 TGGTAAGACCATAATCAGGTTATGACACTATGAACGTAAGACCATG
1 TGGTAAGACCATAACCGGGTTATGGCACTATGAACATAAGACCATG
29164473 GCAGGGCCAT
Statistics
Matches: 204, Mismatches: 27, Indels: 19
0.82 0.11 0.08
Matches are distributed among these distances:
90 79 0.39
91 2 0.01
100 3 0.01
101 120 0.59
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (99 bp):
TGGTAAGACCATAACCGGGTTATGGCACTATGAACATAAGACCATGTTGGACATGGCAGTGTATA
TATATAAGACCATAGCTAGGCTATGGCATTCTAA
Found at i:29164449 original size:90 final size:90
Alignment explanation
Indices: 29164290--29164476 Score: 295
Period size: 90 Copynumber: 2.1 Consensus size: 90
29164280 TGATTGGACT
* * *
29164290 ATGGCAGTGTATATATATAAGACCATAGCTTGTCTATGGCATTCTAATGGTAAGACCATAGCCGA
1 ATGGCAGTGTATATATATAAGACCATAGCTAGGCTATGGCATTCTAATGGTAAGACCATAGCAGA
*
29164355 GTTATGGCACTATGAACGTAAGACC
66 GTTATGACACTATGAACGTAAGACC
** *
29164380 ATGGCAGTGTATATATATAAGACCATAGCTAGGCTATGGCATTCTGGTGGTAAGACCATAATCAG
1 ATGGCAGTGTATATATATAAGACCATAGCTAGGCTATGGCATTCTAATGGTAAGACCAT-AGCAG
29164445 -GTTATGACACTATGAACGTAAGACC
65 AGTTATGACACTATGAACGTAAGACC
29164470 ATGGCAG
1 ATGGCAG
29164477 GGCCATGACA
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
90 86 0.97
91 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.27
Consensus pattern (90 bp):
ATGGCAGTGTATATATATAAGACCATAGCTAGGCTATGGCATTCTAATGGTAAGACCATAGCAGA
GTTATGACACTATGAACGTAAGACC
Found at i:29167422 original size:12 final size:12
Alignment explanation
Indices: 29167393--29167435 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
29167383 TGAAGATGAA
29167393 TCATTTCTCATTT
1 TCATTTCT-ATTT
29167406 TCATTTCTATTT
1 TCATTTCTATTT
* *
29167418 CCATTTCCATTT
1 TCATTTCTATTT
29167430 TCATTT
1 TCATTT
29167436 TGAGAAAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 19 0.70
13 8 0.30
ACGTcount: A:0.16, C:0.23, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTTCTATTT
Found at i:29170678 original size:19 final size:20
Alignment explanation
Indices: 29170637--29170689 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
29170627 TCATATTAGT
* * *
29170637 TTTTCTTAATTTTCTATATA
1 TTTTCTTAATTTTTTAAAAA
29170657 TTTT-TTAATTTTTTAAAAA
1 TTTTCTTAATTTTTTAAAAA
*
29170676 TTTTCTTACTTTTT
1 TTTTCTTAATTTTT
29170690 AATTTTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTCTTAATTTTTTAAAAA
Found at i:29184331 original size:41 final size:41
Alignment explanation
Indices: 29184286--29184437 Score: 223
Period size: 41 Copynumber: 3.7 Consensus size: 41
29184276 CATTGAATGT
* * *
29184286 AAGGGGTTGCTAAGTGCAGATTACCTGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACACTGATCAAA
* *
29184327 AAGGGGTTGCTAAGTGTAGATTCCCCGAAAAACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACACTGATCAAA
* * *
29184368 AAGGGGTTGCTAAGTGCAGATTCCCCAAAACTCTGATAAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACACTGATCAAA
*
29184409 AAGGGGTTGCTAAGTGCTGATTCCCCGAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAA
29184438 TTATTAATTC
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 99 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCGAAACACTGATCAAA
Found at i:29184453 original size:41 final size:41
Alignment explanation
Indices: 29184286--29184474 Score: 206
Period size: 41 Copynumber: 4.6 Consensus size: 41
29184276 CATTGAATGT
* * * *
29184286 AAGGGGTTGCTAAGTGCAGATTACCTGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATAACTGATCAAA
*
29184327 AAGGGGTTGCTAAGTG-TAGATTCCCCGAAAAACTGATCAAA
1 AAGGGGTTGCTAAGTGCT-GATTCCCCGAATAACTGATCAAA
* *
29184368 AAGGGGTTGCTAAGTGCAGATTCCCC-AA-AACTCTGATAAAA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATAA--CTGATCAAA
* * * *
29184409 AAGGGGTTGCTAAGTGCTGATTCCCCGAATTATTAATTC-TA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATAACTGA-TCAAA
29184450 AAGGTGGTTGCTAAGTGCTGATTCC
1 AAGG-GGTTGCTAAGTGCTGATTCC
29184475 ACTGTATCCT
Statistics
Matches: 127, Mismatches: 13, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 99 0.78
42 23 0.18
43 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATAACTGATCAAA
Found at i:29184453 original size:82 final size:82
Alignment explanation
Indices: 29184286--29184474 Score: 229
Period size: 82 Copynumber: 2.3 Consensus size: 82
29184276 CATTGAATGT
* ** * *
29184286 AAGGGGTTGCTAAGTGCAGATTACCTGAATCACTGATCAAAAAGGGGTTGCTAAGTGTAGATTCC
1 AAGGGGTTGCTAAGTGCAGATTCCCCAAAACACTGATAAAAAAGGGGTTGCTAAGTGTAGATTCC
*
29184351 CCGAAAAACTGATCAAA
66 CCGAAAAACTAATCAAA
*
29184368 AAGGGGTTGCTAAGTGCAGATTCCCCAAAACTCTGATAAAAAAGGGGTTGCTAAGTGCT-GATTC
1 AAGGGGTTGCTAAGTGCAGATTCCCCAAAACACTGATAAAAAAGGGGTTGCTAAGTG-TAGATTC
** * *
29184432 CCCGAATTATTAATTC-TA
65 CCCGAAAAACTAA-TCAAA
*
29184450 AAGGTGGTTGCTAAGTGCTGATTCC
1 AAGG-GGTTGCTAAGTGCAGATTCC
29184475 ACTGTATCCT
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
82 70 0.76
83 22 0.24
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (82 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCAAAACACTGATAAAAAAGGGGTTGCTAAGTGTAGATTCC
CCGAAAAACTAATCAAA
Found at i:29184558 original size:41 final size:40
Alignment explanation
Indices: 29184279--29184563 Score: 166
Period size: 41 Copynumber: 6.9 Consensus size: 40
29184269 TGGGATTCAT
* * * *
29184279 TGAATGTAAGGGGTTGCTAAGTGCAGATTACCTGAATCAC
1 TGAATATAAGGGGTTGCTAAGTGCTGATTCCCCGAATCAC
* **
29184319 TG-ATCAAAAAGGGGTTGCTAAGTG-TAGATTCCCCGAAAAAC
1 TGAAT--ATAAGGGGTTGCTAAGTGCT-GATTCCCCGAATCAC
* * * * *
29184360 TG-ATCAAAAAGGGGTTGCTAAGTGCAGATTCCCCAAAACTC
1 TGAAT--ATAAGGGGTTGCTAAGTGCTGATTCCCCGAATCAC
* * *
29184401 TGATAAAAAAGGGGTTGCTAAGTGCTGATTCCCCGAATTA-
1 TGA-ATATAAGGGGTTGCTAAGTGCTGATTCCCCGAATCAC
* * * *
29184441 TTAATTCTAAAGGTGGTTGCTAAGTGCTGATTCCACTGTATC-C
1 TGAA-TAT-AAGG-GGTTGCTAAGTGCTGATTCC-CCGAATCAC
* * ** * * *
29184484 TTGATTGTGAAAGGATTTGTTATGTGCTGATTCCCCGTATCAC
1 -TGAATAT--AAGGGGTTGCTAAGTGCTGATTCCCCGAATCAC
29184527 TGAATATAAGGTGGTTGCTAAGTGCTGATTCCACCGA
1 TGAATATAAGG-GGTTGCTAAGTGCTGATTCC-CCGA
29184564 GTAACGGTTA
Statistics
Matches: 190, Mismatches: 39, Indels: 30
0.73 0.15 0.12
Matches are distributed among these distances:
39 3 0.02
40 8 0.04
41 114 0.60
42 34 0.18
43 24 0.13
44 7 0.04
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (40 bp):
TGAATATAAGGGGTTGCTAAGTGCTGATTCCCCGAATCAC
Found at i:29193719 original size:18 final size:18
Alignment explanation
Indices: 29193696--29193730 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
29193686 AAATATTTGG
*
29193696 TTTATGTATGATGTCTAT
1 TTTATGGATGATGTCTAT
29193714 TTTATGGATGATGTCTA
1 TTTATGGATGATGTCTA
29193731 GCCAATCTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.06, G:0.20, T:0.51
Consensus pattern (18 bp):
TTTATGGATGATGTCTAT
Found at i:29196810 original size:16 final size:16
Alignment explanation
Indices: 29196789--29196821 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
29196779 AGCTGTTAAT
*
29196789 TTTTACAGAAAAGAGG
1 TTTTACAAAAAAGAGG
29196805 TTTTACAAAAAAGAGG
1 TTTTACAAAAAAGAGG
29196821 T
1 T
29196822 GGTAAGACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.27
Consensus pattern (16 bp):
TTTTACAAAAAAGAGG
Found at i:29196907 original size:25 final size:25
Alignment explanation
Indices: 29196855--29196907 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
29196845 ATTTTAATTT
* * *
29196855 ATTATCTAATTTTTTAATTTATTGA
1 ATTATCTAATATTTTAATTAATTAA
29196880 ATTAT-TAATATTTTATATTAATTAA
1 ATTATCTAATATTTTA-ATTAATTAA
29196905 ATT
1 ATT
29196908 TTTGAGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (25 bp):
ATTATCTAATATTTTAATTAATTAA
Found at i:29203015 original size:37 final size:37
Alignment explanation
Indices: 29202965--29203043 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
29202955 TTATTACGAA
* *
29202965 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
29203002 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
29203039 GTCTT
1 GTCTT
29203044 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:29203479 original size:49 final size:47
Alignment explanation
Indices: 29203162--29203759 Score: 881
Period size: 47 Copynumber: 12.4 Consensus size: 47
29203152 CCCTTCGGGA
* * * * * * *
29203162 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29203209 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29203256 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29203303 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29203350 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29203397 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29203444 CTTATCACATATATATACACTTTCACAGTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29203493 CTTATCACATATATATACACTTTCACAGTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29203542 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29203589 CTTATCACATATATACACTTTCACATTCATCACATCCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTT--CA--CAT----T-CATCACATCGGCCATTAGGC
29203645 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29203692 CTTATATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 C-T-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29203741 CTTATCACATATATACACT
1 CTTATCACATATATACACT
29203760 GTCTTGGCTG
Statistics
Matches: 514, Mismatches: 24, Indels: 26
0.91 0.04 0.05
Matches are distributed among these distances:
47 320 0.62
48 3 0.01
49 141 0.27
51 3 0.01
52 3 0.01
54 2 0.00
55 1 0.00
56 41 0.08
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29203630 original size:56 final size:56
Alignment explanation
Indices: 29203562--29203729 Score: 237
Period size: 56 Copynumber: 3.1 Consensus size: 56
29203552 ATATACACTT
*
29203562 TCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TCACATCCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCA
29203618 TCACATCCATCACATCGGCTATTAGGCCTTATCACATATATACACTTT--CA--CA
1 TCACATCCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCA
*
29203670 T----T-CATCACATCGGCCATTAGGCCTTATATCACATATATACACTTTCACATTCA
1 TCACATCCATCACATCGGCTATTAGGCC-T-TATCACATATATACACTTTCACATTCA
29203723 TCACATC
1 TCACATC
29203730 GGCTATTAGG
Statistics
Matches: 99, Mismatches: 2, Indels: 20
0.82 0.02 0.17
Matches are distributed among these distances:
47 20 0.20
48 2 0.02
49 19 0.19
51 2 0.02
52 3 0.03
53 3 0.03
54 2 0.02
56 47 0.47
57 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (56 bp):
TCACATCCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCA
Found at i:29203662 original size:103 final size:103
Alignment explanation
Indices: 29203417--29203729 Score: 462
Period size: 103 Copynumber: 3.1 Consensus size: 103
29203407 ATATACACTT
* *
29203417 TCACATTCATCACATCGGCCATTCGGCCTTATCACATATATATACACTTTCACAGTCATCACATC
1 TCACATCCATCACATCGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATC
* *
29203482 GGCCATTCGGCCTTATCACATATAT--A--TACAC-TT--
64 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
29203515 TCACAGT-CATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCG
1 TCACA-TCCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCG
*
29203579 GCTATTAGGCCTTATCACATATATACACTTTCACATTCA
65 GCCATTAGGCCTTATCACATATATACACTTTCACATTCA
* *
29203618 TCACATCCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
1 TCACATCCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
29203683 CCATTAGGCCTTATATCACATATATACACTTTCACATTCA
66 CCATTAGGCC-T-TATCACATATATACACTTTCACATTCA
29203723 TCACATC
1 TCACATC
29203730 GGCTATTAGG
Statistics
Matches: 197, Mismatches: 7, Indels: 15
0.90 0.03 0.07
Matches are distributed among these distances:
96 50 0.25
98 34 0.17
99 1 0.01
100 4 0.02
101 2 0.01
102 1 0.01
103 70 0.36
104 1 0.01
105 34 0.17
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (103 bp):
TCACATCCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
CCATTAGGCCTTATCACATATATACACTTTCACATTCA
Found at i:29216605 original size:31 final size:31
Alignment explanation
Indices: 29216567--29216629 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
29216557 AGTTGGTAAG
29216567 TTAATTTACTTATCACATACAAGGCTAGACA
1 TTAATTTACTTATCACATACAAGGCTAGACA
29216598 TTAATTTACTTATCACATACAAGGCTAGACA
1 TTAATTTACTTATCACATACAAGGCTAGACA
29216629 T
1 T
29216630 GGCTTTTGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (31 bp):
TTAATTTACTTATCACATACAAGGCTAGACA
Found at i:29228459 original size:16 final size:16
Alignment explanation
Indices: 29228438--29228471 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
29228428 CATCCATTAA
29228438 TTTTCCTTTCTTT-TTT
1 TTTTCCTTT-TTTCTTT
29228454 TTTTCCTTTTTTCTTT
1 TTTTCCTTTTTTCTTT
29228470 TT
1 TT
29228472 GCTCCAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCCTTTTTTCTTT
Found at i:29228850 original size:15 final size:14
Alignment explanation
Indices: 29228809--29228858 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
29228799 ATTTTTAGAA
*
29228809 AAAAAATTT-AATT
1 AAAATATTTAAATT
*
29228822 AAAAT-GTTAAATT
1 AAAATATTTAAATT
29228835 AAAATATTTAAAATT
1 AAAATATTT-AAATT
*
29228850 ATAATATTT
1 AAAATATTT
29228859 TGGTTTCGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 2 0.07
13 13 0.43
14 2 0.07
15 13 0.43
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
AAAATATTTAAATT
Found at i:29232407 original size:30 final size:30
Alignment explanation
Indices: 29232371--29232431 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
29232361 TTTAAAGAAT
29232371 TAAATGATAATAAGCTCGGAAGGATGATTA
1 TAAATGATAATAAGCTCGGAAGGATGATTA
*
29232401 TAAATGATAATAAGCTTGGAAGGATGATTA
1 TAAATGATAATAAGCTCGGAAGGATGATTA
29232431 T
1 T
29232432 TCTAACACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.05, G:0.23, T:0.30
Consensus pattern (30 bp):
TAAATGATAATAAGCTCGGAAGGATGATTA
Found at i:29238315 original size:27 final size:27
Alignment explanation
Indices: 29238285--29238341 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
29238275 GAGGAACAAG
* **
29238285 TATAAAAATTTAATTTTGTGGTGAAGT
1 TATAAAAACTTAATTTTGTGAAGAAGT
*
29238312 TATAAAAACTTGATTTTGTGAAGAAGT
1 TATAAAAACTTAATTTTGTGAAGAAGT
29238339 TAT
1 TAT
29238342 CTGTAGGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.42
Consensus pattern (27 bp):
TATAAAAACTTAATTTTGTGAAGAAGT
Found at i:29238474 original size:184 final size:184
Alignment explanation
Indices: 29238155--29238521 Score: 698
Period size: 184 Copynumber: 2.0 Consensus size: 184
29238145 ACTACATGAA
29238155 TATCTGCAGGATTAGAAGGTATATTGGTTGCTATATATGCATTCAATTAAGGTTTAACAATACCT
1 TATCTGCAGGATTAGAAGGTATATTGGTTGCTATATATGCATTCAATTAAGGTTTAACAATACCT
*
29238220 GCCTTGCCACATGTGACCATAGGGTGTGTATTAGTTGGTATAGAAATTGGACTTTGAGGAACAAG
66 GCCTTGCCACATGTGACCATAGGGTGTGTATTAGTTGGTATAGAAATAGGACTTTGAGGAACAAG
29238285 TATAAAAATTTAATTTTGTGGTGAAGTTATAAAAACTTGATTTTGTGAAGAAGT
131 TATAAAAATTTAATTTTGTGGTGAAGTTATAAAAACTTGATTTTGTGAAGAAGT
* *
29238339 TATCTGTAGGATTAGAAGGTATATTGGTTGCTATATATGCATTCAATTAAGGTTTAATAATACCT
1 TATCTGCAGGATTAGAAGGTATATTGGTTGCTATATATGCATTCAATTAAGGTTTAACAATACCT
*
29238404 GCCTTGCCACATGTGACCATAGGGTGTGTATTAGTTGGTATAGAAATAGGACTTTGAGGAACAGG
66 GCCTTGCCACATGTGACCATAGGGTGTGTATTAGTTGGTATAGAAATAGGACTTTGAGGAACAAG
29238469 TATAAAAATTTAATTTTGTGGTGAAGTTATAAAAACTTGATTTTGTGAAGAAG
131 TATAAAAATTTAATTTTGTGGTGAAGTTATAAAAACTTGATTTTGTGAAGAAG
29238522 GTATAGAATA
Statistics
Matches: 179, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
184 179 1.00
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (184 bp):
TATCTGCAGGATTAGAAGGTATATTGGTTGCTATATATGCATTCAATTAAGGTTTAACAATACCT
GCCTTGCCACATGTGACCATAGGGTGTGTATTAGTTGGTATAGAAATAGGACTTTGAGGAACAAG
TATAAAAATTTAATTTTGTGGTGAAGTTATAAAAACTTGATTTTGTGAAGAAGT
Found at i:29238602 original size:27 final size:27
Alignment explanation
Indices: 29238466--29238615 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
29238456 TTTGAGGAAC
* * * *
29238466 AGGTATAAAAATTTAATTTTGTGGTGA
1 AGGTATAGAAACTTGATTTTGTGATGA
* * *
29238493 AGTTATAAAAACTTGATTTTGTGAAGA
1 AGGTATAGAAACTTGATTTTGTGATGA
29238520 AGGTATAGAATA-TTGATTTTGTGATGA
1 AGGTATAGAA-ACTTGATTTTGTGATGA
* * *
29238547 AGGTATGGAAAATTGATTTTGTGAAGA
1 AGGTATAGAAACTTGATTTTGTGATGA
*
29238574 AGGTATAGAAACTTGAGTTTGT-AGTGA
1 AGGTATAGAAACTTGATTTTGTGA-TGA
29238601 AGGTATAGAAACTTG
1 AGGTATAGAAACTTG
29238616 TGAAGGCAAC
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.02
27 103 0.97
28 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (27 bp):
AGGTATAGAAACTTGATTTTGTGATGA
Found at i:29242728 original size:45 final size:45
Alignment explanation
Indices: 29242644--29242795 Score: 164
Period size: 45 Copynumber: 3.4 Consensus size: 45
29242634 TATGGTATTA
* ** *
29242644 AGCTATGGTCTTACTCAT-TTCTATCAG-GATGGCAAAGCATCTTTC
1 AGCTATGGTCTTACTCATCTT-TAT-GGTGATACCATAGCATCTTTC
* * * *
29242689 AACTATGGTTTTACTCATCTTTATGGTGATGCCATAGCATCTTTT
1 AGCTATGGTCTTACTCATCTTTATGGTGATACCATAGCATCTTTC
* * *
29242734 AGCTATGGTCTTACACATTTTTATGGTGATACCATAGCATTTTTC
1 AGCTATGGTCTTACTCATCTTTATGGTGATACCATAGCATCTTTC
*
29242779 AGCTAAGGTCTTACTCA
1 AGCTATGGTCTTACTCA
29242796 ATTTAAACGT
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
44 1 0.01
45 87 0.97
46 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39
Consensus pattern (45 bp):
AGCTATGGTCTTACTCATCTTTATGGTGATACCATAGCATCTTTC
Found at i:29244472 original size:43 final size:42
Alignment explanation
Indices: 29244365--29244474 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
29244355 GATTTGAGAT
29244365 TTACATGTAAGACCATGTCTGGGACATCGGCATCGTATACGA
1 TTACATGTAAGACCATGTCTGGGACATCGGCATCGTATACGA
* * * *
29244407 TTTCGTGTAAGACTC-TGTCTGGGATAGT-GGCATCG-ATAGTTGA
1 TTACATGTAAGAC-CATGTCTGGGACA-TCGGCATCGTATA--CGA
*
29244450 TTACATGTAAGACCACGTCTGGGAC
1 TTACATGTAAGACCATGTCTGGGAC
29244475 GTTGGCATTG
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
41 3 0.05
42 29 0.53
43 23 0.42
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACATCGGCATCGTATACGA
Found at i:29248918 original size:43 final size:44
Alignment explanation
Indices: 29248865--29248947 Score: 116
Period size: 43 Copynumber: 1.9 Consensus size: 44
29248855 ACATGGTTTT
*
29248865 CGACAAGATCGTGTGACGC-T-ATTTCGAATTGCACACGGTCTAG
1 CGACAAGATCGTGTGAC-CTTAATTTCAAATTGCACACGGTCTAG
* *
29248908 CGACACGATCGTGTGACCTTAATTTCAAATTGTACACGGT
1 CGACAAGATCGTGTGACCTTAATTTCAAATTGCACACGGT
29248948 TTGGCCACAC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 1 0.03
43 17 0.49
44 17 0.49
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (44 bp):
CGACAAGATCGTGTGACCTTAATTTCAAATTGCACACGGTCTAG
Found at i:29252576 original size:3 final size:3
Alignment explanation
Indices: 29252568--29252646 Score: 97
Period size: 3 Copynumber: 26.3 Consensus size: 3
29252558 TTTCTATCAT
* * * * *
29252568 TTC TTC TTC TTC TAC TAC TTC TAC TTC TAC TT- TGTC TTC TTT TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC TTC TTC TTC
29252613 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
29252647 CAAAGAGCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
2 1 0.02
3 64 0.97
4 1 0.02
ACGTcount: A:0.05, C:0.30, G:0.01, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:29259372 original size:15 final size:14
Alignment explanation
Indices: 29259351--29259386 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
29259341 ATAATTCTTA
*
29259351 ATAATTATCTTAAT
1 ATAATTATCCTAAT
29259365 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
29259380 ATAATTA
1 ATAATTA
29259387 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:29261395 original size:18 final size:18
Alignment explanation
Indices: 29261372--29261406 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29261362 ACGATGTGTC
29261372 AAACTATATTCATGCTTG
1 AAACTATATTCATGCTTG
* *
29261390 AAACTATTTTGATGCTT
1 AAACTATATTCATGCTT
29261407 ACAGTTCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
AAACTATATTCATGCTTG
Found at i:29261561 original size:55 final size:55
Alignment explanation
Indices: 29261497--29261718 Score: 194
Period size: 55 Copynumber: 3.9 Consensus size: 55
29261487 CGTGCTACGT
* * *
29261497 AACAATCGATTTAAACATATAAAAAATCAATTCAAAATAAGTAGTA-TTCTAACAT
1 AACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGTAGTATTTC-AACAG
* ** * *
29261552 AATAATCGATTTAAATGTATAAACAATCGATTCAAAAGCAGTAGTATTTCAACAG
1 AACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGTAGTATTTCAACAG
** * * * * *
29261607 AACAATAAATTTAAACATATAAAAAATTGATTCAAAAGAAGAAGAAGAAGAAGTATTCCACCAT
1 AACAATCGATTTAAACATATAAAAAATCGATTC--------AA-AAGAAGTAGTATTTCAACAG
* *
29261671 AACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGTAATATT
1 AACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGTAGTATT
29261719 CCACAAATTA
Statistics
Matches: 131, Mismatches: 26, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
55 80 0.61
56 5 0.04
63 2 0.02
64 44 0.34
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (55 bp):
AACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGTAGTATTTCAACAG
Found at i:29278179 original size:19 final size:19
Alignment explanation
Indices: 29278155--29278194 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
29278145 ATGTTAAAAG
*
29278155 ATACATATAGTATATATCT
1 ATACATATAGTATACATCT
29278174 ATACATATAGTATACATCT
1 ATACATATAGTATACATCT
29278193 AT
1 AT
29278195 GTGGCTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.40
Consensus pattern (19 bp):
ATACATATAGTATACATCT
Found at i:29280278 original size:20 final size:20
Alignment explanation
Indices: 29280253--29280293 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
29280243 ATCCTTCAAC
* *
29280253 TTAATCTTATTCAGCTTTGT
1 TTAATCTCATTCAACTTTGT
29280273 TTAATCTCATTCAACTTTGT
1 TTAATCTCATTCAACTTTGT
29280293 T
1 T
29280294 CTATTTTACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.22, C:0.17, G:0.07, T:0.54
Consensus pattern (20 bp):
TTAATCTCATTCAACTTTGT
Found at i:29285039 original size:17 final size:17
Alignment explanation
Indices: 29285012--29285044 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
29285002 TCACTATATT
29285012 TTTATTTCACATATTCAC
1 TTTATTTCACA-ATTCAC
29285030 TTTA-TTCACAATTCA
1 TTTATTTCACAATTCA
29285045 TAAAAATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTATTTCACAATTCAC
Found at i:29285291 original size:51 final size:51
Alignment explanation
Indices: 29285234--29285334 Score: 202
Period size: 51 Copynumber: 2.0 Consensus size: 51
29285224 TTACTTTTCT
29285234 AACACTTTTATATCACTATTCACTTCATTTAAACCTTTAATCACAATATTC
1 AACACTTTTATATCACTATTCACTTCATTTAAACCTTTAATCACAATATTC
29285285 AACACTTTTATATCACTATTCACTTCATTTAAACCTTTAATCACAATATT
1 AACACTTTTATATCACTATTCACTTCATTTAAACCTTTAATCACAATATT
29285335 TTGTAACACC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.42
Consensus pattern (51 bp):
AACACTTTTATATCACTATTCACTTCATTTAAACCTTTAATCACAATATTC
Found at i:29286429 original size:39 final size:39
Alignment explanation
Indices: 29286386--29286478 Score: 141
Period size: 39 Copynumber: 2.4 Consensus size: 39
29286376 CACATTCAAT
** *
29286386 TTTAAGCATATATCACGTTACACATGTAATCACATAACA
1 TTTAAGCATATATCACAATACACATATAATCACATAACA
29286425 TTTAAGCATATATCACAATACACATATAATCACATAACA
1 TTTAAGCATATATCACAATACACATATAATCACATAACA
* *
29286464 TTCAAGCATACATCA
1 TTTAAGCATATATCA
29286479 TCGTACTCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACACATATAATCACATAACA
Found at i:29286478 original size:22 final size:21
Alignment explanation
Indices: 29286412--29286478 Score: 54
Period size: 22 Copynumber: 3.3 Consensus size: 21
29286402 GTTACACATG
*
29286412 TAATCACATAACATTTAAGCA
1 TAATCACATAACATTCAAGCA
*
29286433 TATATCACA-ATACA--C-A-TA
1 TA-ATCACATA-ACATTCAAGCA
29286451 TAATCACATAACATTCAAGCA
1 TAATCACATAACATTCAAGCA
29286472 TACATCA
1 TA-ATCA
29286479 TCGTACTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 15
0.66 0.06 0.28
Matches are distributed among these distances:
17 9 0.26
18 4 0.11
19 2 0.06
20 1 0.03
21 6 0.17
22 13 0.37
ACGTcount: A:0.48, C:0.22, G:0.03, T:0.27
Consensus pattern (21 bp):
TAATCACATAACATTCAAGCA
Found at i:29288743 original size:33 final size:34
Alignment explanation
Indices: 29288697--29288771 Score: 91
Period size: 33 Copynumber: 2.2 Consensus size: 34
29288687 GCATGGGAGA
*
29288697 TTTCTTTTCTTTTT-TCCATATTTTTCATTTTCCT
1 TTTCTTTTCTTTTTCTCCATATTTTTC-TTTCCCT
* *
29288731 TTTC-TTTCTTTTTCTCCTTCTTTTTCTTTCCCT
1 TTTCTTTTCTTTTTCTCCATATTTTTCTTTCCCT
*
29288764 TTTATTTT
1 TTTCTTTT
29288772 TTGATGACCG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
33 18 0.51
34 17 0.49
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (34 bp):
TTTCTTTTCTTTTTCTCCATATTTTTCTTTCCCT
Found at i:29291837 original size:21 final size:19
Alignment explanation
Indices: 29291791--29291844 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 19
29291781 CAAATCAGGT
*
29291791 AAAAGAAAGAG-AAATGAA
1 AAAAGAAAGAGAAAAGGAA
*
29291809 AAATGAAAGAGAACAAGGAAA
1 AAAAGAAAGAGAA-AAGG-AA
29291830 AAAAGAAAGAGAAAA
1 AAAAGAAAGAGAAAA
29291845 ATTAAAAGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 10 0.33
19 1 0.03
20 5 0.17
21 14 0.47
ACGTcount: A:0.72, C:0.02, G:0.22, T:0.04
Consensus pattern (19 bp):
AAAAGAAAGAGAAAAGGAA
Found at i:29291851 original size:21 final size:20
Alignment explanation
Indices: 29291791--29291851 Score: 54
Period size: 21 Copynumber: 3.1 Consensus size: 20
29291781 CAAATCAGGT
*
29291791 AAAAGAAAGAG--AAATGAA
1 AAAAGAAAGAGAAAAATAAA
* **
29291809 AAATGAAAGAGAACAAGGAAA
1 AAAAGAAAGAGAA-AAATAAA
*
29291830 AAAAGAAAGAGAAAAATTAA
1 AAAAGAAAGAGAAAAATAAA
29291850 AA
1 AA
29291852 GGAAATGAGA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
18 10 0.31
20 6 0.19
21 16 0.50
ACGTcount: A:0.72, C:0.02, G:0.20, T:0.07
Consensus pattern (20 bp):
AAAAGAAAGAGAAAAATAAA
Found at i:29294161 original size:32 final size:30
Alignment explanation
Indices: 29294101--29294214 Score: 97
Period size: 32 Copynumber: 3.6 Consensus size: 30
29294091 GGTTGGTGCA
*
29294101 TATATAATATAA-ATATGTGTGCATGTTTTTGT
1 TATAT-ATATAATATATATG-GCATG-TTTTGT
*
29294133 TATATATATAATATATATGCGCAAGTTTTGT
1 TATATATATAATATATATG-GCATGTTTTGT
* * *
29294164 GT-TATATGTAATATATATAGGCGTGGCTTTGT
1 -TATATATATAATATATAT-GGCAT-GTTTTGT
*
29294196 TATATAGATAATATATATG
1 TATATATATAATATATATG
29294215 TGTGTTGGTT
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
31 31 0.46
32 37 0.54
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (30 bp):
TATATATATAATATATATGGCATGTTTTGT
Found at i:29294329 original size:22 final size:22
Alignment explanation
Indices: 29294298--29294349 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
29294288 ATACATATAT
29294298 TATATTATATG-AGTGGGTCTTAC
1 TATA-TATATGCA-TGGGTCTTAC
*
29294321 TATATATATGCATGGGTCTTAT
1 TATATATATGCATGGGTCTTAC
29294343 TATATAT
1 TATATAT
29294350 TATAAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (22 bp):
TATATATATGCATGGGTCTTAC
Found at i:29295507 original size:51 final size:51
Alignment explanation
Indices: 29295440--29295548 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 51
29295430 TATGATGGAG
* * * *
29295440 TATGAATTGTTATTTTGCATAAACTATTATTCGGTATGAACTGATATTTCA
1 TATGAACTATTATTTTGCATAAACTATCATTCGGTATGAACTGATATTTAA
* * * * *
29295491 TGTGAACTATTATTTTGCATGAGCTATCATTTGGTATGAACTGTTATTTAA
1 TATGAACTATTATTTTGCATAAACTATCATTCGGTATGAACTGATATTTAA
29295542 TATGAAC
1 TATGAAC
29295549 AAATGTTTAT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (51 bp):
TATGAACTATTATTTTGCATAAACTATCATTCGGTATGAACTGATATTTAA
Found at i:29295539 original size:17 final size:17
Alignment explanation
Indices: 29295461--29295539 Score: 61
Period size: 17 Copynumber: 4.6 Consensus size: 17
29295451 ATTTTGCATA
*
29295461 AACTATTATTCGGTATG
1 AACTATTATTTGGTATG
** *
29295478 AACTGA-TATTTCATGTG
1 AACT-ATTATTTGGTATG
* *
29295495 AACTATTATTTTGCATG
1 AACTATTATTTGGTATG
* *
29295512 AGCTATCATTTGGTATG
1 AACTATTATTTGGTATG
*
29295529 AACTGTTATTT
1 AACTATTATTT
29295540 AATATGAACA
Statistics
Matches: 45, Mismatches: 15, Indels: 4
0.70 0.23 0.06
Matches are distributed among these distances:
16 1 0.02
17 43 0.96
18 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.44
Consensus pattern (17 bp):
AACTATTATTTGGTATG
Found at i:29297228 original size:101 final size:101
Alignment explanation
Indices: 29297006--29297209 Score: 329
Period size: 101 Copynumber: 2.0 Consensus size: 101
29296996 ATGCATTTGT
*
29297006 ATCATTCAAGAGCATATGCATGTAGTTATTTTAGTCACGAAACTATAATCATATTTTATTGATAT
1 ATCATTCCAGAGCATATGCATGTAGTTATTTTAGTCACGAAACTATAATCATATTTTATTGATAT
* *
29297071 CGTAATAACATTTGCAGTTGTTTATGAAGCATTCGC
66 CATAATAACATTTGCAGCTGTTTATGAAGCATTCGC
* * *
29297107 ATCATTCCAGAGCATATGCATGTGGTTATTTTAGTCATGAAACTATAATCATATTTTATTGTTAT
1 ATCATTCCAGAGCATATGCATGTAGTTATTTTAGTCACGAAACTATAATCATATTTTATTGATAT
*
29297172 CATAATAACATTTGCA-CTGCTTTATGAAGCATTTGC
66 CATAATAACATTTGCAGCTG-TTTATGAAGCATTCGC
29297208 AT
1 AT
29297210 TATCTTGGAT
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
100 2 0.02
101 93 0.98
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (101 bp):
ATCATTCCAGAGCATATGCATGTAGTTATTTTAGTCACGAAACTATAATCATATTTTATTGATAT
CATAATAACATTTGCAGCTGTTTATGAAGCATTCGC
Found at i:29297702 original size:90 final size:89
Alignment explanation
Indices: 29297484--29297775 Score: 261
Period size: 90 Copynumber: 3.2 Consensus size: 89
29297474 TCCTGGGTTC
* * * *
29297484 GCCTAGTAAGTCCTTTCAAATTCTGGTTCCACCCAAGTTCATTTCGAGATTTATAGTTTCT-CCG
1 GCCTAGTAAGTCCTTTCAAATTCTGGTTTCACCCAGGTTC-TTTCGAAATTTATAGTTT-TGCCC
* *
29297548 AAGTCCATTATCAAAGTTATGGTTTCAT
64 AAGTCCATTGTCGAAGTTATGGTTT--T
* * *
29297576 -CC-AGTAAGTCCTTTCAAATTCTTG-TTCGGCCCAGGTT-TGTTCTGAAAGTTATAGTTTTGCC
1 GCCTAGTAAGTCCTTTCAAATTCTGGTTTC-ACCCAGGTTCT-TTC-GAAATTTATAGTTTTGCC
*
29297637 CAAGTCCATTGTCGAAGTTCTGGTTTT
63 CAAGTCCATTGTCGAAGTTATGGTTTT
** * * * * * *
29297664 GCCTAGTAAGTCCTTTCAAATTCTGGTTTCTTCTAGGTTCTTTCCAATATTTCTGGTTCTGCCTA
1 GCCTAGTAAGTCCTTTCAAATTCTGGTTTCACCCAGGTTCTTTCGAA-ATTTATAGTTTTGCCCA
* * * *
29297729 GGTCCGTTGTTGAAGTTTTGGTTTT
65 AGTCCATTGTCGAAGTTATGGTTTT
* *
29297754 GCGTAGTAAGTCCTTTGAAATT
1 GCCTAGTAAGTCCTTTCAAATT
29297776 TTGATTTCGC
Statistics
Matches: 165, Mismatches: 26, Indels: 20
0.78 0.12 0.09
Matches are distributed among these distances:
88 2 0.01
89 10 0.06
90 147 0.89
91 6 0.04
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (89 bp):
GCCTAGTAAGTCCTTTCAAATTCTGGTTTCACCCAGGTTCTTTCGAAATTTATAGTTTTGCCCAA
GTCCATTGTCGAAGTTATGGTTTT
Found at i:29297873 original size:30 final size:30
Alignment explanation
Indices: 29297794--29297879 Score: 127
Period size: 30 Copynumber: 2.9 Consensus size: 30
29297784 GCTCACTTCT
* **
29297794 ATTGTCGAAGTTCTGGTTTCACCCAGGTCC
1 ATTGTCGAAGTTTTGGTTTTGCCCAGGTCC
*
29297824 ATTGTCGAAGTTTTGGTTTTGTCCAGGTCC
1 ATTGTCGAAGTTTTGGTTTTGCCCAGGTCC
*
29297854 ATTGTTGAAGTTTTGGTTTTGCCCAG
1 ATTGTCGAAGTTTTGGTTTTGCCCAG
29297880 TAACTCCTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.15, C:0.19, G:0.26, T:0.41
Consensus pattern (30 bp):
ATTGTCGAAGTTTTGGTTTTGCCCAGGTCC
Found at i:29297991 original size:30 final size:30
Alignment explanation
Indices: 29297951--29298021 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
29297941 TTAATTCTCG
29297951 AATTTCTGGTTTTAC-CCAGGTCCA-TTGTCA
1 AATTT-TGGTTTT-CGCCAGGTCCATTTGTCA
* *
29297981 AAGTTTTGG-TTTCGCCAGGTCTATTTTTCA
1 AA-TTTTGGTTTTCGCCAGGTCCATTTGTCA
29298011 AATTTTGGTTT
1 AATTTTGGTTT
29298022 CGTCCAGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
28 1 0.03
29 17 0.49
30 14 0.40
31 3 0.09
ACGTcount: A:0.18, C:0.17, G:0.18, T:0.46
Consensus pattern (30 bp):
AATTTTGGTTTTCGCCAGGTCCATTTGTCA
Found at i:29298000 original size:29 final size:30
Alignment explanation
Indices: 29297966--29298028 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
29297956 CTGGTTTTAC
29297966 CCAGGTCCA-TTGTCAAAGTTTTGGTTTCG-
1 CCAGGTCCATTTGTCAAA-TTTTGGTTTCGT
* *
29297995 CCAGGTCTATTTTTCAAATTTTGGTTTCGT
1 CCAGGTCCATTTGTCAAATTTTGGTTTCGT
29298025 CCAG
1 CCAG
29298029 TAAGTCTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (30 bp):
CCAGGTCCATTTGTCAAATTTTGGTTTCGT
Found at i:29298375 original size:78 final size:78
Alignment explanation
Indices: 29298287--29298430 Score: 191
Period size: 78 Copynumber: 1.8 Consensus size: 78
29298277 GTCAAACTTG
* * * * **
29298287 TTTTCAAAAATAGGTTGAGCCTGGGGATTGTTATTGAGGTCCTTTTAGTGTTTTTTCA-TTTTAT
1 TTTTCAAAAATAGGTTGAACCTCGAGATTGTCATCAAGGTCCTTTTAGT-TTTTTTCATTTTTAT
29298351 TAGGGTTGAATTCA
65 TAGGGTTGAATTCA
* * *
29298365 TTTTCGAAAATGGGTTGAACCTCGAGATTGTCGTCAAGGTCCTTTTAGTTTTTTTCATTTTTATT
1 TTTTCAAAAATAGGTTGAACCTCGAGATTGTCATCAAGGTCCTTTTAGTTTTTTTCATTTTTATT
29298430 A
66 A
29298431 AAAGTTAAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
77 8 0.14
78 48 0.86
ACGTcount: A:0.22, C:0.11, G:0.21, T:0.47
Consensus pattern (78 bp):
TTTTCAAAAATAGGTTGAACCTCGAGATTGTCATCAAGGTCCTTTTAGTTTTTTTCATTTTTATT
AGGGTTGAATTCA
Found at i:29298487 original size:79 final size:77
Alignment explanation
Indices: 29298323--29298494 Score: 202
Period size: 79 Copynumber: 2.2 Consensus size: 77
29298313 ATTGTTATTG
** * * * * * *
29298323 AGGTCCTTTTAGTGTTTTTTCATTTTATTAGGGTTGAATTCATTTTCGAAAATGGGTTGAACCTC
1 AGGTCCTTTTAGT-TTTTTTCATTTTATTAAAGTTAAATCCATTTCCAAAAATGGATTCAACCTC
29298388 GAGATTGTCGTCA
65 GAGATTGTCGTCA
*
29298401 AGGTCCTTTTAGTTTTTTTCATTTTTATTAAAAGTTAAATCCATTTCCAAAAATGGATTCAGCCT
1 AGGTCCTTTTAGTTTTTTTCA-TTTTATT-AAAGTTAAATCCATTTCCAAAAATGGATTCAACCT
*
29298466 CGAGATTG-CGGTCG
64 CGAGATTGTC-GTCA
*
29298480 AGTTCCTTTTAGTTT
1 AGGTCCTTTTAGTTT
29298495 GATTTTGTCA
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
77 8 0.10
78 21 0.26
79 51 0.64
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.44
Consensus pattern (77 bp):
AGGTCCTTTTAGTTTTTTTCATTTTATTAAAGTTAAATCCATTTCCAAAAATGGATTCAACCTCG
AGATTGTCGTCA
Found at i:29301810 original size:19 final size:17
Alignment explanation
Indices: 29301771--29301813 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
29301761 ACCTAAAAAT
*
29301771 TAAATATAATTAAAATAA
1 TAAA-ATAATAAAAATAA
29301789 TAAAATAATAAAAAGTATA
1 TAAAATAATAAAAA-TA-A
29301808 TAAAAT
1 TAAAAT
29301814 TGGGTCTAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 9 0.41
18 6 0.27
19 7 0.32
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
TAAAATAATAAAAATAA
Found at i:29302242 original size:16 final size:15
Alignment explanation
Indices: 29302217--29302251 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
29302207 TCTGATGTGA
29302217 GAAAAGTACAGTGTT
1 GAAAAGTACAGTGTT
29302232 GAAATAGTACAGTGTT
1 GAAA-AGTACAGTGTT
29302248 GAAA
1 GAAA
29302252 CAAGCACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.43, C:0.06, G:0.26, T:0.26
Consensus pattern (15 bp):
GAAAAGTACAGTGTT
Found at i:29310104 original size:10 final size:9
Alignment explanation
Indices: 29310086--29310128 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
29310076 GTTAGTGAAC
29310086 AAAATAAAT
1 AAAATAAAT
29310095 AAATATAAAT
1 AAA-ATAAAT
*
29310105 AAACATATAT
1 AAA-ATAAAT
29310115 AAAATAAAAT
1 AAAAT-AAAT
29310125 AAAA
1 AAAA
29310129 ATAGAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 5 0.17
10 24 0.83
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAATAAAT
Found at i:29311383 original size:725 final size:729
Alignment explanation
Indices: 29309944--29311402 Score: 2554
Period size: 725 Copynumber: 2.0 Consensus size: 729
29309934 AAGTGTATCT
*
29309944 AGGGTTGAGTGGTCAACAAGTAGCTCATTGTCTATATAAGCAACCTTAGGGTCACCGGGATTCTA
1 AGGGTTGAATGGTCAACAAGTAGCTCATTGTCTATATAAGCAACCTTAGGGTCACCGGGATTCTA
* * *
29310009 TGCAGACTTAGAGACATAATTTTTCCTATTCAATTTTTTTTTATATTTTCTTTGTTGGACAAAAC
66 TACAGACTTAGAGACATAATTTTTCCTATTCAA--TGTTTTTATATTTTCTTTGTTGGAAAAAAC
* * *
29310074 ACGTTAGTGAACAAAATAAATAAATATAAATAAACATATATAAAATAAAATAAAAATAGAATAAT
129 ACATTAGCGAACAAAATAAATAAATAAAAATAAACATATATAAAATAAAATAAAAATAGAATAAT
* *
29310139 TTATATTTAATTTTTCAAATACGAAAAACAATCAAAACCGTAATAAAAGTTGAAATCAAAAGGGA
194 TTATATTTAATTTTTCAAATACGAAAAACAATCAAAACCATAACAAAAGTTGAAATCAAAAGGGA
*
29310204 GAATAGAGATTTTACTAAATGTTTAGGCCTGTTAAAAACAATTTCCTTAAGACATATTCATTCAC
259 GAATAAAGATTTTACTAAATGTTTAGGCCTGTTAAAAACAATTTCCTTAAGACATATTCATTCAC
*
29310269 TCCTATGGTACTTGGAGAAACGTTGGTCGAATGTCTCCCAGGATACAACAAGAACAATGACCAAA
324 TCCTATGGTACTTGGAGAAACGTTGGTCGAATGTCTCCCAAGATACAACAAGAACAATGACCAAA
* ** *
29310334 GCAGTAGCACCTCTGCAGCGATTTACGAACAAACGATGTCTTTTTCTATCATCGGAACATTTGAA
389 GCAGTAGCACCTCTACAGCGATCAACGAACAAACGACGTCTTTTTCTATCATCGGAACATTTGAA
*
29310399 AAATATAGAGAGGAAAAGAAAATTTTTGAGAGAAACAAAATTTCGGTGTGAAAGAATATTAGAGT
454 AAATATAGAGAGGAAAAGAAAAGTTTTGAGAGAAACAAAATTTCGGTGTGAAAGAATATTAGAGT
29310464 GTCTAATACTACAGAATTTGTAGCCTTTTATAGGCATTGAGAATGTTGAAATTTTGGAAATTTTC
519 GTCTAATACTACAGAATTTGTAGCCTTTTATAGGCATTGAGAATGTTGAAATTTTGGAAATTTTC
29310529 CACAAAATCTGCCATTAATGAACAAATAAATCAAATTTGATTTAAAGATTAAATCAAATTTATTG
584 CACAAAATCTGCCATTAATGAACAAATAAATCAAATTTGATTTAAAGATTAAATCAAATTTATTG
* *
29310594 GAATCAAATAAATAAGATAAATGTCCTTATATAAACAGATTATGTAGGAAAAGTAATTTTGTGTT
649 GAATCAAATAAATAAGATAAATGTCATTATATAAACAGATTATGTAGGAAAAATAATTTTGTGTT
29310659 GAGCTAAAATATCCGC
714 GAGCTAAAATATCCGC
*
29310675 AGGGTTGAATGGTCACCAAGTAGCTCATTGTCTATATAAGCAACCTTAGGGTCACCGGGATTCTA
1 AGGGTTGAATGGTCAACAAGTAGCTCATTGTCTATATAAGCAACCTTAGGGTCACCGGGATTCTA
*
29310740 TACAGACTTAGAGACATAATTTTTCCTATTC-A-GTTTTT-T-TTTTCTTTGTTGGAAAAAATAC
66 TACAGACTTAGAGACATAATTTTTCCTATTCAATGTTTTTATATTTTCTTTGTTGGAAAAAACAC
29310801 ATTAGCGAACAAAATAAATAAATAAAAATAAACATATATAAAAT-AAATAAAAATAGAATAATTT
131 ATTAGCGAACAAAATAAATAAATAAAAATAAACATATATAAAATAAAATAAAAATAGAATAATTT
29310865 ATATTTAATTTTTCAAATACGAAAAACAATCAAAACCATAACAAAAGTTGAAATCAAAAGGGAGA
196 ATATTTAATTTTTCAAATACGAAAAACAATCAAAACCATAACAAAAGTTGAAATCAAAAGGGAGA
29310930 ATAAAGATTTTACTAAATGTTTAGGCCTGTTAAAAACAATTTCCTTAAGACATATTCATTCACTC
261 ATAAAGATTTTACTAAATGTTTAGGCCTGTTAAAAACAATTTCCTTAAGACATATTCATTCACTC
29310995 CTATGGTACTTGGAGAAACGTTGGTCGAATGTCTCCCAAGATACAACAAGAACAATGACCAAAGC
326 CTATGGTACTTGGAGAAACGTTGGTCGAATGTCTCCCAAGATACAACAAGAACAATGACCAAAGC
29311060 AGTAGCACCTCTACAGCGATCAACGAACAAACGACGTCTTTTTCTATCA-CTGGAACATTT-AAC
391 AGTAGCACCTCTACAGCGATCAACGAACAAACGACGTCTTTTTCTATCATC-GGAACATTTGAA-
* *
29311123 AAATATAGAGAGGAAAAAGAAAAGTTTTGAGAGAAACAGAATTTTGGTGTGAAAGAATATTAGAG
454 AAATATAGAGAGG-AAAAGAAAAGTTTTGAGAGAAACAAAATTTCGGTGTGAAAGAATATTAGAG
* *
29311188 TGTCTAATACTGCAGAATTTGTAGTCTTTTATAGGCATTGAGAATGTTGAAATTTTGGAAATTTT
518 TGTCTAATACTACAGAATTTGTAGCCTTTTATAGGCATTGAGAATGTTGAAATTTTGGAAATTTT
* * *
29311253 CCACAAAATCTGTCATTAATGAGCAAATAAATCAAATTTGATTTAAAGATTAAATCAATTTTATT
583 CCACAAAATCTGCCATTAATGAACAAATAAATCAAATTTGATTTAAAGATTAAATCAAATTTATT
* *
29311318 GGAATCAAATAAATAAGATAAATGTCATTATATAAATAGATTATGTATGAAAAATAATTTTGTGT
648 GGAATCAAATAAATAAGATAAATGTCATTATATAAACAGATTATGTAGGAAAAATAATTTTGTGT
*
29311383 TGAGCTAAAATATCTGC
713 TGAGCTAAAATATCCGC
29311400 AGG
1 AGG
29311403 TCCACTCTAG
Statistics
Matches: 695, Mismatches: 30, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
723 3 0.00
724 278 0.40
725 314 0.45
726 1 0.00
727 5 0.01
730 1 0.00
731 93 0.13
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (729 bp):
AGGGTTGAATGGTCAACAAGTAGCTCATTGTCTATATAAGCAACCTTAGGGTCACCGGGATTCTA
TACAGACTTAGAGACATAATTTTTCCTATTCAATGTTTTTATATTTTCTTTGTTGGAAAAAACAC
ATTAGCGAACAAAATAAATAAATAAAAATAAACATATATAAAATAAAATAAAAATAGAATAATTT
ATATTTAATTTTTCAAATACGAAAAACAATCAAAACCATAACAAAAGTTGAAATCAAAAGGGAGA
ATAAAGATTTTACTAAATGTTTAGGCCTGTTAAAAACAATTTCCTTAAGACATATTCATTCACTC
CTATGGTACTTGGAGAAACGTTGGTCGAATGTCTCCCAAGATACAACAAGAACAATGACCAAAGC
AGTAGCACCTCTACAGCGATCAACGAACAAACGACGTCTTTTTCTATCATCGGAACATTTGAAAA
ATATAGAGAGGAAAAGAAAAGTTTTGAGAGAAACAAAATTTCGGTGTGAAAGAATATTAGAGTGT
CTAATACTACAGAATTTGTAGCCTTTTATAGGCATTGAGAATGTTGAAATTTTGGAAATTTTCCA
CAAAATCTGCCATTAATGAACAAATAAATCAAATTTGATTTAAAGATTAAATCAAATTTATTGGA
ATCAAATAAATAAGATAAATGTCATTATATAAACAGATTATGTAGGAAAAATAATTTTGTGTTGA
GCTAAAATATCCGC
Found at i:29320199 original size:28 final size:29
Alignment explanation
Indices: 29320130--29320202 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 29
29320120 TAGTAGTAGT
*
29320130 GTGTGGGCCATAGCCCAATACAGTAACAGA
1 GTGTGGGCCTTAGCCCAATACAGTAACA-A
29320160 GTGTGGGCCTTAGCCCAATACAGTAAC-A
1 GTGTGGGCCTTAGCCCAATACAGTAACAA
*
29320188 GTGTGGGTCTTAGCC
1 GTGTGGGCCTTAGCC
29320203 TAAAATAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 15 0.37
30 26 0.63
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (29 bp):
GTGTGGGCCTTAGCCCAATACAGTAACAA
Found at i:29320348 original size:26 final size:25
Alignment explanation
Indices: 29320319--29320374 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
29320309 GCCAACACAT
* *
29320319 CGTAGCAAAGTTTCCAGTAATAATAA
1 CGTAGCAAAGTTGCCAG-AACAATAA
*
29320345 CGTAGCAAAGTTGCCAGAACAGTAA
1 CGTAGCAAAGTTGCCAGAACAATAA
29320370 CGTAG
1 CGTAG
29320375 TAGAGCTACC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (25 bp):
CGTAGCAAAGTTGCCAGAACAATAA
Found at i:29320612 original size:27 final size:27
Alignment explanation
Indices: 29320582--29320669 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
29320572 TCAATTCCTA
29320582 GGGGTATAACAGTCATTTTACCCTAT-G
1 GGGGTATAACAGTCATTTTACCCT-TCG
** *
29320609 GGGGTATTTCGGTCATTTTACCCTTCG
1 GGGGTATAACAGTCATTTTACCCTTCG
** * *
29320636 GGGGTATTTCGGTCATTTTAACCTTCG
1 GGGGTATAACAGTCATTTTACCCTTCG
*
29320663 AGGGTAT
1 GGGGTAT
29320670 TTTGATCATT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.02
27 54 0.98
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (27 bp):
GGGGTATAACAGTCATTTTACCCTTCG
Found at i:29320670 original size:27 final size:27
Alignment explanation
Indices: 29320593--29320809 Score: 250
Period size: 27 Copynumber: 8.2 Consensus size: 27
29320583 GGGTATAACA
29320593 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
29320620 GTCATTTTACCCT-TCGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGGTATTTCG
* * *
29320647 GTCATTTTAACCT-TCGAGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGGTATTTCG
* ** *
29320674 ATCATTTTACCCT-TCAAGGGTATTTCT
1 GTCATTTTACCCTAT-GGGGGTATTTCG
* *
29320701 ATCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
29320728 G----TTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
29320751 GTTATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
29320778 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
29320805 GTCAT
1 GTCAT
29320810 ATATCGACTT
Statistics
Matches: 167, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
23 22 0.13
26 1 0.01
27 143 0.86
28 1 0.01
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:29326405 original size:79 final size:81
Alignment explanation
Indices: 29326269--29326453 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
29326259 TTGAATGATG
*
29326269 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
29326333 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
29326348 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
29326410 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
29326428 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29326454 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:29326467 original size:40 final size:40
Alignment explanation
Indices: 29326270--29326453 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
29326260 TGAATGATGT
* * * *
29326270 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
29326310 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
29326350 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
29326388 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
29326429 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
29326454 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:29326475 original size:79 final size:79
Alignment explanation
Indices: 29326270--29326486 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
29326260 TGAATGATGT
** * * * **
29326270 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
29326333 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
29326350 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
29326415 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
29326429 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
29326487 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:29334719 original size:40 final size:40
Alignment explanation
Indices: 29334660--29334871 Score: 277
Period size: 40 Copynumber: 5.3 Consensus size: 40
29334650 CATTTGAATG
*
29334660 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
29334700 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATT
* *
29334740 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * *
29334780 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATT
* *
29334820 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
29334860 ATATCC-GGCTAA
1 ATATCCGGGCTAA
29334872 ATTCCGAAGA
Statistics
Matches: 147, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
39 10 0.07
40 132 0.90
41 5 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:29334797 original size:80 final size:80
Alignment explanation
Indices: 29334664--29334871 Score: 346
Period size: 80 Copynumber: 2.6 Consensus size: 80
29334654 TGAATGATAT
*
29334664 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
*
29334729 TGCGAGTTGCTATAC
66 TGCGAGTTGATATAC
*
29334744 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
*
29334809 TGCGAGTTGATATAT
66 TGCGAGTTGATATAC
* * *
29334824 CCGGGCTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAA
29334872 ATTCCGAAGA
Statistics
Matches: 120, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
79 6 0.05
80 114 0.95
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGATATAC
Found at i:29337353 original size:16 final size:16
Alignment explanation
Indices: 29337315--29337365 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
29337305 TGAATTATTG
* * *
29337315 ATTACAACTCTGTTCT
1 ATTACAGCTCTATTCC
29337331 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
29337347 ATTACAGCTATATTTC
1 ATTACAGCTCTATTCC
29337363 ATT
1 ATT
29337366 CCCCCCAACC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:29338726 original size:3 final size:3
Alignment explanation
Indices: 29338718--29338754 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
29338708 TATTTTCATT
29338718 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
29338755 ACGGGATGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:29338917 original size:15 final size:14
Alignment explanation
Indices: 29338880--29338913 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
29338870 AACTTTAAAT
*
29338880 TATTTTTA-CAAAA
1 TATTTTTATAAAAA
29338893 TATTTTTATAAAAA
1 TATTTTTATAAAAA
29338907 TATTTTT
1 TATTTTT
29338914 TATATAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (14 bp):
TATTTTTATAAAAA
Found at i:29340325 original size:14 final size:15
Alignment explanation
Indices: 29340295--29340335 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
29340285 TAAATAATGC
29340295 TAAAAATA-ATTTCTA
1 TAAAAATATA-TTCTA
29340310 TAAAAATATATT-TA
1 TAAAAATATATTCTA
*
29340324 TAAAAATTTATT
1 TAAAAATATATT
29340336 AATCAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 13 0.54
15 10 0.42
16 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAAAATATATTCTA
Found at i:29343776 original size:14 final size:14
Alignment explanation
Indices: 29343759--29343799 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
29343749 CTTAGCCGCC
29343759 TATATTAATTTTTT
1 TATATTAATTTTTT
29343773 TATATT-ATTATTTT
1 TATATTAATT-TTTT
29343787 TATA-TAATTTTTT
1 TATATTAATTTTTT
29343800 AAAAAGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 8 0.32
14 17 0.68
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATATTAATTTTTT
Found at i:29373658 original size:26 final size:25
Alignment explanation
Indices: 29373629--29373690 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
29373619 AAATAAAACT
*
29373629 AAAAGAAAAAAATATACTCTAAAAA-G
1 AAAAGAAAAAAATA-A-ACTAAAAATG
**
29373655 AAAAGAGAAAACCTAAACTAAAAATG
1 AAAAGA-AAAAAATAAACTAAAAATG
29373681 AAAAGAAAAA
1 AAAAGAAAAA
29373691 GAAAAGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 11 0.35
26 14 0.45
27 6 0.19
ACGTcount: A:0.71, C:0.08, G:0.10, T:0.11
Consensus pattern (25 bp):
AAAAGAAAAAAATAAACTAAAAATG
Found at i:29374125 original size:10 final size:10
Alignment explanation
Indices: 29374097--29374140 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
29374087 AGACAAGTAT
29374097 TTTTATTAAG
1 TTTTATTAAG
*
29374107 TTTTAATTATG
1 TTTT-ATTAAG
29374118 TTTTATTAAG
1 TTTTATTAAG
*
29374128 TTCTATTTAAG
1 TTTTA-TTAAG
29374139 TT
1 TT
29374141 AATAAAATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
10 13 0.45
11 16 0.55
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.61
Consensus pattern (10 bp):
TTTTATTAAG
Found at i:29380445 original size:21 final size:21
Alignment explanation
Indices: 29380396--29380448 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
29380386 ACCACCTACT
29380396 CTTGAGACTTAGGATCTAAGC
1 CTTGAGACTTAGGATCTAAGC
* *
29380417 CTTAAGACTTATGG-TCTAAGT
1 CTTGAGACTTA-GGATCTAAGC
*
29380438 TTTGAGACTTA
1 CTTGAGACTTA
29380449 CTCCATTGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (21 bp):
CTTGAGACTTAGGATCTAAGC
Found at i:29387882 original size:15 final size:15
Alignment explanation
Indices: 29387862--29387894 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
29387852 ACTGAACTTA
29387862 CAACTGCACCTAAAT
1 CAACTGCACCTAAAT
*
29387877 CAACTGCACCTATAT
1 CAACTGCACCTAAAT
29387892 CAA
1 CAA
29387895 AGCAAGATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.33, G:0.06, T:0.21
Consensus pattern (15 bp):
CAACTGCACCTAAAT
Found at i:29399326 original size:5 final size:5
Alignment explanation
Indices: 29399318--29399346 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
29399308 TTGATTATCT
29399318 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
29399347 TTCAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:29411967 original size:16 final size:16
Alignment explanation
Indices: 29411946--29412013 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
29411936 TTTGGTTCGC
29411946 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
29411962 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
29411978 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
29411994 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
29412010 TGTA
1 TGTA
29412014 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Done.