Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 27 of 318
Found at i:7245913 original size:20 final size:20
Alignment explanation
Indices: 7245888--7245943 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 20
7245878 AAAGCTTTGA
*
7245888 AGAAATTTTCCATCTTCACC
1 AGAAATTTTCCATCTTAACC
7245908 AGAAA-TTT---TCTTAACC
1 AGAAATTTTCCATCTTAACC
7245924 AGAAATTTTCCATCTGTAAC
1 AGAAATTTTCCATCT-TAAC
7245944 ACCCCGTACC
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
16 12 0.40
17 3 0.10
19 3 0.10
20 8 0.27
21 4 0.13
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (20 bp):
AGAAATTTTCCATCTTAACC
Found at i:7247457 original size:80 final size:81
Alignment explanation
Indices: 7247345--7247564 Score: 273
Period size: 80 Copynumber: 2.7 Consensus size: 81
7247335 GCTCGATTGT
* * * * * *
7247345 CTTCGGGACATAGCCCGGTTATAGTAATTCACACAATTGCCTTCGGGAATTAGCCCGGA-TTTAG
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGATTTTAG
7247409 TAACTCGCACAAATGC
66 TAACTCGCACAAATGC
* * *
7247425 CTTCGGGACTTAACCCGGTTTTGGTAACTCACACAAATGCCTTCGGGACTTAACCC-GATTTTGG
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGATTTTAG
7247489 TAACTCGCACAAATGC
66 TAACTCGCACAAATGC
* * * * * * *
7247505 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGAGACTTAGCCCGGA
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCA-CACAAATGCCTTCGGGACTTAGCCCGGA
7247565 CATCATTCGA
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 93 0.78
81 22 0.18
82 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAACCCGGTTTTAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGATTTTAG
TAACTCGCACAAATGC
Found at i:7247563 original size:41 final size:40
Alignment explanation
Indices: 7247345--7247564 Score: 216
Period size: 40 Copynumber: 5.5 Consensus size: 40
7247335 GCTCGATTGT
* * *
7247345 CTTCGGGACATAGCCCGG-TTATAGTAATTCA-CACAATTGC
1 CTTCGGGACTTAGCCCGGATT-TAGTAACT-AGCACAAATGC
* *
7247385 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTAGCACAAATGC
* * *
7247425 CTTCGGGACTTAACCCGGTTTTGGTAACTCA-CACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACT-AGCACAAATGC
* * *
7247465 CTTCGGGACTTAACCC-GATTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGA-TTTAGTAACTAGCACAAATGC
* * *
7247505 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGGATTTAGTAAC-TAGCACAAATGC
*
7247546 CTTCGAGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
7247565 CATCATTCGA
Statistics
Matches: 151, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.01
40 120 0.79
41 29 0.19
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATTTAGTAACTAGCACAAATGC
Found at i:7255476 original size:40 final size:39
Alignment explanation
Indices: 7255432--7255650 Score: 226
Period size: 40 Copynumber: 5.5 Consensus size: 39
7255422 GCTCGATTGT
* * *
7255432 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
7255472 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
7255512 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
7255552 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
7255592 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
7255633 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
7255651 ACATCATTCG
Statistics
Matches: 156, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 2 0.01
40 127 0.81
41 25 0.16
42 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:7255530 original size:80 final size:79
Alignment explanation
Indices: 7255432--7255651 Score: 269
Period size: 80 Copynumber: 2.7 Consensus size: 79
7255422 GCTCGATTGT
* * * * *
7255432 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
7255497 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * *
7255512 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 CTTCGGGACTTAACCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
7255577 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * *
7255592 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAACCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
7255652 CATCATTCGA
Statistics
Matches: 118, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
80 88 0.75
81 30 0.25
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAACCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
ACTCGCACAAATGC
Found at i:7258834 original size:44 final size:44
Alignment explanation
Indices: 7258737--7259259 Score: 817
Period size: 44 Copynumber: 12.2 Consensus size: 44
7258727 AGGAACACCG
* *
7258737 ATCTGTTATTTTCGATCTGCTCTCTGCCGCTACA-AGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
7258780 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
7258824 ATCTGTTATCTTCGATCTGCTCTCTGCTGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
7258868 ATCTGTTATCTTCGATCTGTTCTCCG-CGCTACA-AGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
7258910 ATC---TATCTTCGATCTGCTCTCCACTGCTAC-GAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
7258950 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
7258994 ATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
7259038 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
7259082 ATC---TATCTTCGATCTGCTCTCCGCCGCTACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
7259123 ATCTGTTATCTT---TCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
7259164 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
7259208 ATC---TATCTTCGATCTGCTCTCCGCCTCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
7259249 ATCTGTTATCT
1 ATCTGTTATCT
7259260 GTTTCAAGGA
Statistics
Matches: 443, Mismatches: 21, Indels: 31
0.89 0.04 0.06
Matches are distributed among these distances:
39 18 0.04
40 16 0.04
41 118 0.27
42 11 0.02
43 63 0.14
44 217 0.49
ACGTcount: A:0.21, C:0.33, G:0.17, T:0.30
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:7258965 original size:126 final size:127
Alignment explanation
Indices: 7258737--7259259 Score: 765
Period size: 126 Copynumber: 4.1 Consensus size: 127
7258727 AGGAACACCG
* *
7258737 ATCTGTTATTTTCGATCTGCTCTCTGCCGCTACA-AGACGCCAAATCTGTTATCTTCGATCTGCT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC--TTATCTTCGATCTGCT
* *
7258801 CTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCTGCTACAGAGACGCC
64 CTCCGCCGCTACAGAGACGCCAAATC---TATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCC
7258866 AA
126 AA
* *
7258868 ATCTGTTATCTTCGATCTGTTCTCCG-CGCTACA-AGATGCCAAATC-TATCTTCGATCTGCTCT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTTATCTTCGATCTGCTCT
* *
7258930 CCACTGCTAC-GAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
66 CCGCCGCTACAGAGACGCCAAATC---TATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
7258994 ATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC--TTATCTTCGATCTGCT
*
7259059 CTCCGCCGCTACAGAGACGCCAAATCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACACCAA
64 CTCCGCCGCTACAGAGACGCCAAATCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
7259123 ATCTGTTATCTT---TCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC--TTATCTTCGATCTGCT
* *
7259185 CTCCGCCGCTACAGAGATGCCAAATCTATCTTCGATCTGCTCTCCGCCTCTACAGAGACGCCAA
64 CTCCGCCGCTACAGAGACGCCAAATCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
7259249 ATCTGTTATCT
1 ATCTGTTATCT
7259260 GTTTCAAGGA
Statistics
Matches: 367, Mismatches: 19, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
126 196 0.53
127 32 0.09
128 11 0.03
129 49 0.13
130 18 0.05
131 48 0.13
132 13 0.04
ACGTcount: A:0.21, C:0.33, G:0.17, T:0.30
Consensus pattern (127 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTTATCTTCGATCTGCTCT
CCGCCGCTACAGAGACGCCAAATCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:7259029 original size:170 final size:172
Alignment explanation
Indices: 7258747--7259252 Score: 839
Period size: 170 Copynumber: 3.0 Consensus size: 172
7258737 ATCTGTTATT
* *
7258747 TTCGATCTGCTCTCTGCCGCTACAAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTA
1 TTCGATCTGCTCTCCGCCGCTACGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTA
*
7258812 CAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCTGCTACAGAGACGCCAAATCTGTTAT
66 CAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTAT
* *
7258877 CTTCGATCTGTTCTCCG-CGCTACA-AGATGCCAAATCTATC
131 CTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATC
* *
7258917 TTCGATCTGCTCTCCACTGCTACGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTA
1 TTCGATCTGCTCTCCGCCGCTACGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTA
7258982 CAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTAT
66 CAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTAT
7259047 CTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATC
131 CTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATC
*
7259089 TTCGATCTGCTCTCCGCCGCTACAGAGACACCAAATCTGTTATCTT---TCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTAC-GAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
* * *
7259151 ACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC---TA
65 ACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTA
*
7259213 TCTTCGATCTGCTCTCCGCCTCTACAGAGACGCCAAATCT
130 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCT
7259253 GTTATCTGTT
Statistics
Matches: 319, Mismatches: 14, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
167 41 0.13
170 214 0.67
171 7 0.02
172 36 0.11
173 21 0.07
ACGTcount: A:0.21, C:0.33, G:0.17, T:0.29
Consensus pattern (172 bp):
TTCGATCTGCTCTCCGCCGCTACGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTA
CAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTAT
CTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATC
Found at i:7271694 original size:9 final size:9
Alignment explanation
Indices: 7271621--7271694 Score: 55
Period size: 9 Copynumber: 8.3 Consensus size: 9
7271611 CAAAAATGGC
*
7271621 AATGACAAT
1 AATGATAAT
*
7271630 GATGATAAT
1 AATGATAAT
*
7271639 AATAATAAT
1 AATGATAAT
*
7271648 AATAATAAT
1 AATGATAAT
*
7271657 AATAATAAT
1 AATGATAAT
7271666 AAT-ATAACGT
1 AATGATAA--T
*
7271676 -A-GAAAAT
1 AATGATAAT
7271683 AATGATAAT
1 AATGATAAT
7271692 AAT
1 AAT
7271695 ATATGAATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
7 1 0.02
8 5 0.09
9 47 0.87
10 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (9 bp):
AATGATAAT
Found at i:7271695 original size:3 final size:3
Alignment explanation
Indices: 7271634--7271669 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
7271624 GACAATGATG
7271634 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7271670 TAACGTAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7271710 original size:29 final size:27
Alignment explanation
Indices: 7271651--7271726 Score: 66
Period size: 29 Copynumber: 2.7 Consensus size: 27
7271641 TAATAATAAT
*
7271651 AATAATAATAATAATAATATAACGTAGAA
1 AATAAT-ATAATAAT-ATATAACGTAAAA
**
7271680 AATAATGATAATAATATATGAATTTAAAA
1 AATAAT-ATAATAATATAT-AACGTAAAA
7271709 AA-AATAT-ATATATATATA
1 AATAATATAATA-ATATATA
7271727 CATATACCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
26 4 0.10
27 8 0.20
28 7 0.17
29 22 0.54
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (27 bp):
AATAATATAATAATATATAACGTAAAA
Found at i:7271893 original size:2 final size:2
Alignment explanation
Indices: 7271873--7271932 Score: 95
Period size: 2 Copynumber: 30.5 Consensus size: 2
7271863 GATATTAAAA
* *
7271873 AT AT AT AC AT A- AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7271914 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
7271933 ATAATAGTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:7272033 original size:2 final size:2
Alignment explanation
Indices: 7272020--7272061 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
7272010 TACTTCATAA
* *
7272020 AT AT AT AC AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7272062 GTTAAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:7272041 original size:16 final size:16
Alignment explanation
Indices: 7272020--7272058 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
7272010 TACTTCATAA
7272020 ATATATACATATATAT
1 ATATATACATATATAT
7272036 ATATATACATATATAT
1 ATATATACATATATAT
7272052 ATATATA
1 ATATATA
7272059 TATGTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATATACATATATAT
Found at i:7272927 original size:13 final size:13
Alignment explanation
Indices: 7272911--7272939 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
7272901 CCGCCACCCG
7272911 CCGTCGCCGGCCA
1 CCGTCGCCGGCCA
7272924 CCGTCGCCGGCCA
1 CCGTCGCCGGCCA
7272937 CCG
1 CCG
7272940 CGCACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.55, G:0.31, T:0.07
Consensus pattern (13 bp):
CCGTCGCCGGCCA
Found at i:7273918 original size:17 final size:17
Alignment explanation
Indices: 7273896--7273934 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
7273886 AAAATGCTTC
* *
7273896 ATTTTAATTAGAATATA
1 ATTTTAATTAAAAAATA
*
7273913 ATTTTAGTTAAAAAATA
1 ATTTTAATTAAAAAATA
7273930 ATTTT
1 ATTTT
7273935 GAGGGTAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (17 bp):
ATTTTAATTAAAAAATA
Found at i:7274157 original size:2 final size:2
Alignment explanation
Indices: 7274150--7274177 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7274140 ATGAATATGA
7274150 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7274178 CGAGTAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7283894 original size:2 final size:2
Alignment explanation
Indices: 7283887--7283971 Score: 104
Period size: 2 Copynumber: 44.0 Consensus size: 2
7283877 AACAACATAA
* * * * *
7283887 AT AT AT AT AT -T AT CT AT A- AT CT CT AT CT AT CT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7283926 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7283968 AT AT
1 AT AT
7283972 GCATGAGTAT
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
1 3 0.04
2 69 0.96
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7285145 original size:36 final size:36
Alignment explanation
Indices: 7285096--7285197 Score: 119
Period size: 36 Copynumber: 3.0 Consensus size: 36
7285086 TATTGGATCT
*
7285096 TTCCAAGCTCCTGAACGTGATATTGTGTCTTCTCAA
1 TTCCAAGCTCCTGAACGAGATATTGTGTCTTCTCAA
* *
7285132 TTCCAAGAC-CCTGAACGAGATATCGAGT-TT-TC--
1 TTCCAAG-CTCCTGAACGAGATATTGTGTCTTCTCAA
7285164 --CCAAGCTCCTGAACGAGATATTGTGTCTTCTCAA
1 TTCCAAGCTCCTGAACGAGATATTGTGTCTTCTCAA
7285198 ATTTTTGAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
29 1 0.02
30 22 0.40
31 2 0.04
32 2 0.04
34 2 0.04
35 2 0.04
36 23 0.42
37 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (36 bp):
TTCCAAGCTCCTGAACGAGATATTGTGTCTTCTCAA
Found at i:7290915 original size:13 final size:13
Alignment explanation
Indices: 7290897--7290921 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7290887 CCAACCACAC
7290897 GCCCGTGTGCCCA
1 GCCCGTGTGCCCA
7290910 GCCCGTGTGCCC
1 GCCCGTGTGCCC
7290922 TTTGAAATGG
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:0.04, C:0.48, G:0.32, T:0.16
Consensus pattern (13 bp):
GCCCGTGTGCCCA
Found at i:7292955 original size:15 final size:16
Alignment explanation
Indices: 7292914--7292955 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
7292904 GTTTGTTTTA
*
7292914 TTTAATCTTTACTTAT
1 TTTAAACTTTACTTAT
* *
7292930 TTTATATTTTAC-TAT
1 TTTAAACTTTACTTAT
7292945 TTTAAACTTTA
1 TTTAAACTTTA
7292956 TTAATACATC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTAAACTTTACTTAT
Found at i:7293621 original size:21 final size:20
Alignment explanation
Indices: 7293597--7293635 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
7293587 TGTGTGTTGG
7293597 ATTAAATTGAATATAAATTAT
1 ATTAAATTGAAT-TAAATTAT
*
7293618 ATTAAATTGAGTTAAATT
1 ATTAAATTGAATTAAATT
7293636 CATTTGCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (20 bp):
ATTAAATTGAATTAAATTAT
Found at i:7298442 original size:6 final size:6
Alignment explanation
Indices: 7298431--7298491 Score: 61
Period size: 6 Copynumber: 9.8 Consensus size: 6
7298421 ATTAAATATT
* * *
7298431 AAAATA AAAATA AAAATA AAAATA AAAATTT AGAATCA AAACT- AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAA-TA AAAAT-A AAAATA AAAATA
7298480 AATAATA AAAAT
1 AA-AATA AAAAT
7298492 TAGCTAATAC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
5 4 0.09
6 28 0.62
7 13 0.29
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:7301569 original size:18 final size:17
Alignment explanation
Indices: 7301546--7301590 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
7301536 TATCTCTTAA
7301546 ATAATTTAAACTATATTG
1 ATAATTTAAA-TATATTG
*
7301564 ATAATTTTAATATATT-
1 ATAATTTAAATATATTG
7301580 A-AA-TTAAATAT
1 ATAATTTAAATAT
7301591 TATCTTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 7 0.28
15 2 0.08
16 1 0.04
17 6 0.24
18 9 0.36
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (17 bp):
ATAATTTAAATATATTG
Found at i:7301579 original size:17 final size:18
Alignment explanation
Indices: 7301546--7301579 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7301536 TATCTCTTAA
7301546 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
7301564 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
7301580 AAATTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:7301814 original size:20 final size:20
Alignment explanation
Indices: 7301789--7301832 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7301779 TAGTAAATCT
7301789 TAAACCTTAACCCCAAACCA
1 TAAACCTTAACCCCAAACCA
* * *
7301809 TAAACCTTCACCCTAAACCT
1 TAAACCTTAACCCCAAACCA
7301829 TAAA
1 TAAA
7301833 TATATATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAACCTTAACCCCAAACCA
Found at i:7302059 original size:21 final size:21
Alignment explanation
Indices: 7302020--7302059 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7302010 CTCTAAATCA
*
7302020 TAAACCCTAAACTAAAAACTC
1 TAAACCCTAAAATAAAAACTC
7302041 TAAACCC-AAAATAATAAAC
1 TAAACCCTAAAATAA-AAAC
7302060 ATTATATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.17
Consensus pattern (21 bp):
TAAACCCTAAAATAAAAACTC
Found at i:7302106 original size:14 final size:14
Alignment explanation
Indices: 7302076--7302123 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
7302066 TCATAAACCC
*
7302076 TAAACCATAGA-CAT
1 TAAACCATAAATC-T
*
7302090 TAAACCTTAAATCT
1 TAAACCATAAATCT
*
7302104 TAAATCATAAATCT
1 TAAACCATAAATCT
7302118 TAAACC
1 TAAACC
7302124 CCAAAATAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 27 0.96
15 1 0.04
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.29
Consensus pattern (14 bp):
TAAACCATAAATCT
Found at i:7302670 original size:21 final size:21
Alignment explanation
Indices: 7302644--7302701 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
7302634 ATTTACCATT
* *
7302644 AAACCCTAACTTCTAAACCCC
1 AAACCCTAAATTATAAACCCC
*
7302665 AAACCCTAAATTATAAACCCT
1 AAACCCTAAATTATAAACCCC
* *
7302686 AAACCATAAAGTATAA
1 AAACCCTAAATTATAA
7302702 GCACTAAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.21
Consensus pattern (21 bp):
AAACCCTAAATTATAAACCCC
Found at i:7302694 original size:14 final size:14
Alignment explanation
Indices: 7302665--7302745 Score: 51
Period size: 14 Copynumber: 5.8 Consensus size: 14
7302655 TCTAAACCCC
**
7302665 AAACCCTAAATTAT
1 AAACCCTAAACCAT
7302679 AAACCCTAAACCAT
1 AAACCCTAAACCAT
* *
7302693 AAA--GTATAAGCACT
1 AAACCCTA-AACCA-T
** *
7302707 AAACTATAAACCCT
1 AAACCCTAAACCAT
7302721 AAACCCTAAACCAT
1 AAACCCTAAACCAT
7302735 -AACCCATAAAC
1 AAACCC-TAAAC
7302746 TAAATTGATT
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
12 2 0.04
13 9 0.17
14 36 0.69
15 3 0.06
16 2 0.04
ACGTcount: A:0.51, C:0.28, G:0.02, T:0.19
Consensus pattern (14 bp):
AAACCCTAAACCAT
Found at i:7302708 original size:21 final size:21
Alignment explanation
Indices: 7302665--7302736 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
7302655 TCTAAACCCC
* * *
7302665 AAACCCTAAATTATAAACCCT
1 AAACCATAAAGTATAAACACT
*
7302686 AAACCATAAAGTATAAGCACT
1 AAACCATAAAGTATAAACACT
* *** *
7302707 AAACTATAAACCCTAAACCCT
1 AAACCATAAAGTATAAACACT
7302728 AAACCATAA
1 AAACCATAA
7302737 CCCATAAACT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.51, C:0.26, G:0.03, T:0.19
Consensus pattern (21 bp):
AAACCATAAAGTATAAACACT
Found at i:7302744 original size:21 final size:21
Alignment explanation
Indices: 7302677--7302745 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
7302667 ACCCTAAATT
***
7302677 ATAAACCCTAAACCATAAAGT
1 ATAAACCCTAAACCATAACCC
* * *
7302698 ATAAGCACTAAACTATAAACCC
1 ATAAACCCTAAACCAT-AACCC
7302720 -TAAACCCTAAACCATAACCC
1 ATAAACCCTAAACCATAACCC
7302740 ATAAAC
1 ATAAAC
7302746 TAAATTGATT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
20 5 0.14
21 30 0.81
22 2 0.05
ACGTcount: A:0.51, C:0.29, G:0.03, T:0.17
Consensus pattern (21 bp):
ATAAACCCTAAACCATAACCC
Found at i:7302885 original size:40 final size:40
Alignment explanation
Indices: 7302839--7303036 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
7302829 ATTTTTTGCG
*
7302839 GCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCA
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCA
* * * * *
7302879 GTGTTTTTCAAAAAGCGCCGCTAATGGTAGACCTATAGCG
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCA
*
7302919 GCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAACGGATCTATA
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTAT-A--G--C---A
* * * *
7302967 GCGGCGTTTTTCAAAAAGCACCACTAGTGCTCGATCTATAGCG
1 ---GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCA
*
7303010 GCGTTTTTCAAAAAGCGCCACTAATGC
1 GCGTTTTTCAAAAAGCGCCGCTAATGC
7303037 CACTGAAGCT
Statistics
Matches: 130, Mismatches: 17, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
40 90 0.69
41 1 0.01
43 1 0.01
45 1 0.01
46 1 0.01
48 1 0.01
50 1 0.01
51 34 0.26
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (40 bp):
GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCA
Found at i:7303006 original size:91 final size:91
Alignment explanation
Indices: 7302868--7303036 Score: 266
Period size: 91 Copynumber: 1.9 Consensus size: 91
7302858 GCTAATGCTC
* * * *
7302868 GATCTATAGCAGTGTTTTTCAAAAAGCGCCGCTAATGGTAGACCTATAGCGGCGTTTTTCAAAAA
1 GATCTATAGCAGCGTTTTTCAAAAAGCACCACTAATGCTAGACCTATAGCGGCGTTTTTCAAAAA
7302933 GCGCCACTAATGCTCGATCTATAACG
66 GCGCCACTAATGCTCGATCTATAACG
* * * *
7302959 GATCTATAGCGGCGTTTTTCAAAAAGCACCACTAGTGCTCGATCTATAGCGGCGTTTTTCAAAAA
1 GATCTATAGCAGCGTTTTTCAAAAAGCACCACTAATGCTAGACCTATAGCGGCGTTTTTCAAAAA
7303024 GCGCCACTAATGC
66 GCGCCACTAATGC
7303037 CACTGAAGCT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 70 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (91 bp):
GATCTATAGCAGCGTTTTTCAAAAAGCACCACTAATGCTAGACCTATAGCGGCGTTTTTCAAAAA
GCGCCACTAATGCTCGATCTATAACG
Found at i:7303130 original size:40 final size:40
Alignment explanation
Indices: 7303086--7303171 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
7303076 TTTTTGTAGT
* * * *
7303086 ATTTTTTAAAAAGTGTCGCTGATGCTCGATCTATAGCGGC
1 ATTTTTCAAAAAGCGTCGCTAATACTCGATCTATAGCGGC
*
7303126 ATTTTTCAAAATGCGTCGCTAATACTCGATCTATAGCGGC
1 ATTTTTCAAAAAGCGTCGCTAATACTCGATCTATAGCGGC
*
7303166 GTTTTT
1 ATTTTT
7303172 AGTCCTAGCG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (40 bp):
ATTTTTCAAAAAGCGTCGCTAATACTCGATCTATAGCGGC
Found at i:7305508 original size:18 final size:19
Alignment explanation
Indices: 7305487--7305524 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
7305477 TATAAATATT
*
7305487 AAATTAAA-TAATTAATTC
1 AAATTAAACAAATTAATTC
7305505 AAATTAAACAAATTAATTC
1 AAATTAAACAAATTAATTC
7305524 A
1 A
7305525 CATATACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATTAAACAAATTAATTC
Found at i:7305742 original size:11 final size:11
Alignment explanation
Indices: 7305726--7305750 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7305716 TTTAATTATT
7305726 AAATAAAATAA
1 AAATAAAATAA
7305737 AAATAAAATAA
1 AAATAAAATAA
7305748 AAA
1 AAA
7305751 ACTATTATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:7306007 original size:79 final size:81
Alignment explanation
Indices: 7305852--7306007 Score: 208
Period size: 79 Copynumber: 1.9 Consensus size: 81
7305842 TATAGTTCAC
* **
7305852 CAATTTTTATATTTAATTTATTTACCTTGAGCTTTTACTTTATAATAATTTTTTATTCAGTTTTG
1 CAATTTTTATATTTAATTTATTTACCTTGAGCTTTTA-TTTATAAAAAAATTTTATTCAGTTTTG
7305917 GTTTGATTTTATGTTGA
65 GTTTGATTTTATGTTGA
** * * * *
7305934 CAATTTTTATATTTTGTTTATTTCCCTTGTGC-TTT-TTTATAAAAAAATTTTATTTAGTTTTTG
1 CAATTTTTATATTTAATTTATTTACCTTGAGCTTTTATTTATAAAAAAATTTTATTCAGTTTTGG
7305997 TTTGATTTTAT
66 TTTGATTTTAT
7306008 ATAATAATTT
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
79 34 0.52
81 3 0.05
82 28 0.43
ACGTcount: A:0.24, C:0.07, G:0.09, T:0.60
Consensus pattern (81 bp):
CAATTTTTATATTTAATTTATTTACCTTGAGCTTTTATTTATAAAAAAATTTTATTCAGTTTTGG
TTTGATTTTATGTTGA
Found at i:7311206 original size:37 final size:37
Alignment explanation
Indices: 7311148--7311224 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
7311138 AGATTCACCG
* *
7311148 TCTTCGATCTGTTCTCTGCCGCTACAGAGACGCCAAA
1 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA
*
7311185 TCTTTGATCTGCTCTCCGCCGCTACAGAGACGCCAAA
1 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA
7311222 TCT
1 TCT
7311225 GTTATCTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.21, C:0.34, G:0.18, T:0.27
Consensus pattern (37 bp):
TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA
Found at i:7311669 original size:133 final size:133
Alignment explanation
Indices: 7311272--7311672 Score: 651
Period size: 133 Copynumber: 3.0 Consensus size: 133
7311262 AATCTTGGGT
* * * * *
7311272 CTACTCCACTACAACTTTAGGGAGCTAGGGTGGTGACTTAAATCTGCTTCGCTGCAATATCAAGA
1 CTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACATCAGGA
* * * * *
7311337 AACCTAAATCCGCCATCTTCGATCTGCTCCACTGCAATCTCAGGGAAACAAGATCTACAATCTTC
66 AACCTAGATTCGCCGTCTTCGATCTGATCCACTACAATCTCAGGGAAACAAGATCTACAATCTTC
*
7311402 AAC
131 AGC
*
7311405 CTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTACTTCACTGCAACATCAGGA
1 CTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACATCAGGA
* *
7311470 AGCCTAGATTCGCTGTCTTCGATCTGATCCACTACAATCTCAGGGAAACAAGATCTACAATCTTC
66 AACCTAGATTCGCCGTCTTCGATCTGATCCACTACAATCTCAGGGAAACAAGATCTACAATCTTC
7311535 AGC
131 AGC
*
7311538 CTACTCTACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTTC-CTGCAACATCAGG
1 CTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGC-TTCACTGCAACATCAGG
7311602 AAACCTAGATTCGCCGTCTTCGATCTGATCCACTACAATCTCAGGGAAACAAGATCTACAATCTT
65 AAACCTAGATTCGCCGTCTTCGATCTGATCCACTACAATCTCAGGGAAACAAGATCTACAATCTT
7311667 CAGC
130 CAGC
7311671 CT
1 CT
7311673 GTTGCCCCAC
Statistics
Matches: 249, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
133 246 0.99
134 3 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (133 bp):
CTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACATCAGGA
AACCTAGATTCGCCGTCTTCGATCTGATCCACTACAATCTCAGGGAAACAAGATCTACAATCTTC
AGC
Found at i:7316394 original size:24 final size:26
Alignment explanation
Indices: 7316367--7316425 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
7316357 TTTATTTCAT
7316367 TAAAT-AAA-AAAGTTAAAAATATAA
1 TAAATCAAATAAAGTTAAAAATATAA
* *
7316391 TAAATCAAATATATTTAAAAATATAA
1 TAAATCAAATAAAGTTAAAAATATAA
7316417 -AAA-CAAATA
1 TAAATCAAATA
7316426 TTAAAACAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 11 0.35
25 6 0.19
26 14 0.45
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (26 bp):
TAAATCAAATAAAGTTAAAAATATAA
Found at i:7316409 original size:26 final size:24
Alignment explanation
Indices: 7316379--7316426 Score: 78
Period size: 26 Copynumber: 1.9 Consensus size: 24
7316369 AATAAAAAAG
7316379 TTAAAAATATAATAAATCAAATATAT
1 TTAAAAATATAA-AAA-CAAATATAT
7316405 TTAAAAATATAAAAACAAATAT
1 TTAAAAATATAAAAACAAATAT
7316427 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (24 bp):
TTAAAAATATAAAAACAAATATAT
Found at i:7316424 original size:12 final size:12
Alignment explanation
Indices: 7316409--7316441 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7316399 ATATATTTAA
7316409 AAATATAAAAAC
1 AAATATAAAAAC
*
7316421 AAATATTAAAAC
1 AAATATAAAAAC
7316433 AAATA-AAAA
1 AAATATAAAA
7316442 TAATACTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 3 0.16
12 16 0.84
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (12 bp):
AAATATAAAAAC
Found at i:7316436 original size:24 final size:25
Alignment explanation
Indices: 7316381--7316442 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 25
7316371 TAAAAAAGTT
**
7316381 AAAAATATAATAAATCAAATATATTT
1 AAAAATATAA-AAATCAAATATATAA
7316407 AAAAATATAAAAA-CAAATAT-TAA
1 AAAAATATAAAAATCAAATATATAA
*
7316430 AACAA-ATAAAAAT
1 AAAAATATAAAAAT
7316443 AATACTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 7 0.22
23 5 0.16
24 7 0.22
25 3 0.09
26 10 0.31
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (25 bp):
AAAAATATAAAAATCAAATATATAA
Found at i:7316446 original size:21 final size:21
Alignment explanation
Indices: 7316397--7316455 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
7316387 ATAATAAATC
*
7316397 AAAT-ATATTTAAAA-ATATAA
1 AAATAATA-TTAAAACAAATAA
*
7316417 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
7316439 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
7316456 TTCTTAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:7325486 original size:2 final size:2
Alignment explanation
Indices: 7325435--7325469 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7325425 GGTATTTAAA
7325435 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7325470 GTATTTAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7325540 original size:24 final size:25
Alignment explanation
Indices: 7325488--7325541 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
7325478 GAATATATAC
* *
7325488 ATAAGAAATATATAACTAATGGCAT
1 ATAAAAAATATATAACTAATGACAT
7325513 -TAAAAAATATAT-ACATAAT-ACAT
1 ATAAAAAATATATAAC-TAATGACAT
7325536 ATAAAA
1 ATAAAA
7325542 TACCTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (25 bp):
ATAAAAAATATATAACTAATGACAT
Found at i:7326078 original size:35 final size:32
Alignment explanation
Indices: 7326032--7326106 Score: 123
Period size: 35 Copynumber: 2.2 Consensus size: 32
7326022 GGGTTTTTTA
7326032 TTTTTTTTTGGGTTAGGTTTTTCTTTTTCTTCTT
1 TTTTTTTTTGGGTTAGGTTTTTC-TTTT-TTCTT
7326066 CTTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTT
1 -TTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTT
7326099 TTTTTTTT
1 TTTTTTTT
7326107 GGAGGGGGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
32 8 0.20
33 5 0.12
34 4 0.10
35 23 0.57
ACGTcount: A:0.03, C:0.08, G:0.13, T:0.76
Consensus pattern (32 bp):
TTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTT
Found at i:7326985 original size:74 final size:74
Alignment explanation
Indices: 7326862--7327235 Score: 462
Period size: 74 Copynumber: 4.9 Consensus size: 74
7326852 TTGAAAAACG
* * *
7326862 GAAATTGAAAATACCT-TGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATT
1 GAAATTGAAAATACCTCAG-CGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
7326926 TTTTTTACAACA
63 TTTTTAACAACA
*
7326938 GAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
7327003 TGAAACATACGA
66 T-TAACA-AC-A
* * * *
7327015 AAAATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
7327080 TTGACAACA
66 TTAACAACA
* *
7327089 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
7327154 TTGAAAAATA
66 TT-AACAACA
* * * *
7327164 TAAATTGAGAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 GAAATT--GAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
7327229 GTTTTTT
62 -TTTTTT
7327236 TTTTTCTGAA
Statistics
Matches: 260, Mismatches: 28, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
74 102 0.39
75 14 0.05
76 25 0.10
77 80 0.31
79 33 0.13
80 6 0.02
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (74 bp):
GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TTAACAACA
Found at i:7327139 original size:151 final size:151
Alignment explanation
Indices: 7326863--7327235 Score: 504
Period size: 151 Copynumber: 2.5 Consensus size: 151
7326853 TGAAAAACGG
* * *
7326863 AAATT-GAAAATACCT-TGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATT
1 AAATTAGAAAATACCTCAG-CGTGT-ACCCGAGGCTCAACTCACCTCTCGCAATACGAGTTGATT
* *
7326926 TTTTTTACAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
64 TTTTTGACAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACATCTCGCAATAT
7326991 GAGTTGA-TTTTTTGAAACATACGAA
129 GAGTTGATTTTTTTGAAA-A-A-GAA
*
7327016 AAATT-GACAATACCTCAGCGTGT-CCCGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
1 AAATTAGAAAATACCTCAGCGTGTACCCGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
* *
7327079 TTTGACAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACATCTCGCAATGTGA
66 TTTGACAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACATCTCGCAATATGA
* *
7327144 GTTGATTTTTTTGAAAAATAT
131 GTTGATTTTTTTGAAAAAGAA
* * * * *
7327165 AAATTGAGAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATG
1 AAATT-AGAAAATACCTCAGCGTGT-ACCCGAGGCTCAACTCACCTCTCGCAATACGAGTTGAT-
7327230 TTTTTT
63 TTTTTT
7327236 TTTTTCTGAA
Statistics
Matches: 197, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
149 6 0.03
150 1 0.01
151 121 0.61
152 10 0.05
153 52 0.26
154 7 0.04
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (151 bp):
AAATTAGAAAATACCTCAGCGTGTACCCGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
TTTGACAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACATCTCGCAATATGA
GTTGATTTTTTTGAAAAAGAA
Found at i:7327392 original size:72 final size:73
Alignment explanation
Indices: 7327312--7327453 Score: 259
Period size: 72 Copynumber: 2.0 Consensus size: 73
7327302 ACTCATTTTG
*
7327312 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGTTCAACTCATTTCTCGCAATATGAGTTG-A
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
7327376 ATTTTGAA
66 ATTTTGAA
*
7327384 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
7327449 ATTTT
66 ATTTT
7327454 TTTTTTTGAA
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
72 61 0.91
73 6 0.09
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (73 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
ATTTTGAA
Found at i:7327474 original size:81 final size:81
Alignment explanation
Indices: 7327377--7327526 Score: 214
Period size: 83 Copynumber: 1.8 Consensus size: 81
7327367 ATGAGTTGAA
* * * **
7327377 TTTTGAAAACAGAAATTGAAATTACCTCA-ATGTG-TCTTGAGGCTCAACTCATTTCTCGCAATA
1 TTTTGAAAACAGAAATTGAAAATACCTCACATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATA
7327440 TGAGTTGAAATTTTTTT
65 TGAGTTGAAATTTTTTT
7327457 TTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAAT
1 TTTTGAAA-ACAGAAATTGAAAATACCTCA-CATGTGAACCGAGGCTCAACTCACCTCTCGCAAT
7327522 ATGAG
64 ATGAG
7327527 CTGATTTTGA
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
80 8 0.13
81 20 0.33
83 32 0.52
84 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (81 bp):
TTTTGAAAACAGAAATTGAAAATACCTCACATGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGAAATTTTTTT
Found at i:7327603 original size:54 final size:55
Alignment explanation
Indices: 7327503--7327608 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 55
7327493 GAACCGAGGC
* *
7327503 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * *
7327557 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAATAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
7327609 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 34 0.76
55 11 0.24
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:7327615 original size:13 final size:13
Alignment explanation
Indices: 7327588--7327621 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
7327578 GAGTTGATTC
*
7327588 TTGAATAACATAAA
1 TTGAA-AACAGAAA
7327602 TTGAAAACAGAAA
1 TTGAAAACAGAAA
7327615 TTGAAAA
1 TTGAAAA
7327622 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:7327669 original size:140 final size:140
Alignment explanation
Indices: 7327459--7327946 Score: 888
Period size: 140 Copynumber: 3.5 Consensus size: 140
7327449 ATTTTTTTTT
7327459 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
*
7327523 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTC
* *
7327588 TTGAATAACATAAA
127 TTGAACAACGTAAA
*
7327602 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
7327667 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
7327732 ACAACGTAAA
131 ACAACGTAAA
7327742 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
7327807 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCATTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
7327872 ACAACGTAAA
131 ACAACGTAAA
7327882 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
7327947 TTGAAATTAA
Statistics
Matches: 338, Mismatches: 6, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
139 3 0.01
140 306 0.91
142 23 0.07
143 6 0.02
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
ACAACGTAAA
Found at i:7328013 original size:72 final size:71
Alignment explanation
Indices: 7327879--7328044 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
7327869 TGAACAACGT
* * * *
7327879 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
7327944 GAGTTG
66 GAGTTG
*
7327950 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
7328015 TGAGTTG
65 TGAGTTG
**
7328022 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
7328045 GGCTTAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:7335533 original size:24 final size:24
Alignment explanation
Indices: 7335472--7335539 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
7335462 TTTGGTAATA
7335472 ATAATATAAAATA-ATAATATGTAC
1 ATAA-ATAAAATATATAATATGTAC
*
7335496 ATAAA-AATACATATAT-ATATGTGC
1 ATAAATAA-A-ATATATAATATGTAC
*
7335520 ATATAATAAAATATGTAATA
1 ATA-AATAAAATATATAATA
7335540 ATAGTAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
22 2 0.06
23 2 0.06
24 22 0.61
25 8 0.22
26 2 0.06
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (24 bp):
ATAAATAAAATATATAATATGTAC
Found at i:7335827 original size:2 final size:2
Alignment explanation
Indices: 7335765--7335812 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
7335755 GGTATTTAAA
*
7335765 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7335806 AT AT AT A
1 AT AT AT A
7335813 CATAAGAAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:7335866 original size:24 final size:25
Alignment explanation
Indices: 7335814--7335867 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
7335804 GAATATATAC
* *
7335814 ATAAGAAATATATAACTAATGGCAT
1 ATAAAAAATATATAACTAATGACAT
7335839 -TAAAAAATATAT-ACATAAT-ACAT
1 ATAAAAAATATATAAC-TAATGACAT
7335862 ATAAAA
1 ATAAAA
7335868 TACCTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (25 bp):
ATAAAAAATATATAACTAATGACAT
Found at i:7336392 original size:34 final size:33
Alignment explanation
Indices: 7336354--7336427 Score: 139
Period size: 34 Copynumber: 2.2 Consensus size: 33
7336344 GGGTTTTTTA
7336354 TTTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTT
1 TTTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTT
7336387 CTTTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTT
1 -TTTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTT
7336421 TTTTTTT
1 TTTTTTT
7336428 GGAGGGGGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 7 0.17
34 33 0.82
ACGTcount: A:0.03, C:0.07, G:0.14, T:0.77
Consensus pattern (33 bp):
TTTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTT
Found at i:7343598 original size:22 final size:22
Alignment explanation
Indices: 7343573--7343620 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7343563 AATTTATTTT
*
7343573 TAAAA-AATTACTAATATAAATA
1 TAAAATAATTA-TAAAATAAATA
*
7343595 TAAAATAATTATAAAATAAGTA
1 TAAAATAATTATAAAATAAATA
7343617 TAAA
1 TAAA
7343621 TATATGCCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATAATTATAAAATAAATA
Found at i:7343607 original size:11 final size:11
Alignment explanation
Indices: 7343573--7343620 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
7343563 AATTTATTTT
7343573 TAAAA-AATTA
1 TAAAATAATTA
* *
7343583 CTAATATAAATA
1 -TAAAATAATTA
7343595 TAAAATAATTA
1 TAAAATAATTA
*
7343606 TAAAATAAGTA
1 TAAAATAATTA
7343617 TAAA
1 TAAA
7343621 TATATGCCTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 27 0.87
12 4 0.13
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (11 bp):
TAAAATAATTA
Found at i:7343815 original size:18 final size:17
Alignment explanation
Indices: 7343787--7343846 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
7343777 CCAAACTAAA
7343787 AAAATTATAAAATTATTT
1 AAAA-TATAAAATTATTT
*
7343805 AAAGATAT-AAATATACTT
1 AAA-ATATAAAAT-TATTT
7343823 AAAATA-AAAATTATTTT
1 AAAATATAAAATTA-TTT
7343840 AAAATAT
1 AAAATAT
7343847 TTTCTCAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
16 2 0.06
17 19 0.54
18 13 0.37
19 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
AAAATATAAAATTATTT
Found at i:7344214 original size:2 final size:2
Alignment explanation
Indices: 7344207--7344242 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7344197 TACATAAAGA
7344207 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7344243 TTGTTTTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7350989 original size:7 final size:7
Alignment explanation
Indices: 7350969--7351005 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
7350959 CACTAGGGGG
7350969 GGAGGGA
1 GGAGGGA
**
7350976 GCCGGGA
1 GGAGGGA
7350983 GGAGGGA
1 GGAGGGA
7350990 GGAGGGA
1 GGAGGGA
7350997 GGAGGGA
1 GGAGGGA
7351004 GG
1 GG
7351006 GGATTGGACG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.24, C:0.05, G:0.70, T:0.00
Consensus pattern (7 bp):
GGAGGGA
Found at i:7359837 original size:31 final size:31
Alignment explanation
Indices: 7359802--7359861 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
7359792 TCAAGGAAGA
* *
7359802 TCAAAGA-TGAAGTTAAATTTGATTTTTAATT
1 TCAAAGAGT-AAGTCAAATATGATTTTTAATT
7359833 TCAAAGAGTAAGTCAAATATGATTTTTAA
1 TCAAAGAGTAAGTCAAATATGATTTTTAA
7359862 AAGGGTAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.40
Consensus pattern (31 bp):
TCAAAGAGTAAGTCAAATATGATTTTTAATT
Found at i:7362279 original size:17 final size:16
Alignment explanation
Indices: 7362253--7362284 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
7362243 TGATAGATCT
7362253 CCAACGAGCTTCCAAC
1 CCAACGAGCTTCCAAC
7362269 CCAATCGAGCTTCCAA
1 CCAA-CGAGCTTCCAA
7362285 TAATCTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.31, C:0.41, G:0.12, T:0.16
Consensus pattern (16 bp):
CCAACGAGCTTCCAAC
Found at i:7362568 original size:23 final size:23
Alignment explanation
Indices: 7362542--7362588 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
7362532 CATAAAACTA
*
7362542 TGAATAACTTCTTTTACTTACTT
1 TGAATAACTTCCTTTACTTACTT
7362565 TGAATAACTTCCTTTACTTACTT
1 TGAATAACTTCCTTTACTTACTT
7362588 T
1 T
7362589 CCATTCCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.04, T:0.51
Consensus pattern (23 bp):
TGAATAACTTCCTTTACTTACTT
Found at i:7363288 original size:2 final size:2
Alignment explanation
Indices: 7363281--7363327 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
7363271 TATCACATTT
7363281 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
7363323 AC AC A
1 AC AC A
7363328 TATATATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:7368673 original size:17 final size:18
Alignment explanation
Indices: 7368646--7368681 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
7368636 CAATTCTTAC
*
7368646 ATTTTTCTTGAAATTTTT
1 ATTTTTCTTGAAACTTTT
7368664 ATTTTT-TTGAAACTTTT
1 ATTTTTCTTGAAACTTTT
7368681 A
1 A
7368682 CAATTAGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.64
Consensus pattern (18 bp):
ATTTTTCTTGAAACTTTT
Found at i:7371805 original size:58 final size:57
Alignment explanation
Indices: 7371723--7371866 Score: 157
Period size: 57 Copynumber: 2.5 Consensus size: 57
7371713 CTCATTACAG
* * * **
7371723 AAAGGATTTAGCCCAGACGAGTAATCTTGAT-ATAGATCCTCTCGAGCATATGTCATGG
1 AAAGGATTTAGCCCTGACGGGTAATCTTGATCA-AGATCCT-TAGAGCATATGTCATAA
* ** *
7371781 ATAGGATTTAGCCCTGACGGGTAATCCAGATCAAGCTCCTTAGAGCATATGTCATAA
1 AAAGGATTTAGCCCTGACGGGTAATCTTGATCAAGATCCTTAGAGCATATGTCATAA
*
7371838 AAAGGATTTAG-CCTGGACCGGTAATCTTG
1 AAAGGATTTAGCCCT-GACGGGTAATCTTG
7371867 TTGTATACAT
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
56 3 0.04
57 35 0.49
58 32 0.45
59 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (57 bp):
AAAGGATTTAGCCCTGACGGGTAATCTTGATCAAGATCCTTAGAGCATATGTCATAA
Found at i:7373535 original size:18 final size:18
Alignment explanation
Indices: 7373512--7373546 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
7373502 CTAATACAAC
7373512 AAAATAAACAAAGATTGA
1 AAAATAAACAAAGATTGA
7373530 AAAATAAACAAAGATTG
1 AAAATAAACAAAGATTG
7373547 TCGTGAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.66, C:0.06, G:0.11, T:0.17
Consensus pattern (18 bp):
AAAATAAACAAAGATTGA
Found at i:7380219 original size:18 final size:20
Alignment explanation
Indices: 7380177--7380213 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7380167 ATATTTTATG
*
7380177 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
7380196 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
7380214 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:7382470 original size:30 final size:28
Alignment explanation
Indices: 7382406--7382470 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 28
7382396 GTTGAAAGAT
* *
7382406 ACCATGGCAACCTGATATGAAATGTGAT
1 ACCATGGCAACCTGATATGAAATGTAAG
*
7382434 ACCATGGCAGCCTGATATGAAACGTGTAAG
1 ACCATGGCAACCTGATATGAAA--TGTAAG
7382464 ACCATGG
1 ACCATGG
7382471 TTGAAAGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 21 0.66
30 11 0.34
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.22
Consensus pattern (28 bp):
ACCATGGCAACCTGATATGAAATGTAAG
Found at i:7382483 original size:46 final size:46
Alignment explanation
Indices: 7382431--7382677 Score: 305
Period size: 46 Copynumber: 5.4 Consensus size: 46
7382421 TATGAAATGT
* * * *
7382431 GATACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAA
1 GATACCATGGCAGCATGACATGAAATGAGTAAGACCATGGTTGAAA
* * *
7382477 GATACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTTGAAA
1 GATACCATGGCAGCATGACATGAAATGAGTAAGACCATGGTTGAAA
* ** * *
7382523 GATACCATGGCAACATGACGGGAAATAAATAAGACCATGGTTGAAA
1 GATACCATGGCAGCATGACATGAAATGAGTAAGACCATGGTTGAAA
* *
7382569 GATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAA
1 GATACCATGGCAGCATGACATGAAATGAGTAAGACCATGGTTGAAA
* ** *
7382615 GATACCATGGCAACATGACAAAAAATGAGTAAGACCATAGTTGAAA
1 GATACCATGGCAGCATGACATGAAATGAGTAAGACCATGGTTGAAA
* * *
7382661 GACACTATGGCATCATG
1 GATACCATGGCAGCATG
7382678 TCAAAGATAA
Statistics
Matches: 178, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 178 1.00
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.20
Consensus pattern (46 bp):
GATACCATGGCAGCATGACATGAAATGAGTAAGACCATGGTTGAAA
Found at i:7386927 original size:52 final size:48
Alignment explanation
Indices: 7386848--7387054 Score: 186
Period size: 47 Copynumber: 4.2 Consensus size: 48
7386838 CCATGACAGC
* * * * * *
7386848 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTTGG
1 ATGTGATATGTG-CTTCCGTATAAGACCATATCTGGGATATGGCATCGG
*
7386897 ACAAATGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 ----ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
* * *
7386949 -TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
* * * ** * *
7386996 -TGTGATACGTG-ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
7387042 TATGTGATATGTG
1 -ATGTGATATGTG
7387055 ACTATGTGCA
Statistics
Matches: 130, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
46 26 0.20
47 53 0.41
48 10 0.08
52 30 0.23
53 11 0.08
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (48 bp):
ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
Found at i:7390068 original size:20 final size:20
Alignment explanation
Indices: 7390039--7390085 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
7390029 GTACGTGTTT
*
7390039 TAATTTTTTTATATATA-GAG
1 TAATTATTTTATAT-TAGGAG
*
7390059 TAATTATTTTTTATTAGGAG
1 TAATTATTTTATATTAGGAG
7390079 TAATTAT
1 TAATTAT
7390086 AGATAAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (20 bp):
TAATTATTTTATATTAGGAG
Found at i:7390593 original size:18 final size:18
Alignment explanation
Indices: 7390550--7390613 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
7390540 TTTAAAATTT
* *
7390550 ATTAGAAAAATAG-AATA
1 ATTATAAAAATAGTAAAA
7390567 ATTATAAAAATAGTAAAA
1 ATTATAAAAATAGTAAAA
* *
7390585 A-TATAAAAAATGGTAAAT
1 ATTAT-AAAAATAGTAAAA
*
7390603 TTTATAAAAAT
1 ATTATAAAAAT
7390614 CAATGACAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
17 15 0.38
18 21 0.54
19 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (18 bp):
ATTATAAAAATAGTAAAA
Found at i:7390747 original size:27 final size:27
Alignment explanation
Indices: 7390717--7390775 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
7390707 CAAAAGAAGC
7390717 ATTTTATAATT-TTTATATTTTTTATGA
1 ATTTTATAATTCTTTATATTTTTTAT-A
*
7390744 ATTTTATATTTCTTTATATTTTTTATA
1 ATTTTATAATTCTTTATATTTTTTATA
7390771 ATTTT
1 ATTTT
7390776 CTTGCCACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 16 0.53
28 14 0.47
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (27 bp):
ATTTTATAATTCTTTATATTTTTTATA
Found at i:7390759 original size:10 final size:9
Alignment explanation
Indices: 7390718--7390775 Score: 64
Period size: 9 Copynumber: 6.2 Consensus size: 9
7390708 AAAAGAAGCA
*
7390718 TTTTATAAT
1 TTTTATATT
7390727 TTTTATATT
1 TTTTATATT
*
7390736 TTTTATGA-A
1 TTTTAT-ATT
7390745 TTTTATATT
1 TTTTATATT
7390754 TCTTTATATT
1 T-TTTATATT
7390764 TTTTATAATT
1 TTTTAT-ATT
7390774 TT
1 TT
7390776 CTTGCCACTT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
8 1 0.02
9 26 0.62
10 15 0.36
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTTATATT
Found at i:7390839 original size:19 final size:18
Alignment explanation
Indices: 7390795--7390848 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 18
7390785 TTATATTATA
7390795 AAATTTTCTATATTTTTGT
1 AAATTTT-TATATTTTTGT
* *
7390814 ATA-TTTTATATTTTTTT
1 AAATTTTTATATTTTTGT
7390831 ACAATTTTTATGATTTTT
1 A-AATTTTTAT-ATTTTT
7390849 ATAACTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 11 0.38
18 4 0.14
19 8 0.28
20 6 0.21
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.67
Consensus pattern (18 bp):
AAATTTTTATATTTTTGT
Found at i:7390857 original size:19 final size:19
Alignment explanation
Indices: 7390790--7390851 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 19
7390780 CCACTTTATA
*
7390790 TTATAAAATTTTCTATATTT
1 TTATACAATTTT-TATATTT
* *
7390810 TTGTA-TA-TTTTATATTT
1 TTATACAATTTTTATATTT
*
7390827 TTTTACAATTTTTATGATTT
1 TTATACAATTTTTAT-ATTT
7390847 TTATA
1 TTATA
7390852 ACTTTTCCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 11 0.32
18 4 0.12
19 7 0.21
20 12 0.35
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
TTATACAATTTTTATATTT
Found at i:7392587 original size:2 final size:2
Alignment explanation
Indices: 7392580--7392604 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7392570 CAATGCATTA
7392580 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7392605 AAGTTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7393005 original size:33 final size:33
Alignment explanation
Indices: 7392963--7393030 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
7392953 TTTAACATAT
7392963 GATTGCAAATAATGTTGTTTATGGGTATGATGA
1 GATTGCAAATAATGTTGTTTATGGGTATGATGA
7392996 GATTGCAAATAATGTTGTTTATGGGTATGATGA
1 GATTGCAAATAATGTTGTTTATGGGTATGATGA
7393029 GA
1 GA
7393031 ATGTGCATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.31, C:0.03, G:0.28, T:0.38
Consensus pattern (33 bp):
GATTGCAAATAATGTTGTTTATGGGTATGATGA
Found at i:7393606 original size:2 final size:2
Alignment explanation
Indices: 7393599--7393640 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
7393589 CCAAAAAGAA
7393599 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7393640 A
1 A
7393641 GCCTACATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7394504 original size:1 final size:1
Alignment explanation
Indices: 7394498--7394522 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
7394488 ATTTAAATGT
7394498 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
7394523 CGAAAAGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:7396657 original size:16 final size:17
Alignment explanation
Indices: 7396636--7396668 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7396626 CAACATATTG
7396636 CAAAAT-TTTGATAAAT
1 CAAAATATTTGATAAAT
7396652 CAAAATATTTGATAAAT
1 CAAAATATTTGATAAAT
7396669 TGTTTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
CAAAATATTTGATAAAT
Found at i:7397740 original size:2 final size:2
Alignment explanation
Indices: 7397733--7397765 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7397723 TATGTATAGA
7397733 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7397766 AGAAATTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7406008 original size:7 final size:7
Alignment explanation
Indices: 7405998--7406028 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
7405988 TCATTTATCA
7405998 ATTTAAC
1 ATTTAAC
7406005 ATTTAAC
1 ATTTAAC
7406012 ATTTAAC
1 ATTTAAC
7406019 ATTTAAC
1 ATTTAAC
7406026 ATT
1 ATT
7406029 AAAGTTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (7 bp):
ATTTAAC
Found at i:7409451 original size:33 final size:34
Alignment explanation
Indices: 7409380--7409458 Score: 92
Period size: 33 Copynumber: 2.4 Consensus size: 34
7409370 GGTTCACTTT
* *
7409380 TTCAATTCAATATCACTTTCAATTCATTTACGAA
1 TTCAATTCAATATCACTTTCAATTAATATACGAA
*
7409414 -TCAATTCAATTTCACTTTTC-ATTAATATAC-AA
1 TTCAATTCAATATCAC-TTTCAATTAATATACGAA
7409446 TTCAATATCAATA
1 TTCAAT-TCAATA
7409459 CTTATCCATC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
32 2 0.05
33 27 0.71
34 9 0.24
ACGTcount: A:0.38, C:0.19, G:0.01, T:0.42
Consensus pattern (34 bp):
TTCAATTCAATATCACTTTCAATTAATATACGAA
Found at i:7410635 original size:31 final size:34
Alignment explanation
Indices: 7410592--7410670 Score: 85
Period size: 35 Copynumber: 2.4 Consensus size: 34
7410582 TTTATTTATC
* *
7410592 ATAA-AAAAATCTTATAA-T-ATAATTAT-TTAA
1 ATAATAAATATCTTATAACTAATAATTATAATAA
* *
7410622 TTAATAAATATCTTTTAACTTAATAATTATAATAA
1 ATAATAAATATCTTATAAC-TAATAATTATAATAA
7410657 ATAATAAATATCTT
1 ATAATAAATATCTT
7410671 TTTACTTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 3 0.08
31 11 0.28
33 1 0.03
34 8 0.21
35 16 0.41
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (34 bp):
ATAATAAATATCTTATAACTAATAATTATAATAA
Found at i:7410830 original size:28 final size:28
Alignment explanation
Indices: 7410763--7410848 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 28
7410753 CAATTATCTT
* * *
7410763 TATTTTATTTATTTCCTATAA--TATAA
1 TATTTTAATTAATTACTATAATTTATAA
*
7410789 TATCTTAACTTTAATTACTATAATTTATAA
1 TATTTTAA--TTAATTACTATAATTTATAA
* * *
7410819 TATTTTAATTAAATAATAT-TTTTATAA
1 TATTTTAATTAATTACTATAATTTATAA
7410846 TAT
1 TAT
7410849 AAATCAAGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
26 6 0.12
27 10 0.21
28 20 0.42
30 12 0.25
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.55
Consensus pattern (28 bp):
TATTTTAATTAATTACTATAATTTATAA
Found at i:7410850 original size:16 final size:17
Alignment explanation
Indices: 7410814--7410850 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
7410804 TACTATAATT
7410814 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
7410831 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
7410846 TATAA
1 TATAA
7410851 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:7416268 original size:21 final size:21
Alignment explanation
Indices: 7416244--7416303 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
7416234 TATAGAGGCT
7416244 TGAAGGCTGAACAGAAGCACA
1 TGAAGGCTGAACAGAAGCACA
* * * *
7416265 TGAATGCTAAACAGAAACCCA
1 TGAAGGCTGAACAGAAGCACA
* *
7416286 TGAAGGTTGAACGGAAGC
1 TGAAGGCTGAACAGAAGC
7416304 TCATAGGAGC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.42, C:0.18, G:0.27, T:0.13
Consensus pattern (21 bp):
TGAAGGCTGAACAGAAGCACA
Found at i:7416355 original size:41 final size:41
Alignment explanation
Indices: 7416270--7416391 Score: 129
Period size: 41 Copynumber: 2.9 Consensus size: 41
7416260 GCACATGAAT
* *
7416270 GCTAAACAGAAACCCATGAAGGTTGAACGGAAGCTCATAGGA
1 GCTAAACAGAAACCCAT-AAGGTTAAACGGAAGCTCATAAGA
* * * *
7416312 GCTGAACGGAAACCCATATGGTTAAACTGAAGCTCGA-AAGA
1 GCTAAACAGAAACCCATAAGGTTAAACGGAAGCTC-ATAAGA
* * *
7416353 GCTAAACAGAAACCCATTAGGGTTAAACAGAAACTCATA
1 GCTAAACAGAAACCCA-TAAGGTTAAACGGAAGCTCATA
7416392 TGAGTTAACT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 33 0.50
42 33 0.50
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (41 bp):
GCTAAACAGAAACCCATAAGGTTAAACGGAAGCTCATAAGA
Found at i:7416398 original size:21 final size:21
Alignment explanation
Indices: 7416320--7416399 Score: 58
Period size: 21 Copynumber: 3.9 Consensus size: 21
7416310 GAGCTGAACG
*
7416320 GAAACCCATATG-GTTAAACT
1 GAAACCCATATGAGTTAAACA
* * * *
7416340 GAAGCTCGA-AAGAGCTAAACA
1 GAAAC-CCATATGAGTTAAACA
*
7416361 GAAACCCAT-TAGGGTTAAACA
1 GAAACCCATAT-GAGTTAAACA
*
7416382 GAAACTCATATGAGTTAA
1 GAAACCCATATGAGTTAA
7416400 CTGAAGCTCA
Statistics
Matches: 43, Mismatches: 12, Indels: 9
0.67 0.19 0.14
Matches are distributed among these distances:
20 8 0.19
21 34 0.79
22 1 0.02
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.20
Consensus pattern (21 bp):
GAAACCCATATGAGTTAAACA
Found at i:7422411 original size:2 final size:2
Alignment explanation
Indices: 7422404--7422431 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7422394 CAAATTAAAA
7422404 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7422432 GTAAACATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7431894 original size:19 final size:20
Alignment explanation
Indices: 7431857--7431895 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
7431847 AATACTTATT
*
7431857 TATTATTTTATACATATGTA
1 TATTATTTTATACACATGTA
7431877 TATTATTTT-TACACATGTA
1 TATTATTTTATACACATGTA
7431896 CACTCAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (20 bp):
TATTATTTTATACACATGTA
Found at i:7443215 original size:16 final size:16
Alignment explanation
Indices: 7443194--7443233 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
7443184 ACAAGATTCG
7443194 TCTTAGGTTTCATTTC
1 TCTTAGGTTTCATTTC
7443210 TCTTAGGTTTCATTTC
1 TCTTAGGTTTCATTTC
7443226 TCTTAGGT
1 TCTTAGGT
7443234 ATTTAGGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.17, G:0.15, T:0.55
Consensus pattern (16 bp):
TCTTAGGTTTCATTTC
Found at i:7443998 original size:23 final size:21
Alignment explanation
Indices: 7443972--7444017 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
7443962 AAAACCCTAA
7443972 TTTCCTTCTTTTTCTTTCTCTCT
1 TTTCCTTC-TTTTCTTT-TCTCT
*
7443995 TTTCTTTCTTTTCTTTTCTCT
1 TTTCCTTCTTTTCTTTTCTCT
7444016 TT
1 TT
7444018 GTTTCGTCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.32
22 8 0.36
23 7 0.32
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTCCTTCTTTTCTTTTCTCT
Found at i:7453089 original size:42 final size:42
Alignment explanation
Indices: 7452938--7453092 Score: 136
Period size: 42 Copynumber: 3.7 Consensus size: 42
7452928 GTCATATCTT
* * * * * *
7452938 AGACATGGTCTTACATGAGATCTCATATCGATGGCAATAGCCC
1 AGACATGGTTTTACACGAAATCTCATAACGAT-GCCATATCCC
* * ** *
7452981 A-ACTATAGTTTTACACG-ATTCTCATGTCGATGCCATGTCCC
1 AGAC-ATGGTTTTACACGAAATCTCATAACGATGCCATATCCC
*
7453022 AGACATGGTTTTACATGAAATCTCATAACGATGCCATATCCC
1 AGACATGGTTTTACACGAAATCTCATAACGATGCCATATCCC
* *
7453064 ATATATGGTTTTACACGCAAA-CTCATAAC
1 AGACATGGTTTTACACG-AAATCTCATAAC
7453093 CCTAATGTCA
Statistics
Matches: 90, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
41 19 0.21
42 57 0.63
43 14 0.16
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
AGACATGGTTTTACACGAAATCTCATAACGATGCCATATCCC
Found at i:7459994 original size:12 final size:11
Alignment explanation
Indices: 7459963--7460001 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
7459953 AAATCCCTAG
*
7459963 CTTTTTTTTC-
1 CTTTTCTTTCT
7459973 CTTTTCTTTCT
1 CTTTTCTTTCT
7459984 CTTTCTCTTTCT
1 CTTT-TCTTTCT
7459996 CTTTTC
1 CTTTTC
7460002 ATCTCTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 9 0.35
11 6 0.23
12 11 0.42
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (11 bp):
CTTTTCTTTCT
Found at i:7464757 original size:3 final size:3
Alignment explanation
Indices: 7464749--7464800 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
7464739 AGATATTTAC
7464749 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7464797 TTA T
1 TTA T
7464801 AATTTACAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7467131 original size:21 final size:20
Alignment explanation
Indices: 7467093--7467131 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
7467083 TCCTAAACTT
*
7467093 ATTTTGGGACTCATAGGTCC
1 ATTTTGGGACTCAAAGGTCC
*
7467113 ATTTTAGGGACTTAAAGGT
1 ATTTT-GGGACTCAAAGGT
7467132 GGAATTTGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (20 bp):
ATTTTGGGACTCAAAGGTCC
Found at i:7472738 original size:26 final size:26
Alignment explanation
Indices: 7472703--7472767 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
7472693 AGACTTGATA
7472703 AAGAAAAAAATAT-AGATGGAGAAAAG
1 AAGAAAAAAATATAAGATGGA-AAAAG
*
7472729 AAGAAAAAAAATATAGAGATGTAAAAAG
1 AAG-AAAAAAATATA-AGATGGAAAAAG
7472757 AA-AAAAAAATA
1 AAGAAAAAAATA
7472768 GGGTGATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
26 12 0.34
27 10 0.29
28 7 0.20
29 6 0.17
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (26 bp):
AAGAAAAAAATATAAGATGGAAAAAG
Found at i:7472742 original size:27 final size:25
Alignment explanation
Indices: 7472702--7472768 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
7472692 AAGACTTGAT
7472702 AAAG-AAAAAAATATAGATGGA-GAAA
1 AAAGAAAAAAAATATAGA--GATGAAA
*
7472727 AGAAGAAAAAAAATATAGAGATGTAA
1 A-AAGAAAAAAAATATAGAGATGAAA
7472753 AAAGAAAAAAAA-ATAG
1 AAAGAAAAAAAATATAG
7472769 GGTGATTATA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
24 4 0.11
25 14 0.37
26 7 0.18
27 13 0.34
ACGTcount: A:0.70, C:0.00, G:0.18, T:0.12
Consensus pattern (25 bp):
AAAGAAAAAAAATATAGAGATGAAA
Found at i:7475017 original size:37 final size:35
Alignment explanation
Indices: 7474951--7475028 Score: 95
Period size: 37 Copynumber: 2.2 Consensus size: 35
7474941 TATTTCATGC
*
7474951 TTTTTGTTTTTGAATTTTTATGAACATTTTTATATAA
1 TTTTTATTTTTGAATTTTTATGAACA-TTTT-TATAA
* *
7474988 TTTTTATTTTTTAATTCTTT-TGAATATTTTTATAA
1 TTTTTATTTTTGAATT-TTTATGAACATTTTTATAA
7475023 TTTTTA
1 TTTTTA
7475029 AATCATTCGT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 11 0.30
36 4 0.11
37 19 0.51
38 3 0.08
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (35 bp):
TTTTTATTTTTGAATTTTTATGAACATTTTTATAA
Found at i:7475929 original size:15 final size:16
Alignment explanation
Indices: 7475909--7475942 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
7475899 AATTCTTTAA
7475909 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
*
7475924 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
7475940 AAA
1 AAA
7475943 ATTACATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:7476709 original size:21 final size:20
Alignment explanation
Indices: 7476684--7476727 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
7476674 TTTTTTTTGA
7476684 ATTATGCTATTTAATATTATT
1 ATTATGCTATTTAATATT-TT
** *
7476705 ATTATTTTATTTTATATTTT
1 ATTATGCTATTTAATATTTT
7476725 ATT
1 ATT
7476728 TTGAGTTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
ATTATGCTATTTAATATTTT
Found at i:7483384 original size:16 final size:16
Alignment explanation
Indices: 7483363--7483395 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7483353 TCATAAATCT
*
7483363 TTTAAAGTTATATTTA
1 TTTAAAATTATATTTA
7483379 TTTAAAATTATATTTA
1 TTTAAAATTATATTTA
7483395 T
1 T
7483396 GATTAAAAGG
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:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TTTAAAATTATATTTA
Found at i:7483959 original size:3 final size:3
Alignment explanation
Indices: 7483951--7483992 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
7483941 GTAATCAGTT
7483951 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7483993 TTTTTATGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:7484719 original size:20 final size:21
Alignment explanation
Indices: 7484690--7484729 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
7484680 TTATATTATA
* *
7484690 ATTTTCAATTTTCATGTTTAC
1 ATTTTCAATTATAATGTTTAC
7484711 ATTTT-AATTATAATGTTTA
1 ATTTTCAATTATAATGTTTA
7484730 ACAATGTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTTTCAATTATAATGTTTAC
Found at i:7485882 original size:26 final size:22
Alignment explanation
Indices: 7485839--7485886 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 22
7485829 GTGCATCATA
7485839 GAAATATCTTTAGAAATTTTCT
1 GAAATATCTTTAGAAATTTTCT
7485861 GAAATAATCTATTCAGAGAATTTTCT
1 GAAAT-ATCT-TT-AGA-AATTTTCT
7485887 CTTTACAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 4 0.18
24 2 0.09
25 3 0.14
26 8 0.36
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (22 bp):
GAAATATCTTTAGAAATTTTCT
Found at i:7490675 original size:5 final size:5
Alignment explanation
Indices: 7490665--7490689 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7490655 AAAACAAAGG
7490665 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
7490690 GAGATAATCT
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:7496917 original size:33 final size:33
Alignment explanation
Indices: 7496875--7496937 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
7496865 ATAAGGATTG
7496875 GATGCTCCAAACATTTGCCTAGGACAAGTGACA
1 GATGCTCCAAACATTTGCCTAGGACAAGTGACA
*
7496908 GATGCTCCAAACGTTTGCCTAGGACAAGTG
1 GATGCTCCAAACATTTGCCTAGGACAAGTG
7496938 GCGTACTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (33 bp):
GATGCTCCAAACATTTGCCTAGGACAAGTGACA
Found at i:7497738 original size:15 final size:16
Alignment explanation
Indices: 7497712--7497749 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
7497702 AGAAATTAAT
*
7497712 ATAAAA-ATATAATATA
1 ATAAAACATAAAATA-A
7497728 ATAAAACATAAAATAA
1 ATAAAACATAAAATAA
7497744 ATAAAA
1 ATAAAA
7497750 GGAAATAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
ATAAAACATAAAATAA
Found at i:7505299 original size:26 final size:25
Alignment explanation
Indices: 7505270--7505327 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
7505260 AATATAATAT
* *
7505270 AATAAAACATAAAATAAATAAAAGGA
1 AATAAAAAACAAAATAAA-AAAAGGA
*
7505296 AATAAAGAAACAAAATAGAAAAAGGA
1 AATAAA-AAACAAAATAAAAAAAGGA
7505322 AA-AAAA
1 AATAAAA
7505328 GTGGAACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 1 0.04
25 3 0.11
26 15 0.54
27 9 0.32
ACGTcount: A:0.76, C:0.03, G:0.10, T:0.10
Consensus pattern (25 bp):
AATAAAAAACAAAATAAAAAAAGGA
Found at i:7507577 original size:93 final size:93
Alignment explanation
Indices: 7507465--7507636 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
7507455 CGCCCATAAG
* *
7507465 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
7507530 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
7507558 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
7507623 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
7507637 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:7507633 original size:46 final size:46
Alignment explanation
Indices: 7507458--7507633 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
7507448 TGTAACCCGC
* * *
7507458 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
7507504 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
7507554 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
7507597 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
7507634 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:7515156 original size:93 final size:93
Alignment explanation
Indices: 7515044--7515215 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
7515034 CGCCCATAAG
* *
7515044 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
7515109 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
7515137 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
7515202 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
7515216 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Done.